Multiz Alignments of 7 Yeasts
 

Capitalize exons based on show bases
Place cursor over species for alignment detail. Click on 'B' to link to browser for aligned species, click on 'D' to get DNA for aligned species.
Alignment block 1 of 21 in window, 723574 - 723602, 29 bps 
B D  S. cerevisiae  ttgtacaaaggtggtgatattccatgttt
            sacPar  ttgtataaaggtggtgatattccgtgttt
            sacMik  ttgtataaaggtggcgatattccgtgttt
            sacBay  ttgt-tagaggtggtgat-tcccatgttt
            sacCas  ttatacaacggcgggcttaaaccgtgttt
            sacKlu  ttgtacaaaggtggagtaataccgtgtct

Alignment block 2 of 21 in window, 723603 - 723788, 186 bps 
B D  S. cerevisiae  gtagtcatagcccttcaaagctatttctttcaaatgtttagcctccatatcacttaaaggcgcaccattg
            sacPar  gtagtcatatcccttcaaagctatctctttcagatgcttagcctccacatcgcttaacggcgcaccattg
            sacMik  gtaatcataacccttcaaagctatttctttcatgtgcttggcctccgcatcacttaacggcgcaccattg
            sacCas  ataatcatagcctttagttgcaatttcatctaaatactgtttttcgagctcagacaagagatcggtattt
            sacKlu  gtagtcataccctttctttacaatttggtctatgttctttgattcagcgtctgttaggggaccactattg

     S. cerevisiae  tatccttttaagaaggtttctttattctcccaaatttcatcctctatgccttcaaaatgcttaacaacca
            sacPar  tagcctttcaaaaaagtttctttattttcccaaatttcgtcctctatatcttcaaaatgcttaacaacca
            sacMik  taacctttcaaaaaagtttctttgttttcccagatttcatcctctatatcttcaaaatgtttaacaacca
            sacCas  tgttctttcatgagtactttcttattaccaagaatttcttcctcgatatctgaataatgttttgtcacca
            sacKlu  tatccacgcagactttttgttcggcgttccaaaatctcttttttatactcttcaaagtgtttcagaatta

     S. cerevisiae  gatcttctgtatcaggggcttctagggcatatacttcttcctcttc
            sacPar  ggtcttctgtatccggtgcatctaaagtatatacttcttcttcttc
            sacMik  gatcttccgtatctggtgcttctaaatcatatacttcttcttcttg
            sacCas  aatcttctgagtttggtgctttcaacgtaaaaacctcatcctcctt
            sacKlu  gatcctcggtatcaggtgcctttaatgtaaacacctcttcctcgcg

Alignment block 3 of 21 in window, 723789 - 723927, 139 bps 
B D  S. cerevisiae  ttgtataggtcttatgcatagtagcatttgtgatacgtcaaatgtcttcaggaggttttttctatcgacg
            sacPar  ctgtataggtcttatgcacagcagcatttgcgatacgtcaaatgtcttcagaaggttttttctatcaacg
            sacMik  ttgtatagatcttatgcacagtagcatttgtgacacatcaaatgttttcagaagattttttctatcaacg
            sacKud  ttctatagctcttacgcatagcagcatttgtgatacgtcgaacgtcttcaaaaggttctttctatcaaca
            sacCas  ttgaatagttttgatacatatcagcatttggctgacatcaaaagttttcaataaatttttcctatcaaca
            sacKlu  attaacaaggctgacacagagtaacatttgagagacatcaaatgccttcaataaatttttccggtcaaca

     S. cerevisiae  ctcttgttcacttctataactgtaggcaaatctactagaatggcaccatacattacatcgtttattgtt
            sacPar  ctcttgttcacctctatcacagtaggtaggtccactaaaatggcaccatacattatatcgtttattgtt
            sacMik  ctcttattcacttctatcacggtgggtaaatctaccaaaatggcgccatacattacgtcgtttatcgtc
            sacKud  cttttatttacctctatcacagtgggtaaatctactaaaatggcaccgtacattacatcatttatggtc
            sacCas  cttttattcacctctatcacagtcggtagatccaccaatatagcgccatacatattaccatttatattc
            sacKlu  cttttgttggcttcgatgattgacgggaggttaactaatatggcgccatactgatacccattaattctc

Alignment block 4 of 21 in window, 723928 - 723937, 10 bps 
B D  S. cerevisiae  acgacagcgt
            sacPar  acgatagcgt
            sacMik  acaacagcat
            sacKud  acaatggcgt
            sacBay  acaatggcat
            sacCas  accacagcat
            sacKlu  actatagcat

Alignment block 5 of 21 in window, 723938 - 724090, 153 bps 
B D  S. cerevisiae  gtctctcgtttttccacttgatacttatcc------cagaataatcacctgattctaacgaattttttac
            sacMik  gtctttcatttttccatttaatgcttatcc------cggagtaatcaccagattctaaagaattctttac
            sacKud  gtctctcattcttccacttgatgcttattc------cagaatagtcacctgattctaaggagttcttcac
            sacBay  gtctttca-tcgtccatttg----ttatcttaaaaacaaaacaatcaccggattccaacgagttcttcac
            sacCas  gacgatgacccaaccacttaacagtaagcc------cagagtagtcaccagactcaatgctattctttac
            sacKlu  gccgctcacctttccacttgatgcttattt------tagagtaatcgccactttcgatacagcttttcac

     S. cerevisiae  aaactctaactgtatgtctggaagtatccttaatatcacaccactctctatgagagggtcatcttcaata
            sacMik  aaactctaactgtatgtccggaagtattctcaatattacaccagtctcgattaaaggatcgtcctcaata
            sacKud  gaactctaactgtatatctgggagtatccttagtactataccagtctctatcaggggatcatcttcaata
            sacBay  aaactctaactgtatatccggaagtattctcaatactataccggtctctatcaggggatcatcttcaatg
            sacCas  gaattcaacttgaatatctggtaggacccttaaaatgatcccactttcaatcagtggatcatcttcaata
            sacKlu  atattccgcttggatatctggcagaacgcgtaaaataatgccctcttcaatcaatgggtcatcttctata

     S. cerevisiae  tcagaggcttctgagtcgt
            sacMik  tcagaagcttctgagtcgt
            sacKud  tcagaggcttctgaatcgt
            sacBay  tcagatgcctcagagtcgt
            sacCas  tctgatgcctcagaatcat
            sacKlu  tctgaagcttctgaatcgt

Alignment block 6 of 21 in window, 724091 - 724527, 437 bps 
B D  S. cerevisiae  acgcttccccaggaattctaataggtttgagacgtagctttggcgccttgtgtatcttct---------t
            sacPar  atgcttccccaggaattctaatgggtttgagacgccactttggcgctttgtgtatcttct---------t
            sacMik  acgcttccccagggattctaataggtttaagacgtagtttgggggttctatgtatcttct---------t
            sacKud  aagcctcgccagggattctaatgggcttgagacgtaattttggggttttatgtacctttt---------t
            sacBay  atgcctcgccaggaattctaatgggtttgagacgtagtttcggagttttatggacctttt---------t
            sacCas  atccttctcctggaatccgtataggttttaacctgagtcgaggggctttatgcactttcttttcaactat
            sacKlu  agccttctcctggtacacgtactggtttgatcctgaacctaggaacctttgttactgatg---------g

