Multiz Alignments of 100 Vertebrates
 

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Alignment block 1 of 108 in window, 105241743 - 105241758, 16 bps 
B D                     Human  cagaggtcc-------aca-gaca----------
B D                     Chimp  cagaggtcc-------aca-gaca----------
B D                   Gorilla  cagaggtcc-------aca-gaca----------
B D                 Orangutan  cagaggtcc-------aca-gaca----------
B D                    Gibbon  cagaggtcc-------aca-gaca----------
B D                    Rhesus  cagaggtcc-------aca-gaca----------
B D       Crab-eating macaque  cagaggtcc-------aca-gaca----------
B D                    Baboon  cagaggtcc-------aca-gaca----------
B D              Green monkey  cagaggtcc-------aca-gaca----------
B D                  Marmoset  cagaggtcc-------aca-gaca----------
B D           Squirrel monkey  cagaggtcc-------aca-gaca----------
B D                  Bushbaby  tacagctcc-------agc-gaca----------
B D                  Squirrel  tggagatcc-------aca-ggca----------
       Lesser Egyptian jerboa  aagaaagcc-------tca-gaca----------
                 Prairie vole  tagagagcc-------gtc-gaca----------
B D           Chinese hamster  tagagatcc-------ttc-acca----------
               Golden hamster  -------ct-------ttc-acca----------
B D                     Mouse  tagagaacc-------tgc-cata----------
B D                       Rat  tcgagaacct------tgc-aaca----------
B D            Naked mole-rat  aggagatcc-------acg-gaca----------
B D                Guinea pig  aggagccct-------gag-gaca----------
                   Chinchilla  aggagaccc-------aac-aaca----------
             Brush-tailed rat  aggaaaccc-------ag--gaca----------
B D                    Rabbit  tggaaactc-------aca-gacg----------
B D                      Pika  tggagaccc-------cca-gatg----------
B D                       Pig  tcgagatcc--------ca-gaca----------
B D                    Alpaca  tcgagatcc--------ga-gaca----------
               Bactrian camel  tcgagatcc--------ga-gaca----------
B D                   Dolphin  tccagatcc--------ga-gaca----------
                 Killer whale  tccagatcc--------aa-gaca----------
             Tibetan antelope  ccgagaccc--------aa-acca----------
B D                       Cow  ctgagaccc--------aa-gcca----------
B D                     Sheep  ccgagaccc--------aa-acca----------
                Domestic goat  ccgagaccc--------aa-acca----------
B D                     Horse  tagagatcc--------aa-gaca----------
B D          White rhinoceros  tagagatgc--------aa-gaca----------
B D                       Cat  tccagatcc--------aa-gac-----------
B D                       Dog  tagggatcc--------aa-ga------------
B D                   Ferret   tagagatcc--------ca-gac-----------
B D                     Panda  tagagatcc--------ca-gac-----------
               Pacific walrus  tggagatcc--------ca-gac-----------
                 Weddell seal  tggagatcc--------ca-gac-----------
             Black flying-fox  gagggatcc--------ga-gaca----------
B D                   Megabat  gagggatct--------ga-gaca----------
                Big brown bat  tggagagcc--------aa-gagg----------
         David's myotis (bat)  tggagagcc--------ca-gcct----------
B D                  Microbat  tggagagcc--------ca-gccg----------
B D                     Shrew  aggacccaa--------agtggcc----------
              Star-nosed mole  aggagacgc--------ag-ggca----------
B D                  Elephant  tagaggtcc-------aca-gaca----------
          Cape elephant shrew  tagaggtcc-------aca-gacg----------
B D                   Manatee  tcgaggtcc-------aca-gaca----------
             Cape golden mole  tagaggtcc-------aaa-gaca----------
B D                    Tenrec  cagaagtcc-------aaa-gaca----------
                     Aardvark  tagaagtcc-------aca-gacg----------
B D                 Armadillo  ------------------a-gaca----------
B D                   Opossum  cagaggtct-------ata-ggtg----------
B D           Tasmanian devil  caaagctct-------cta-ggtg----------
B D                   Wallaby  cagaggtct-------ata-ggtg----------
B D                  Platypus  ---------cctaaactta-gacc----------
  D              Saker falcon  -----ctca-------gca-gagc----------
  D          Peregrine falcon  -----ctca-------gca-gagc----------
B D                Budgerigar  -------ct-------gga-gtgg----------
  D                    Parrot  -------ca-------gca-gagc----------
  D             Scarlet macaw  -------ca-------gca-gagc----------
B D                   Chicken  -------cc-------gca-gcgg----------
B D                    Turkey  -------cc-------gca-gcgg----------
B D        American alligator  cagctgcct-------gca-gatt----------
  D           Green seaturtle  cagccatct-------gca-gacg----------
  D            Painted turtle  cagccaact-------gca-aata----------
  D  Chinese softshell turtle  aagttagct-------gca-ga------------
  D    Spiny softshell turtle  cagctagct-------gca-ga------------
B D                      Fugu  -------------------caacgacgccagcta
       Yellowbelly pufferfish  -------------------caacgacgccagcta
B D                    Medaka  -------------------caacagccc------
B D                  Hedgehog  ==================================
  D               Rock pigeon  ==================================
  D              Mallard duck  ==================================
B D       Medium ground finch  ==================================
B D               Zebra finch  ==================================
  D       Collared flycatcher  ----------------------------------
          Tibetan ground jay  ----------------------------------
          Chinese tree shrew  ----------------------------------

Inserts between block 1 and 2 in window
  D             Saker falcon 5bp
  D         Peregrine falcon 5bp
B D                  Chicken 5bp
B D                   Turkey 5bp
B D                     Fugu 8bp
      Yellowbelly pufferfish 8bp
B D                   Medaka 3bp

Alignment block 2 of 108 in window, 105241759 - 105241784, 26 bps 
B D                     Human  -----------------------------tcca-g---gaa-----------gat--gcagc---cagc-
B D                     Chimp  -----------------------------tcca-g---gaa-----------gat--gcagc---cagc-
B D                   Gorilla  -----------------------------tcca-g---gaa-----------gat--gcagc---cagc-
B D                 Orangutan  -----------------------------tcca-g---gaa-----------gat--gcagc---cagc-
B D                    Gibbon  -----------------------------tcca-g---gaa-----------gat--gcagc---cagc-
B D                    Rhesus  -----------------------------tcca-g---gaa-----------cat--gcagc---cggc-
B D       Crab-eating macaque  -----------------------------tcca-g---gaa-----------cat--gcagc---cggc-
B D                    Baboon  -----------------------------tcca-g---gaa-----------cat--gcagc---cggc-
B D              Green monkey  -----------------------------tcca-g---gaa-----------gat--gcagc---cagc-
B D                  Marmoset  -----------------------------tcca-g---gaa-----------gat--gcagc---cagc-
B D           Squirrel monkey  -----------------------------tcca-g---gaa-----------gat--gcagc---cggc-
B D                  Bushbaby  -----------------------------tcga-ggcagaa-----------gat--gcagc---cggc-
           Chinese tree shrew  ----------------------------------a---gaa-----------gat--gcagc---ctgg-
B D                  Squirrel  -----------------------------tcga-ggaagaa-----------gat--gcagc---cagt-
       Lesser Egyptian jerboa  -----------------------------ttga-gggaaaa-----------gat--gcagc---cctc-
                 Prairie vole  -----------------------------tcaa-atgaaaa-----------gat--gcagc---cagc-
B D           Chinese hamster  -----------------------------tcaa-atgaaaa-----------gat--gcatcagacagc-
               Golden hamster  -----------------------------tcaa-atgaaaa-----------gat--gcaacagacagc-
B D                     Mouse  -----------------------------tcaa-ataaaaa-----------gat--gaagt---cagc-
B D                       Rat  -----------------------------tcaa-atgagaa-----------gat--gaagc---cagc-
B D            Naked mole-rat  -----------------------------tctg-agaggac-----------aat--gcagc---cagt-
B D                Guinea pig  -----------------------------ccgg-aggggag-----------gat--gcagc---cagc-
                   Chinchilla  -----------------------------tcca-aggggag-----------gat--gcagc---cagc-
             Brush-tailed rat  -----------------------------tcca-aggggac-----------gat--gcagc---cagc-
B D                    Rabbit  -----------------------------tgga-gacggaa-----------gat--gcagc---ccgc-
B D                      Pika  -----------------------------tgaa-gggcgaa-----------gat--gcagc---tggc-
B D                       Pig  -----------------------------gcag-ggaggaa-----------gat--gcagc---cggc-
B D                    Alpaca  -----------------------------gccc-ggaggaa-----------gat--gcagc---cggc-
               Bactrian camel  -----------------------------gccc-ggaggaa-----------gat--gcagc---ccgc-
B D                   Dolphin  -----------------------------accg-ggaggca-----------gat--gcagc---cggc-
                 Killer whale  -----------------------------accg-ggaggca-----------gat--gcagc---cggc-
             Tibetan antelope  -----------------------------g-ca-ggaggaa-----------cat--gca----------
B D                       Cow  -----------------------------g-ca-ggaggaa-----------cat--gca----------
B D                     Sheep  -----------------------------g-cc-agaggaa-----------cat--gca----------
                Domestic goat  -----------------------------g-ca-ggaggaa-----------cat--gca----------
B D                     Horse  -----------------------------tcca-ggaagaa-----------gat--gcaac---cagc-
B D          White rhinoceros  -----------------------------tcag-ggaagaa-----------gat--gcaac---cggc-
B D                       Cat  -----------------------------------------------------at--gcaac---ccgc-
B D                       Dog  -----------------------------------------------------at--gcaac---cggc-
B D                   Ferret   -----------------------------------------------------at--gcaac---caac-
B D                     Panda  -----------------------------------------------------at--gcaac---cgac-
               Pacific walrus  -----------------------------------------------------at--gcaac---gggc-
                 Weddell seal  -----------------------------------------------------ag---------------
             Black flying-fox  -----------------------------tccg-ggaagaa-----------gat--gcggc---tggc-
B D                   Megabat  -----------------------------tccg-ggaagaa-----------gat--gcggc---tggc-
                Big brown bat  -----------------------------gccgcg---ggg-----------gat--gcagg---cagc-
         David's myotis (bat)  -----------------------------accg-g---ggg-----------cat--gcagg---cagc-
B D                  Microbat  -----------------------------gccg-g---ggg-----------gat--gcagg---cagc-
B D                     Shrew  -----------------------------tgtg-ggggg---------------------tg---tgca-
              Star-nosed mole  -----------------------------tcca-ggaagaa-----------gat--gcatc---tggc-
B D                  Elephant  -----------------------------tcag-ggaagaa-----------gat--gcaac---cagc-
          Cape elephant shrew  -----------------------------tcag-ggaagaa-----------gat--gcaac---cagc-
B D                   Manatee  -----------------------------ccag-gg-----------------------------caga-
             Cape golden mole  -----------------------------ttgg-gaaagaa-----------cat--gcaac---cagc-
B D                    Tenrec  -----------------------------tagg-ggaagaa-----------gat--gcagc---caac-
                     Aardvark  -----------------------------tcag-cgaagaa-----------gat--gcaac---cagc-
B D                 Armadillo  -----------------------------ccag-gg-ggga-----------gat--gcata---cagc-
B D                   Opossum  -----------------------------tgcc-accaaac-----------aat--gcatc---cagc-
B D           Tasmanian devil  -----------------------------tgtc-accagac------------at--gtacc---caac-
B D                   Wallaby  -----------------------------tgcc-accagac-----------aac--gtctc---tgat-
B D                  Platypus  -----------------------------ctcc-a---aaa-----------gag--ccaac---aggc-
  D              Saker falcon  -----------------------------ctgt-gccagga-----------gat--gcaac---gagg-
  D          Peregrine falcon  -----------------------------ctgt-gccagga-----------gat--gcaac---gagg-
  D       Collared flycatcher  --------------------------------c-aggagcg-----------gtg--gcagc---cagg-
B D       Medium ground finch  -----------------------------cccc-agctgtg-----------gaa--gagat---aagg-
           Tibetan ground jay  --------------------------------a-aggagt------------cag--gcagc---cggg-
B D                Budgerigar  -----------------------------tgtg-gccagga-----------cagccacaga---aggac
  D                    Parrot  -----------------------------cctc-agcagca-----------cag--gcaga---agga-
  D             Scarlet macaw  -----------------------------cctc-agcagca-----------cag--gcaga---agga-
B D                   Chicken  -----------------------------tgat-ggaagggc----------cga--gcagc---aaga-
B D                    Turkey  -----------------------------tgat-ggaagggt----------cga--gcagc---aaga-
B D        American alligator  -----------------------------tcca-cgcagcacatttttgttgcag--gcaag---atga-
  D           Green seaturtle  -----------------------------tttc-tccatggcctttttctggcaa--gcaac---atga-
  D            Painted turtle  -----------------------------tctg-tccatggcctttttctgacag--gcaag---atga-
  D  Chinese softshell turtle  -----------------------------tcta-tccatagcctttttctggcag--ccaaa---atga-
  D    Spiny softshell turtle  -----------------------------tcta-tccatagcctttttctggcag--ccaaa---atga-
B D                 Tetraodon  ----------------------------------tactgg------------------------------
B D                      Fugu  ccca------------ggcggacgc---agctc-tgatga------------------------------
       Yellowbelly pufferfish  ccca------------ggcggacgc---agctc-tgatga------------------------------
B D                    Medaka  cccacagatgaggagcagcagatgcttttgttt-gcatga------------------------------
B D                  Hedgehog  ======================================================================
  D               Rock pigeon  ======================================================================
  D              Mallard duck  ======================================================================
B D               Zebra finch  ======================================================================

                        Human  --agac-aa
                        Chimp  --agac-aa
                      Gorilla  --agac-aa
                    Orangutan  --agac-aa
                       Gibbon  --agac-aa
                       Rhesus  --agac-aa
          Crab-eating macaque  --agac-aa
                       Baboon  --agac-aa
                 Green monkey  --agac-aa
                     Marmoset  --agat-aa
              Squirrel monkey  --agat-aa
                     Bushbaby  --agac-ag
           Chinese tree shrew  --agac-ag
                     Squirrel  --agac-ag
       Lesser Egyptian jerboa  --tggc-ag
                 Prairie vole  --aaac-ag
              Chinese hamster  --ggac-ag
               Golden hamster  --agac-gg
                        Mouse  --aaac-ag
                          Rat  --agac-ag
               Naked mole-rat  --ggac-ag
                   Guinea pig  --aggc-ag
                   Chinchilla  --ggac-ag
             Brush-tailed rat  --agac-ag
                       Rabbit  --agac-ag
                         Pika  --tgat-ag
                          Pig  --agac-ag
                       Alpaca  --agac-gg
               Bactrian camel  --cgac-gg
                      Dolphin  --agac-ag
                 Killer whale  --agac-ag
             Tibetan antelope  ---------
                          Cow  ---------
                        Sheep  ---------
                Domestic goat  ---------
                        Horse  --agac-ag
             White rhinoceros  --agac-ag
                          Cat  --agac-ag
                          Dog  --acac-tg
                      Ferret   --agac-ag
                        Panda  --agac-ag
               Pacific walrus  --agac-ac
                 Weddell seal  ---------
             Black flying-fox  --agac-ag
                      Megabat  --agac-ag
                Big brown bat  --cgag-cg
         David's myotis (bat)  --ccac-gg
                     Microbat  --cgac-ag
                        Shrew  --gacc-ag
              Star-nosed mole  --agcc-ag
                     Elephant  --agac-ag
          Cape elephant shrew  --agac-ag
                      Manatee  --agac-ag
             Cape golden mole  --agac-ag
                       Tenrec  --aggt-cg
                     Aardvark  --agac-ag
                    Armadillo  --agac--g
                      Opossum  --aaat-ca
              Tasmanian devil  --agat-ca
                      Wallaby  --agat-ca
                     Platypus  -aagacaag
                 Saker falcon  --cc-----
             Peregrine falcon  --cc-----
          Collared flycatcher  --ag-----
          Medium ground finch  --ag-----
           Tibetan ground jay  --ag-----
                   Budgerigar  tcag-----
                       Parrot  --ag-----
                Scarlet macaw  --ag-----
                      Chicken  --ag-----
                       Turkey  --ag-----
           American alligator  --aa-----
              Green seaturtle  --aa-----
               Painted turtle  --aa-----
     Chinese softshell turtle  --aa-----
       Spiny softshell turtle  --aa-----
                    Tetraodon  ---------
                         Fugu  ---------
       Yellowbelly pufferfish  ---------
                       Medaka  ---------
                     Hedgehog  =========
                  Rock pigeon  =========
                 Mallard duck  =========
                  Zebra finch  =========

Inserts between block 2 and 3 in window
  D          Green seaturtle 1bp
  D           Painted turtle 1bp

Alignment block 3 of 108 in window, 105241785 - 105241786, 2 bps 
B D                     Human  a----g
B D                     Chimp  a----g
B D                   Gorilla  a----g
B D                 Orangutan  a----g
B D                    Gibbon  a----g
B D                    Rhesus  a----a
B D       Crab-eating macaque  a----a
B D                    Baboon  a----a
B D              Green monkey  a----a
B D                  Marmoset  a----g
B D           Squirrel monkey  a----g
B D                  Bushbaby  g----a
           Chinese tree shrew  a----g
B D                  Squirrel  a----a
       Lesser Egyptian jerboa  a----a
                 Prairie vole  a----a
B D           Chinese hamster  a----a
               Golden hamster  a----a
B D                     Mouse  a----a
B D                       Rat  a----a
B D            Naked mole-rat  a----c
B D                Guinea pig  a----g
                   Chinchilla  a----c
             Brush-tailed rat  a----c
B D                    Rabbit  a----a
B D                      Pika  a----a
B D                       Pig  a----g
B D                    Alpaca  a----a
               Bactrian camel  a----a
B D                   Dolphin  a----a
                 Killer whale  a----a
B D                     Horse  a----a
B D          White rhinoceros  a----a
B D                       Cat  g----a
B D                       Dog  a----a
B D                   Ferret   a----a
B D                     Panda  a----a
               Pacific walrus  a----a
                 Weddell seal  a----a
             Black flying-fox  a----a
B D                   Megabat  a----a
                Big brown bat  a----a
         David's myotis (bat)  a----g
B D                  Microbat  g----g
B D                     Shrew  acccca
              Star-nosed mole  a----a
B D                  Elephant  a----a
          Cape elephant shrew  a----a
B D                   Manatee  a----a
             Cape golden mole  a----a
B D                    Tenrec  a----a
                     Aardvark  a----a
B D                 Armadillo  a----a
B D                   Opossum  a----a
B D           Tasmanian devil  a----a
B D                   Wallaby  a----a
B D                  Platypus  a----t
  D              Saker falcon  g----g
  D          Peregrine falcon  g----g
  D       Collared flycatcher  a----a
B D       Medium ground finch  a----g
           Tibetan ground jay  a----g
B D                Budgerigar  c----g
  D                    Parrot  a----g
  D             Scarlet macaw  a----g
B D                   Chicken  t----g
B D                    Turkey  c----g
B D        American alligator  a-----
B D                    Lizard  a----a
B D                 Tetraodon  a----a
B D                      Fugu  a----g
       Yellowbelly pufferfish  a----g
B D                    Medaka  a----g
B D                  Hedgehog  ======
  D               Rock pigeon  ======
  D              Mallard duck  ======
  D  Chinese softshell turtle  ------
  D            Painted turtle  ======
B D               Zebra finch  ======
               Domestic goat  ------
B D                     Sheep  ------
  D    Spiny softshell turtle  ------
  D           Green seaturtle  ======
B D                       Cow  ------
            Tibetan antelope  ------

Inserts between block 3 and 4 in window
  D             Saker falcon 2bp
  D         Peregrine falcon 2bp
  D      Collared flycatcher 10bp
B D      Medium ground finch 17bp
B D               Budgerigar 7bp
  D                   Parrot 7bp
  D            Scarlet macaw 7bp

Alignment block 4 of 108 in window, 105241787 - 105241787, 1 bps 
B D                     Human  a
B D                     Chimp  a
B D                   Gorilla  a
B D                 Orangutan  a
B D                    Gibbon  a
B D                    Rhesus  a
B D       Crab-eating macaque  a
B D                    Baboon  a
B D              Green monkey  a
B D                  Marmoset  a
B D           Squirrel monkey  a
B D                  Bushbaby  g
           Chinese tree shrew  c
B D                  Squirrel  a
       Lesser Egyptian jerboa  a
                 Prairie vole  a
B D           Chinese hamster  a
               Golden hamster  a
B D                     Mouse  a
B D                       Rat  a
B D            Naked mole-rat  a
B D                Guinea pig  g
                   Chinchilla  a
             Brush-tailed rat  a
B D                    Rabbit  g
B D                      Pika  a
B D                       Pig  c
B D                    Alpaca  c
               Bactrian camel  c
B D                   Dolphin  g
                 Killer whale  g
B D                     Horse  a
B D          White rhinoceros  a
B D                       Cat  a
B D                       Dog  a
B D                   Ferret   a
B D                     Panda  a
               Pacific walrus  a
                 Weddell seal  a
             Black flying-fox  a
B D                   Megabat  a
         David's myotis (bat)  c
B D                  Microbat  c
B D                     Shrew  g
              Star-nosed mole  g
B D                  Elephant  a
          Cape elephant shrew  a
B D                   Manatee  a
             Cape golden mole  a
B D                    Tenrec  a
                     Aardvark  a
B D                 Armadillo  c
B D                   Opossum  a
B D           Tasmanian devil  a
B D                   Wallaby  a
B D                  Platypus  a
  D              Saker falcon  a
  D          Peregrine falcon  a
  D       Collared flycatcher  c
B D       Medium ground finch  g
           Tibetan ground jay  c
B D                Budgerigar  g
  D                    Parrot  g
  D             Scarlet macaw  g
B D                   Chicken  g
B D                    Turkey  g
B D        American alligator  a
  D           Green seaturtle  a
  D            Painted turtle  a
  D  Chinese softshell turtle  a
  D    Spiny softshell turtle  a
B D                    Lizard  a
B D                 Tetraodon  a
B D                      Fugu  a
       Yellowbelly pufferfish  a
B D                    Medaka  a
B D                  Hedgehog  =
  D               Rock pigeon  =
  D              Mallard duck  =
B D               Zebra finch  =
               Domestic goat  -
B D                     Sheep  -
B D                       Cow  -
            Tibetan antelope  -
               Big brown bat  -

Inserts between block 4 and 5 in window
B D               Budgerigar 15bp
  D                   Parrot 3bp