     S. cerevisiae  aactggttctt------cattttttttcaagtttaactttaacttca-----------atgaattc----
            sacPar  aactacttctt------cattttttttcaagttcagtttcagcttta-----------acgaattc----
            sacMik  gagtgattctt------catttttcttcaagtttagttttagcttca-----------aagaattc----
            sacKud  tagtggttctt------cgctccttttcaagttcagtttaagcttca-----------gtgaattt----
            sacBay  aactgtatctt------cattcttcttcaaattcagtttgagcttca-----------acgaattt----
            sacCas  aggtgatgctg------atggttttct---gtgtagcttcaatttca-----------acggcccc----
            sacKlu  agttaattcctgcgaaggttccttttttagattcagttttagcttcattcccgttggcgtggatccaaca

     S. cerevisiae  tt------cttctctttgccgtcagcactctctttctttttctttaggtttatctttaatttaggcttt-
            sacPar  tt------cttctcttggccgtcagtattatccttcttttttttcaggtttatcttcaatttagtcttt-
            sacMik  tt------tttctctttattgtcactattatctttctttttattcaaacttattttcagtttaggcttt-
            sacKud  tt------cttttctttgccttcgacattatccttcttcttcttcagatctatcttcagtttgggtctt-
            sacBay  tt------cttctccttactttcgatggtatctctctttttctttaggtttatcttcaattttggcttt-
            sacCas  cctactggcttgtccataaggggatccgtcacctttctctttttcagacttatctttaatttaggcttct
            sacKlu  ct------attatcttt------agcaagatctttctcttttttc---ttcagcttaagtttaatcttcg

     S. cerevisiae  --ggtttgatatcttcatcagttacctttgtctttatgcgaattctctttagtttaggctcgccttctaa
            sacPar  --ggtttgacatcttcatcagtcacctttgtctttatgcgaattctctttaatttgggctcgcttcctaa
            sacMik  --gatttgacatcgtcatcattcaccttagtttttatgcgaatcctctttaacttgggttcgctttccaa
            sacKud  --ggtttggcttcttcatcaccggccttagtctttatgcgaattctctttagtttgggctcgatttctaa
            sacBay  --ggtgtgccatcttcatcattaaccttagcctttatgcggattctctttaatttgggctcgccttctaa
            sacCas  taggtatctgttcattgtctttattcttcgtctttatgcgaatctttttcaatttaggttctttattcgt
            sacKlu  gaggttgtttggattcatcttttttcttaatttt------gatcttcttggtctttggctc---------

     S. cerevisiae  tggttgat---ccttctctcctggtcctctgggttttttaattcttataacagccat-----atttac--
            sacPar  tggctgct---cttcctcccttggtcctctgggtttcttaatccttataacagccat-----atttat--
            sacMik  cggctgat---cttctccttttggctccctgggcttcttaatccttataacagccata----attttt--
            sacKud  agtgtttt---cctcttgttttggctctctgggctttttaatccttataacagccat-----attcac--
            sacBay  tgccacct---cctcttgcttcggctctctgggcttcttgatccttataacagccat-----aaccac--
            sacCas  tgaatcctcagctgtttccttgggtggattaggccttttcagttttatggtcaccatt----accaacca
            sacKlu  ------ct---caatctttgtagactctttaggtttccttattttaatgacaggcattatagactcaa--

     S. cerevisiae  ---gtcg-attattgcgactaatttgaatggtaacactg-tctcttgtttatgtagttct-tcctattct
            sacPar  ---attg-attattgcgattgattggaatgataacactg-tctcctgcttacctagttct-tcttcttcc
            sacMik  ---tctc-cttattgtggtaaatctggatg-tggcactg-cttcttactagcttaatttt-tcaatttcc
            sacKud  ---gcta-cctgttgcgactaatcagaacaccaaggc----------------taacctt-cttctttcc
            sacBay  ---gttaccctttcacgcttaattacaccagtatggctactcttttacttgccaggtcctgccgacttac
            sacCas  atagata-actttggcagttattatgtctg-----gctg-tctc-gatggatgcactttg-ttaccttcc
            sacKlu  ---ttta-cctatagt------------------------cttctttgttg------tct-ctatgttta

     S. cerevisiae  tctcgcttttattatttttg----ctagcaagttttgtcttgaaattttatttactg-ttctcatcg-gc
            sacPar  tctcactttaattagttttgtaggctggttggttttgttttgaaatttcacttactg-ttctcatcg-gc
            sacMik  tcctacttcatttag-tttgtaaaaagcaagattttgttttgaaatttcacttac-g-gcctcatcgccc
            sacKud  tttcattttaatcaa-ttcg--------tgaattttgctttgaaatttcatttacta-ttctcatcg-cc
            sacBay  tttcatct--------tttg-----taacaaatattgttttgaaatttcacttacta-ttctcatcg-cc
            sacCas  attgaatgt-------tcta-----atagtaattttattattaa--ttcaacttctt-ttcgcagtg-tc
            sacKlu  cctgattctatgtaagtttg-----ggccagaaagtgctttcta--tttatctgttatttctcgtca-tt

     S. cerevisiae  cgaa-------taac
            sacPar  cgaa-------taac
            sacMik  cgaa-------catc
            sacKud  cgaa-------tatc
            sacBay  cgaa-------tatc
            sacCas  cgggttatcgctggc
            sacKlu  gaaa-------aaat

Alignment block 7 of 21 in window, 724528 - 724622, 95 bps 
B D  S. cerevisiae  agc-gatatt--attgtatgatga-taat-agagatgaaacttta--caaatgcg---------gttact
            sacPar  agc-gatcct--actgtataatgaataat-aaagatgagactttat-caaatgcg---------gctact
            sacMik  agcaaattct--actggatgataaatcacaaaaggaaagatattac-tgaataca---------gttcct
            sacKud  agc-ggtcca--tctatataacat-tggc-atag-tgaagctcctc-aaattgtg---------gttgct
            sacBay  agc-gccttt--actgcataactaaaagt-agaagtaatactttat-tgagtgtgtaagtagaagctgcc
            sacCas  aac-aattttgaaacttttagtca-aaat-agaagaacaatggcataaaagtata---------gttgat

     S. cerevisiae  -----acgtcagtc----aatacca-ttctttgaagtaagaaggctcagca
            sacPar  -----gcgtaaact----atgacca-tcccttgaacttgacaggctgagca
            sacMik  -----gcgtaattc----acgacaa-ctgtttgaagctgtcaggcttagca
            sacKud  ttgtgacctgaccc----atagctg-tagtttca--ctggtcggatcagca
            sacBay  ttcc-gcataatct----atagctagttccttcgccttaccaaaatcggca
            sacCas  gaa--acctcatttggagattgttc-tccttagaaggccaccatgtcgttg

Alignment block 8 of 21 in window, 724623 - 724909, 287 bps 
B D  S. cerevisiae  actatgtctgttccaatccctggtattaaagatatctccaaacttaagttcttttatggtttcaaatatt
            sacPar  tagatgtccattccaattcctggtattaaagatatctccaaactcaaattcttttatggtttcaaatatt
            sacMik  tatatgtctgttccaatccccagtatcaaagatatctccaaactcaagtttttttatggtttcaaatatt
            sacKud  aa-atgtctattccaatccccggtattaaggatatttccaaactcaagtttttttatggttttaagtacc
            sacBay  cagatgtctattccaatccccggtattaaagatatttccaaactaaaatttttctatggttttaagtacc
            sacCas  ta-atgtcactgtctgtacccactaccggagttctttccaagattacccaacgttacggctctcaatatt
            sacKlu  aaaatgagtgtgcatatccctaccctaaattcagcaaccaagataaaacattattatggattcaaatatc

     S. cerevisiae  tatggaatccaacagtatacaataaaatctttgataagctggatttaactaaaacgtataaacatccaga
            sacPar  tatggaatccaacagtatataacagaatctttgacaaactggatttaactaaaacctataaacatccaca
            sacMik  tatggaatccgaaagtatatgacaaaatctttgataaactagatttaactaaaacgtataaaaatccaaa
            sacKud  tatggaatccaacggtatatgacaagatcttcgataaactagatttaactaggacgtataaaaatccgaa
            sacBay  tatggaacccaaaggtgcatgagaaaatcttcgataaactggatataacgaagacgtataaaaaccccaa
            sacCas  taataaatccaaaagtgttcgataaaatctttaagaagttggatttta---------aggaatattcctc
            sacKlu  tgttgaattcctcggttcatacacaaatttacaataaattgcaactgcagagtacttacaaga---tgga

     S. cerevisiae  agaattgaaagtacttgacctctaccctggtgttggtatacaatcagctattttttataataaatattgc
            sacPar  agagttgaaagttctcgacctgtatcctggtgttggtgtacaatctgctattttctataataaatattgc
            sacMik  gaaactgaaagtgcttgacctataccctggtgtcggtgtacaatctgctgttttttataacaggtattgc
            sacKud  ggagttgaaagtgctcgacttataccctggagtcggcgtacagtctgccatcttttataataagtactct
            sacBay  gaagttgaaagtgctcgatctgtatcctggagtcggtgtacaatcggccatgttctacaatagatactct
            sacCas  aactctcaaagttttagacatgtacccgggcccctgtgttcaaagtactatgttctataataagtatcag
            sacKlu  tgagttaaaagttttagacctgtacccaggaccatctcagcactctgctattttccgaaatatattcaac

     S. cerevisiae  cccaggcaatattctttattagaaaaacgctcaagtctctac------aagtttctgaatgcaaaattcg
            sacPar  cccaagcaatattctttgatagaaaaacgttcgagtctctac------aaatttttaaatgcaaaatttg
            sacMik  cccaagcagtattctctaatagaaaaacgttcgagtctctac------aaatttttaagagcccaatatg
            sacKud  cccaagcaatattctatgatagaaaaacgttcaagtctctac------aagttcctgaaagcaaatcttg
            sacBay  ccccagcaatattctatgatagaaagacgctcgagtctctac------aaatttctgcaagcaaatcttg
            sacCas  ccaaagcagtatgtgctgatggagtcaagatcgcaattcgtg------aaatt------gataaaatctg
            sacKlu  cctaagcaatatgttctaatgga------ttctaggcccgactttgtgaagtttattcaagataactttg

     S. cerevisiae  aagggtctccatt
            sacPar  aagagtctccttt
            sacMik  aagagtctccttt
            sacKud  aagattccccctt
            sacBay  aagattctccctt
            sacCas  aa---tttccttt
            sacKlu  ctggcactagcat

Alignment block 9 of 21 in window, 724910 - 725065, 156 bps 
B D  S. cerevisiae  gcaaattctaaaaagagatccatatgactggtca--acctactcgaatctaattgacgaagagcgaatat
            sacPar  acaaatacttaaaaaggatccctatgactggtca--acctactctagtctaattgatgaggagcgaatat
            sacMik  acaaatacttaaaaaagacccgtatgactggtca--acctactcgaatttaattgatgaagagcgcatct
            sacKud  gcagatactcaaaaaagacccgtatgactggtca--acctactcgaatctaataaatgaagagcgaatat
            sacCas  gaacgtact-gaacgtgatccttaccattgggaatcatttattgaaatt--attgaaaaggagaagttac
            sacKlu  ggaactttatcagagagatccatatgagtggagc--tcttacacagatatgattgaaaaagaaaaaaggt

     S. cerevisiae  ttgttcctgaagttcaatcctcagatcatattaatgataaatttctaaccgttgctaatgtgacggggga
            sacPar  ttgttcctgaagtccaaccctcggatcatatcaatgataaatttttaactgttgctaatgtgacggggga
            sacMik  ttgttcccgaaatccaaacatcgaatcatatcaatgatagttttttaactgttgcgaacgtgacggggga
            sacKud  ttgttccagaagttcagccaccagatcatatcaatgatacttttttaacagtcgctaacgtaacaggtga
            sacCas  tggtacctgagaagcagcctttgacacatattcacaattcctttttggttgtcgggaatgtcaccaatag
            sacKlu  ttgtccccaacaggcaaagtcgtgacaaaatccacaatcaatttttggttatggctaaccttacaggcat

     S. cerevisiae  gggttctgaaggtcttat
            sacPar  ggggtctgaaggtcttat
            sacMik  agggtctgaaggtcttat
            sacKud  agggtctgaaggtcttat
            sacCas  aaacaacgaatcattgat
            sacKlu  gataggagaaggtctgtt

Alignment block 10 of 21 in window, 725066 - 725198, 133 bps 
B D  S. cerevisiae  aatgcagtggctgtcctgtattggaaacaagaactggttgtataggtttggtaaagtaaagatgttatta
            sacPar  aatgcagtggttgtcatgtattggaaataagaactggttgtatagatttggtaaagtcaagatgttgtta
            sacMik  aatgcagtggttgtcatgtattggaaacaagaactggttgtatagatttggtaaagtgaagatgttgtta
            sacCas  aatgcaatggttccattgcataggtaatagaaattggctgcaaagatttggaagagtccgtatgttgttg
            sacKlu  tatgcaatggctgtcctgtattggcaataaaaattggttgcaaaggttcggtcgggttaagatgctggta