Alignment block 5 of 108 in window, 105241788 - 105241790, 3 bps 
B D                     Human  atg
B D                     Chimp  atg
B D                   Gorilla  atg
B D                 Orangutan  atg
B D                    Gibbon  atg
B D                    Rhesus  atg
B D       Crab-eating macaque  atg
B D                    Baboon  atg
B D              Green monkey  atg
B D                  Marmoset  atg
B D           Squirrel monkey  atg
B D                  Bushbaby  atg
           Chinese tree shrew  atg
B D                  Squirrel  ccg
       Lesser Egyptian jerboa  atg
                 Prairie vole  atg
B D           Chinese hamster  atg
               Golden hamster  atg
B D                     Mouse  atg
B D                       Rat  atg
B D            Naked mole-rat  gcg
B D                Guinea pig  gtg
                   Chinchilla  gtg
             Brush-tailed rat  gtg
B D                    Rabbit  acg
B D                      Pika  aca
B D                       Pig  gcg
B D                    Alpaca  gcg
               Bactrian camel  gcg
B D                   Dolphin  gct
                 Killer whale  gct
B D                     Horse  aca
B D          White rhinoceros  aca
B D                       Cat  atg
B D                       Dog  atg
B D                   Ferret   atg
B D                     Panda  atg
               Pacific walrus  atg
                 Weddell seal  atg
             Black flying-fox  acg
B D                   Megabat  acg
                Big brown bat  ccg
         David's myotis (bat)  ccg
B D                  Microbat  ccg
B D                     Shrew  ata
              Star-nosed mole  ata
B D                  Elephant  atg
          Cape elephant shrew  atg
B D                   Manatee  atg
             Cape golden mole  atg
B D                    Tenrec  atg
                     Aardvark  atg
B D                 Armadillo  atg
B D                   Opossum  atg
B D           Tasmanian devil  atg
B D                   Wallaby  atg
B D                  Platypus  atg
  D              Saker falcon  gcg
  D          Peregrine falcon  gcg
  D       Collared flycatcher  -tc
B D       Medium ground finch  -cc
           Tibetan ground jay  -tc
B D                Budgerigar  gtg
  D                    Parrot  atg
B D                   Chicken  -cg
B D                    Turkey  -cg
B D        American alligator  atg
  D           Green seaturtle  atg
  D            Painted turtle  atg
  D  Chinese softshell turtle  atg
  D    Spiny softshell turtle  atg
B D                    Lizard  atg
B D                 Tetraodon  aca
B D                      Fugu  gca
       Yellowbelly pufferfish  gca
B D                    Medaka  gca
B D                  Hedgehog  ===
  D               Rock pigeon  ===
  D              Mallard duck  ===
B D               Zebra finch  ===
               Domestic goat  ---
B D                     Sheep  ---
B D                       Cow  ---
            Tibetan antelope  ---

Inserts between block 5 and 6 in window
  D             Saker falcon 1bp
  D         Peregrine falcon 1bp
  D      Collared flycatcher 1bp
B D      Medium ground finch 1bp
          Tibetan ground jay 1bp
B D                  Chicken 1bp
B D                   Turkey 1bp

Alignment block 6 of 108 in window, 105241791 - 105241794, 4 bps 
B D                     Human  gcag--
B D                     Chimp  gcag--
B D                   Gorilla  gcag--
B D                 Orangutan  gcag--
B D                    Gibbon  gcag--
B D                    Rhesus  gcag--
B D       Crab-eating macaque  gcag--
B D                    Baboon  gcag--
B D              Green monkey  gcag--
B D                  Marmoset  gcag--
B D           Squirrel monkey  gcag--
B D                  Bushbaby  gaca--
           Chinese tree shrew  gcag--
B D                  Squirrel  ccag--
       Lesser Egyptian jerboa  aaag--
                 Prairie vole  aaag--
B D           Chinese hamster  aaag--
               Golden hamster  aaag--
B D                     Mouse  aaag--
B D                       Rat  aaag--
B D            Naked mole-rat  ggaa--
B D                Guinea pig  ggag--
                   Chinchilla  ggag--
             Brush-tailed rat  ggag--
B D                    Rabbit  ggag--
B D                      Pika  gcag--
B D                       Pig  gcag--
B D                    Alpaca  gcag--
               Bactrian camel  gcag--
B D                   Dolphin  gccg--
                 Killer whale  gccg--
             Tibetan antelope  ---g--
B D                       Cow  ---g--
B D                     Sheep  ---g--
                Domestic goat  ---g--
B D                     Horse  gcag--
B D          White rhinoceros  gcag--
B D                       Cat  gcag--
B D                       Dog  gcag--
B D                   Ferret   gcag--
B D                     Panda  gcag--
               Pacific walrus  gcag--
                 Weddell seal  gcag--
             Black flying-fox  gcag--
B D                   Megabat  gcaa--
                Big brown bat  gcgg--
         David's myotis (bat)  gcgg--
B D                  Microbat  gcgg--
B D                     Shrew  ccca--
              Star-nosed mole  gctg--
B D                  Elephant  gcag--
          Cape elephant shrew  gcag--
B D                   Manatee  gcag--
             Cape golden mole  gcaa--
B D                    Tenrec  gcag--
                     Aardvark  gcag--
B D                 Armadillo  gccg--
B D                   Opossum  gcag--
B D           Tasmanian devil  acag--
B D                   Wallaby  gcaa--
B D                  Platypus  gcag--
B D                   Chicken  tgag--
B D                    Turkey  tgag--
B D        American alligator  acag--
  D           Green seaturtle  gcaa--
  D            Painted turtle  gcaa--
  D  Chinese softshell turtle  gcaa--
  D    Spiny softshell turtle  gcaa--
B D                    Lizard  -gaa--
B D                 Tetraodon  --aagt
B D                      Fugu  --ggtt
       Yellowbelly pufferfish  --ggtt
B D                    Medaka  --aaca
B D                  Hedgehog  ======
  D          Peregrine falcon  ======
  D              Saker falcon  ======
B D                Budgerigar  ------
  D               Rock pigeon  ======
  D              Mallard duck  ======
B D       Medium ground finch  ======
B D               Zebra finch  ======
  D       Collared flycatcher  ======
          Tibetan ground jay  ======

Inserts between block 6 and 7 in window
B D                  Chicken 1bp
B D                   Turkey 1bp
B D                   Lizard 1bp

Alignment block 7 of 108 in window, 105241795 - 105241797, 3 bps 
B D                     Human  cca-
B D                     Chimp  cca-
B D                   Gorilla  cca-
B D                 Orangutan  cca-
B D                    Gibbon  cca-
B D                    Rhesus  cca-
B D       Crab-eating macaque  cca-
B D                    Baboon  cca-
B D              Green monkey  cca-
B D                  Marmoset  cca-
B D           Squirrel monkey  cca-
B D                  Bushbaby  cca-
           Chinese tree shrew  gcc-
B D                  Squirrel  cca-
       Lesser Egyptian jerboa  ccg-
                 Prairie vole  cca-
B D           Chinese hamster  cca-
               Golden hamster  cca-
B D                     Mouse  cca-
B D                       Rat  cca-
B D            Naked mole-rat  ctc-
B D                Guinea pig  ccc-
                   Chinchilla  ccc-
             Brush-tailed rat  gcc-
B D                    Rabbit  ctg-
B D                      Pika  ctg-
B D                       Pig  ccc-
B D                    Alpaca  cca-
               Bactrian camel  cca-
B D                   Dolphin  ccc-
                 Killer whale  ccc-
             Tibetan antelope  ccc-
B D                       Cow  ccc-
B D                     Sheep  ccc-
                Domestic goat  ccc-
B D                     Horse  cca-
B D          White rhinoceros  cca-
B D                       Cat  cca-
B D                       Dog  cca-
B D                   Ferret   cca-
B D                     Panda  cca-
               Pacific walrus  cca-
                 Weddell seal  cca-
             Black flying-fox  cca-
B D                   Megabat  cca-
                Big brown bat  ccc-
         David's myotis (bat)  ccc-
B D                  Microbat  ccc-
B D                     Shrew  gcc-
              Star-nosed mole  cca-
B D                  Elephant  cca-
          Cape elephant shrew  cca-
B D                   Manatee  cca-
             Cape golden mole  cca-
B D                    Tenrec  tcc-
                     Aardvark  cca-
B D                 Armadillo  cca-
B D                   Opossum  cta-
B D           Tasmanian devil  tga-
B D                   Wallaby  tta-
B D                  Platypus  ctg-
  D              Mallard duck  -ct-
B D        American alligator  -ca-
  D           Green seaturtle  -ca-
  D            Painted turtle  -ca-
  D  Chinese softshell turtle  -ca-
  D    Spiny softshell turtle  -ca-
B D                    Lizard  -ca-
B D                 Tetraodon  -cac
B D                      Fugu  -caa
       Yellowbelly pufferfish  -caa
B D                    Medaka  -cgg
B D                  Hedgehog  ====
  D          Peregrine falcon  ====
  D              Saker falcon  ====
B D                Budgerigar  ----
  D               Rock pigeon  ====
B D                   Chicken  ====
B D       Medium ground finch  ====
B D                    Turkey  ====
B D               Zebra finch  ====
  D       Collared flycatcher  ====
          Tibetan ground jay  ====

Inserts between block 7 and 8 in window
  D             Mallard duck 3bp
B D       American alligator 2bp
  D          Green seaturtle 1bp
  D           Painted turtle 1bp
  D Chinese softshell turtle 1bp
  D   Spiny softshell turtle 1bp
B D                   Lizard 1bp

Alignment block 8 of 108 in window, 105241798 - 105241805, 8 bps 
B D                     Human  ----cccaagtg-------
B D                     Chimp  ----ccgaagcg-------
B D                   Gorilla  ----ccgaagcg-------
B D                 Orangutan  ----ccgaagcg-------
B D                    Gibbon  ----ccgaagcg-------
B D                    Rhesus  ----ccgaagcg-------
B D       Crab-eating macaque  ----ccgaagcg-------
B D                    Baboon  ----ccgaagcg-------
B D              Green monkey  ----ccgaagcg-------
B D                  Marmoset  ----cccaagcg-------
B D           Squirrel monkey  ----cccaagcg-------
B D                  Bushbaby  ----ccgaagta-------
           Chinese tree shrew  ----ccgaagcg-------
B D                  Squirrel  ----cctgagcg-------
       Lesser Egyptian jerboa  ----cgccagca-------
                 Prairie vole  ----cccaaggg-------
B D           Chinese hamster  ----cccaagca-------
               Golden hamster  ----cccaagcg-------
B D                     Mouse  ----cccaaggg-------
B D                       Rat  ----ccggagtg-------
B D            Naked mole-rat  ----cccaagcg-------
B D                Guinea pig  ----ccaaggcg-------
                   Chinchilla  ----cgcaggta-------
             Brush-tailed rat  ----cccgtgtg-------
B D                    Rabbit  ----cccaagcg-------
B D                      Pika  ----cccaagcg-------
B D                       Pig  ----cccaagcg-------
B D                    Alpaca  ----cccaagcg-------
               Bactrian camel  ----cccaagcg-------
B D                   Dolphin  ----ccgaggcg-------
                 Killer whale  ----ccgaggcg-------
             Tibetan antelope  ----ccgaatcg-------
B D                       Cow  ----ccgaatcg-------
B D                     Sheep  ----ccgaaccg-------
                Domestic goat  ----ccgaatcg-------
B D                     Horse  ----cccaagcg-------
B D          White rhinoceros  ----tcaaagcg-------
B D                       Cat  ----ccaaagcg-------
B D                       Dog  ----ccgaaggg-------
B D                   Ferret   ----ccgaagcg-------
B D                     Panda  ----ccaaagcg-------
               Pacific walrus  ----ccaaagcg-------
                 Weddell seal  ----ccaaagcg-------
             Black flying-fox  ----ccgaagcg-------
B D                   Megabat  ----ccaaagcc-------
                Big brown bat  ----ccaaaacg-------
         David's myotis (bat)  ----ccgcagcg-------
B D                  Microbat  ----cctcagcg-------
B D                     Shrew  ----cctgggca-------
              Star-nosed mole  ----ccaaagca-------
B D                  Elephant  ----ccgaagcg-------
          Cape elephant shrew  ----cccaaacg-------
B D                   Manatee  ----cccaagcg-------
             Cape golden mole  ----ccgaagcg-------
B D                    Tenrec  ----ccagagcg-------
                     Aardvark  ----cccaagca-------
B D                 Armadillo  ----ccgaagcg-------
B D                   Opossum  ----ccatggta-------
B D           Tasmanian devil  ----ttgttgca-------
B D                   Wallaby  ----ccattg---------
B D                  Platypus  ----cccaaagg-------
  D               Rock pigeon  ------ccctgg-------
  D              Saker falcon  ------ggtgcg-------
  D          Peregrine falcon  ------ggcgcg-------
  D       Collared flycatcher  -------gcg---------
B D       Medium ground finch  -------gctgc-------
           Tibetan ground jay  -------tccgg-------
  D              Mallard duck  ------aaagag-------
B D                   Chicken  ------agggcg-------
B D                    Turkey  ------agggcg-------
  D           Green seaturtle  ----tcaaagca-------
  D            Painted turtle  ----tcaaagag-------
  D  Chinese softshell turtle  ----ctgaagag-------
  D    Spiny softshell turtle  ----ctgaagag-------
B D                    Lizard  ----ccaaagac-------
B D                 Tetraodon  cagtccgccatccaccatc
B D                      Fugu  c--ttcgagaaaccttact
       Yellowbelly pufferfish  c--ttcgagaaaccttact
B D                    Medaka  g--tttg-------ttgcg
B D                  Hedgehog  ===================
B D                Budgerigar  -------------------
B D               Zebra finch  ===================
B D        American alligator  ===================

Inserts between block 8 and 9 in window
B D                  Opossum 2bp
  D             Mallard duck 1bp

Alignment block 9 of 108 in window, 105241806 - 105241815, 10 bps 
B D                     Human  ctgagggga-----g
B D                     Chimp  ctgagggga-----g
B D                   Gorilla  ctgagggga-----g
B D                 Orangutan  ctgagggga-----g
B D                    Gibbon  ctgagggga-----g
B D                    Rhesus  ctgagggga-----g
B D       Crab-eating macaque  ctgagggga-----g
B D                    Baboon  ctgagggga-----g
B D              Green monkey  ctgagggga-----g
B D                  Marmoset  ctgagggga-----g
B D           Squirrel monkey  ctgagggga-----g
B D                  Bushbaby  ttgaggggg-----c
           Chinese tree shrew  ctgagggga------
B D                  Squirrel  ctgaggggc-----a
       Lesser Egyptian jerboa  ctgaagggt-----g
                 Prairie vole  ctggagggt-----g
B D           Chinese hamster  ctggggggt-----g
               Golden hamster  ctgaggggt-----g
B D                     Mouse  ctggagggt-----t
B D                       Rat  ctggagggt-----t
B D            Naked mole-rat  ctgaagggt-----g
B D                Guinea pig  ctgagggcc-----a
                   Chinchilla  ctgagggcc-----a
             Brush-tailed rat  ctgagggcc-----a
B D                    Rabbit  ctgaggggtgcggag
B D                      Pika  ctgaggggc-----t
B D                       Pig  ctgagggct-----c
B D                    Alpaca  ctga-----------
               Bactrian camel  ctgaggccc-----c
B D                   Dolphin  ctgaggccc-----c
                 Killer whale  ctgaggccc-----c
             Tibetan antelope  ctgaggccc-----c
B D                       Cow  ctgaggccc-----c
B D                     Sheep  ctgaggccc-----c
                Domestic goat  ctgaggccc-----c
B D                     Horse  ctgaggaga-----g
B D          White rhinoceros  ctgagg-ga-----g
B D                       Cat  ctgagggga-----g
B D                       Dog  ctgagggga-----g
B D                   Ferret   ctgagggga-----g
B D                     Panda  ctgagggga-----g
               Pacific walrus  ctgagggga-----g
                 Weddell seal  ccgagggga-----g
             Black flying-fox  ctgaggggc-----a
B D                   Megabat  ctgaggggc-----a
                Big brown bat  ctgcggggc-----g
         David's myotis (bat)  ctgaggggc-----g
B D                  Microbat  ctgaggggc-----g
B D                     Shrew  ctgtaggag-----c
              Star-nosed mole  cagagagga-----t
B D                  Elephant  ttaaggtgg-----g
          Cape elephant shrew  ttaaggggg-----a
B D                   Manatee  ttaagggcg-----g
             Cape golden mole  ttaaggggg-----t
B D                    Tenrec  ttaaagggg-----c
                     Aardvark  ttaaggggg-----c
B D                 Armadillo  ctgagggga-----g
B D                   Opossum  ttaatggca-----a
B D           Tasmanian devil  ttcgtggca-----a
B D                   Wallaby  ttagtggta-----a
B D                  Platypus  atcatggga-----a
  D               Rock pigeon  agctgaggt-----g
  D              Saker falcon  tgcggcggg-----g
  D          Peregrine falcon  tgcggcggg-----g
  D       Collared flycatcher  -atgccggg-----g
B D       Medium ground finch  catgcagac-----g
           Tibetan ground jay  cgcggaggg-----g
B D                Budgerigar  -tcaggggt-----g
  D              Mallard duck  tgatcagaa-----g
B D                   Chicken  tgcgcgggg-----g
B D                    Turkey  tgcgcgggg-----g
B D        American alligator  caaagaggt-----a
  D           Green seaturtle  ttaacagga-----a
  D            Painted turtle  ttaacagga-----a
  D  Chinese softshell turtle  ttaaaagga-----a
  D    Spiny softshell turtle  ttaaaagga-----a
B D                    Lizard  atagcagga-----a
B D                 Tetraodon  ctgggggcc-----g
B D                      Fugu  cagcgagca-----g
       Yellowbelly pufferfish  cagcgagca-----g
B D                    Medaka  gtgcg-gcg-----g
B D              Atlantic cod  ctgagctca-----g
B D                  Hedgehog  ===============
B D               Zebra finch  ===============

Inserts between block 9 and 10 in window
  D             Saker falcon 2bp
  D         Peregrine falcon 2bp
  D      Collared flycatcher 2bp
B D      Medium ground finch 2bp
          Tibetan ground jay 2bp
B D               Budgerigar 2bp
  D             Mallard duck 15bp
B D                  Chicken 5bp
B D                   Turkey 5bp
B D       American alligator 9bp
  D          Green seaturtle 2bp
  D           Painted turtle 2bp
  D Chinese softshell turtle 2bp
  D   Spiny softshell turtle 2bp
B D                   Lizard 2bp

Alignment block 10 of 108 in window, 105241816 - 105241818, 3 bps 
B D                     Human  ccc-
B D                     Chimp  ccc-
B D                   Gorilla  ccc-
B D                 Orangutan  ccc-
B D                    Gibbon  ccc-
B D                    Rhesus  ccc-
B D       Crab-eating macaque  ccc-
B D                    Baboon  ccc-
B D              Green monkey  ccc-
B D                  Marmoset  ccc-
B D           Squirrel monkey  ccc-
B D                  Bushbaby  cac-
B D                  Squirrel  ccc-
       Lesser Egyptian jerboa  ccc-
                 Prairie vole  ccc-
B D           Chinese hamster  ccc-
               Golden hamster  ccc-
B D                     Mouse  ccc-
B D                       Rat  ccc-
B D            Naked mole-rat  gcc-
B D                Guinea pig  ggc-
                   Chinchilla  gcc-
             Brush-tailed rat  gcc-
B D                    Rabbit  cct-
B D                      Pika  ccc-
B D                       Pig  cct-
               Bactrian camel  gcc-
B D                   Dolphin  ttc-
                 Killer whale  ttc-
             Tibetan antelope  tcc-
B D                       Cow  tcc-
B D                     Sheep  tcc-
                Domestic goat  tcc-
B D                     Horse  ccc-
B D          White rhinoceros  cac-
B D                       Cat  ccc-
B D                       Dog  tcc-
B D                   Ferret   tcc-
B D                     Panda  tcc-
               Pacific walrus  tcc-
                 Weddell seal  tcc-
             Black flying-fox  tcc-
B D                   Megabat  tcc-
                Big brown bat  ccc-
         David's myotis (bat)  ccc-
B D                  Microbat  ccc-
B D                     Shrew  ctt-
              Star-nosed mole  cca-
B D                  Elephant  ccc-
          Cape elephant shrew  ccc-
B D                   Manatee  ccc-
             Cape golden mole  ccc-
B D                    Tenrec  ccc-
                     Aardvark  ccc-
B D                 Armadillo  acg-
B D                   Opossum  ccc-
B D           Tasmanian devil  ctc-
B D                   Wallaby  ccg-
B D                  Platypus  aac-
  D              Saker falcon  -ca-
  D          Peregrine falcon  -ca-
  D       Collared flycatcher  -gc-
B D       Medium ground finch  -ga-
           Tibetan ground jay  -cc-
B D                Budgerigar  -ga-
  D              Mallard duck  -cc-
B D                   Chicken  -cc-
B D                    Turkey  -cc-
B D        American alligator  -ct-
  D           Green seaturtle  -ct-
  D            Painted turtle  -ct-
  D  Chinese softshell turtle  -ct-
  D    Spiny softshell turtle  -ct-
B D                    Lizard  -c--
B D                 Tetraodon  -at-
B D                      Fugu  -ctc
       Yellowbelly pufferfish  -ctc
B D                    Medaka  -cta
B D              Atlantic cod  -ctc
B D                  Hedgehog  ====
B D               Zebra finch  ====
          Chinese tree shrew  ----
B D                    Alpaca  ----

Inserts between block 10 and 11 in window
  D             Saker falcon 11bp
  D         Peregrine falcon 11bp
  D      Collared flycatcher 52bp
B D      Medium ground finch 52bp
          Tibetan ground jay 60bp
B D               Budgerigar 35bp
  D             Mallard duck 7bp
B D                  Chicken 7bp
B D                   Turkey 7bp
B D       American alligator 18bp