     S. cerevisiae  tggatgccaagcacaacagctagaaaacttctagctaggccaggcatgcattctagatccaaa
            sacPar  tggatgccgagtacgacagctaaaaaacttttggctaggccaagcacgcatgctaggtccaaa
            sacMik  tggatgccaagtactaccgctagaaaacttcttgctagagcaggcacgcattctaggtccaaa
            sacCas  tgggtacctctctccactgctagcaaattgatggctgaaccaaaaagtaaacttagaagtaaa
            sacKlu  tgggtaccagaagcaactgctcataaggttttagcaaggccaggctctttgatcagagcaaaa

Alignment block 11 of 21 in window, 725199 - 725632, 434 bps 
B D  S. cerevisiae  tgttcagtagtaagggaggcatttacagatactaaactcattgccatatcagacgcaaatgaattgaagg
            sacPar  tgttcagtagtaagggaggcattcacagatactaaacttattgcaatatcagatgcaaatgaattgaagg
            sacMik  tgttccgtagtaagagaggcattcacggatactaaacttattgccatatcagatgcagatgaattagaga
            sacBay  tgttcagtagtaagagaagcgtttacaaatactaaactgattgccatatctgataaagacgagttgaagg
            sacCas  gcttctgtaatcagggaagcctttactgacacgcgattgttagccatatccaatattgctgagttgaaaa
            sacKlu  tgctcagtggtcacagaggctttcactgatacaaaactggtagctacgtctgatagtagcacgttgcaaa

     S. cerevisiae  gatttgatagtcaatgcata---gaagaatgggatcccattttatttagtgctgcggaaatat------g
            sacPar  gattcgatagtcactgcata---gaagaatgggatcccgtcatatttagtgctgcagatatat------g
            sacMik  aatttgatagtcaatgttta---aatgaatgggatcccattgtatttagtgctgccgatatgt------g
            sacBay  gctttgatagtaaatgttta---gaagagtgggatcccattgtatttagtgccgcggacattt------g
            sacCas  aatttgacaagatagtgtta---gatgaaagtaatcctattgtttttggtgaagatagtatgttaaaagg
            sacKlu  agtt---tagttcatctttactcgaagagcatgatccaataatcttttccacaagagatacct------g

     S. cerevisiae  gccta------caaagggaaagccaattgcgttagtagaaatggacccaattgacttcgattttgacgta
            sacPar  gccta------caaagggaaagccaattgcgttggtagaaatggacccgattgattttgattttgacgta
            sacMik  gccta------caaagggaaagccaattgcattagtagaaatggacccaattgattttgactttgacgta
            sacBay  gccta------caaaagggaagccaattgcattggtagagatggatccaactaattttgacttcgatgta
            sacCas  ggctggagtatcaagtgccacatcaattgctttattggaaataaatccaaaaaatcatgatttagatcta
            sacKlu  gctaa------acagcgggaagcccataagcctccttgaggtaaatcctattgatcatgatatagatttg

     S. cerevisiae  gataattgggattatgtcacgaggcacttaatgattttgaaaagaacacccttgaatactgtcatggact
            sacPar  gacaattgggattatgtcacgaggcacttaatgattttgaaaagaacaccattgaatactgtcatggact
            sacMik  gaaaattgggattatgtcacgagacacttgatgattttgaaaagaacgccattgagtactgtcatggatt
            sacBay  gagaattgggattatgtcaccaggcacttgatgattctcaaaagaacgccgttaaatatcgttatggact
            sacCas  gaaaattgggactacgtgaccaaacatttaatgattttgaaacaaacaaagttaatcgatgccctggaat
            sacKlu  gataattgggactatgttacaaagcacctattaattctgaaaagtacaccattacatactgctatagatt

     S. cerevisiae  cgctgggacatggtggccaacaatattttaatagtagaatcactgacaaagatctgctaaaaaagtgtcc
            sacPar  cactgggacatggtggtcaacaatatttcaatagcaggatcactgacaaggatctaataaaaaagtgtcc
            sacMik  cactgggacatggtggacagcaatattttaatagccgaataactaataaggacctgctaaaaaagtgtcc
            sacBay  cgttgggacatggaggacaactatacttcaatagtagaatttctgatcaggaactgctgaagaagtgtcc
            sacCas  cccttggccatggtgccaaagattactttaccgaaaagattgaagactcaacatacttgaacaagacacc
            sacKlu  cgctggggcatggtggtaaacagtatttcagcgaaaaagtcgaagataagttactcatggacaaatgtcc

     S. cerevisiae  gattgatttgacaaatgacgagtttatatatctaacgaaattattcatggagtggcctttcaaaccagat
            sacPar  cattgatttgacaaatgacgagtttatatacctaacgaaattgttcatggaatggcctttcaaaccagat
            sacMik  tattgatttaactaatgacgagtttatatacctaacaaggttgttcgcagaatggccctttaaaccggat
            sacBay  cattgatctaacaaatgatgaatttatatacataacgaaactattcacagagtggcctttcaaacctgat
            sacCas  tggcgagatgaccaatgatgactttatttatcttacaaagatatttgccaactggccctttaaacctgat
            sacKlu  taaagaccttactaataaagagtttgtctatttaaccagcatattcaataactggccatttaaaccagat

     S. cerevisiae  attttaatggattttgttgatatgtatca
            sacPar  attttgatggattttgttgatatgtatca
            sacMik  attctattggacttcgttgatatgtatca
            sacBay  atcttgatggacttcgttgatatgaatca
            sacCas  atttacatggattttgttgatattttaca
            sacKlu  atttacatggattttattgacgttttcca

Alignment block 12 of 21 in window, 725633 - 725638, 6 bps 
B D  S. cerevisiae  aacaga
            sacPar  aacaga
            sacMik  aacaga
            sacBay  aacaga
            sacCas  agagga

Alignment block 13 of 21 in window, 725639 - 725828, 190 bps 
B D  S. cerevisiae  gcactctggttgaaaaaagtgctttta-aaatttactt-cattatttaataaatatgtgattttagcgtg
            sacPar  gcactccggttgaagagaaggttctaagaaatttgctttcattatgtaataattatgtgattttaccgtg
            sacMik  gcactccggttgaag-------------aaatttgatattgttattttgcaattatgtgattttaacgtg
            sacBay  gcattcgggtt-aataaagggtttgaatagccttagtattctcactcaggaattaagttactttagagca

     S. cerevisiae  tgaatata-aaaaatacatagaactcaatcttcgttaacacggaaccatcttgtaatcaagaagcgagaa
            sacPar  tgaatata-agaaatacatagaactcaattttcgtcagcatggaactatcctataattaaggagggagaa
            sacMik  taaatatagaaaaatacatataacttgattttcatcaatactgagtaacgttgtagtcaa-aagagagag
            sacBay  tgtaaata----aacatatagaactaaattttagtagata--aagccgtattgaaaccgaagagaaa---

     S. cerevisiae  gcggaactaaaactttaag-aaaaggagct---ctacgaaccgt--caaagctaaattg
            sacPar  ------ctacaaattcaag-atgaagaacttt-cttgaatttat--aaaggtgaaatcg
            sacMik  ------cgacatgttcaggcaaaaagcgat---cctgaaatcaa--aa----taaatta
            sacBay  ------ttacaagaatgag-gcgagaatcattgctgacagctatcgaaaagaaaaacta