Alignment block 11 of 108 in window, 105241819 - 105241824, 6 bps 
B D                     Human  t-cccgg
B D                     Chimp  t-cccgg
B D                   Gorilla  t-cccgg
B D                 Orangutan  t-cccgg
B D                    Gibbon  t-cccgg
B D                    Rhesus  t-tctgg
B D       Crab-eating macaque  t-cctgg
B D                    Baboon  t-cctgg
B D              Green monkey  t-cctgg
B D                  Marmoset  c-cctgg
B D           Squirrel monkey  c-cccgg
B D                  Bushbaby  c-cccag
           Chinese tree shrew  -----gg
B D                  Squirrel  t-tgcag
       Lesser Egyptian jerboa  t-tgcag
                 Prairie vole  t-tgcag
B D           Chinese hamster  t-tgcag
               Golden hamster  t-tgcag
B D                     Mouse  t-cgtag
B D                       Rat  t-tgaag
B D            Naked mole-rat  c-tgcaa
B D                Guinea pig  c-ttctg
                   Chinchilla  c-cgctg
             Brush-tailed rat  c-tgctg
B D                    Rabbit  t-tgcag
B D                      Pika  t-tgcag
B D                       Pig  ccact--
B D                    Alpaca  -gtcc--
               Bactrian camel  tgtcc--
B D                   Dolphin  c-tct--
                 Killer whale  c-tct--
             Tibetan antelope  tatcc--
B D                       Cow  tatcc--
B D                     Sheep  tatcc--
                Domestic goat  tatcc--
B D                     Horse  t-tccgg
B D          White rhinoceros  t-tccag
B D                       Cat  t-tccag
B D                       Dog  t-tccag
B D                   Ferret   t-tccag
B D                     Panda  t-tccag
               Pacific walrus  t-tcccg
                 Weddell seal  t-tccag
             Black flying-fox  t-tccag
B D                   Megabat  t-tccag
                Big brown bat  c-tcc-g
         David's myotis (bat)  c-tcc-g
B D                  Microbat  c-tcc-g
B D                     Shrew  t-tccgg
              Star-nosed mole  g-tcggg
B D                  Elephant  t-tctag
          Cape elephant shrew  t-cgcag
B D                   Manatee  t-tccag
             Cape golden mole  t-tccag
B D                    Tenrec  t-ttccg
                     Aardvark  t-tccag
B D                 Armadillo  g-gccac
B D                   Opossum  t-ttctg
B D           Tasmanian devil  t-ttcca
B D                   Wallaby  t-ttcct
B D                  Platypus  t-ctccc
B D                 Tetraodon  --gtccg
B D                      Fugu  -cctcca
       Yellowbelly pufferfish  -cctcca
B D                    Medaka  -ca----
B D              Atlantic cod  -gcccaa
B D                  Hedgehog  =======
  D          Peregrine falcon  =======
  D              Saker falcon  =======
B D                Budgerigar  =======
  D              Mallard duck  =======
  D  Chinese softshell turtle  -------
B D                   Chicken  =======
B D       Medium ground finch  =======
B D                    Turkey  =======
  D            Painted turtle  -------
B D               Zebra finch  =======
  D       Collared flycatcher  =======
B D        American alligator  =======
          Tibetan ground jay  =======
B D                    Lizard  -------
  D    Spiny softshell turtle  -------
  D           Green seaturtle  -------

Alignment block 12 of 108 in window, 105241825 - 105241826, 2 bps 
B D                     Human  cc
B D                     Chimp  cc
B D                   Gorilla  cc
B D                 Orangutan  cc
B D                    Gibbon  cc
B D                    Rhesus  cc
B D       Crab-eating macaque  cc
B D                    Baboon  cc
B D              Green monkey  cc
B D                  Marmoset  cg
B D           Squirrel monkey  cc
B D                  Bushbaby  cc
           Chinese tree shrew  cg
B D                  Squirrel  cc
       Lesser Egyptian jerboa  cc
                 Prairie vole  cc
B D           Chinese hamster  cc
               Golden hamster  cc
B D                     Mouse  cc
B D                       Rat  tc
B D            Naked mole-rat  cc
B D                Guinea pig  cc
                   Chinchilla  cc
             Brush-tailed rat  cc
B D                    Rabbit  cc
B D                      Pika  cc
B D                       Pig  -c
B D                    Alpaca  -c
               Bactrian camel  -c
B D                   Dolphin  -c
                 Killer whale  -c
             Tibetan antelope  -c
B D                       Cow  -c
B D                     Sheep  -c
                Domestic goat  -c
B D                     Horse  tc
B D          White rhinoceros  tc
B D                       Cat  tc
B D                       Dog  tc
B D                   Ferret   tc
B D                     Panda  tc
               Pacific walrus  tc
                 Weddell seal  tc
             Black flying-fox  gc
B D                   Megabat  gc
                Big brown bat  gc
         David's myotis (bat)  gc
B D                  Microbat  gc
              Star-nosed mole  ct
B D                  Elephant  ac
          Cape elephant shrew  gc
B D                   Manatee  gc
             Cape golden mole  gc
B D                    Tenrec  gc
                     Aardvark  ga
B D                 Armadillo  gg
B D                   Opossum  ct
B D           Tasmanian devil  cc
B D                   Wallaby  cc
B D                  Platypus  cc
B D                    Lizard  -t
B D                 Tetraodon  -c
B D                      Fugu  -c
       Yellowbelly pufferfish  -c
          Princess of Burundi  cc
B D                    Medaka  -c
B D              Atlantic cod  tc
B D                  Hedgehog  ==
B D                     Shrew  --
  D          Peregrine falcon  ==
  D              Saker falcon  ==
B D                Budgerigar  ==
  D              Mallard duck  ==
  D  Chinese softshell turtle  --
B D                   Chicken  ==
B D       Medium ground finch  ==
B D                    Turkey  ==
  D            Painted turtle  --
B D               Zebra finch  ==
  D       Collared flycatcher  ==
B D        American alligator  ==
          Tibetan ground jay  ==
  D    Spiny softshell turtle  --
  D           Green seaturtle  --

Alignment block 13 of 108 in window, 105241827 - 105241828, 2 bps 
B D                     Human  at
B D                     Chimp  at
B D                   Gorilla  at
B D                 Orangutan  at
B D                    Gibbon  at
B D                    Rhesus  ac
B D       Crab-eating macaque  ac
B D                    Baboon  ac
B D              Green monkey  ac
B D                  Marmoset  at
B D           Squirrel monkey  ac
B D                  Bushbaby  gt
           Chinese tree shrew  at
B D                  Squirrel  at
       Lesser Egyptian jerboa  ac
                 Prairie vole  ac
B D           Chinese hamster  ac
               Golden hamster  ac
B D                     Mouse  ac
B D                       Rat  ac
B D            Naked mole-rat  ct
B D                Guinea pig  ct
                   Chinchilla  ct
             Brush-tailed rat  cg
B D                    Rabbit  ag
B D                      Pika  ag
B D                       Pig  ct
B D                    Alpaca  gc
               Bactrian camel  ac
B D                   Dolphin  cc
                 Killer whale  cc
             Tibetan antelope  gc
B D                       Cow  gc
B D                     Sheep  gc
                Domestic goat  gc
B D                     Horse  at
B D          White rhinoceros  at
B D                       Cat  gt
B D                       Dog  ct
B D                   Ferret   ct
B D                     Panda  ct
               Pacific walrus  ct
                 Weddell seal  ct
             Black flying-fox  at
B D                   Megabat  at
                Big brown bat  gt
         David's myotis (bat)  gt
B D                  Microbat  gt
B D                     Shrew  gt
              Star-nosed mole  gt
B D                  Elephant  at
          Cape elephant shrew  at
B D                   Manatee  ac
             Cape golden mole  at
B D                    Tenrec  tt
                     Aardvark  at
B D                 Armadillo  ct
B D                   Opossum  at
B D           Tasmanian devil  at
B D                   Wallaby  at
B D                  Platypus  tt
  D              Saker falcon  -c
  D          Peregrine falcon  -c
  D       Collared flycatcher  -c
  D    White-throated sparrow  -c
B D       Medium ground finch  -t
           Tibetan ground jay  -c
B D                Budgerigar  -c
  D              Mallard duck  -t
B D                   Chicken  -a
B D                    Turkey  -a
B D        American alligator  -g
  D           Green seaturtle  -t
  D            Painted turtle  -t
  D  Chinese softshell turtle  -t
  D    Spiny softshell turtle  -t
B D                    Lizard  gt
B D                 Tetraodon  -c
B D                      Fugu  -a
       Yellowbelly pufferfish  -a
          Princess of Burundi  -t
B D                    Medaka  -c
B D              Atlantic cod  -a
     Mexican tetra (cavefish)  ac
B D                  Hedgehog  ==
B D               Zebra finch  ==

Inserts between block 13 and 14 in window
B D                Tetraodon 6bp
         Princess of Burundi 1bp
B D                   Medaka 2bp
B D             Atlantic cod 1bp
    Mexican tetra (cavefish) 1bp

Alignment block 14 of 108 in window, 105241829 - 105241831, 3 bps 
B D                     Human  ttc
B D                     Chimp  ttc
B D                   Gorilla  ttc
B D                 Orangutan  ttc
B D                    Gibbon  ttc
B D                    Rhesus  ttc
B D       Crab-eating macaque  ttc
B D                    Baboon  ttc
B D              Green monkey  ttc
B D                  Marmoset  ttc
B D           Squirrel monkey  ttc
B D                  Bushbaby  ttg
           Chinese tree shrew  ctc
B D                  Squirrel  ttc
       Lesser Egyptian jerboa  ttc
                 Prairie vole  ttc
B D           Chinese hamster  gtc
               Golden hamster  gtc
B D                     Mouse  ttc
B D                       Rat  gtc
B D            Naked mole-rat  ctc
B D                Guinea pig  ccc
                   Chinchilla  ctc
             Brush-tailed rat  ctc
B D                    Rabbit  ctc
B D                      Pika  ctc
B D                       Pig  tcc
B D                    Alpaca  --c
               Bactrian camel  --c
B D                   Dolphin  tgc
                 Killer whale  tgc
             Tibetan antelope  ttc
B D                       Cow  ttc
B D                     Sheep  ttc
                Domestic goat  ttc
B D                     Horse  ctc
B D          White rhinoceros  ctc
B D                       Cat  ttc
B D                       Dog  ttc
B D                   Ferret   ttc
B D                     Panda  ttc
               Pacific walrus  ttc
                 Weddell seal  ttc
             Black flying-fox  ttc
B D                   Megabat  ttc
                Big brown bat  ttc
         David's myotis (bat)  ttc
B D                  Microbat  ttc
B D                     Shrew  ctg
              Star-nosed mole  ttc
B D                  Elephant  ttt
          Cape elephant shrew  tgt
B D                   Manatee  ttt
             Cape golden mole  ttt
B D                    Tenrec  tcc
                     Aardvark  ttt
B D                 Armadillo  ggc
B D                   Opossum  ggt
B D           Tasmanian devil  tgt
B D                   Wallaby  tgt
B D                  Platypus  tgc
  D              Saker falcon  tt-
  D          Peregrine falcon  tt-
  D       Collared flycatcher  tt-
  D    White-throated sparrow  tc-
B D       Medium ground finch  tt-
           Tibetan ground jay  gc-
B D                Budgerigar  tt-
  D              Mallard duck  tt-
B D                   Chicken  tt-
B D                    Turkey  tt-
B D        American alligator  tt-
  D           Green seaturtle  tt-
  D            Painted turtle  tt-
  D  Chinese softshell turtle  tt-
  D    Spiny softshell turtle  tt-
B D                    Lizard  gt-
B D                      Fugu  ttc
       Yellowbelly pufferfish  ttc
B D                    Medaka  ctc
B D              Atlantic cod  ggc
     Mexican tetra (cavefish)  ttt
B D                  Hedgehog  ===
         Princess of Burundi  ===
B D                 Tetraodon  ===
B D               Zebra finch  ===

Alignment block 15 of 108 in window, 105241832 - 105241836, 5 bps 
B D                     Human  tgtcc
B D                     Chimp  tgtcc
B D                   Gorilla  tgtcc
B D                 Orangutan  tgtcc
B D                    Gibbon  tgtcc
B D                    Rhesus  tgtcc
B D       Crab-eating macaque  tgtcc
B D                    Baboon  tgtcc
B D              Green monkey  tgtcc
B D                  Marmoset  tgtcc
B D           Squirrel monkey  tgtca
B D                  Bushbaby  tgtcc
           Chinese tree shrew  tgccg
B D                  Squirrel  tgggc
       Lesser Egyptian jerboa  tgtcc
                 Prairie vole  tgtcc
B D           Chinese hamster  tgtcc
               Golden hamster  tgttc
B D                     Mouse  tatcc
B D                       Rat  tatcc
B D            Naked mole-rat  cattc
B D                Guinea pig  catcc
                   Chinchilla  catcc
             Brush-tailed rat  tgttg
B D                    Rabbit  tg-cc
B D                      Pika  tg-cc
B D                       Pig  ggccc
B D                    Alpaca  tgtcc
               Bactrian camel  tgtcc
B D                   Dolphin  tgccc
                 Killer whale  tgccc
             Tibetan antelope  tgcct
B D                       Cow  tgcct
B D                     Sheep  tgcct
                Domestic goat  tgcct
B D                     Horse  tgtcc
B D          White rhinoceros  tgtcc
B D                       Cat  tgtcc
B D                       Dog  tgtcc
B D                   Ferret   cgtct
B D                     Panda  tgtcc
               Pacific walrus  tgccc
                 Weddell seal  tgtcc
             Black flying-fox  tgtcc
B D                   Megabat  tgtcc
                Big brown bat  tgtct
         David's myotis (bat)  cgtcc
B D                  Microbat  cgtcc
B D                  Hedgehog  tgccc
B D                  Elephant  tgtct
          Cape elephant shrew  ccccc
B D                   Manatee  catcc
             Cape golden mole  catcg
B D                    Tenrec  catcc
                     Aardvark  catcc
B D                 Armadillo  agtcc
B D                   Opossum  tagcc
B D           Tasmanian devil  tagtc
B D                   Wallaby  cagtc
B D                  Platypus  catcc
B D                      Fugu  tctcc
       Yellowbelly pufferfish  tctcc
B D              Nile tilapia  -ttct
          Princess of Burundi  -ttct
B D                    Medaka  tttac
B D              Atlantic cod  cgcca
     Mexican tetra (cavefish)  gctgc
             Star-nosed mole  -----
B D                     Shrew  -----
  D          Peregrine falcon  -----
  D              Saker falcon  -----
B D                Budgerigar  -----
  D              Mallard duck  -----
B D                 Tetraodon  =====
  D  Chinese softshell turtle  -----
B D                   Chicken  -----
B D       Medium ground finch  -----
B D                    Turkey  -----
  D            Painted turtle  -----
B D               Zebra finch  =====
  D       Collared flycatcher  -----
B D        American alligator  -----
          Tibetan ground jay  -----
B D                    Lizard  -----
  D    White-throated sparrow  -----
  D    Spiny softshell turtle  -----
  D           Green seaturtle  -----

Alignment block 16 of 108 in window, 105241837 - 105241844, 8 bps 
B D                     Human  cagct-----------------------cca------
B D                     Chimp  tagct-----------------------cca------
B D                   Gorilla  cagct-----------------------cca------
B D                 Orangutan  cagct-----------------------cca------
B D                    Gibbon  cagct-----------------------cca------
B D                    Rhesus  cagct-----------------------cca------
B D       Crab-eating macaque  cagct-----------------------cca------
B D                    Baboon  cagct-----------------------cca------
B D              Green monkey  cagct-----------------------cca------
B D                  Marmoset  cggct-----------------------cca------
B D           Squirrel monkey  cggct-----------------------cca------
B D                  Bushbaby  cagct-----------------------cca------
           Chinese tree shrew  ggacc-----------------------cca------
B D                  Squirrel  aggct-----------------------cca------
       Lesser Egyptian jerboa  cggct-----------------------cca------
                 Prairie vole  cggtg-----------------------ccg------
B D           Chinese hamster  aggtc-----------------------ccg------
               Golden hamster  aggtc-----------------------cca------
B D                     Mouse  aggtc-----------------------ctg------
B D                       Rat  agctt-----------------------ccg------
B D            Naked mole-rat  ctacc-----------------------ctc------
B D                Guinea pig  ctgct-----------------------cct------
                   Chinchilla  ctgcc-----------------------ctc------
             Brush-tailed rat  ccg----------------------------------
B D                    Rabbit  ggcct-----------------------ctg------
B D                      Pika  cacct-----------------------cgg------
B D                       Pig  cagcc-----------------------cca------
B D                    Alpaca  cgccg-----------------------ccc------
               Bactrian camel  cgccg-----------------------ccc------
B D                   Dolphin  cggct-----------------------cca------
                 Killer whale  cggct-----------------------cca------
             Tibetan antelope  caccg-----------------------cca------
B D                       Cow  cactg-----------------------cca------
B D                     Sheep  caccg-----------------------cca------
                Domestic goat  ca-----------------------------------
B D                     Horse  cagct-----------------------cca------
B D          White rhinoceros  cggct-----------------------cca------
B D                       Cat  cggct-----------------------cca------
B D                       Dog  cagct-----------------------cca------
B D                   Ferret   gggct-----------------------cca------
B D                     Panda  ccgct-----------------------cca------
               Pacific walrus  tggct-----------------------cct------
                 Weddell seal  cggct-----------------------cct------
             Black flying-fox  cagct------------------------gc------
B D                   Megabat  cagct------------------------gc------
                Big brown bat  agact-----------------------cgc------
         David's myotis (bat)  agact-----------------------ccc------
B D                  Microbat  agact-----------------------ccc------
B D                  Hedgehog  gggctccgaggctcccagccggggcgggcga------
B D                     Shrew  --------------------ggtagactccc------
              Star-nosed mole  --------------------tgtgctggcct------
B D                  Elephant  ctgcc-----------------------cca------
          Cape elephant shrew  ctgtc-----------------------ccc------
B D                   Manatee  ctgcc-----------------------cca------
             Cape golden mole  ctgtc-----------------------cca------
B D                    Tenrec  ctggc-----------------------cca------
                     Aardvark  ctgtc-----------------------cca------
B D                 Armadillo  gggcc-----------------------cgg------
B D                   Opossum  tgcct-----------------------gaa------
B D           Tasmanian devil  tacct-----------------------aaa------
B D                   Wallaby  tgcct-----------------------aaa------
B D                  Platypus  tgagg-----------------------acg------
B D             X. tropicalis  caatg-----------------------cta------
B D                 Tetraodon  ------------------------------agct---
B D                      Fugu  -----------------------------tagctcat
       Yellowbelly pufferfish  -----------------------------tagctcat
B D              Nile tilapia  -----------------------------ggtctcat
          Princess of Burundi  -----------------------------gatctcat
B D                    Medaka  -----------------------------cgacccgt
B D              Atlantic cod  -----------------------------tggc----
     Mexican tetra (cavefish)  -----------------------------aggtcca-
  D          Peregrine falcon  -------------------------------------
  D              Saker falcon  -------------------------------------
B D                Budgerigar  -------------------------------------
  D              Mallard duck  -------------------------------------
  D  Chinese softshell turtle  -------------------------------------
B D                   Chicken  -------------------------------------
B D       Medium ground finch  -------------------------------------
B D                    Turkey  -------------------------------------
  D            Painted turtle  -------------------------------------
B D               Zebra finch  =====================================
  D       Collared flycatcher  -------------------------------------
B D        American alligator  -------------------------------------
          Tibetan ground jay  -------------------------------------
B D                    Lizard  -------------------------------------
  D    White-throated sparrow  -------------------------------------
  D    Spiny softshell turtle  -------------------------------------
  D           Green seaturtle  -------------------------------------

Inserts between block 16 and 17 in window
B D                     Fugu 3bp
      Yellowbelly pufferfish 3bp
B D                   Medaka 7bp

Alignment block 17 of 108 in window, 105241845 - 105241850, 6 bps 
B D                     Human  aggg---------------------------tc-
B D                     Chimp  aggg---------------------------tc-
B D                   Gorilla  aggg---------------------------tc-
B D                 Orangutan  aggg---------------------------tc-
B D                    Gibbon  aggg---------------------------tc-
B D                    Rhesus  aggg---------------------------tc-
B D       Crab-eating macaque  aggg---------------------------tc-
B D                    Baboon  aggg---------------------------tc-
B D              Green monkey  aggg---------------------------tc-
B D                  Marmoset  aggg---------------------------tc-
B D           Squirrel monkey  aggg---------------------------tc-
B D                  Bushbaby  cgtg---------------------------tc-
           Chinese tree shrew  gccg----------------------------c-
B D                  Squirrel  agtt---------------------------tc-
       Lesser Egyptian jerboa  agtt---------------------------gc-
                 Prairie vole  agtt---------------------------tc-
B D           Chinese hamster  agtt---------------------------tc-
               Golden hamster  agtt---------------------------tc-
B D                     Mouse  aatt---------------------------tc-
B D                       Rat  agtt---------------------------cc-
B D            Naked mole-rat  aggc---------------------------ag-
B D                Guinea pig  -gcc---------------------------ag-
                   Chinchilla  -ggc---------------------------tc-
B D                    Rabbit  agcg---------------------------tc-
B D                      Pika  aggg---------------------------tc-
B D                       Pig  ggat---------------------------ct-
B D                    Alpaca  agac---------------------------tc-
               Bactrian camel  agac---------------------------tc-
B D                   Dolphin  ggat---------------------------tt-
                 Killer whale  ggat---------------------------tt-
             Tibetan antelope  ggac---------------------------ct-
B D                       Cow  gggc---------------------------ct-
B D                     Sheep  ggac---------------------------ct-
B D                     Horse  aggt---------------------------ct-
B D          White rhinoceros  agtt---------------------------tt-
B D                       Cat  agtt---------------------------tt-
B D                       Dog  agtt---------------------------gt-
B D                   Ferret   agtt---------------------------tt-
B D                     Panda  agtt---------------------------tt-
               Pacific walrus  agtt---------------------------tt-
                 Weddell seal  agtt---------------------------tt-
             Black flying-fox  aagt---------------------------tt-
B D                   Megabat  aagt---------------------------tt-
                Big brown bat  agct---------------------------tt-
         David's myotis (bat)  agct---------------------------tc-
B D                  Microbat  agct---------------------------tc-
B D                  Hedgehog  tgcc---------------------------cc-
B D                     Shrew  tgct---------------------------tc-
              Star-nosed mole  tgtc---------------------------tg-
B D                  Elephant  agtt---------------------------ct-
          Cape elephant shrew  aatc---------------------------ct-
B D                   Manatee  agtc---------------------------tt-
             Cape golden mole  agtt---------------------------tt-
B D                    Tenrec  catt---------------------------tg-
                     Aardvark  agtt---------------------------ct-
B D                 Armadillo  ggtc---------------------------tc-
B D                   Opossum  acat---------------------------tt-
B D           Tasmanian devil  attt---------------------------tt-
B D                   Wallaby  aaat---------------------------tt-
B D                  Platypus  gatt---------------------------ca-
  D              Saker falcon  --tg---------------------------tc-
  D          Peregrine falcon  --tg---------------------------tc-
  D       Collared flycatcher  --ca---------------------------tc-
  D    White-throated sparrow  --cagc---------------gccagccacctc-
B D       Medium ground finch  --ta-----------------------cccctc-
           Tibetan ground jay  --gggg---------------ccggtgccccca-
B D                Budgerigar  --ca---------------------------tc-
  D              Mallard duck  --ca---------------------------at-
B D                   Chicken  --cg---------------------------gt-
B D                    Turkey  --cg---------------------------gt-
B D        American alligator  --tg---------------------gcagcgat-
  D           Green seaturtle  --tagctcttctttc----tcccacttcatgtt-
  D            Painted turtle  --tggctcttccttc----tcccacttcaggtt-
  D  Chinese softshell turtle  --tggctcttcctcc----tcccagttcaggtc-
  D    Spiny softshell turtle  --tggctcttcctcc----ttccagttcaggtt-
B D                    Lizard  --gggctctgcttctcagataccagtgtt--tt-
B D             X. tropicalis  agag---------------------------gc-
B D                 Tetraodon  -------------------------------gct
B D                      Fugu  ----------------------------ggggcg
       Yellowbelly pufferfish  ----------------------------ggggcg
B D              Nile tilapia  -------------------------------atc
          Princess of Burundi  -------------------------------atc
B D                    Medaka  ----------------------------cagccg
           Southern platyfish  ----------------------------agggcg
     Mexican tetra (cavefish)  -------------------------------gca
B D               Zebra finch  ==================================
B D              Atlantic cod  ----------------------------------
            Brush-tailed rat  ----------------------------------
               Domestic goat  ----------------------------------

Inserts between block 17 and 18 in window
B D                Tetraodon 7bp
B D                     Fugu 8bp
      Yellowbelly pufferfish 8bp
B D             Nile tilapia 9bp
         Princess of Burundi 9bp
    Mexican tetra (cavefish) 1bp

Alignment block 18 of 108 in window, 105241851 - 105241851, 1 bps 
B D                     Human  t--
B D                     Chimp  t--
B D                   Gorilla  t--
B D                 Orangutan  t--
B D                    Gibbon  t--
B D                    Rhesus  t--
B D       Crab-eating macaque  t--
B D                    Baboon  t--
B D              Green monkey  t--
B D                  Marmoset  t--
B D           Squirrel monkey  t--
B D                  Bushbaby  t--
           Chinese tree shrew  t--
B D                  Squirrel  t--
       Lesser Egyptian jerboa  t--
                 Prairie vole  t--
B D           Chinese hamster  t--
               Golden hamster  t--
B D                     Mouse  t--
B D                       Rat  t--
B D            Naked mole-rat  t--
B D                Guinea pig  c--
                   Chinchilla  c--
B D                    Rabbit  t--
B D                      Pika  t--
B D                       Pig  c--
B D                    Alpaca  c--
               Bactrian camel  c--
B D                   Dolphin  c--
                 Killer whale  c--
             Tibetan antelope  c--
B D                       Cow  c--
B D                     Sheep  c--
B D                     Horse  t--
B D          White rhinoceros  t--
B D                       Cat  t--
B D                       Dog  t--
B D                   Ferret   t--
B D                     Panda  t--
               Pacific walrus  t--
                 Weddell seal  t--
             Black flying-fox  t--
B D                   Megabat  t--
                Big brown bat  t--
         David's myotis (bat)  t--
B D                  Microbat  t--
B D                  Hedgehog  c--
B D                     Shrew  t--
              Star-nosed mole  t--
B D                  Elephant  t--
          Cape elephant shrew  t--
B D                   Manatee  a--
             Cape golden mole  t--
B D                    Tenrec  t--
                     Aardvark  t--
B D                 Armadillo  t--
B D                   Opossum  c--
B D           Tasmanian devil  t--
B D                   Wallaby  t--
B D                  Platypus  t--
  D              Saker falcon  c--
  D          Peregrine falcon  c--
  D       Collared flycatcher  t--
  D    White-throated sparrow  c--
B D       Medium ground finch  g--
           Tibetan ground jay  g--
B D                Budgerigar  c--
  D              Mallard duck  ctt
B D                   Chicken  c--
B D                    Turkey  c--
B D        American alligator  g--
  D           Green seaturtle  t--
  D            Painted turtle  t--
  D  Chinese softshell turtle  a--
  D    Spiny softshell turtle  g--
B D                    Lizard  g--
B D             X. tropicalis  t--
B D                 Tetraodon  t--
B D                      Fugu  t--
       Yellowbelly pufferfish  t--
B D              Nile tilapia  t--
          Princess of Burundi  t--
        Burton's mouthbreeder  t--
                  Zebra mbuna  t--
          Pundamilia nyererei  t--
     Mexican tetra (cavefish)  t--
          Southern platyfish  ---
B D                    Medaka  ---
B D               Zebra finch  ===
B D              Atlantic cod  ---
            Brush-tailed rat  ---
               Domestic goat  ---

Alignment block 19 of 108 in window, 105241852 - 105241853, 2 bps 
B D                     Human  ct
B D                     Chimp  ct
B D                   Gorilla  ct
B D                 Orangutan  ct
B D                    Gibbon  ct
B D                    Rhesus  ct
B D       Crab-eating macaque  ct
B D                    Baboon  ct
B D              Green monkey  ct
B D                  Marmoset  cc
B D           Squirrel monkey  cc
B D                  Bushbaby  ct
           Chinese tree shrew  cg
B D                  Squirrel  ct
       Lesser Egyptian jerboa  ct
                 Prairie vole  cg
B D           Chinese hamster  ct
               Golden hamster  ct
B D                     Mouse  ct
B D                       Rat  ct
B D            Naked mole-rat  cc
B D                Guinea pig  cc
                   Chinchilla  cc
             Brush-tailed rat  cc
B D                    Rabbit  gt
B D                      Pika  gt
B D                       Pig  ct
B D                    Alpaca  ct
               Bactrian camel  ct
B D                   Dolphin  ct
                 Killer whale  ct
             Tibetan antelope  tt
B D                       Cow  tt
B D                     Sheep  tt
B D                     Horse  ct
B D          White rhinoceros  ct
B D                       Cat  tc
B D                       Dog  tt
B D                   Ferret   tt
B D                     Panda  tt
               Pacific walrus  tt
                 Weddell seal  tt
             Black flying-fox  cc
B D                   Megabat  cc
                Big brown bat  ct
         David's myotis (bat)  cc
B D                  Microbat  cc
B D                  Hedgehog  gg
B D                     Shrew  gt
              Star-nosed mole  gt
B D                  Elephant  ct
          Cape elephant shrew  cc
B D                   Manatee  ct
             Cape golden mole  ct
B D                    Tenrec  ct
                     Aardvark  ct
B D                 Armadillo  ct
B D                   Opossum  ct
B D           Tasmanian devil  tt
B D                   Wallaby  ct
B D                  Platypus  cc
  D              Saker falcon  gc
  D          Peregrine falcon  gc
  D       Collared flycatcher  gc
  D    White-throated sparrow  tg
B D       Medium ground finch  gc
           Tibetan ground jay  cc
B D                Budgerigar  ac
  D              Mallard duck  ac
B D                   Chicken  ac
B D                    Turkey  at
B D        American alligator  gc
  D           Green seaturtle  gt
  D            Painted turtle  gt
  D  Chinese softshell turtle  gt
  D    Spiny softshell turtle  gt
B D                    Lizard  ca
B D             X. tropicalis  tc
B D                 Tetraodon  tt
B D                      Fugu  tt
       Yellowbelly pufferfish  tt
B D              Nile tilapia  cg
          Princess of Burundi  cg
        Burton's mouthbreeder  cg
                  Zebra mbuna  cg
          Pundamilia nyererei  cg
B D              Atlantic cod  cg
     Mexican tetra (cavefish)  t-
B D                   Lamprey  cg
          Southern platyfish  --
B D                    Medaka  --
B D               Zebra finch  ==
               Domestic goat  --

Inserts between block 19 and 20 in window
B D             Atlantic cod 2bp
    Mexican tetra (cavefish) 5bp

Alignment block 20 of 108 in window, 105241854 - 105241855, 2 bps 
B D                     Human  cc
B D                     Chimp  cc
B D                   Gorilla  cc
B D                 Orangutan  cc
B D                    Gibbon  cc
B D                    Rhesus  cc
B D       Crab-eating macaque  cc
B D                    Baboon  cc
B D              Green monkey  cc
B D                  Marmoset  cc
B D           Squirrel monkey  cc
B D                  Bushbaby  cc
           Chinese tree shrew  cc
B D                  Squirrel  cc
       Lesser Egyptian jerboa  tc
                 Prairie vole  tc
B D           Chinese hamster  tc
               Golden hamster  tc
B D                     Mouse  tc
B D                       Rat  tc
B D            Naked mole-rat  cc
B D                Guinea pig  cc
                   Chinchilla  cc
             Brush-tailed rat  cc
B D                    Rabbit  cg
B D                      Pika  cc
B D                       Pig  cc
B D                    Alpaca  cc
               Bactrian camel  cc
B D                   Dolphin  cc
                 Killer whale  cc
             Tibetan antelope  cc
B D                       Cow  cc
B D                     Sheep  cc
B D                     Horse  cc
B D          White rhinoceros  cc
B D                       Cat  cc
B D                       Dog  cc
B D                   Ferret   cc
B D                     Panda  cc
               Pacific walrus  cc
                 Weddell seal  cc
             Black flying-fox  cc
B D                   Megabat  cc
                Big brown bat  cc
         David's myotis (bat)  cc
B D                  Microbat  cc
B D                  Hedgehog  cc
B D                     Shrew  cc
              Star-nosed mole  cc
B D                  Elephant  cc
          Cape elephant shrew  cc
B D                   Manatee  cc
             Cape golden mole  cc
B D                    Tenrec  cc
                     Aardvark  cc
B D                 Armadillo  ct
B D                   Opossum  ca
B D           Tasmanian devil  ca
B D                   Wallaby  ca
B D                  Platypus  ca
  D              Saker falcon  ct
  D          Peregrine falcon  ct
  D       Collared flycatcher  tt
  D    White-throated sparrow  ag
B D       Medium ground finch  ag
           Tibetan ground jay  cg
B D                Budgerigar  ct
  D              Mallard duck  ca
B D                   Chicken  cg
B D                    Turkey  cg
B D        American alligator  at
  D           Green seaturtle  ca
  D            Painted turtle  ca
  D  Chinese softshell turtle  ca
  D    Spiny softshell turtle  ca
B D                    Lizard  ct
B D             X. tropicalis  ta
B D                      Fugu  cc
       Yellowbelly pufferfish  cc
B D              Nile tilapia  ct
          Princess of Burundi  ct
        Burton's mouthbreeder  ct
                  Zebra mbuna  ct
          Pundamilia nyererei  ct
B D               Stickleback  cc
B D                   Lamprey  cc
    Mexican tetra (cavefish)  ==
          Southern platyfish  --
B D                    Medaka  --
B D                 Tetraodon  --
B D               Zebra finch  ==
B D              Atlantic cod  ==
               Domestic goat  --

Inserts between block 20 and 21 in window
B D                     Fugu 3bp
      Yellowbelly pufferfish 3bp
B D             Nile tilapia 3bp
         Princess of Burundi 3bp
       Burton's mouthbreeder 3bp
                 Zebra mbuna 3bp
         Pundamilia nyererei 3bp
B D              Stickleback 3bp

Alignment block 21 of 108 in window, 105241856 - 105241900, 45 bps 
B D                     Human  ---------------a--c-------gatggcctgcaacagcacgtcccttga-------ggc---ttac
B D                     Chimp  ---------------a--c-------gatggcctgcaacagcacgtcccttga-------ggc---ttac
B D                   Gorilla  ---------------a--c-------gatggcctgcaacagcacgtcccttga-------ggc---ttac
B D                 Orangutan  ---------------a--c-------gatggcctgcaacagcacgtcccttga-------ggc---ttac
B D                    Gibbon  ---------------a--c-------catggcctgcaacagcacgtcccttga-------ggc---ttac
B D                    Rhesus  ---------------a--c-------gatggcctgcaacagcacgtccctcga-------ggc---ttac
B D       Crab-eating macaque  ---------------a--c-------gatggcctgcaacagcacgtccctcga-------ggc---ttac
B D                    Baboon  ---------------a--c-------gatggcctgcaacagcacgtccctcga-------ggc---ttac
B D              Green monkey  ---------------a--t-------gatggcctgcaacagtacatccctgga-------ggc---ttac
B D                  Marmoset  ---------------a--c-------gatggcctgcaacagcacatccctcga-------ggc---ttac
B D           Squirrel monkey  ---------------a--c-------gatggcctgcaacagcacatccctcga-------ggc---ttac
B D                  Bushbaby  ---------------a--a-------gatggcctgtaacagcacgtccctgga-------gac---ttac
           Chinese tree shrew  ---------------a--g-------gatggcctgtaacagcacgaccatcga-------ggc---ctac
B D                  Squirrel  ---------------g--c-------catggcctgtaacagcacgtccacgga-------gac---ctac
       Lesser Egyptian jerboa  ---------------g--c-------gatggcctgcaacagcacctccatgga-------gac---ttac
                 Prairie vole  ---------------a--g-------gatggcctgtaacagcacacccattgg-------gac---atac
B D           Chinese hamster  ---------------a--c-------gatggcctgtaacagcacatccatcgg-------gac---taac
               Golden hamster  ---------------a--c-------gatggcctgtaacagcacatccatcgg-------tac---taac
B D                     Mouse  ---------------a--c-------catggcctgtaacagcacacccatggg-------gac---ttac
B D                       Rat  ---------------a--g-------gatggcctgtaacagcacgcccatcgg-------gac---gtac
B D            Naked mole-rat  ---------------a--c-------aatggcctgcaatagcaccaccttcca-------gcc---ctat
B D                Guinea pig  ---------------a--c-------catggcctgcaacagcaccatcttcct-------gcc---cttc
                   Chinchilla  ---------------a--c-------catggcctgcaacagcaccaccttcca-------gcc---ctac
             Brush-tailed rat  ---------------a--a-------catggcctgcaacagctcctccttcca-------gcc---ctat
B D                    Rabbit  ---------------g--c-------catggcctgtaacagcacgtccctcca-------gat---ttac
B D                      Pika  ---------------a--c-------aatggcctgtaacagcacgaccctcga-------gac---ttac
B D                       Pig  ---------------a--c-------catggcctgcaacagcacgtccatcca-------gac---cgaa
B D                    Alpaca  ---------------g--c-------catggcctgtaacggcacgtccttgga-------gac---ccac
               Bactrian camel  ---------------g--c-------catggcctgtaacggcacgtccttgga-------gac---ccac
B D                   Dolphin  ---------------a--c-------gatggcctgtaaccgctcgtccatcga-------gac---ctac
                 Killer whale  ---------------a--c-------gatggcctgtaaccgctcgtccatcga-------gac---ctac
             Tibetan antelope  ---------------a--c-------gatggcctgtaaccaatcgtccatcga-------gac---ctac
B D                       Cow  ---------------a--c-------gatggcctgtaaccaatcgtccatcga-------gac---ctac
B D                     Sheep  ---------------a--c-------gatggcctgtaaccaatcgtccatcga-------gac---ctac
B D                     Horse  ---------------a--t-------gatggcctgtaacagcacgtccattga-------gac---ttac
B D          White rhinoceros  ---------------a--t-------gatggcctgtaacagcacgtccattga-------gac---ttac
B D                       Cat  ---------------a--t-------gatggcctgcaacagctccaccgtcga-------gac---ctac
B D                       Dog  ---------------a--t-------gatggcctgcaacagctccaccattga-------gac---ctac
B D                   Ferret   ---------------a--t-------gatggcctgcaatagccccaccactga-------gac---ttat
B D                     Panda  ---------------a--t-------gatggcctgcaacggctccaccattga-------gac---ctac
               Pacific walrus  ---------------a--t-------gatggcctgcaacagctccagcaccga-------gac---ctac
                 Weddell seal  ---------------a--t-------gatggcctgcaacagttccagccctga-------gac---ctac
             Black flying-fox  ---------------a--t-------gatgtcctgtaacagcacgtccataga-------gac---tttc
B D                   Megabat  ---------------a--t-------gatgtcctgtaacagcacgtccataga-------gac---tttc
                Big brown bat  ---------------a--g-------gatgtcctgcaaccgcacgtccgcgga-------gac---tttt
         David's myotis (bat)  ---------------a--g-------gatgtcctgcaaccgcacgtccgcgga-------gac---gttt
B D                  Microbat  ---------------a--g-------gatgtcctgcaaccgcacgtccgcgga-------gac---gttt
B D                  Hedgehog  ---------------g--ccgggcagcatgtcctgtaacggcagcgc-----------------------
B D                     Shrew  ---------------g--a-------aatggcctgtaacggcacagcccccaa-------cgc---ctac
              Star-nosed mole  ---------------a--c-------catggcctgtaacggcacatccgtggc-------gac---tttt
B D                  Elephant  ---------------a--t-------aatggcctgtaacagcacttccactga-------gac---ttat
          Cape elephant shrew  ---------------a--t-------gatggcctgtaacagcacttccctgga-------gac---ttat
B D                   Manatee  ---------------a--t-------gatggcctgtaacagcacttccactga-------gac---ttac
             Cape golden mole  ---------------a--t-------gatggcctgtaacagcacttccattga-------gac---ttat
B D                    Tenrec  ---------------a--t-------gatggccgttaacagcacgtccacgga-------gac---atac
                     Aardvark  ---------------a--t-------gatggcctgcaatagcacttctgtgga-------gac---ttat
B D                 Armadillo  ---------------g--c-------gatggcctgtaatggcacttccatgga-------gac---tcgt
B D                   Opossum  ---------------a--t-------gatggcttgcaataatactcccttgga-------gac---ttat
B D           Tasmanian devil  ---------------g--t-------gatggcttgcaacggtactccccctga-------ttc---ttat
B D                   Wallaby  ---------------g--t-------gatggcttgcaacagcactcccattga-------gac---ttat
B D                  Platypus  ---------------g--t-------gatggcctgcaacagcactttcttaga-------gac---acac
  D              Saker falcon  ---------------g--a-------ggtgccaggcca--------------------------------
  D          Peregrine falcon  ---------------g--a-------ggtgccaggcca--------------------------------
  D       Collared flycatcher  ---------------g--a-------ggggccgggcca--------------------------------
  D    White-throated sparrow  ---------------g--g-------agaactacac----------------------------------
B D       Medium ground finch  ---------------g--a-------ggagctgggc-a--------------------------------
           Tibetan ground jay  ---------------g--c-------cgagatgagc----------------------------------
B D                Budgerigar  ---------------g--a-------ggagctgggcca--------------------------------
  D              Mallard duck  ---------------gcaa-------tggcctgaaaca--------------------------------
B D                   Chicken  ---------------g--a-------ggggccggtgga--------------------------------
B D                    Turkey  ---------------g--a-------gggatcagtgca--------------------------------
B D        American alligator  ---------------g--c-------aatgatactcca--------------------------------
  D           Green seaturtle  ---------------g--g-------gatggcatgcaacgacactc--------------------ccat
  D            Painted turtle  ---------------g--t-------gatggcatgcaacgacactc--------------------ccat
  D  Chinese softshell turtle  ---------------g--t-------gatggcatgcaatgacactc------------------------
  D    Spiny softshell turtle  ---------------g--t-------gatggcatgcaatgacactc------------------------
B D                    Lizard  ---------------a--t-------gatggcatgcaacgagactcc---------------t---ccag
B D             X. tropicalis  ---------------a--c-------aatgggctgcaataatactgccctaga-------cag---ttgc
B D                Coelacanth  ---------------a--c-------gatctcctgcaacagcactttaattgaagaatgtgct---ttag
B D                 Tetraodon  ----------------------------------gtaatgaaagtcttctgga-------gca---atgt
B D                      Fugu  ---------------a----------ggctgtcgatggctaacatctccatgg-------caa---acgt
       Yellowbelly pufferfish  ---------------a----------ggctgtcgatggctaacatctccatgg-------caa---acgt
B D              Nile tilapia  ---------------a--t-------ggctttttgtaatgaaagcttcatgga-------gga---gtgt
          Princess of Burundi  ---------------a--t-------ggctttttgtaatgaaagcttcatgga-------gga---gtgt
        Burton's mouthbreeder  ---------------a--t-------ggctttttgtaatgaaagcttcatgga-------gga---gtgt
                  Zebra mbuna  ---------------a--t-------ggctttttgtaatgaaagcttcatgga-------gga---gtgt
          Pundamilia nyererei  ---------------a--t-------ggctttttgtaatgaaagcttcatgga-------gga---gtgt
B D                    Medaka  -----------------------------ctcccggcatgaaccagtc---gc-------gcc---ctga
           Southern platyfish  -----------------------------tctccatggcgaacatgtccctgg-------gct---ctgg
B D               Stickleback  ---------------a--t-------ggctttttgcaatgaaagcctgctgga-------ggaggcgtgc
B D              Atlantic cod  ---------------a--t-------ggcattctgcaacgagagcctgccaga-------ggg---ctgc
B D                 Zebrafish  ---------------a--t-------gtttgcatgtaatggcagctcattgga-------ggc---atgc
     Mexican tetra (cavefish)  ---------------a--t-------gatc---tgtaacagcagctc--tgga----tgtggt---atat
                  Spotted gar  ---------------a--t-------gactgcgtgcaacaacagcttgtttca-------ggc---ttgc
B D                   Lamprey  acgatggagttcctcg--c-------ggcgccgtggaacg------ccagcga-------gat---gtcc
B D               Zebra finch  ======================================================================
               Domestic goat  ----------------------------------------------------------------------

                        Human  acatacctg
                        Chimp  ccatacctg
                      Gorilla  ccatacctg
                    Orangutan  ccatacctg
                       Gibbon  ccatacctg
                       Rhesus  gcatacctg
          Crab-eating macaque  gcatacctg
                       Baboon  ccatacctg
                 Green monkey  ccatacctg
                     Marmoset  ccatacctg
              Squirrel monkey  ccatacctg
                     Bushbaby  caatacctg
           Chinese tree shrew  cagtacctg
                     Squirrel  caacacctg
       Lesser Egyptian jerboa  tcatacttg
                 Prairie vole  gaacatcgg
              Chinese hamster  gaacatctg
               Golden hamster  gaacatctg
                        Mouse  gaacatctg
                          Rat  caacatctg
               Naked mole-rat  gagcacctg
                   Guinea pig  cagcacctg
                   Chinchilla  gagcacctg
             Brush-tailed rat  gactatctg
                       Rabbit  gaacaccgg
                         Pika  gaatacttg
                          Pig  gaatctgca
                       Alpaca  cggtacgcg
               Bactrian camel  gggtacgcg
                      Dolphin  gaatacctg
                 Killer whale  gaatacctg
             Tibetan antelope  gaatacctg
                          Cow  gaatacctg
                        Sheep  gaatacctg
                        Horse  gaatacttg
             White rhinoceros  gaatacttg
                          Cat  caatacttg
                          Dog  caggacttg
                      Ferret   cagtacttg
                        Panda  ccgtact--
               Pacific walrus  cagtacttg
                 Weddell seal  cagtacttg
             Black flying-fox  gaatacctg
                      Megabat  gaatacctg
                Big brown bat  gaatacctg
         David's myotis (bat)  gaatccctg
                     Microbat  gaatccctg
                     Hedgehog  -----cctg
                        Shrew  gagtccccg
              Star-nosed mole  gaatacctg
                     Elephant  gaatacttt
          Cape elephant shrew  gaatacttg
                      Manatee  gaatgcttt
             Cape golden mole  gaatacttt
                       Tenrec  gcggacttc
                     Aardvark  gaatacttt
                    Armadillo  gactac-cc
                      Opossum  gattccctc
              Tasmanian devil  gattccctt
                      Wallaby  gattccctc
                     Platypus  gcttccttc
                 Saker falcon  --------g
             Peregrine falcon  --------g
          Collared flycatcher  --------g
       White-throated sparrow  ---------
          Medium ground finch  --------g
           Tibetan ground jay  ---------
                   Budgerigar  --------g
                 Mallard duck  --------a
                      Chicken  --------g
                       Turkey  --------g
           American alligator  --------g
              Green seaturtle  agacagtga
               Painted turtle  agacagtga
     Chinese softshell turtle  --------a
       Spiny softshell turtle  --------a
                       Lizard  ggatttttg
                X. tropicalis  atg------
                   Coelacanth  gc-------
                    Tetraodon  gcct-----
                         Fugu  ttctccggg
       Yellowbelly pufferfish  ttctccggg
                 Nile tilapia  aactgcatg
          Princess of Burundi  aactgcatg
        Burton's mouthbreeder  aactgcatg
                  Zebra mbuna  aactgcatg
          Pundamilia nyererei  aactgcatg
                       Medaka  -----cgt-
           Southern platyfish  gtcctcgc-
                  Stickleback  ggattcatg
                 Atlantic cod  gactacatg
                    Zebrafish  ggc------
     Mexican tetra (cavefish)  tgg------
                  Spotted gar  acct-----
                      Lamprey  g--------
                  Zebra finch  =========
                Domestic goat  ---------