Alignment block 14 of 21 in window, 725829 - 725897, 69 bps 
B D  S. cerevisiae  atcgatagaaattg--cttcttga-aactttacattctatgtactttac-aaatatactttacaaactta
            sacPar  atcgacggaagttg--cttcttgagaactttacactctatgtactttac-aaatatactttacaaactta
            sacMik  atcgagggaaattg--tttcttataaatttcacattctatgtactttac-aaatatactttacaaactta
            sacKud  attgatgaaaactgtttttcttaaaaactttacactctatgtattttac-agatatactctacagactca
            sacBay  atcaatgggaacgg--tttttaaaaaactttacactctatgtattttacaaaatatactctacagactta

     S. cerevisiae  gcc
            sacPar  aac
            sacMik  aac
            sacKud  gat
            sacBay  aat

Alignment block 15 of 21 in window, 725898 - 725967, 70 bps 
B D  S. cerevisiae  atttatattactttacagt--------taaaaatcca------tcaggaattattcgtctgctttttgag
            sacPar  agttatattatttaagggc-------ctaaaaaacca------acaggaattactcgtctgtttttggta
            sacMik  aattattttgatgaagggc--------caacgaaaaa------acagaagctattcatctgtttttggta
            sacKud  aatt-ttttatctaagggc-----ctcaaaaaaagca------actcgactcattcatctgcctttggtg
            sacBay  aattattttatctaagggt-------ttaaaaaaggc------aactaaatcattcatctgcctttggcg
            sacCas  atttacaataatttacagaataatcattagaaacccattgtttgtatcacctactcagcttcatcttcct

     S. cerevisiae  attcatggctagcg
            sacPar  cgtcatggctggcg
            sacMik  tttcatggttagcg
            sacKud  cctcatggctagcg
            sacBay  tttcatgattagtg
            sacCas  tggtatgatttgat

Alignment block 16 of 21 in window, 725968 - 726509, 542 bps 
B D  S. cerevisiae  acatactcagtagctttagctttaacgtattcaatggtcttttcgtcaccttcagattcctcaaattgta
            sacPar  acatactcagtagctttagctttgacgtattcaatggtcttttcgtcaccttgagattcttcaaattgca
            sacMik  acgtactcagtagctttagctttaacgtattcaacagccttttcgtcactttgagattcttcgaactgta
            sacKud  acatattcagtggctttggctttaacgtattcaacggtcttttcgtcaccttgagattcttcaaatttca
            sacBay  acatattcagtggctttagctttgacatattcaacggtcttttcatcatcttgtgattcttcaaattgta
            sacCas  acatattcagtagcctttgccttcacatattccattaccttgttatcattttgggattcctcaaattcta
            sacKlu  acaaattcagctgctttggccttgacgtattcagctgctttttgatcgttcttagactcttcaaactgca

     S. cerevisiae  accatttattaaagaaaaacttagcctgcttccttgttatttttttggttattattctctcaaataaatc
            sacPar  accatttattaaagaagaatttggcttgcttccttgttatctttttggttattatcctctcaaataaatc
            sacMik  accatttattgaagaaaaatttggcctgctttcttgttatctttttggttattattctttcaaacaaatc
            sacKud  accatttattgaagaaaaacttcgcctgctttcttgtcatttttttggttattattctttcaaacaaatc
            sacBay  accatttgttaaagaaaaatttggcttgctttcttgttagctttttggttattattctttcaaatagatc
            sacCas  accatttattaaagaagaatttggcttgttttctagtaatctttctggaaaccacacgctcgaatagatc
            sacKlu  accacttgttaaagaagaatttggcttgctttctagtaatctttttagaaatgatgcgctcaaacaagtc

     S. cerevisiae  ttccaccttcttcttatcttttgccttcacttcctggtctacgtaaacgttccacaggtcaattctcttt
            sacPar  ttccacctttttcttatcctttgcctttacctcttggtctacataaacgttccataagtcaattctcttt
            sacMik  ttccaccttctttttgtccttggctttgacctcttggtccacataaacattccacaagtcaattctcttt
            sacKud  ttcaaccttctttttgtccttcgttttcacttcttggtccacgtagacattccacaagtcaatccttttt
            sacBay  ttctaccttcttcttgtccttagccttcacttcttggtccacgtaaacattccacaagtcaattctcttt
            sacCas  ttcgaccttcttcttttcatttgccttaatctcttgatctaggtaaacgttccatatgtcaattctctta
            sacKlu  ttcaaccttcttcttttcgcctgcttttgtttcttggtcaatgtagacgttccacaaatcgattcttttc

     S. cerevisiae  ggcgcatcagcaaccaaaccttcgaataatgaccgacccctttctgggtcaccctttgcaaattctaatt
            sacPar  ggtgcatcagcaaccaaaccttcgaataacgagcgacccctttctggatcaccctttgcaaattccaatt
            sacMik  ggtgcatcagcaatcaaaccttcaaataaagagcgaccactttctggatcaccctttgcgaattctaact
            sacKud  ggtgcatcagcaaccaaaccttcaaataatgaacgacctctttctggatcgcccttggcaaattctaatt
            sacBay  ggtgcatctgcaaccaaaccttcaaataatgaacgacctctttctgggtcacccttagcgaattctaatt
            sacCas  ggggcgtctgcaatcaaaccttcaaataatgaacgtccaccttcaggatcaccttttgcaaattctagtt
            sacKlu  ggagcatcggccaataaaccttcaaataaagagcgaccctgttcagcatcaccctttgaaaactctagct

     S. cerevisiae  gagcaaacttgcggacaacctcgatatgattacgctttggtagggccttcaaagcattacctaaaatagt
            sacPar  gagcaaacttacggacaacttcgatatgattacgctttgctagggccttcaaagcattgcccaaaatcgt
            sacMik  gagcaaacttacggacaacttcgatatgactacgttttggtaaggacttcaaagcattagacaaaattgc
            sacKud  gggcaaacttacggacaacttcgatatgactacgttttggtaaagccctcaacgcattaccgagaattgt
            sacBay  gggcaaacttacggacaacttcgatatgactacgttttggtaaagccttcaaagcgctgcccaaaattgt
            sacCas  gagcaaacttcctcacaacttcaatgtggtcacgttttggtaaggctttcaatgcattagataagatccc
            sacKlu  gggcaaactttctaacaacttcgatatggtcacgttttggcaaagccttcaaagcatttcccaaaacagc