Inserts between block 21 and 22 in window
  D         Peregrine falcon 48bp
  D      Collared flycatcher 45bp
  D   White-throated sparrow 13bp
          Tibetan ground jay 14bp
B D               Budgerigar 48bp
  D             Mallard duck 100bp
B D                  Chicken 48bp
B D                   Turkey 48bp
B D       American alligator 14bp
  D          Green seaturtle 2bp
  D           Painted turtle 2bp
  D Chinese softshell turtle 2bp
  D   Spiny softshell turtle 2bp
          Southern platyfish 18bp
                 Spotted gar 22bp

Alignment block 22 of 108 in window, 105241901 - 105241901, 1 bps 
B D                     Human  c
B D                     Chimp  c
B D                   Gorilla  c
B D                 Orangutan  c
B D                    Gibbon  c
B D                    Rhesus  c
B D       Crab-eating macaque  c
B D                    Baboon  c
B D              Green monkey  c
B D                  Marmoset  c
B D           Squirrel monkey  c
B D                  Bushbaby  c
           Chinese tree shrew  c
B D                  Squirrel  c
       Lesser Egyptian jerboa  c
                 Prairie vole  c
B D           Chinese hamster  c
               Golden hamster  c
B D                     Mouse  c
B D                       Rat  c
B D            Naked mole-rat  a
B D                Guinea pig  c
                   Chinchilla  c
             Brush-tailed rat  c
B D                    Rabbit  c
B D                      Pika  c
B D                       Pig  c
B D                    Alpaca  c
               Bactrian camel  c
B D                   Dolphin  c
                 Killer whale  c
             Tibetan antelope  c
B D                       Cow  c
B D                     Sheep  c
B D                     Horse  c
B D          White rhinoceros  c
B D                       Cat  c
B D                       Dog  c
B D                   Ferret   c
               Pacific walrus  t
                 Weddell seal  c
             Black flying-fox  c
B D                   Megabat  c
                Big brown bat  c
         David's myotis (bat)  c
B D                  Microbat  c
B D                  Hedgehog  g
B D                     Shrew  c
              Star-nosed mole  c
B D                  Elephant  c
          Cape elephant shrew  g
B D                   Manatee  c
             Cape golden mole  c
B D                    Tenrec  c
                     Aardvark  c
B D                 Armadillo  c
B D                   Opossum  t
B D           Tasmanian devil  t
B D                   Wallaby  t
B D                  Platypus  c
  D              Saker falcon  t
  D           Green seaturtle  t
  D            Painted turtle  t
  D  Chinese softshell turtle  t
  D    Spiny softshell turtle  t
B D                    Lizard  t
B D             X. tropicalis  c
B D                Coelacanth  c
B D                      Fugu  c
       Yellowbelly pufferfish  c
B D              Nile tilapia  g
          Princess of Burundi  g
        Burton's mouthbreeder  g
                  Zebra mbuna  g
          Pundamilia nyererei  g
B D               Stickleback  g
B D              Atlantic cod  c
B D                   Lamprey  c
  D          Peregrine falcon  =
    Mexican tetra (cavefish)  -
                 Spotted gar  =
B D                 Zebrafish  -
B D                Budgerigar  =
          Southern platyfish  =
  D              Mallard duck  =
B D                 Tetraodon  -
B D                   Chicken  =
B D       Medium ground finch  =
B D                    Turkey  =
B D               Zebra finch  =
  D       Collared flycatcher  =
B D        American alligator  =
          Tibetan ground jay  =
  D    White-throated sparrow  =
B D                     Panda  -
               Domestic goat  -

Alignment block 23 of 108 in window, 105241902 - 105241917, 16 bps 
B D                     Human  tgct--gaacac-------cagcaa
B D                     Chimp  tgct--gaacac-------cagcaa
B D                   Gorilla  tgct--gaacac-------cagcaa
B D                 Orangutan  tgct--gaacac-------cagcaa
B D                    Gibbon  tgct--gaacac-------cagcaa
B D                    Rhesus  tgct--gaacac-------cagcaa
B D       Crab-eating macaque  tgct--gaacac-------cagcaa
B D                    Baboon  tgct--gaacac-------cagcaa
B D              Green monkey  tgct--gaacac-------cagcaa
B D                  Marmoset  tgct--aaacac-------cagcaa
B D           Squirrel monkey  tgct--aaacac-------cagcaa
B D                  Bushbaby  tgct--gaatgc-------cagcaa
           Chinese tree shrew  agct--gaacgc-------cagcaa
B D                  Squirrel  ggct--gaacgc-------gagcaa
       Lesser Egyptian jerboa  tgtt--gaacgt-------aagcaa
                 Prairie vole  tgct--gaatgg-------gagcga
B D           Chinese hamster  tgct--gaatgc-------gagcaa
               Golden hamster  tgct--gaatgc-------gagcaa
B D                     Mouse  tgct--gaatgt-------gagcaa
B D                       Rat  tgct--gaacgc-------gagcaa
B D            Naked mole-rat  agct--gaacgt-------gagcaa
B D                Guinea pig  aact--gaacgt-------gagcaa
                   Chinchilla  agtc--aaacgg-------gagcaa
             Brush-tailed rat  agtc--gaacgt-------aagcaa
B D                    Rabbit  tgct--caatgg-------cagcaa
B D                      Pika  tgct--caatgc-------cagcaa
B D                       Pig  cgcg--gaacgg-------gagcct
B D                    Alpaca  tgct--gaacgc-------gagcct
               Bactrian camel  tgct--gaacgc-------gagcct
B D                   Dolphin  tgcc--cagcgg-------gagcca
                 Killer whale  tgcc--cagcgg-------gagcca
             Tibetan antelope  tgcc--caacgc-------gagcca
B D                       Cow  tgcc--caacgg-------gagcca
B D                     Sheep  tgcc--caacgc-------gagcca
B D                     Horse  tgct--gaacga-------gagcaa
B D          White rhinoceros  tgcg--gaatgg-------gagcaa
B D                       Cat  tgct--gaacgg-------gagcaa
B D                       Dog  tgct--gaacgg-------gagcaa
B D                   Ferret   tgct--taatgg-------gagcaa
B D                     Panda  tgct--gaacgg-------gagcaa
               Pacific walrus  tgct--gaacgg-------gagcaa
                 Weddell seal  tgct--gaacgg-------gagcaa
             Black flying-fox  tgcc--gaatgg-------gagcaa
B D                   Megabat  tgcc--gaatgg-------gagcaa
                Big brown bat  tgcc--caacgg-------gagcca
         David's myotis (bat)  cgcc--caacgg-------gagcta
B D                  Microbat  cgcc--caacgg-------gagcca
B D                  Hedgehog  ggct--caa----------caccag
B D                     Shrew  tgct--gaatgg-------cagcaa
              Star-nosed mole  tgcc--gaatgg-------gaccca
B D                  Elephant  tgct--gaatgc-------gagcaa
          Cape elephant shrew  tggc--gaacgt-------gagcaa
B D                   Manatee  tgct--gaacac-------aagcaa
             Cape golden mole  tgca--gaacac-------gagcaa
B D                    Tenrec  agtt--gaacgt-------gagcaa
                     Aardvark  tgct--gaatac-------aagcaa
B D                 Armadillo  tgct--gaacac-------gagcca
B D                   Opossum  tgct--aaacat-------gagcag
B D           Tasmanian devil  tgct--gaatat-------gagcaa
B D                   Wallaby  tgct--gaatat-------gagcag
B D                  Platypus  ccct--gaatgg-------tagcac
  D              Saker falcon  gcca-tctcaag-------aagttt
  D          Peregrine falcon  ------caccag-------cagtgc
  D       Collared flycatcher  ------cgccgg-------cagcgc
  D    White-throated sparrow  ------taccag-------cattcc
           Tibetan ground jay  ------caacgg-------cagcgc
B D                Budgerigar  ------tggcag-------cagtgc
  D              Mallard duck  ------gactggggacagtcagctc
B D                   Chicken  ------ggccgg-------cagccc
B D                    Turkey  ------ggctgg-------cagccc
B D        American alligator  -ccattcaatga-------gagcac
  D           Green seaturtle  tgctctcaatca-------gagtac
  D            Painted turtle  tgctctcaatga-------gagtac
  D  Chinese softshell turtle  tgctctcaatga-------gagtac
  D    Spiny softshell turtle  tgctctcaatga-------gagtac
B D                    Lizard  tgccctgaatac-------aagtct
B D             X. tropicalis  ttcc--caatct-------cagcat
B D                Coelacanth  cttt--aaatat-------cacaag
B D                 Tetraodon  --------------------tcctg
B D                      Fugu  --------------------tcccg
       Yellowbelly pufferfish  --------------------tcccg
B D              Nile tilapia  --------------------acccg
          Princess of Burundi  --------------------acccg
        Burton's mouthbreeder  --------------------acccg
                  Zebra mbuna  --------------------acccg
          Pundamilia nyererei  --------------------acccg
B D               Stickleback  --------------------ggccg
B D              Atlantic cod  --------------------agccc
B D                 Zebrafish  --------------------cttct
     Mexican tetra (cavefish)  --------------------agcct
B D                   Lamprey  tgccgctaacac-------caccgc
                 Spotted gar  =========================
          Southern platyfish  =========================
B D       Medium ground finch  =========================
B D               Zebra finch  =========================
               Domestic goat  -------------------------

Inserts between block 23 and 24 in window
B D                Tetraodon 35bp
      Yellowbelly pufferfish 17bp
B D             Nile tilapia 29bp
         Princess of Burundi 29bp
       Burton's mouthbreeder 29bp
                 Zebra mbuna 29bp
         Pundamilia nyererei 29bp
B D              Stickleback 29bp
B D             Atlantic cod 29bp
B D                Zebrafish 18bp
    Mexican tetra (cavefish) 32bp

Alignment block 24 of 108 in window, 105241918 - 105241929, 12 bps 
B D                     Human  cg----------c---c-------t---caga------ctc
B D                     Chimp  tg----------c---c-------t---caga------ctc
B D                   Gorilla  cg----------c---c-------t---caga------ctc
B D                 Orangutan  cg----------c---c-------t---cgga------ctc
B D                    Gibbon  cg----------c---c-------t---cgga------ctc
B D                    Rhesus  cg----------c---c-------t---cgga------ctc
B D       Crab-eating macaque  cg----------c---c-------t---cgga------ctc
B D                    Baboon  cg----------c---c-------t---cgga------ctc
B D              Green monkey  cg----------c---c-------t---cgga------ctc
B D                  Marmoset  gg----------c---c-------t---cgga------ctc
B D           Squirrel monkey  gg----------c---c-------t---cgga------ttc
B D                  Bushbaby  cg----------c---g-------a---cgga------acc
           Chinese tree shrew  cg----------c---g-------t---ccgg------ccc
B D                  Squirrel  cg----------c---g-------t---cgga------tgc
       Lesser Egyptian jerboa  tg----------c---c-------t---ccga------ctc
                 Prairie vole  cg----------a---t-------t---cgga------tcc
B D           Chinese hamster  ag----------c---t-------t---cgga------ccc
               Golden hamster  cg----------c---t-------t---cgga------ccc
B D                     Mouse  ca----------c---t-------t---tgga------ccc
B D                       Rat  ca----------c---t-------c---tgga------ccc
B D            Naked mole-rat  cg----------c---c-------t---cgga------ctt
B D                Guinea pig  ca----------c---c-------t---cggg------cgt
                   Chinchilla  ca----------c---c-------t---cgga------tgt
             Brush-tailed rat  cg----------c---g-------t---cgga------cct
B D                    Rabbit  cg----------g---g-------t---cgga------ctc
B D                      Pika  tg----------g---g-------t---cgga------ccc
B D                       Pig  cg----------g----------------------------
B D                    Alpaca  cg----------g---g-------g---tgga------ccc
               Bactrian camel  cg----------g---g-------g---tgga------ccc
B D                   Dolphin  cg----------c---g-------g---cgga------ccc
                 Killer whale  cg----------c---g-------g---cgga------ccc
             Tibetan antelope  cg----------a---g-------g---ggga------ctc
B D                       Cow  cg----------a---g-------g---ggga------ctc
B D                     Sheep  cg----------a---g-------g---ggga------ctc
B D                     Horse  tg----------t---g-------t---caga------ctc
B D          White rhinoceros  tg----------t---g-------t---tgga------ttt
B D                       Cat  tg----------t---g-------t---ccga------ctc
B D                       Dog  tg----------t---g-------t---ccga------ctc
B D                   Ferret   tg----------t---g-------t---cagc------ctc
B D                     Panda  tg----------t---g-------t---cgga------ctc
               Pacific walrus  tg----------t---g-------t---cgga------ctc
                 Weddell seal  tg----------t---g-------t---cgga------ctc
             Black flying-fox  tg----------t---g-------t---caga------ctc
B D                   Megabat  tg----------c---g-------t---caga------ctc
                Big brown bat  cg----------c---g-------t---gggc------ggc
         David's myotis (bat)  cg----------c---g-------t---ggga------ggc
B D                  Microbat  cg----------c---g-------t---ggga------ggc
B D                  Hedgehog  cg----------a---g-------g---cgga------ccc
B D                     Shrew  cg----------t---g-------t---cgga------ttc
              Star-nosed mole  tg----------c---g-------t---cgga------ctt
B D                  Elephant  gg----------t---g-------t---ctga------ctc
          Cape elephant shrew  cg----------c---g-------t---ccca------cgc
B D                   Manatee  tg----------t---g-------t---ccga------ctc
             Cape golden mole  tg----------t---a-------t---ccga------ctc
B D                    Tenrec  cc----------g---a-------t---ggga------ctc
                     Aardvark  tg----------t---g-------t---ccga------ctc
B D                 Armadillo  cg----------c---t-------c---cgga------ccc
B D                   Opossum  cc----------t---g-------tctccagc------atc
B D           Tasmanian devil  cc----------t---g-------tccccagc------atc
B D                   Wallaby  cc----------t---g-------tccccagc------atc
B D                  Platypus  cc----------ccccg-------c---caga------ctt
  D              Saker falcon  tc----------a---g-------g---a------------
  D          Peregrine falcon  cc----------c---g-------c---ac-----------
  D       Collared flycatcher  cc----------c---a-------c---ac-----------
  D    White-throated sparrow  cc----------c----------------------------
           Tibetan ground jay  ct----------g---ggggggctc---cg-----------
B D                Budgerigar  cc----------c---a-------c---ac-----------
  D              Mallard duck  ccactcaacgcaa---a-------t----------------
B D                   Chicken  cc----------c---a-------c----------------
B D                    Turkey  cc----------c---a-------c----------------
B D        American alligator  cc----------c---a-------c---ccac---------
  D           Green seaturtle  cc----------c---a-------t---ccat---------
  D            Painted turtle  cc----------t---a-------t---ccat---------
  D  Chinese softshell turtle  cc----------c---a-------c---ccat---------
  D    Spiny softshell turtle  cc----------c---a-------c---ccgt---------
B D                    Lizard  cc----------a---a-------c---ttcc---------
B D             X. tropicalis  tg----------c---t-------a---ctgc------tcc
B D                Coelacanth  tg----------t---a-------t---cagt------aga
B D                 Tetraodon  cc----------c---t-------t---caga------ggt
B D                      Fugu  cc----------c---c-------t---caga------agt
       Yellowbelly pufferfish  cc----------a---c-------t---ccgacaagagag-
B D              Nile tilapia  cc----------c---t-------t---caga------agc
          Princess of Burundi  cc----------c---a-------t---caga------agc
        Burton's mouthbreeder  cc----------c---a-------t---caga------agc
                  Zebra mbuna  cc----------c---a-------t---caga------agc
          Pundamilia nyererei  cc----------c---a-------t---caga------agc
B D                    Medaka  ca----------g---c-------t---cagg------ccc
           Southern platyfish  cg----------g---a-------g---aagt------cct
B D               Stickleback  cc----------c---t-------t---caga------ggc
B D              Atlantic cod  ac----------c---c-------t---cgga------ggg
B D                 Zebrafish  ga----------t---g-------c---aaga------ggc
     Mexican tetra (cavefish)  gc----------t---t-------c---aggg------ggc
                  Spotted gar  cc----------t---g-------t---tctc------tgc
B D                   Lamprey  ca----------c---c-------a---acgg------ctc
B D       Medium ground finch  =========================================
B D               Zebra finch  =========================================
               Domestic goat  -----------------------------------------

Inserts between block 24 and 25 in window
B D                   Alpaca 1bp
              Bactrian camel 1bp
            Tibetan antelope 1bp
B D                      Cow 1bp
B D                    Sheep 263bp
B D            X. tropicalis 9bp
B D               Coelacanth 3bp
B D                Tetraodon 2bp
B D                     Fugu 2bp
B D             Nile tilapia 2bp
         Princess of Burundi 2bp
       Burton's mouthbreeder 2bp
                 Zebra mbuna 2bp
         Pundamilia nyererei 2bp
B D                   Medaka 2bp
          Southern platyfish 2bp
B D              Stickleback 2bp
B D             Atlantic cod 2bp
B D                Zebrafish 2bp
    Mexican tetra (cavefish) 2bp
                 Spotted gar 2bp

Alignment block 25 of 108 in window, 105241930 - 105241950, 21 bps 
B D                     Human  ---ggggtccaccc--------agt--tgcccgc---------
B D                     Chimp  ---cgggtccaccc--------agt--tgcccgc---------
B D                   Gorilla  ---cgggtccaccc--------agt--tgcccgc---------
B D                 Orangutan  ---cgggtccaccc--------agt--tgcccgc---------
B D                    Gibbon  ---cgggtccaccc--------cgt--tgcccgc---------
B D                    Rhesus  ---cggatccaccc--------cgc--tgcccgc---------
B D       Crab-eating macaque  ---cggatccaccc--------cgc--tgcccgc---------
B D                    Baboon  ---cggatccaccc--------cgc--tgcccgc---------
B D              Green monkey  ---cagatccaccc--------cgc--tgcccgc---------
B D                  Marmoset  ---cgggcccaccc--------ctc--tgttcgt---------
B D           Squirrel monkey  ---cgggcccaccc--------ctc--tgttcgt---------
B D                  Bushbaby  ---cggggccacgg--------ccc--tgcccgg---------
           Chinese tree shrew  ---gggggccgccc--------cgc--tgcccgc---------
B D                  Squirrel  ---cgaggccaccc--------cgc--tgtccgc---------
       Lesser Egyptian jerboa  ---cagggtcgccc--------ccc--ttcccgc---------
                 Prairie vole  ---cggggctacac--------cac--tgtccac---------
B D           Chinese hamster  ---tggggccaccc--------cac--tgtccgc---------
               Golden hamster  ---tggggccaccc--------cac--tgtccgc---------
B D                     Mouse  ---tggggacaccc--------cac--tgtctgc---------
B D                       Rat  ---tggggccaccc--------cac--tgtccgc---------
B D            Naked mole-rat  ---gggggccacga--------cac--tgtctgc---------
B D                Guinea pig  ---ggcagccacgc--------cgc--tgtccgc---------
                   Chinchilla  ---gggggccacac--------cgc--tgtctgc---------
             Brush-tailed rat  ---gcgggccacgc--------tgc--tgtctgc---------
B D                    Rabbit  ---cggggccacgc--------ccc--tgcccgc---------
B D                      Pika  ---tgggactgcgc--------ccc--tacctgc---------
B D                       Pig  ---ggaggactcca--------ggg--cgcccgc---------
B D                    Alpaca  ----ggggcgccca--------cgc--cgcccgc---------
               Bactrian camel  ----ggggcgccca--------cgc--cgcccgc---------
B D                   Dolphin  ----cgggccccct-------gcgc--cgccggc---------
                 Killer whale  ----cgggcccccc-------gcgc--cgccggc---------
             Tibetan antelope  ----agggtgcccc--------cgc--cgcctgc---------
B D                       Cow  ----agggtgcccc--------cac--cgcccgc---------
B D                     Sheep  ----cgggtgcccc--------ccc--cgcgtgc---------
                Domestic goat  ------------------------c--cgc-------------
B D                     Horse  ---tggggtgacca--------ctc--ctcctgc---------
B D          White rhinoceros  ---tggggtgaccg--------cag--ctcccgc---------
B D                       Cat  ---cggggccaccc--------cac--cacccgc---------
B D                       Dog  ---tggggtccccc--------tgg--cacctgc---------
B D                   Ferret   ---tggggtcacca--------cac--cctctgc---------
B D                     Panda  ---tggggtcacca--------cgc--cccccgc---------
               Pacific walrus  ---tggggtcacca--------cac--cacccgc---------
                 Weddell seal  ---tggggtcacca--------cac--cccccac---------
             Black flying-fox  ---gggggcgacca--------tgc--cacccgc---------
B D                   Megabat  ---gggggcgacca--------tgc--cacccgc---------
                Big brown bat  ---ggcggcg----------------------gc---------
         David's myotis (bat)  ---ggcggcg----------------------gc---------
B D                  Microbat  ---ggcggcg----------------------gc---------
B D                  Hedgehog  ---gt-----------------ccg--cgcccgc---------
B D                     Shrew  ---tggggtggcca--------ccg--cctcggc---------
              Star-nosed mole  ---cggcttggtta--------ccc--cggccgc---------
B D                  Elephant  ---cggggtgacca--------cac--tatctgc---------
          Cape elephant shrew  ---ggggcagccca--------cac--tgcctgc---------
B D                   Manatee  ---gggggcgacca--------cac--tgtctgc---------
             Cape golden mole  ---tgggctgacca--------cac--tgtctgc---------
B D                    Tenrec  ---gccgccggcca--------cgc--tgtcagc---------
                     Aardvark  ---agggcagacca--------cac--tgtcagc---------
B D                 Armadillo  ---cagggccacgc--------cgc--tgcctgc---------
B D                   Opossum  ---cagatccgtag--------ttt--tatccac---------
B D           Tasmanian devil  ---cagatctgtgg--------ttt--tgtccac---------
B D                   Wallaby  ---cagtggggtgg--------ttt--tgtccac---------
B D                  Platypus  ---cggatcctcca--------ctt--tgcccgc---------
  D              Saker falcon  ----------------------------gcttga---------
  D          Peregrine falcon  ------------------------t--cgcctgc---------
  D       Collared flycatcher  ------------------------t--cacccgc---------
  D    White-throated sparrow  -----------------------------cctgt---------
           Tibetan ground jay  ------------------------g--caactgc---------
B D                Budgerigar  ------------------------t--cacctgc---------
B D        American alligator  -----aggctccaattacacagctt--tacctac---------
  D           Green seaturtle  -----aggctccagttacatagctc--agcctgc---------
  D            Painted turtle  -----aggctccagttacacagctc--tgcctgc---------
  D  Chinese softshell turtle  -----aggctcccattacacagctg--tgcctgt---------
  D    Spiny softshell turtle  -----aggctcccattacacagctg--tgcctgt---------
B D                    Lizard  -----aggctccaattacagagacc--tgccaac---------
B D             X. tropicalis  --------------taggtttgcat--tttccac---------
B D                Coelacanth  ---cagtttcacag--------ctt--tccctat---------
B D                 Tetraodon  -----cacctccca--------ccg--tatcagt---------
B D                      Fugu  -----cgcctccca--------cca--tatcagt---------
       Yellowbelly pufferfish  -----cgcgtcagg--------c-----gtcggc---------
B D              Nile tilapia  -----cgactcctc--------tca--tatcagt---------
          Princess of Burundi  -----cgactcctc--------tca--tatcagt---------
        Burton's mouthbreeder  -----cgactcctc--------tca--tatcagt---------
                  Zebra mbuna  -----cgactcctc--------tca--tatcagt---------
          Pundamilia nyererei  -----cgactcctc--------tca--tatcagt---------
B D                    Medaka  -----gatatccgc--------cagagcgtcagc---------
           Southern platyfish  -----gcaattgcc--------ccaggcctcggc---------
B D               Stickleback  -----ctactcccc--------tca--taccggt---------
B D              Atlantic cod  -----ggacgcccc--------tga--tgtccgt---------
B D                 Zebrafish  -----atactgccc--------tca--tgcccac---------
     Mexican tetra (cavefish)  -----caagaactc--------cct--tatccat---------
                  Spotted gar  -----aatatacgg--------tca--tgcccat---------
B D                   Lamprey  ggagcggccgctcc--------ctc--cggccgccacgctcga
  D              Mallard duck  ===========================================
B D       Medium ground finch  ===========================================
B D               Zebra finch  ===========================================

Inserts between block 25 and 26 in window
  D             Saker falcon 5bp
B D       American alligator 1bp
  D          Green seaturtle 1bp
  D           Painted turtle 1bp
  D Chinese softshell turtle 1bp
  D   Spiny softshell turtle 1bp
B D                   Lizard 1bp

Alignment block 26 of 108 in window, 105241951 - 105241951, 1 bps 
B D                     Human  a
B D                     Chimp  a
B D                   Gorilla  a
B D                 Orangutan  a
B D                    Gibbon  a
B D                    Rhesus  a
B D       Crab-eating macaque  a
B D                    Baboon  a
B D              Green monkey  a
B D                  Marmoset  a
B D           Squirrel monkey  a
B D                  Bushbaby  c
           Chinese tree shrew  c
B D                  Squirrel  c
       Lesser Egyptian jerboa  c
                 Prairie vole  a
B D           Chinese hamster  a
               Golden hamster  a
B D                     Mouse  a
B D                       Rat  a
B D            Naked mole-rat  c
B D                Guinea pig  t
                   Chinchilla  g
             Brush-tailed rat  c
B D                    Rabbit  c
B D                      Pika  t
B D                       Pig  c
B D                    Alpaca  c
               Bactrian camel  c
B D                   Dolphin  g
                 Killer whale  g
             Tibetan antelope  c
B D                       Cow  c
B D                     Sheep  c
B D                     Horse  c
B D          White rhinoceros  c
B D                       Cat  c
B D                       Dog  c
B D                   Ferret   c
B D                     Panda  c
               Pacific walrus  c
                 Weddell seal  c
             Black flying-fox  a
B D                   Megabat  a
                Big brown bat  g
         David's myotis (bat)  g
B D                  Microbat  g
B D                  Hedgehog  g
B D                     Shrew  c
              Star-nosed mole  t
B D                  Elephant  c
          Cape elephant shrew  c
B D                   Manatee  c
             Cape golden mole  c
B D                    Tenrec  c
                     Aardvark  a
B D                 Armadillo  c
B D                   Opossum  c
B D           Tasmanian devil  c
B D                   Wallaby  c
B D                  Platypus  t
B D             X. tropicalis  c
B D                Coelacanth  c
B D                 Tetraodon  t
B D                      Fugu  t
       Yellowbelly pufferfish  t
B D              Nile tilapia  c
          Princess of Burundi  c
        Burton's mouthbreeder  c
                  Zebra mbuna  c
          Pundamilia nyererei  c
B D                    Medaka  c
           Southern platyfish  c
B D               Stickleback  c
B D              Atlantic cod  c
B D                 Zebrafish  c
     Mexican tetra (cavefish)  c
                  Spotted gar  t
B D                   Lamprey  t
  D              Saker falcon  =
  D              Mallard duck  =
  D  Chinese softshell turtle  =
B D       Medium ground finch  =
  D            Painted turtle  =
B D               Zebra finch  =
B D        American alligator  =
B D                    Lizard  =
               Domestic goat  -
  D    Spiny softshell turtle  =
  D           Green seaturtle  =

Inserts between block 26 and 27 in window
B D               Coelacanth 1bp
B D                Tetraodon 1bp
B D                     Fugu 1bp
      Yellowbelly pufferfish 1bp
B D             Nile tilapia 1bp
         Princess of Burundi 1bp
       Burton's mouthbreeder 1bp
                 Zebra mbuna 1bp
         Pundamilia nyererei 1bp
B D                   Medaka 1bp
          Southern platyfish 1bp
B D              Stickleback 1bp
B D             Atlantic cod 1bp
B D                Zebrafish 1bp
    Mexican tetra (cavefish) 1bp
                 Spotted gar 1bp

Alignment block 27 of 108 in window, 105241952 - 105241953, 2 bps 
B D                     Human  -cc
B D                     Chimp  -cc
B D                   Gorilla  -cc
B D                 Orangutan  -cc
B D                    Gibbon  -cc
B D                    Rhesus  -cc
B D       Crab-eating macaque  -cc
B D                    Baboon  -cc
B D              Green monkey  -cc
B D                  Marmoset  -cc
B D           Squirrel monkey  -cc
B D                  Bushbaby  -cc
           Chinese tree shrew  -cc
B D                  Squirrel  -cc
       Lesser Egyptian jerboa  -cc
                 Prairie vole  -cc
B D           Chinese hamster  -cc
               Golden hamster  -cc
B D                     Mouse  -cc
B D                       Rat  -cc
B D            Naked mole-rat  -cc
B D                Guinea pig  -cc
                   Chinchilla  -cc
             Brush-tailed rat  -cc
B D                    Rabbit  -cc
B D                      Pika  -cc
B D                       Pig  -cc
B D                    Alpaca  -cc
               Bactrian camel  -cc
B D                   Dolphin  -cc
                 Killer whale  -cc
             Tibetan antelope  -ac
B D                       Cow  -ac
B D                     Sheep  -ac
B D                     Horse  -cc
B D          White rhinoceros  -cc
B D                       Cat  -cc
B D                       Dog  -cc
B D                   Ferret   -cc
B D                     Panda  -cc
               Pacific walrus  -cc
                 Weddell seal  -cc
             Black flying-fox  -cc
B D                   Megabat  -cc
                Big brown bat  -cc
         David's myotis (bat)  -cc
B D                  Microbat  -cc
B D                  Hedgehog  -cc
B D                     Shrew  -cc
              Star-nosed mole  -cc
B D                  Elephant  -cc
          Cape elephant shrew  -cc
B D                   Manatee  -cc
             Cape golden mole  -cc
B D                    Tenrec  -cc
                     Aardvark  -cc
B D                 Armadillo  -cc
B D                   Opossum  -cc
B D           Tasmanian devil  -cc
B D                   Wallaby  -cc
B D                  Platypus  -cc
  D              Saker falcon  -cc
  D       Collared flycatcher  -cc
  D                    Parrot  -cc
  D             Scarlet macaw  -cc
  D              Mallard duck  -cc
B D                   Chicken  -cc
B D                    Turkey  -cc
B D        American alligator  -cc
  D           Green seaturtle  -cc
  D            Painted turtle  -cc
  D  Chinese softshell turtle  -cc
  D    Spiny softshell turtle  -cc
B D                    Lizard  -cc
B D             X. tropicalis  -cc
B D                Coelacanth  -c-
B D                 Tetraodon  -c-
B D                      Fugu  -c-
       Yellowbelly pufferfish  -a-
B D              Nile tilapia  -c-
          Princess of Burundi  -c-
        Burton's mouthbreeder  -c-
                  Zebra mbuna  -c-
          Pundamilia nyererei  -c-
B D                    Medaka  -c-
           Southern platyfish  -a-
B D               Stickleback  -c-
B D              Atlantic cod  -c-
B D                 Zebrafish  -c-
     Mexican tetra (cavefish)  -c-
                  Spotted gar  -c-
B D                   Lamprey  gc-
B D       Medium ground finch  ===
B D               Zebra finch  ===
               Domestic goat  ---

Inserts between block 27 and 28 in window
  D             Saker falcon 1bp
  D      Collared flycatcher 1bp
  D                   Parrot 1bp
  D            Scarlet macaw 1bp
  D             Mallard duck 1bp
B D                  Chicken 1bp
B D                   Turkey 1bp
B D                   Lizard 1bp

Alignment block 28 of 108 in window, 105241954 - 105241965, 12 bps 
B D                     Human  cctcaggatctc
B D                     Chimp  cctcaggatctc
B D                   Gorilla  cctcaggatctc
B D                 Orangutan  cctcaggatctc
B D                    Gibbon  cctcaggatctc
B D                    Rhesus  cctgaggatctc
B D       Crab-eating macaque  cctgaggatctc
B D                    Baboon  cctgaggatctc
B D              Green monkey  cctcaggatctc
B D                  Marmoset  cctcaggatctc
B D           Squirrel monkey  cctcaggatctc
B D                  Bushbaby  actgaggatcgt
           Chinese tree shrew  actcaggatctc
B D                  Squirrel  gctcaggatttc
       Lesser Egyptian jerboa  cctcaggttgtc
                 Prairie vole  gctcaggatctc
B D           Chinese hamster  gctcaggatctc
               Golden hamster  gctcaggatctc
B D                     Mouse  gctcaggatctc
B D                       Rat  gctcaggatttc
B D            Naked mole-rat  actcaggatctc
B D                Guinea pig  cctccggatctc
                   Chinchilla  gctccggatctc
             Brush-tailed rat  actccggatctc
B D                    Rabbit  gctcaggatatc
B D                      Pika  actcaggatatc
B D                       Pig  tctcaggatgtc
B D                    Alpaca  gctcaggatgtc
               Bactrian camel  gctcaggatgtc
B D                   Dolphin  cctcagggtgtc
                 Killer whale  cctcagggtgtc
             Tibetan antelope  gctcaggatgtc
B D                       Cow  gctcaggatgtc
B D                     Sheep  gctcaggatgtc
                Domestic goat  ---caggacctc
B D                     Horse  cctcaggatatc
B D          White rhinoceros  cctcaggacatc
B D                       Cat  cctcaggatatc
B D                       Dog  cctcaggatatc
B D                   Ferret   cctcaggatatc
B D                     Panda  tctcaggatatc
               Pacific walrus  cctcaggatatc
                 Weddell seal  cctcaggatatc
             Black flying-fox  cctccgagtgtg
B D                   Megabat  cctccgagtgtg
                Big brown bat  cctccgggggtg
         David's myotis (bat)  gctccggggctg
B D                  Microbat  gctccgggggtg
B D                  Hedgehog  gctcagggtgtc
B D                     Shrew  cctgaggatctc
              Star-nosed mole  cctcaggatatc
B D                  Elephant  cttcaggatctc
          Cape elephant shrew  actcaggatctc
B D                   Manatee  cctcagggtctc
             Cape golden mole  cctcaggatctc
B D                    Tenrec  gctcagggtctc
                     Aardvark  cctcaggatctc
B D                 Armadillo  cttcagggtgtc
B D                   Opossum  cttcaggattct
B D           Tasmanian devil  actcaggattct
B D                   Wallaby  actcaggatttt
B D                  Platypus  gctccggatacc
  D              Saker falcon  ctccagatcatt
  D       Collared flycatcher  ctccagatcctt
B D       Medium ground finch  cttcaggggatt
           Tibetan ground jay  cttcagggggtt
B D                Budgerigar  cttcagagggtt
  D                    Parrot  ctccagatcatt
  D             Scarlet macaw  ctccagatcatt
  D              Mallard duck  ctccagatcatt
B D                   Chicken  ctccagatcata
B D                    Turkey  ctccagatcata
B D        American alligator  actcaggatatt
  D           Green seaturtle  attcaggatatt
  D            Painted turtle  actcaggatatt
  D  Chinese softshell turtle  actcaggatagt
  D    Spiny softshell turtle  actcaggatagt
B D                    Lizard  ctacggatactc
B D             X. tropicalis  actcaggatatt
B D                Coelacanth  actcaggatatt
B D                 Tetraodon  tctgcgcgtcac
B D                      Fugu  tctccgtgtgac
       Yellowbelly pufferfish  cctctgcaggtc
B D              Nile tilapia  tctccgtgtgac
          Princess of Burundi  tctccgtgtgac
        Burton's mouthbreeder  tctgcgtgtgac
                  Zebra mbuna  tctgcgtgtgac
          Pundamilia nyererei  tctgcgtgtgac
B D                    Medaka  cccctgcagatc
           Southern platyfish  cctctgcaggtc
B D               Stickleback  tctgcgcgtgac
B D              Atlantic cod  tctgcgggtcac
B D                 Zebrafish  tctcagggtggc
     Mexican tetra (cavefish)  tgtcaaggttgc
                  Spotted gar  tctaaggatatt
B D                   Lamprey  ctccgaggcctc
B D               Zebra finch  ============

Inserts between block 28 and 29 in window
B D                Tetraodon 1bp
B D                     Fugu 1bp
      Yellowbelly pufferfish 1bp
B D             Nile tilapia 1bp
         Princess of Burundi 1bp
       Burton's mouthbreeder 1bp
                 Zebra mbuna 1bp
         Pundamilia nyererei 1bp
          Southern platyfish 3bp
B D              Stickleback 1bp
B D             Atlantic cod 1bp
B D                Zebrafish 1bp
    Mexican tetra (cavefish) 1bp
                 Spotted gar 1bp

Alignment block 29 of 108 in window, 105241966 - 105241968, 3 bps 
B D                     Human  --ct--t
B D                     Chimp  --ct--t
B D                   Gorilla  --ct--t
B D                 Orangutan  --ct--t
B D                    Gibbon  --ct--t
B D                    Rhesus  --ct--t
B D       Crab-eating macaque  --ct--t
B D                    Baboon  --ct--t
B D              Green monkey  --ct--t
B D                  Marmoset  --ct--t
B D           Squirrel monkey  --ct--t
B D                  Bushbaby  --gc--t
           Chinese tree shrew  --gc--t
B D                  Squirrel  --gc--t
       Lesser Egyptian jerboa  --ct--t
                 Prairie vole  --gt--t
B D           Chinese hamster  --gc--t
               Golden hamster  --gc--t
B D                     Mouse  --gc--t
B D                       Rat  --gc--t
B D            Naked mole-rat  --cc--t
B D                Guinea pig  --cc--t
                   Chinchilla  --cc--t
             Brush-tailed rat  --cc--t
B D                    Rabbit  --cc--t
B D                      Pika  --cc--t
B D                       Pig  --cc--t
B D                    Alpaca  --cc--t
               Bactrian camel  --cc--t
B D                   Dolphin  --cc--t
                 Killer whale  --cc--t
             Tibetan antelope  --cc--t
B D                       Cow  --cc--t
B D                     Sheep  --cc--t
                Domestic goat  --tt--c
B D                     Horse  --ct--t
B D          White rhinoceros  --ct--t
B D                       Cat  --ct--t
B D                       Dog  --ct--t
B D                   Ferret   --ct--t
B D                     Panda  --ct--t
               Pacific walrus  --ct--t
                 Weddell seal  --ct--t
             Black flying-fox  --ct--t
B D                   Megabat  --ct--t
                Big brown bat  --cc--t
         David's myotis (bat)  --cc--t
B D                  Microbat  --cc--t
B D                  Hedgehog  --cc--t
B D                     Shrew  --cc--t
              Star-nosed mole  --ct--t
B D                  Elephant  --ct--t
          Cape elephant shrew  --gt--t
B D                   Manatee  --gt--t
             Cape golden mole  --ct--t
B D                    Tenrec  --gt--t
                     Aardvark  --tt--t
B D                 Armadillo  --cc--t
B D                   Opossum  --gt--t
B D           Tasmanian devil  --gt--t
B D                   Wallaby  --gt--t
B D                  Platypus  --ta--t
  D              Saker falcon  --ct---
  D       Collared flycatcher  --ct---
B D       Medium ground finch  --at---
           Tibetan ground jay  --at---
B D                Budgerigar  --at---
  D                    Parrot  --ct---
  D             Scarlet macaw  --ct---
  D              Mallard duck  --ct---
B D                   Chicken  --ct---
B D                    Turkey  --ct---
B D        American alligator  --att--
  D           Green seaturtle  --gt-t-
  D            Painted turtle  --gt-t-
  D  Chinese softshell turtle  --gt-t-
  D    Spiny softshell turtle  --gt-t-
B D                    Lizard  --ct---
B D             X. tropicalis  --gt--t
B D                Coelacanth  --gc--t
B D                 Tetraodon  --ct---
B D                      Fugu  --ct---
       Yellowbelly pufferfish  --tc---
B D              Nile tilapia  --ct---
          Princess of Burundi  --ct---
        Burton's mouthbreeder  --ct---
                  Zebra mbuna  --ct---
          Pundamilia nyererei  --ct---
B D                    Medaka  --ct---
           Southern platyfish  --tt---
B D               Stickleback  --ct---
B D              Atlantic cod  --ct---
B D                 Zebrafish  --ct---
     Mexican tetra (cavefish)  --ct---
                  Spotted gar  --tt---
B D                   Lamprey  ctc----
B D               Zebra finch  =======

Inserts between block 29 and 30 in window
B D      Medium ground finch 11bp
          Tibetan ground jay 11bp
B D               Budgerigar 1bp
  D                   Parrot 1bp
  D            Scarlet macaw 1bp
B D                Tetraodon 3bp
B D                     Fugu 3bp
      Yellowbelly pufferfish 3bp
B D             Nile tilapia 3bp
         Princess of Burundi 3bp
       Burton's mouthbreeder 3bp
                 Zebra mbuna 3bp
         Pundamilia nyererei 3bp
B D                   Medaka 3bp
B D              Stickleback 3bp
B D             Atlantic cod 3bp
B D                Zebrafish 3bp
    Mexican tetra (cavefish) 3bp
                 Spotted gar 3bp
B D                  Lamprey 18bp

Alignment block 30 of 108 in window, 105241969 - 105241971, 3 bps 
B D                     Human  ggc
B D                     Chimp  ggc
B D                   Gorilla  ggc
B D                 Orangutan  ggc
B D                    Gibbon  ggc
B D                    Rhesus  ggc
B D       Crab-eating macaque  ggc
B D                    Baboon  ggc
B D              Green monkey  ggc
B D                  Marmoset  ggc
B D           Squirrel monkey  ggc
B D                  Bushbaby  ggc
           Chinese tree shrew  ggc
B D                  Squirrel  ggc
       Lesser Egyptian jerboa  ggc
                 Prairie vole  ggc
B D           Chinese hamster  ggc
               Golden hamster  ggc
B D                     Mouse  ggc
B D                       Rat  ggc
B D            Naked mole-rat  ggc
B D                Guinea pig  ggc
                   Chinchilla  ggc
             Brush-tailed rat  ggc
B D                    Rabbit  ggc
B D                      Pika  ggc
B D                       Pig  ggc
B D                    Alpaca  ggc
               Bactrian camel  ggc
B D                   Dolphin  ggc
                 Killer whale  ggc
             Tibetan antelope  ggc
B D                       Cow  ggc
B D                     Sheep  ggc
                Domestic goat  tac
B D                     Horse  gtc
B D          White rhinoceros  ggc
B D                       Cat  ggc
B D                       Dog  ggc
B D                   Ferret   ggc
B D                     Panda  ggc
               Pacific walrus  ggc
                 Weddell seal  ggc
             Black flying-fox  ggc
B D                   Megabat  ggc
                Big brown bat  ggc
         David's myotis (bat)  ggc
B D                  Microbat  ggc
B D                  Hedgehog  ggc
B D                     Shrew  ggc
              Star-nosed mole  ggc
B D                  Elephant  ggc
          Cape elephant shrew  ggc
B D                   Manatee  ggc
             Cape golden mole  ggc
B D                    Tenrec  ggc
                     Aardvark  ggc
B D                 Armadillo  ggc
B D                   Opossum  ggc
B D           Tasmanian devil  ggc
B D                   Wallaby  ggc
B D                  Platypus  ggc
  D               Rock pigeon  ggc
  D              Saker falcon  ggc
  D          Peregrine falcon  ggc
  D       Collared flycatcher  ttc
  D    White-throated sparrow  ggc
B D       Medium ground finch  ggc
B D               Zebra finch  ggc
           Tibetan ground jay  agc
B D                Budgerigar  -gg
  D                    Parrot  -tc
  D             Scarlet macaw  -tc
  D              Mallard duck  ttc
B D                   Chicken  ttc
B D                    Turkey  tgc
B D        American alligator  agc
  D           Green seaturtle  ggt
  D            Painted turtle  ggt
  D  Chinese softshell turtle  ggt
  D    Spiny softshell turtle  ggt
B D                    Lizard  ggc
B D             X. tropicalis  ggc
B D                Coelacanth  agc
B D                 Tetraodon  agc
B D                      Fugu  agc
       Yellowbelly pufferfish  tgc
B D              Nile tilapia  agc
          Princess of Burundi  agc
        Burton's mouthbreeder  agc
                  Zebra mbuna  agc
          Pundamilia nyererei  agc
B D                    Medaka  agc
           Southern platyfish  ggc
B D               Stickleback  cgc
B D              Atlantic cod  ggc
B D                 Zebrafish  tgc
     Mexican tetra (cavefish)  tgt
                  Spotted gar  agc
B D                   Lamprey  ggc