     S. cerevisiae  acgtgcctcttgctcttcattgtggctgatcaaaaaatcaccccacgatacccagatagaaactttctcg
            sacPar  acgtgcctcttgctcttcattgtggcttatcaagaaatcaccccaggatacccagatagaaactttttca
            sacMik  acgcgcctcttgctcttcattgttacttatcaagaaatcaccccacgatacccagatagaaactttttcg
            sacKud  acgtgcctcttgctcttcgttgtgagttatcaagaaatcgccccatgatacccagatggtgaccttttca
            sacBay  acgggcttcttgctcttcattgtgacttatcaagaaatcaccccatgatacccagatggaaatcttttca
            sacCas  acgagcttcttgagctttaccatgagatgttaagaagtcaccccaagatacccaaatggacacgttttca
            sacKlu  gtgagcttcatcattctggttccgtgaaatcaagaattcaccccacgaaacccagatagaaactttctgg

     S. cerevisiae  ccgccaaatttcttagctgtagctttgaataattctgctgctttgtcgaacttttcacttatttcataaa
            sacPar  ctaccaaattttttagctgtagctttgaacaactctgcagctttgtcaaacttttcacttatttcataaa
            sacMik  ccaccaaattttttagctgtagccttgaataattctgcggccttgtcaaacttttcactcatttcatata
            sacKud  ctaccgaatttcttggcagtagcgttgaataagtttgcagctttattgaactttccactcatttcataaa
            sacBay  ctaccgaatttcttggccgtagctttgaataattctgcagctttgtctagcttctcacttatttcgtaaa
            sacCas  ctaccgaatttcttggcagtaatcttgaacaattcagcagctttatcaatctttccactcatttgataga
            sacKlu  gaaccaaactttttagcggtagccctatatagttcagcagccctttcaaatttttcgctcaactggtaaa

     S. cerevisiae  taccaagcagttttgtatgaatagtatatgagtccatatactgacaagccct
            sacPar  taccaagtagttttgtatgaataatataagagtccatatactgacaagctct
            sacMik  taccaagtagttttgtatgaatagtataagagtccatatattgacaagctct
            sacKud  taccaagtaactttgtgtgaatagtgtaagagtccatatattgacaagcctt
            sacBay  tgccaagcaattttgtatgaatggcataagagtccatatattgacaagctct
            sacCas  tacttagtaatcggttatgcatcgtaaaggaatccatgtattgacatgccct
            sacKlu  tactgatcaacttgttatgcatcgtaaaggagtccatgtactgacaagacct

Alignment block 17 of 21 in window, 726510 - 726534, 25 bps 
B D  S. cerevisiae  gctaaacacttcttctaaagtttct
            sacPar  gctaaacacatcttctaaagtttct
            sacKud  cataaagacgtcttctaaggtttct
            sacBay  tttaaagacgtcttctagagtttct
            sacCas  cttaaagacatcctccaaagtttca
            sacKlu  cttgaaagcatcatctaaggtttct

Alignment block 18 of 21 in window, 726535 - 727263, 729 bps 
B D  S. cerevisiae  tcggtaccaaaagtattttctaaattcagcattgcaatccaaatattcaacttctcggcttcttctctga
            sacPar  tcggtaccaaaagtattttccaaattcagcatcgcaatccaaatattcaacttctcggcttcttctctga
            sacMik  tcagtaccaaaagtattctctaaatttagcattgcaatccaaatattcaacttctcggcttcttctctga
            sacKud  tcagtaccgaacgtattctccaaattcagcattgcgatccaaatattcaacttctcggcttcttctctaa
            sacBay  tcagtaccaaaagtgttttccaaatttagcattgcaatccaaatattcatcttttcggcttcttctctga
            sacCas  tcacttccaaaagtattttccaaatttaacattgccatccaaatattttgtttctcagattcctctctaa
            sacKlu  tcggtaccaaaagtattctctaaattcagcatggcaatccagatattcaatttttccagttcatccctaa

     S. cerevisiae  agttgatggtctttagcgcacgttctgcgagctctcgagccttctcgatctcactcagttgtagttggaa
            sacPar  agttgatgatcttcaatgcacgttctgcgagttctcgtgccttctcaatttcactcagttgcaattgaaa
            sacMik  agttgatagtctttaatgcacgttctgcgagctctcgtgctttgtcgatctcacttagttgcaactggaa
            sacKud  agttgatagttttcaatgcacgtcctgcgagttctcgcgctttctcaatttcacttagttgcaattgaaa
            sacBay  agttgatagtcttcaacgcacgttcggcaagttctcgtgctttctcgatttcgcttaactgcaattggaa
            sacCas  agttaatagtcttcaacgcacgttctgctagttcacgagccttttcaatttcactcaactgcaattggaa
            sacKlu  agctgatggtctttaaggcacgttccgcaatttcacgagctttgtccacttcacttaattgcaactggaa

     S. cerevisiae  agccatatagttcatccacactacggacgaatttggattaccgataagtagacgttcaaaatcggcaaca
            sacPar  agccatatagttcatccacactaccgaagagtttggattaccgatgagtagacgttcaaagtctgcaaca
            sacMik  agccatatagttcatccacatgacggaagaatttggattaccaataattaaacgttcaaaatctgcaacc
            sacKud  agccatatagttcatccatatgacggaagaatttggatttccgatgatcaaacgttcaaaatctgcaaca
            sacBay  agccatgtagttcatccatatgacagaagagtttggattaccaatgattaaacgttcgaaatctgcaaca
            sacCas  tgccatatagttcatccagataacagaagaatttggattaccaataattaatctttcaaaatcagcaaca
            sacKlu  agccatatagttcatccagacaacggaagagttggggttacccatgattaggcgctcaaaatcactaaca

     S. cerevisiae  gattctggtgccctagtgttgatatcaatggtcttatcctgaacaacatt--ttcctttcttctct-tgt
            sacPar  gattcgggtgccctagtgttgatatcaatggtcttatcctgaacaacttt--ttcctttcttctct-tgt
            sacMik  gattcaggtgccctagtgttaatatcgatggtcttgtcctgaataatttt--ttcctttcttctct-tgt
            sacKud  gattcaggtgccctagtattgatatcaatagtcttatcctggacaatcct--ttcctttcttctct-tgt
            sacBay  gattctggtgctctggtgttgatatcaatagtcttgtcctgcacaatctt--ttcctttcttctct-tgt
            sacCas  gattcaggagctcttgtgttaatatcaatggttttgtcttcaacaatagt--ttgctttctcttct-tat
            sacKlu  gattcaggtgccctagtattgatgtcgatggttttgtcctcaactgcgttggttcttcccttctttctat

     S. cerevisiae  gcttgtgtttcttattttcagtaaagtcttcttgatcttggtcagactcttcttcttcttgcgcttgatc
            sacPar  gtttgtgctttctgttttcagtaaaatcttcttgatcttcttcagactcttcttctt---gtgcttgatc
            sacMik  gcttgtgccttctgttttcagtaaaatcttcttgatcttcctcagactcttcttcatcttgcgcttgatc
            sacKud  gtttgtgcttcttgccttgagtaaaatcttcttggtcttcctcagactcttcctcttcttgtgcttggtc
            sacBay  gcttatgtttcttgttttcagtgaagtcttcgagatcttcttcagactcttcatcttcttgtgcttggtc
            sacCas  gtctgtttctcttagtttcggtgaaatcctc---atcttcttctgaactctcttcagcttgtgcttgatc
            sacKlu  ttctggattttttggtgtttgcaaagtcttc---atcttcagacgactcttcgtcttcttgagcctgatc