Inserts between block 30 and 31 in window
               Domestic goat 146bp

Alignment block 31 of 108 in window, 105241972 - 105242033, 62 bps 
B D                     Human  ---cata----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacactgtg
B D                     Chimp  ---cata----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacactgtg
B D                   Gorilla  ---cata----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacactgtg
B D                 Orangutan  ---cata----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacactgtg
B D                    Gibbon  ---cata----------gtgatgctactgatg---acggtggtggg-gttcc----tgggcaacactgtg
B D                    Rhesus  ---cgca----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacactgtg
B D       Crab-eating macaque  ---cgca----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacactgtg
B D                    Baboon  ---cgca----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacactgtg
B D              Green monkey  ---cgta----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacacggtg
B D                  Marmoset  ---cata----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacacggtg
B D           Squirrel monkey  ---cata----------gtgatgctgctgatg---accgtggtggg-gttcc----tgggcaacacggtg
B D                  Bushbaby  ---ggtg----------gggatgctgctcatg---atggtggtcgg-cttcc----tgggcaacaccgtg
           Chinese tree shrew  ---tata----------gggatgctgctgctg---atcgcggtggg-cttcc----tgggcaacaccgtg
B D                  Squirrel  ---gatc----------gtgatgatgctgatg---atggtggtcgg-atgcc----tggggaacaccgtg
       Lesser Egyptian jerboa  ---aatc----------atgatgatgctgatg---attgtggtggg-attcc----tgggcaacacggtt
                 Prairie vole  ---aata----------acgatgttgctaatg---atcgtggtagg-attcc----tcggcaacacggtg
B D           Chinese hamster  ---aata----------acgatgctgctgatg---atcgtggtagg-attcc----tcggcaacacggtg
               Golden hamster  ---aata----------acgatgctgctgatg---atcgtggtagg-attcc----tcggcaacacggtg
B D                     Mouse  ---aata----------atgatgctgctgatg---atcgtggtagg-attcc----ttggcaacacggtg
B D                       Rat  ---aata----------atgatgctgctgatg---attgtggtagg-attcc----tcggcaacacggtg
B D            Naked mole-rat  ---catc----------ctgatgctattgatg---atggtagtggg-cttcc----tgggcaacacagtg
B D                Guinea pig  ---tgtc----------ctgatgctgctcatg---atggtggtggg-cttcc----tgggcaacacagtg
                   Chinchilla  ---cgtc----------ctaatgctgctcatg---atggtggtggg-ctttc----tgggcaacacggtg
             Brush-tailed rat  ---cgtg----------ctgatgctgttcatg---atggtggtggg-cttcc----tgggcaacacagtg
B D                    Rabbit  ---aata----------gcaatgctgctgatg---atcgcggtcgg-tttcc----taggcaacaccgtg
B D                      Pika  ---gata----------acgatgctgctgatg---atcatagtcgg-tttcc----taggcaacaccgtg
B D                       Pig  ---ggta----------gtcatgatgctgatg---atcgtggtggg-tttcc----ttggcaacgccgtg
B D                    Alpaca  ---cgtc----------atcatggctctgatg---gtcgtggtggg-cttcc----tgggcaacgcggtg
               Bactrian camel  ---cgtc----------atcatggctctgatg---gtcgtggtggg-cttcc----tgggcaacgcggtg
B D                   Dolphin  ---ggtc----------ctcatgatgctgacg---ggcgtggtggg-gctgc----tcggcaacgccgtg
                 Killer whale  ---ggtc----------ctcatgatgctgacg---ggcgtggtggg-gctgc----tcggcaacgccgtg
             Tibetan antelope  ---ggtc----------ctcatgatgctgacg---gtcgtggcggg-gttcc----tgggcaacgcggcg
B D                       Cow  ---ggtc----------ctcatgatgctgatg---gtcgtggtggg-gttcc----taggcaacgcggtg
B D                     Sheep  ---ggtc----------ctcatgatgctgacg---gtcgtggcggg-gttcc----tgggcaacgctgcg
B D                     Horse  ---aatt----------ctcatgatgctgatg---attgtggtcgg-attcc----ttggcaatgctgtc
B D          White rhinoceros  ---aata----------atcatgatgctgatg---gttgtggtcgg-attcc----ttggcaacgctgtc
B D                       Cat  ---aata----------atcatgatgctgatg---atcgtggtggg-gttcc----tgggcaatgctgtc
B D                       Dog  ---aata----------atcatgatgctgatg---atcgtggtggg-attcc----ttggcaacgccgtg
B D                   Ferret   ---aata----------atcatgatgctaatg---atcgtggtggg-attcc----ttggcaattctgtg
B D                     Panda  ---aata----------atcatgatgctgatg---atcgtggtggg-attcc----ttggcaatgctgtc
               Pacific walrus  ---gata----------atcatgatgctgatg---atcgtggtggg-attcc----tcggcaatgccgtg
                 Weddell seal  ---gata----------atcatgatgctgatg---atcgtggtggg-attcc----ttggcaatgccgtg
             Black flying-fox  ---agta----------atcatgatgctcatg---atcgtggtggg-actcc----ttggcaatgctgtc
B D                   Megabat  ---agta----------atcatgatgcttatg---atcgtggtggg-gctcc----ttggcaatgctgtc
                Big brown bat  ---aggc----------atcatggtgctgatg---atcgcggtggg-cttcc----tcggcaactccgtg
         David's myotis (bat)  ---cggc----------ctcctggtgctgatg---atcgcggtggg-cttcc----tcggcaactccgtg
B D                  Microbat  ---cggc----------ctcctggtgctgatg---atcgcggtggg-cttcc----tcggcaactccgtg
B D                  Hedgehog  ---cgtc----------gccatgctgctcatg---atcgtggtgag-cttcc----tgggcaacgccgtg
B D                     Shrew  ---ggtg----------gccatgctgttgatg---atggtagtggg-gctcc----tgggcaatgccgtg
              Star-nosed mole  ---cata----------gtcatgatgctgatg---attgtggtggg-attcc----tgggcaacgccgtt
B D                  Elephant  ---aata----------atgatgatgctgatg---gttgtggtggg-gtttc----ttggcaacactgtc
          Cape elephant shrew  ---aata----------atgatgctgctgatg---atcgtggtggg-cttcc----tgggcaacaccgtg
B D                   Manatee  ---aata----------atgatgatgctgatg---atcgtggtggg-attcc----ttggcaacactgtc
             Cape golden mole  ---gata----------gtgatgctgctgatg---atggcggtggg-gttcc----taggcaacacggtc
B D                    Tenrec  ---gatc----------atgatgctgctgatg---attgtggtggg-cttcc----tcggcaacacggtg
                     Aardvark  ---aata----------atgatgctgctgatg---attgtagtggg-atgcc----tgggcaacactgtc
B D                 Armadillo  ---aata----------attatgatgctgatg---atcgcggtggg-gttcc----tcgggaacaccgtg
B D                   Opossum  ---tcta----------gtcatgatgctgatg---attgccattgg-gttcc----ttggcaatgccatt
B D           Tasmanian devil  ---atta----------gtcatgatgctgatg---attgccgttgg-attcc----tcggcaatgccgtt
B D                   Wallaby  ---gcta----------gtcatgattctgatg---attgccgttgg-atttc----ttggcaatgccatt
B D                  Platypus  ---aata----------atcatgctggtgatg---atcgcggttgg-attcc----tcggcaatgcgatc
  D               Rock pigeon  ---aatg----------gtagtgttgttcatg---attgctattgg-atttt----taggcacaattatt
  D              Saker falcon  ---aacg----------gtaatgttgttcatg---actgttattgg-atttt----taggtgctattatt
  D          Peregrine falcon  ---aacg----------gtaatgttgttcatg---actgttattgg-atttt----taggtgctattatt
  D       Collared flycatcher  ---tgct----------gctatgatattta-------tcctattgg-tttctttccttgggaactttgtt
  D    White-throated sparrow  ---attg----------gtaatgatgttcatg---actgctattgg-atttt-------gaggcatggca
B D       Medium ground finch  ---attg----------gtaatgatgctcatg---actgctattgg-atttt-------gagacactgca
B D               Zebra finch  ---attg----------gtaatgatgttcatg---actgctattgg-atttt-------taggcactgta
           Tibetan ground jay  ---attg----------gtaatgatgttcatg---actgctattgg-atttt-------taggcactgta
B D                Budgerigar  ---caattacag-----gcaatggtaatgttcatgacagctattgg-atttt----taggcactattagt
  D                    Parrot  ---tgct----------gctatgatatttatc-------ctattgg-tttctttccttggaaactttgtt
  D             Scarlet macaw  ---tgct----------gctatgatatttatc-------ctattgg-tttctttccttggaaactttgtt
  D              Mallard duck  ---tgct----------gctatgatatttatc-------ctattgg-tttctttccttggaaactttgtt
B D                   Chicken  ---tgct----------gctatgatatttatc-------atgttgg-tttctttccttggaaacttcgtt
B D                    Turkey  ---tgct----------gctatgatatttatt-------gtgttgg-tttctttccttggaaactttgtt
B D        American alligator  ---aata----------ttaatggtaatcatg---attgctattgg-atttt----taggcaatgccatc
  D           Green seaturtle  ---aata----------ataatggtattcatg---attgccgttgg-atttt----ttggtaatgccatt
  D            Painted turtle  ---aata----------ataatggtcttcatg---attgccgttgg-atttt----ttggtaatgccatt
  D  Chinese softshell turtle  ---aata----------ataatggtattcatg---atcgctattgg-atttt----ttggtaatgccatt
  D    Spiny softshell turtle  ---aata----------ataatggtattcatg---attgccattgg-atttt----ttggtaatgccatt
B D                    Lizard  ---cata----------ataatgctattaatg---attgctgtcgg-attct----taggcaatgccatt
B D             X. tropicalis  ---aata----------ataatgatagtgatg---attgctattgc-ttttt----tgggcaatgccatt
B D                Coelacanth  ---gata----------gtaatgatgtgtatg---attgctattgg-tttcc----taggcaacgcgatt
B D                 Tetraodon  -----------t-----ctaatgatcttcatg---atcacgatcgg-gttcc----tgggcaacgccatc
B D                      Fugu  -----------t-----ataatgatcttcatg---atcactattgg-attcc----tcggcaatgccatt
       Yellowbelly pufferfish  -----------tttgtcatggtggtcatcctg-------ctagtggccctgc----tgggaaacgtggtg
B D              Nile tilapia  -----------c-----ataatgatctttatg---attactatcgg-tttcc----tcggcaatgcgatc
          Princess of Burundi  -----------c-----ataatgatctttatg---attactatcgg-tttcc----tcggcaatgcgatc
        Burton's mouthbreeder  -----------c-----ataatgatctttatg---attactatcgg-tttcc----tcggcaatgcgatc
                  Zebra mbuna  -----------c-----ataatgatcttcatg---attactatcgg-tttcc----tcggcaatgcgatc
          Pundamilia nyererei  -----------c-----ataatgatcttcatg---attactatcgg-tttcc----tcggcaatgcgatc
B D                    Medaka  -----------t-----gtgatgattttcatg---attgctattgg-ttttc----ttggcaatgcgatt
           Southern platyfish  -----------c-----attatgatcttcatg---ataaccattgg-tttcc----tcggcaacgcaatc
B D               Stickleback  -----------c-----atcatgatcttcatg---atcacgatcgg-tttcc----tcggcaacgcaatc
B D              Atlantic cod  -----------c-----atcatgatcttcatg---atcaccatcgg-cttcc----tgggcaacgccatc
B D                 Zebrafish  -----------c-----ataatgatcttcatg---atcaccatagg-tttcc----ttggcaatggcatt
     Mexican tetra (cavefish)  -----------c-----gtgatggtggtcatt---atcactgttgg-ttttc----tcggcaattccgtc
                  Spotted gar  -----------t-----atcatgatatttatg---atcactgttgg-tttct----tgggcaatgcaatt
B D                   Lamprey  caaggtt----------gccacctcgctgacg---ctggccgccct-ggcgc----tggccaccgtcgtg
               Domestic goat  ======================================================================

                        Human  gtctg------catcatcg
                        Chimp  gtctg------catcatcg
                      Gorilla  gtctg------catcatcg
                    Orangutan  gtctg------catcatcg
                       Gibbon  gtctg------cattattg
                       Rhesus  gtctg------catcatcg
          Crab-eating macaque  gtctg------catcatcg
                       Baboon  gtctg------catcatcg
                 Green monkey  gtctg------catcatcg
                     Marmoset  gtctg------catcatcg
              Squirrel monkey  gtctg------catcatcg
                     Bushbaby  gtctg------catcatcg
           Chinese tree shrew  gtctg------tgtcatcg
                     Squirrel  gtctg------catcatcg
       Lesser Egyptian jerboa  gtgtg------catcatcg
                 Prairie vole  gtctg------tatcatcg
              Chinese hamster  gtctg------catcatcg
               Golden hamster  gtctg------catcatcg
                        Mouse  gtctg------catcatcg
                          Rat  gtctg------catcatcg
               Naked mole-rat  gtctg------cgtcattg
                   Guinea pig  gtctg------cgtcatcg
                   Chinchilla  gtctg------cgtcatcg
             Brush-tailed rat  gtctg------cgtcatcg
                       Rabbit  gtctg------tatcatag
                         Pika  gtctg------tgtcatag
                          Pig  gtctg------catcatcg
                       Alpaca  gtctg------cgtcatcg
               Bactrian camel  gtctg------cgtcatcg
                      Dolphin  gtctg------catcatcg
                 Killer whale  gtctg------catcatcg
             Tibetan antelope  gtctg------catcatcg
                          Cow  gtctg------catcatcg
                        Sheep  gtctg------catcatcg
                        Horse  gtctg------catcatcg
             White rhinoceros  gtctg------catcatcg
                          Cat  gtctg------catcatcg
                          Dog  gtctg------catcatcg
                      Ferret   gtctg------catcatcg
                        Panda  gtctg------catcatcg
               Pacific walrus  gtctg------tatcatcg
                 Weddell seal  gtctg------catcatcg
             Black flying-fox  gtctg------catcattg
                      Megabat  gtctg------catcattg
                Big brown bat  gtctg------cgtcatcg
         David's myotis (bat)  gtctg------cgtcatcg
                     Microbat  gtctg------cgtcatcg
                     Hedgehog  gtgtg------tgtcatcg
                        Shrew  gtgtg------catcatcg
              Star-nosed mole  gtctg------cgtcatcg
                     Elephant  gtctg------catcatcg
          Cape elephant shrew  gtctg------catcatcg
                      Manatee  gtctg------catcatcg
             Cape golden mole  gtctg------catcatcg
                       Tenrec  gtctg------catcatcg
                     Aardvark  gtctg------tatcattg
                    Armadillo  gtctg------cgtcatcg
                      Opossum  gtctg------cctcatcg
              Tasmanian devil  gtctg------cctcattg
                      Wallaby  gtctg------tctcattg
                     Platypus  gtctg------cctcctcg
                  Rock pigeon  atcag------cctcatta
                 Saker falcon  atcag------cctcgtta
             Peregrine falcon  atcag------cctcgtta
          Collared flycatcher  gtctg------cctgatgg
       White-throated sparrow  atcag------ccttgtta
          Medium ground finch  atcag------ccttgtta
                  Zebra finch  atcag------ctttgtta
           Tibetan ground jay  atcag------ccttgtta
                   Budgerigar  atcag------ccttgtta
                       Parrot  gtttg------cctcatgg
                Scarlet macaw  gtttg------cctcatgg
                 Mallard duck  gtctg------cctcatgg
                      Chicken  gtatg------cctcatgg
                       Turkey  gtatg------cctcatgg
           American alligator  gtctg------tctcattg
              Green seaturtle  gtctg------cctcattg
               Painted turtle  gtctg------cctcattg
     Chinese softshell turtle  gtctg------cctcattg
       Spiny softshell turtle  gtctg------cctcattg
                       Lizard  gtctg------cttgattg
                X. tropicalis  gtttg------ccttattg
                   Coelacanth  gtctg------tttgattg
                    Tetraodon  gtgtg------tctgattg
                         Fugu  gtgtg------tctgattg
       Yellowbelly pufferfish  gtgtg------cttgatgg
                 Nile tilapia  gtgtg------tctgattg
          Princess of Burundi  gtgtg------tctgattg
        Burton's mouthbreeder  gtgtg------tctgattg
                  Zebra mbuna  gtgtg------tctgattg
          Pundamilia nyererei  gtgtg------tctgattg
                       Medaka  gtgtg------tctgatag
           Southern platyfish  gtttg------tctgatcg
                  Stickleback  gtgtg------tctgattg
                 Atlantic cod  gtgtg------cctgatcg
                    Zebrafish  gtgtg------tctaatag
     Mexican tetra (cavefish)  gtctg------cctcatcg
                  Spotted gar  gtgtg------cttgattg
                      Lamprey  gtgaacgcgctcgtcatcg
                Domestic goat  ===================