     S. cerevisiae  caaaatggaagcagtccaatcaaaaccagcactcaaggatagcccatccgaagatgtttcaggcttcct-
            sacPar  caaaatggatgcagtccaatcaaatccagcactcaaggacaacccatccgaggatatttcagtcttctt-
            sacMik  caaaatggaagcagtccaatcaaatccggcacttaaagatagcccatctgaagatattccggtttttct-
            sacKud  caaaatggaagcagtccaatcaaacccagcactcaaagataacccatctggggatatttcagccttttt-
            sacBay  caaaatggaggcagtccaatcgaagccagcacttaaggataacccatctgatgatattttagcctcttt-
            sacCas  caaaatagaggcagtccagtcgaaaccagtactcaatgataaaccatcagtagatatttttggttttga-
            sacKlu  caaaatgctggcagtccaatcgaaccctgtgcttaagcttagcccatcgttagtcactggaaccttgcta

     S. cerevisiae  -atcggcaacttcggtgttttggtctccgatatcagattcgctgtcgga------atcgttgaagccagc
            sacPar  -atcggtaactacggcattttggtccccgatatcagattcgttgtcgga------atcgttaaaatcagc
            sacMik  -ttcggtcatttcgacgttttcgtccttagcatcagactcgttgtcgga------atctttgaagtcaac
            sacKud  -atctgtcgttttgaggcttccgtcttcagcgtcagactcattgtcgga------gtcgttgaagtcaac
            sacBay  -atcagtagctttatcattatggtcctcggcatcagattcgttgtcaga------atcattgaagcctac
            sacCas  -aacagt--ttctagtatt----tcctcagtttcgttctcattatcagatggagcattattataatccac
            sacKlu  gattggc-----tagtagcttctttctctggttcggcttctaactcgga------ttcgttttcgtagtc

     S. cerevisiae  atctgccatgacttcatcttcatcctc---------------cttttccagtt---gatccacagtagta
            sacPar  atcagccatgacctcatcctcatcctcat---------cctccttttctggtt---ggcct---------
            sacMik  atcagccataacctcatcttcatcctc---------------attttccgatt---gcccc---------
            sacKud  gtcagccatgacctcatcttcatctcc---------------attttccgttt---ggccc---------
            sacBay  gtcagccatgacttcatcttcatcttc---------------cttttcggctt---cgtct---------
            sacCas  agcttccatgatctcatcaccatcggcgt---------caactgtttcctttt------ct---------
            sacKlu  aacagctataatttcatcttcttcgctctcgttttcagctacgtcttccatttcaacatct---------

     S. cerevisiae  gtggtggtggtagtagaagccaattcggcttctttagagaaatgagacgctttcaagctcaatgaaattt
            sacPar  ------gtagtagtggaaggcaattcggcttctttagagaaatgagacgccttcaagctcaaggaaattt
            sacMik  ------acagcattggaaagtaattcagcatccttagagaaatgtgatgccttcaagcttaaggatattt
            sacKud  ------gcagtagtggaagacaattcagtctctttggaaaaatgagaggcctttaagctcagagaaattt
            sacBay  ------gtagcagtggttgacgattcagcttgtttagagaaatgggatgcttttaagcttaaagagattt
            sacCas  ------tcaaccttgg------actcatttgtgttaccgaatctggatgctttcaaacttaaggataatt
            sacKlu  ------tcaacctcttgatttttctcgacttccttcttaaagtaagaggcctttagacctagggagactt

     S. cerevisiae  gttttttttctggatttgttttcaaaacaatagcttttactctgtccccaacaccaaacaaggcagaa-a
            sacPar  gctttttttccagatttgtttttaagacaatggcttttactctgtcaccaacaccaaatagggcagaa-a
            sacMik  gctttttttctagatttgttttcagaataatggcttttactctgtcacctacaccaaataaggaagaa-a
            sacKud  gttttttttctggatttgttttcaaaacaatagcttttaccctgtcacctacgccaaatagggtagaa-a
            sacBay  gtttcttttctggatttgtcttcaaaataatggcttttaccctgtcacctacaccaaatagggcagaaga
            sacCas  gtttcttttctggattaaccttcaaaacatatgctttcactctatccccaacaccaaataatgaagcc-a
            sacKlu  gtttcttttctgggtttgtttttaaaacaatagcctttactttatcaccttcaccgaacaaggcgctc-a

     S. cerevisiae  gatcttcaggttttttgtccgcaatttcagtaatatgtgccaaaccagtaacattaaca
            sacPar  gatcttcaggttttttgtctgcgatttcagtaatgtgagccaaacccgtaacattaact
            sacMik  gatcttcaggttttttgtcagcgatttcagtaatgtgtgctaaccctgtaacattaact
            sacKud  gatcttcgggctttttgtctgcgatttcagtgatatgtgccaacccagtagcattaact
            sacBay  gatcttcaggctttttgtccgcaatttcagaaatgtgtgccaaaccggtagcattaacc
            sacCas  aatcttcaggcttctggtcagcaatttcagaattatgtgctagaccagttacattgact
            sacKlu  ggtcatcaacttgactatcagcgatttgagagcgatgtgctaaaccggtaacattcaaa

Alignment block 19 of 21 in window, 727264 - 727823, 560 bps 
B D  S. cerevisiae  gtgttatctagtttgac-gaaaacaccaaaatcagtgacgcttttaattgtaccctcgaaaacatcacca
            sacPar  gtgttatctagtttgac-aaaaacaccaaaatcagtgacgttttttacagtaccatcgaaaacatcacca
            sacMik  gtattatcaagttttac-aaaaacaccaaaatcagtgacgttttttacggtaccatcgaaaatatcacca
            sacKud  gtgctatccaatttgac-aaagacaccgaaatcggtgacattctttacagtaccatcgaaaatatcacca
            sacBay  gtgttatccagtttgacaaaaaacaccaaaatcggtgacgttctttacagtaccatcaaaaatatcaccg
            sacCas  gtgttatcaagtttaac-aaagacaccgaaatccgttacattcttaaccgaaccgttatatatttcatta
            sacKlu  gtattgtttaatttaac-aaacacaccaaagtcagtaacgttggtaatataaccctcgaaaatctcacca

     S. cerevisiae  gccttaatgtctgaataggtctttagaacctttaaatcaccatttatttcggattctcttagggttagag
            sacPar  gctttgatatccgaataggccttcaaaaccttcaaatcgccatttatttcggactctctaagggtcagag
            sacMik  ctcttgatatccgaatatgtttttagaactttcagatcaccatttacttcagattctctgagggtcaaag
            sacKud  gctttaatatccgaatagctctttaacatcttcaaatcaccatttacttcggactctcttagagtcagag
            sacBay  gccttcatatcagaatagttctttaaaatcttcaagtcgccgtttacttcggattctctcaaagttagag
            sacCas  accttaatatcatcgtaattctttaggattttcaaatcaccattcacttcagattctctaagagttaata
            sacKlu  gcctgaatatttgaatagccttttaagatatttagatcaccgttaacttcggattctttcagagtcaaca