Alignment block 32 of 108 in window, 105242034 - 105242227, 194 bps 
B D                     Human  --------tgtaccagaggccggctatgcgctcggccatcaacctgctgctggccaccctggccttc-tc
B D                     Chimp  --------tgtaccagaggccggctatgcgctcggccatcaacctgctgctggccaccctggccttc-tc
B D                   Gorilla  --------tgtaccagaggccggctatgcgctctgccatcaacctgctgctggccaccctggccttc-tc
B D                 Orangutan  --------tgtaccagaggccggctatgcgctcggccatcaacctgctgctggccactctggccttc-tc
B D                    Gibbon  --------tgtaccagaggccggctatgcgctcggccatcaacctgctactggccaccctggccttc-tc
B D                    Rhesus  --------tgtaccagaggccggctatgcgctcggccatcaacctgctgctggccaccctggccttc-tc
B D       Crab-eating macaque  --------tgtaccagaggccggctatgcgctcggccatcaacctgctgctggccaccctggccttc-tc
B D                    Baboon  --------tgtaccagaggccggctatgcgctcggccatcaacctgctgctggccaccctggccttc-tc
B D              Green monkey  --------tgtaccagaggccggctatgcgctcggccatcaacctgctcctggccaccctggccttc-tc
B D                  Marmoset  --------tgtaccagaggccggctatgcgctcggccatcaacctgctgctggccactctggccttc-tc
B D           Squirrel monkey  --------tgtaccagaggccggctatgcgctcggccatcaacctgctgctggccactctggccttc-tc
B D                  Bushbaby  --------tgtaccagaggccagccatgcgctcggccatcaacctgctgctggccaccctggccttc-tc
           Chinese tree shrew  --------tgtaccagaggccggccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
B D                  Squirrel  --------tgtaccagaggcccgccatgcgctccgccatcaacctgttgctggccacactggccttc-tc
       Lesser Egyptian jerboa  --------tgtatcagaggccggcgatgcgctctgccatcaacctgctgctggccaccctggccttc-tc
                 Prairie vole  --------tgtatcagaggccggccatgcgttcagccatcaacctgctgctggccaccttggccttc-tc
B D           Chinese hamster  --------tgtatcagaggccggccatgcgttcagccatcaacctgctgctggccaccttggccttt-tc
               Golden hamster  --------tgtatcagaggccgtccatgcgttcagccatcaacctgctgctggccaccttggccttc-tc
B D                     Mouse  --------tgtaccagaggccagccatgcgttcagctatcaacctgctgctggccaccttggccttc-tc
B D                       Rat  --------tgtaccagaggccagccatgcgatcagccatcaacttactgctggccaccctggccttc-tc
B D            Naked mole-rat  --------tgtaccagaggccagctatgcgctccgccatcaacctgctgctggccaccctggccttc-tg
B D                Guinea pig  --------tgtaccagaggccggccatgcgctctgccatcaacctgctgctggccaccctggccttc-tg
                   Chinchilla  --------tgtaccagaggccggccatgcgctctgccatcaacctgctgctggccaccctggccttc-tg
             Brush-tailed rat  --------tgtaccagagaccagctatgcgctccgccatcaacctgctgctggccacgctggccttc-tg
B D                    Rabbit  --------tgtaccagaggccggccatgcgctccgccatcaacctgctgctggccacactggccttc-tc
B D                      Pika  --------tgtatcagaggccagccatgcgctccgccatcaacctgctgctggccaccctggccttc-tc
B D                       Pig  --------tgtaccagcggccggccatgcgctctgccatcaacctgcttctggccacgctggccttc-tc
B D                    Alpaca  --------tgtaccagcggccggccatgcgctccgccatcaacctgctgctggccacgctggctttc-tc
               Bactrian camel  --------tgtaccagcggccggccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
B D                   Dolphin  --------tgtaccagaggccggccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
                 Killer whale  --------tgtaccagaggccggccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
             Tibetan antelope  --------tgtaccggaggccggccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
B D                       Cow  --------tgtaccagaggccgaccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
B D                     Sheep  --------tgtaccagcggccggccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
                Domestic goat  --------tgtaccggaggccggccatgcgctccgccatcaacctgctgctggccacgcttgccttc-tc
B D                     Horse  --------tgtatcagaggccagccatgcgctctgccatcaacctgttgctcgccacgctggccttc-tc
B D          White rhinoceros  --------tgtatcagaggccagccatgcgctctgccatcaacctgttgctggccacgctggccttc-tc
B D                       Cat  --------tgtatcagaggccagccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
B D                       Dog  --------tgtaccagcggccagccatgcgctcggccatcaacctgctgctggccacgctggccttc-tc
B D                   Ferret   --------tgtaccagcgaccagccatgcgttccgccatcaacctgctgctggccactctggccttc-tc
B D                     Panda  --------tgtatcagcggccggccatgcgctcggccatcaacctgttgctggcgacgctcgccttc-tc
               Pacific walrus  --------tgtatcagcggccagccatgcgctccgccatcaacctgttgctggccacgctggccttc-tc
                 Weddell seal  --------tatatcagcggccagccatgcgctccgccatcaacctgttgctggccacgctggccttc-tg
             Black flying-fox  --------tgtaccagaggcccgccatgcgctccgccatcaacctgttgctagccacgctggccttc-tc
B D                   Megabat  --------tgtaccagaggcccgccatgcgctccgccatcaacctgttgctagccacgctggccttc-tc
                Big brown bat  --------tgtaccagcggccggccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
         David's myotis (bat)  --------tgtaccagcggccggccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
B D                  Microbat  --------tgtaccagcggccggccatgcgctccgccatcaacttgctgctggccacgctggccttc-tc
B D                  Hedgehog  --------tgtaccagcggccggccatgcgctccgccatcaacctgctgctggcctcgctggccttc-tc
B D                     Shrew  --------tgtaccagaggccggccatgcgctcggccatcaacctgctgctggccacgctggccttc-tc
              Star-nosed mole  --------tgtatcagaggccagccatgcgctctgccatcaacctactgctggccacgctggccttc-tc
B D                  Elephant  --------tgtaccagaggcccgccatgcgctcggccatcaacctgctgctggccaccttggccttc-tc
          Cape elephant shrew  --------tgtaccagaggccggccatgcgctccgccatcaacctgctgctggccaccctggccttc-tc
B D                   Manatee  --------tgtaccagaggccagccatgcgctccgccatcaacctgttgctggccaccttggccttc-tc
             Cape golden mole  --------tgtaccggaggccagccatgcgctccgccatcaacctgctgctggccacgctggccttc-tc
B D                    Tenrec  --------tgtaccagaggcccgccatgcgctcggccatcaacctgctgctggccaccctggccttc-tc
                     Aardvark  --------tgtaccagaggccagccatgcgttcggccatcaacctgttgctggccaccttggccttc-tc
B D                 Armadillo  --------tgtaccagaggccagccatgcgctcggccatcaacctgctgctggccaccctggccttc-tc
B D                   Opossum  --------tgtaccagaagcccgccatgcgctcagccatcaatctgctcctggccaccttggccttc-tc
B D           Tasmanian devil  --------tgtatcagaaacccgccatgcgttcagctattaatctgctcttggccaccctggccttc-tc
B D                   Wallaby  --------tataccagaagcctgccatgcgctcagccatcaatctgctcctggcaacgttggccttt-tc
B D                  Platypus  --------tgtaccagaagcccgccatgcgctcagccatcaacctcctcctgggcacgttggctttc-tc
  D               Rock pigeon  --------cctactgaaaacctgctgtgtgttcagctatcagctttctgttggcagccttggcctct---
  D              Saker falcon  --------cctactgaaaacctgctgtgtgttcagccatcagctttctgttggcaacctcggcctct-tt
  D          Peregrine falcon  --------cctactgaaaacctgctgtgtgttcagccatcagctttctgttggcaacctcggcctct-tt
  D       Collared flycatcher  --------tctaccagaaggcagctatgcgatctgcaattaatatcctcttagcaagcctggcttttgca
  D    White-throated sparrow  --------tctactgaaaacctgccatgtgttcagccatcagctttcttctggcagccctggcctct-ct
B D       Medium ground finch  --------tctactgaaaacctgccatgtgttcagccatcagccctcttctggcagccctggc--ct-ct
B D               Zebra finch  --------tctactgaaaacctgtcacatgttcagccatcagctttcctctggcagtcttggcctct-tt
           Tibetan ground jay  --------tctactgaaaacctgccatgtgttcagccatccgctttcttctggcagccctggcctct-ct
B D                Budgerigar  --------cctactgaaaaccaactgt--gctcagctattggctttctgttggcaaccctggcctct-tt
  D                    Parrot  --------tctaccagaaggcagctatgagatctgcaattaacattctcttagcaagcctggctttt-gc
  D             Scarlet macaw  --------tctaccagaaggcagctatgagatctgcaattaacattctcttagcaagcctggctttt-gc
  D              Mallard duck  --------tctaccagaaggcagctatgcgatctgcgattaacattctcttagcaagcctggctttt-gc
B D                   Chicken  --------tctaccagaaggcagctatgcgatctgcaattaacattctcttagcaagcctggctttt-gc
B D                    Turkey  --------tctaccagaaggcagccatgcgatctgcaattaacattctcttagcaagcctggctttt-gc
B D        American alligator  --------tctaccaaaaaccagcaatgcgctctgccatcaatctgctgttagcaactctggccttttct
  D           Green seaturtle  --------tctaccagaaggcagccatgcgttcagccatcaacctgctgctagcaactttggccttt-tc
  D            Painted turtle  --------tctaccagaagccagccatgcgttcagccatcaacctgctgctagcaactttggccttt-tc
  D  Chinese softshell turtle  --------tctaccagaagacagccatgcgttcagccatcaatctgctgctagctactttggccttt-tc
  D    Spiny softshell turtle  --------tctaccagaagccagccatgcgttcagccatcaatctgctgctagctactttggccttt-tc
B D                    Lizard  --------tctaccaaaaaccagctatgcgttcagctatcaacctgcttttagctactctggctttc-tc
B D             X. tropicalis  --------tctatcagaagccagccatgcgttcagcaatcaatcttctcctggcaacactagcattc-tc
B D                Coelacanth  --------tctaccaaaagcctgccatgcgctcagctatcaaccttctcctagcaacacttgcattt-tc
B D                 Tetraodon  --------tgtaccagaagcccgccatgcgttccgccatcaacctcctcctcgccacgttggccttt-tc
B D                      Fugu  --------tttaccagaaacctgccatgcgttcggctatcaatctcctcctcgccacgttggccttc-tc
       Yellowbelly pufferfish  --------tgtaccagaggtctgccatgcgctcagccatcaacatcctcttggcgagcctggctttt-gc
B D              Nile tilapia  --------tttaccagaaacctgccatgcgttctgctatcaatctcctgcttgccactctggccttt-tc
          Princess of Burundi  --------tttaccagaaacctgccatgcgttctgctatcaatctcctgcttgccactttggccttt-tc
        Burton's mouthbreeder  --------tttaccagaaacctgccatgcgttctgctatcaatctcctgcttgccactctggccttt-tc
                  Zebra mbuna  --------tttaccagaaacctgccatgcgttctgctatcaatctcctgcttgccactctggccttt-tc
          Pundamilia nyererei  --------tttaccagaaacctgccatgcgttctgctatcaatctcctgcttgccactctggccttt-tc
B D                    Medaka  --------tttaccagaaaccagcgatgcgttctgggatcaacctcctcctggcgacgctggccttc-tc
           Southern platyfish  --------tctaccagaagcccgccatgcgctcagctatcaatctcctgctggccacattggctttc-tc
B D               Stickleback  --------tttaccagaaacctgccatgcgttctgctatcaatctcctcctcgccacgttggccttt-tc
B D              Atlantic cod  --------tctaccagaagcccgccatgcggtcggccatcaacctgctgctggccacgctggccttc-tc
B D                 Zebrafish  --------tgtatcagaagcctgcaatgcgttcagctataaatctgctcttagccacactggcgttt-tc
     Mexican tetra (cavefish)  --------tctaccagaagccggcaatgcgttccgccataaacctgttgctggcgaccctagcgttt-ac
                  Spotted gar  --------tctaccagaagccggctatgaggtctgcaattaaccttcttttagcaacgttagccttt-tc
B D                   Lamprey  cggccatctcggccacgcgcaagc--tgcgccagcccgccaactacctcatcggctcgctggccgtg-gc

                        Human  cgacatcat-----gctgtccctctgctgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
                        Chimp  cgacatcat-----gctgtccctctgctgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
                      Gorilla  cgacatcat-----gctgtccctctgctgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
                    Orangutan  cgacatcat-----gctgtccctctgctgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
                       Gibbon  tgacatcat-----gctgtccctctgctgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
                       Rhesus  ggacatcat-----gctttccctctgctgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
          Crab-eating macaque  ggacatcat-----gctttccctctgctgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
                       Baboon  ggacatcat-----gctttccctctgctgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
                 Green monkey  ggacatcat-----gttgtccctctgctgcatgcccttcaccgccgtca-ccctcatcactgtgc-----
                     Marmoset  cgacatcat-----gctgtccctctgctgcatgcccttcactgccatca-ccctcatcaccgtgc-----
              Squirrel monkey  cgacatcat-----gctgtccctctgctgcatgcccttcactgccatca-ccctcatcaccgtac-----
                     Bushbaby  cgacattat-----gctgtgcgtgtgctgcatgcccttcacggccgtct-ccctcatcaccgtcc-----
           Chinese tree shrew  cgacatcat-----gctgtctgtgtgctgtatgcccttcgccgccgtca-ccctcatcactgtcc-----
                     Squirrel  ggacatcat-----gctgtctttatgctgcatgccctttactgctgtca-ccctcatcaccgtcc-----
       Lesser Egyptian jerboa  tgacatcat-----gctgtccctgtgctgcatgcctttcactgccatca-ccctcatcaccgtcc-----
                 Prairie vole  tgacatcat-----gctgtccttatgctgcatgcctttcaccgccatca-ccctcatcactgtac-----
              Chinese hamster  tgacatcat-----gctgtccttatgctgcatgcctttcaccgccatca-ccctcatcacggtcc-----
               Golden hamster  tgacatcat-----gctgtccttatgctgcatgcctttcaccgccatca-ccctcatcactgtcc-----
                        Mouse  cgacatcat-----gctgtctttatgctgcatgccattcacggccatca-ccctcatcactgttc-----
                          Rat  cgacatcat-----gctgtccttatgctgcatgcctttcaccgccatca-ccctcgtcactgttc-----
               Naked mole-rat  tgacatcat-----gctgtccctgtgctgcatgcccttcactgccgtca-ccctcatcactgtcc-----
                   Guinea pig  cgacatcat-----gctgtccctgggctgcatgcccttcactgccgtca-ccctcatcaccgtcc-----
                   Chinchilla  cgatatcat-----gctgtccctgtgctgcatgcccttcacggccgtca-ccctcatcactgtcc-----
             Brush-tailed rat  cgacatcat-----gttgtctctgtgctgcatgcctttcactgctgtca-ccctcatcactgtcc-----
                       Rabbit  cgacatcat-----gctgtccttatgttgcatgcccttcaccgccgtca-ccctcatcaccgtgc-----
                         Pika  tgacatcat-----gctgtccttatgctgcatgcctttcactgccatca-ccctcgtgaccgtgc-----
                          Pig  cgacatcat-----gctgtccctgtgctgcatgcccttcacggccgtca-ccctgatcacggtcc-----
                       Alpaca  cgacatcat-----gctgtccgtgtgctgcatgccctttaccgccgtca-ccctcatcaccgtcc-----
               Bactrian camel  cgacatcat-----gctgtccgtgtgctgcatgccctttaccgccgtca-ccctcatcaccgtcc-----
                      Dolphin  ggacatcat-----gctgtccctgtgctgcgcacccttcgccgccgcca-ccctcgtcaccgtcc-----
                 Killer whale  ggacatcat-----gctgtccctgtgctgcgcgcccttcgccgccgcca-ccctcgtcaccgtcc-----
             Tibetan antelope  ggacatcat-----gctgtgcttgtgctgcctgcccttcacggccgcca-ccctcgtcaccgtcc-----
                          Cow  ggacatcat-----gctgtgcttgtgctgcatgcccttcacggccgtca-ccctcgtcactgtcc-----
                        Sheep  ggacatcat-----gctgtgcctgtgctgcctgcccttcacggccgcca-ccctcgtcaccgtcc-----
                Domestic goat  ggacatcat-----gctgtgcctgtgctgcctgcccttcacggccgcca-ccctcgtcaccgtcc-----
                        Horse  cgacatcat-----gctgtccttatgctgcatgcccttcactgccatca-ccctgatcactgtcc-----
             White rhinoceros  cgacatcat-----gctgtccttatgctgcctgcccttcaccgctgtca-ccctgatcaccgtcc-----
                          Cat  cgacatcat-----gctgtccttatgctgcatgcccttcacggccgtca-ccctgatcacggtcc-----
                          Dog  cgacatcat-----gctgtccctgtgctgcatgcccttcaccgctgtca-ccctcgtcaccgtcc-----
                      Ferret   tgacatcat-----gctgtccttatgctgcatgcctttcacggccgtca-ccttgatcacggtcc-----
                        Panda  tgacatcat-----gctgtccttatgctgcatgcccttcaccgccgtca-ccctgatcacggtcc-----
               Pacific walrus  tgacatcat-----gctgtccttatgctgcatgcccttcaccgccgtca-ccctgatcacagtcc-----
                 Weddell seal  cgacatcat-----gctgtccttatgctgcatgcccttcaccgccgtca-ccctgatcacggtcc-----
             Black flying-fox  cgacatcat-----gttgtccttatgctgtatgcccttcactgccgtca-ccctgatcactgtcc-----
                      Megabat  tgacatcat-----gttgtccttatgctgtatgcccttcactgccgtta-ccctgatcactgtcc-----
                Big brown bat  cgacatcat-----gctctcgctgtgctgcatgcccttcgcggccgcca-cgctggtcaccgtcc-----
         David's myotis (bat)  ggacatcat-----gctgtcgctgtgctgcatgcccttcgcggccgcca-cgctggtcaccgtgc-----
                     Microbat  ggacatcat-----gctgtcgctgtgctgcatgcccttcgcggccgcca-cgctggtcaccgtgc-----
                     Hedgehog  cgacatcat-----gctgtcgctgtgctgcatgcccttcacggccgtca-cgctgctcaccgcgc-----
                        Shrew  agacatcat-----gctgtccctgtgctgcctgcccttcacggccgtca-ccctgctcaccgtcc-----
              Star-nosed mole  ggacatcat-----gctgtccttatgctgcatgccctttaccgccgtct-ccctgatcacggtcc-----
                     Elephant  cgacatcat-----gctgtctttatgctgcatgcccttcgctgctgtca-ccctgatcaccgtca-----
          Cape elephant shrew  ggacatcat-----gctgtccctgtgctgcatgcccttcgccgccatca-ccctcatcaccgtgc-----
                      Manatee  ggacatcat-----gctgtccttatgctgcatgcccttcactgctgtca-ccctgatcaccgtca-----
             Cape golden mole  ggacatgat-----gctgtccttgtgctgcatgcccttcgctgcagtta-ccctcatcactgtca-----
                       Tenrec  tgacatcat-----gctgtccttatgctgcatgcccttcgcggccatca-ccctgatcaccgtca-----
                     Aardvark  tgacatcat-----gctgtccttatgctgcatgcccttcaccgccatca-ccctgatcaccgtca-----
                    Armadillo  cgacatcat-----gctgtccctgtgctgcatgcccttcacggcggtca-ccctcctcaccgtcc-----
                      Opossum  cgatatcat-----gctgtctttgtgctgtatgcctttcacggccgtca-ccatgatcactgtga-----
              Tasmanian devil  tgatatcat-----gctgtccttgttttgtatgcctttcatggcagtca-ccatgatcacggtgc-----
                      Wallaby  tgatatcat-----gctgtccttgtgctgtatgcctttcacggcagtca-ccatgatcactgtga-----
                     Platypus  agacatcct-----gctctccttattctgcctgcccttcaccgccatca-ccctcatcacgggta-----
                  Rock pigeon  gaccc-tat-----gttgtc--------------------ctgcagcta-tggttgttgcactga-----
                 Saker falcon  gaccc-tat-----gttgtc--------------------ttgcagcta-cggttgttgcagtga-----
             Peregrine falcon  gaccc-tat-----gttgtc--------------------ttgcagcta-cggttgttgcagtga-----
          Collared flycatcher  gacct-gct-----gctggcagtgctgaacatgccatttgctctgataa-caatcattaccacac-----
       White-throated sparrow  gaccc-tat-----gctgtc--------------------ctgcagctg-cagttgctgcagtga-----
          Medium ground finch  gaccc-cat-----gctgtc--------------------ctgtaccta-cagttgttgcagtga-----
                  Zebra finch  gacccttat-----gctgtc--------------------ctgcagcta-cagttgttgcagtta-----
           Tibetan ground jay  gacccttat-----gctgtc--------------------ctgcagcta-cagctgttgcaatga-----
                   Budgerigar  gaccc-tgt-----gctgtc--------------------ctgcagcta-cggctgctgtaatga-----
                       Parrot  agaca-tgctgctagcagtg--------------------ctgaacatgccttttgctctgataacaatc
                Scarlet macaw  agaca-tgctgctagcagtg--------------------ctgaacatgccttttgctctgataacaatc
                 Mallard duck  agaca-tgctgctggcagtg--------------------ctgaacatgccttttgctttgataacaatc
                      Chicken  agaca-tgctgctggcagtg--------------------ctgaacatgccttttgctctcataacaatc
                       Turkey  agaca-tgctgctggcagtg--------------------ctgaacatgccttttgctctggtaacaatc
           American alligator  gatat-cat-----gttgtccttgttctgtatgccttttactgcagtca-caatagttacagtga-----
              Green seaturtle  tgacatcat-----gctgtctttgctctgcatgccttttactgcagtta-caattattacagtga-----
               Painted turtle  tgacatcat-----gctgtctttgttctgcatgccttttaccgcagtta-caattattacagtga-----
     Chinese softshell turtle  ggacatcat-----gctgtctttgttctgcatgccttttactgccatta-cagttattacagtga-----
       Spiny softshell turtle  ggacatcat-----gctgtctttgttctgcatgccttttactgccatta-cagttattacagtga-----
                       Lizard  tgatatcat-----gctgtctttgttctgcatgccttttactgcagtca-ccatcattacagtga-----
                X. tropicalis  tgacatcat-----gttgtcccttttctgtatgccctttaccgcagtaa-caattataactggga-----
                   Coelacanth  tgacatcat-----gttgtctttgctttgtatgcctttcactgcagtta-caattatcactacaa-----
                    Tetraodon  ggacatcat-----gctgtctctcctctgcatgcccttcactgccgtga-cagtggccagcgcgg-----
                         Fugu  agacatcat-----gctgtctctcctctgcatgcccttcactgccgtca-cagtggccagtgctg-----
       Yellowbelly pufferfish  ggacatgat-----gctggccgtcctcaacatgccctttgctcttgtta-ctgtcatgaccacca-----
                 Nile tilapia  agacatcat-----gctctctgtgctctgcatgcccttcactgcagtca-ccgtggccactgcag-----
          Princess of Burundi  agacatcat-----gctctctctgctctgcatgcccttcactgcagtca-ccgtggccactgcag-----
        Burton's mouthbreeder  agacatcat-----gctctctctgctctgcatgcccttcactgcagtca-ccgtggccactgcag-----
                  Zebra mbuna  agacatcat-----gctctctctgctctgcatgcccttcactgcagtca-ccgtggccactgcag-----
          Pundamilia nyererei  agacatcat-----gctctctctgctctgcatgcccttcactgcagtca-ccgtggccactgcag-----
                       Medaka  ggacatcat-----gctgtccctgctctgcatgcccttcaccgccatca-ccgtggcctctgcgg-----
           Southern platyfish  tgacataat-----gctctcgctgctctgcatgcccttcaccgctgtca-ccgtggctaccgccg-----
                  Stickleback  ggacattat-----gctttccctgctctgcatgcccttcaccgcggtca-ccgtggccactgccg-----
                 Atlantic cod  cgacatcat-----gctgtcactgctctgcatgcccttcaccgccgtca-ccgtggccactgccg-----
                    Zebrafish  tgacatcat-----gctgtcactgctatgcatgccattcaccgccgtca-ctctcgcaactacgg-----
     Mexican tetra (cavefish)  agacatcat-----gctgtcgctcttctgcatgcctgtgacagcggtca-ccgtggtctctgaag-----
                  Spotted gar  tgacatcat-----gttgtctcttctgtgcatgcccttcactgcagtca-ccattatcacagtcg-----
                      Lamprey  cgacctcct-----cgtggccgcgctggtgatgcccgtggcggcggcct-acgtggtgacgggcg-----

                        Human  ----------gctggcactttggggaccacttctgccgcct----ctcagc--------cacgctctact
                        Chimp  ----------gctggcactttggggaccacttctgccgcct----ctcagc--------cacgctctact
                      Gorilla  ----------gctggcactttggggaccacttctgccgcct----ctcagc--------cacgctctact
                    Orangutan  ----------gctggcactttggggaccacttctgccgcct----ctcagc--------cactctctact
                       Gibbon  ----------gctggcactttggggaccacttctgccgcct----ctcagc--------cacgctctact
                       Rhesus  ----------gctggcactttggggacaacttctgccgcct----ctcagc--------cacgctctact
          Crab-eating macaque  ----------gctggcactttggggacaacttctgccgcct----ctcagc--------cacgctctact
                       Baboon  ----------gctggcactttggggacaacttctgccgcct----ctcagc--------cacgctctact
                 Green monkey  ----------gctggcactttggggacaacttctgccgcct----ctcagc--------cacgctctact
                     Marmoset  ----------actggcactttggggaccacttctgccgcct----ctcagc--------cacgctctact
              Squirrel monkey  ----------actggcactttggggaccacttctgccgcct----ctcagc--------cacgctctact
                     Bushbaby  ----------gctggcactttggggacggcttctgccacct----ctcggc--------cacgctctact
           Chinese tree shrew  ----------actggcactttggggacaacttctgccggct----gacggc--------catgctgtact
                     Squirrel  ----------actggcactttggggaccatttctgccggct----ctctgc--------gacgctctact
       Lesser Egyptian jerboa  ----------gctggcactttggggatcacttttgccggct----ctcggc--------cacgctctact
                 Prairie vole  ----------gctggcacttcggggaccacttttgtaggct----ctcagc--------tacactctatt
              Chinese hamster  ----------gctggcactttggggaccacttttgtcggct----ctcagc--------tacactctatt
               Golden hamster  ----------gctggcactttggggaccacttttgtcgact----ctcagc--------tacactctatt
                        Mouse  ----------gctggcatttcggggaccacttttgtcggct----ttcagc--------tactctctatt
                          Rat  ----------gatggcacttcggggaccacttttgtcggct----ttcagc--------tactctctatt
               Naked mole-rat  ----------actggcacttcggggaccacttctgcaggct----ctcagc--------cacgctgtact
                   Guinea pig  ----------actggcacttcggggaccacttctgccggct----ctcagc--------cacgctatact
                   Chinchilla  ----------actggcacttcggggaccacttctgccggct----ctcggc--------cacgctgtact
             Brush-tailed rat  ----------actggcacttcggggaccacttctgccggct----ctcggc--------cacactgtact
                       Rabbit  ----------gctggcactttggggaccacttttgccggct----gtcggc--------cacgctctact
                         Pika  ----------gctggcactttggggaccatttttgccgcct----gtcagc--------catgctctact
                          Pig  ----------actggcacttcggggactacttctgccggct----ctctgc--------cacgctctact
                       Alpaca  ----------gctggcgcttcggggatcacttctgccggct----ctcggc--------cgcgctctact
               Bactrian camel  ----------gctggcgcttcggggatcacttctgccggct----ctcggc--------cgcgctctact
                      D