     S. cerevisiae  aaatacgagaatcttcatcgcatgtaacgacttttcccaaaacgtattgcataggcttgtaaaacttctt
            sacPar  aaatacgggaatcttcatcgcaagtgacaaccttgcccagaacgtactgcattggcctgtaaaacttttt
            sacMik  aaatacgagaatcttcatcgcaggtaacaacttttcccacaacatgttgcataggtttgtagaatttctt
            sacKud  aaatacgagaatcttcactacaagtgacaactttacctacgacgtattgcattggtttgtaaaatttctt
            sacBay  aaatacgagaatcttcatcgcaagtaaccactttgcctacaacgtattgcattggtttgtaaaatttctt
            sacCas  gaatacgagaatcttcttcagcgttcaccaccttaccaataacgtactgcattggcttaaaaaatttctt
            sacKlu  gaatacgagattcttcctcgcagttaacaaccttaccagtcactggttgcattggcttataaaacttctt

     S. cerevisiae  ccattccttcaagtaagaatcagatagtttactaacagggacaaaggcttcaactttcctactcaagtaa
            sacPar  ccactccttcaaataagaatcagatagtttactaacagggacaaaggcttcaactttcctactcaagtaa
            sacMik  ccactctttcaaataagagtcagaaagtttactaacaggaacaaaagcttcgactttcctactcaagtag
            sacKud  ccactccttcaagtaagaatcagatagcttactaacaggaacaaaagcctccatcttcttgcttaaataa
            sacBay  ccactccttcaagtaagagtcagacagcttactaactggaacgaaagcttcaactttcttactcaaataa
            sacCas  ccaatccttcaaataagtatcggatagcttacttacgggaacaaatgcatttattgagcgacttaagtaa
            sacKlu  ccagtccttgataaatgagtcagtcagtttactaactggaacaaaggcttgaacagaagtgctcaagtat

     S. cerevisiae  acaaaaatacctttgtcattcacattcttaacaataccatctacaatctcgccttgcttcaaatcttcat
            sacPar  acaaaaatacctttgtcattcacactcttaataataccatctacaatatcgccttgtttcaaatcttcat
            sacMik  acaaaaatacctttgtcattcacattcttaacaataccatctacaatatcgccttgcttcaaattatcat
            sacKud  acaaagatacctttgtcactcacattattgataataccatctacgatatcaccttgtttcaagtcttcgt
            sacBay  acaaaaatacccttgtcattcacgtttttaataataccatctacgatatcaccctgtttcaaatctttat
            sacCas  acaaagatacccttatccgatatgcttttaaccaggccatgaacaacatccccttgcgatatatcagtgt
            sacKlu  acgaaaatacccttatcagagacagctttaatgaagccacgaacaacgtcccccctagataagtctttgt

     S. cerevisiae  gagatttgatcgaacgagtttttgcagtagcaggacgaagggatagttcaattttcttattctgttcatc
            sacPar  gagatttaatcgaacgagtttttgcagcagcagaacgaagggatagttctattttcttattttctgcatc
            sacMik  gagattcgatcgaacgtgttttagcattggcagaacgcaaagataattcaattttcttattttctgcatc
            sacKud  gagatttgatcgaacgagatttagaatcaacagaacgcagggataactcaattttcttgttctcaacatc
            sacBay  gggacccgatggaacgagatttaggagtggcagtacgtaaagataactcaattttcttgttctccgcatc
            sacCas  gtgaagaaatagatggggtctttgcagactctgtcctcaaagaaagattaacctttttgttttcagcatc
            sacKlu  aagacttaatttcacggtcctttggcttggtagaacgcaaagataacttgacctttttatctttaaggtc

     S. cerevisiae  aacagataaaacggtagttggaatgacgttgttaattttgtcttcaaaagcttccttcaatgttagggag
            sacPar  aactgccagaacagtagttggaataacattgttgattttgtctccaaaaccttccttcaatgataaggag
            sacMik  aactgccaagacggtagttggaataacattgtttaacttgtcttggaaagcttccttcaatgatacagag
            sacKud  aaccgccaaaactgtagttggaatgacattgttgatcttgtcttggaaagcctcatttaatgacaccgag
            sacBay  aactgccaaaacagtagttggaataacattgttaatcttatcatcaaaagtttcatttaaggatacagaa
            sacCas  aattgacacaatcttggctgaaacaatatcgttctccattcccttatacgcttctttcaatgggacagaa
            sacKlu  gacgctgattacagttgccggaacaattgagtttttcctgttttcgaaagcagtcttcaaagataccgaa

     S. cerevisiae  aaatcatttaacgcatccgtaataaaggaaataccagtcactttgttaccaaggtctaacaaaacatact
            sacPar  aagtcatttagcgcatccgtaatgaaggaaatacctgtcaccttgttaccaagatctaataaaacatatt
            sacMik  aagtcatttagggcgtcagtaatgaaggagataccagtcaccttgttgccaaggtctaatagaacgtatt
            sacKud  aagtcgtttaatgcatcagtgatgaaggagataccagtcaccttgttaccaaggtctaatagaacatatt
            sacBay  aagtcatttaacgcatcagtgatgaaagagataccagtaaccttattaccgaggtccaataaaacatact
            sacCas  aaatcatccagtgcatcagtaataaatgctataccatgaattttattaccgagatccaataatacataac
            sacKlu  taatcatctaaggcttctgtgacgaaagaaatacccttcaagtcattgcccaggtcgagtaacaggtaac

     S. cerevisiae  t
            sacPar  t
            sacMik  t
            sacKud  t
            sacBay  t
            sacCas  t
            sacKlu  t

Alignment block 20 of 21 in window, 727824 - 730537, 2714 bps 
B D  S. cerevisiae  ttcagctatttttagaacacgacctggcaattcatcaccaactttaattgtggacatatttatgtcaaca
            sacPar  ttcagctattttcaaaacacgacccgggaattcatcgccaactttgattgtggtcatatttatgtcaaca
            sacMik  ttcagctattctcaaaacgcggcctggtaattcatcaccagcctttatcgtgagcatattcacatcaaca
            sacKud  ttcagctattttcaagacacgacccggcaattcatcaccaacctttattgtagaaatatcaacatctaca
            sacBay  ttcagctatttttaagatacgacctggtaattcatcgccaaccttaattgtagacatatcaacatcaacg
            sacCas  atctgcaattttgataatacgacttgggacattatcgccaacctttaagctttcgaaagaaatctcagta
            sacKlu  gtcggcaatcataataatacgagcaggtaatttgtcaccaaccttgacgtcagtaatgtctttgatagaa

     S. cerevisiae  tgactctttccaatggcattgacaaagccatgctcgcggtcaatagaggcaactttcacttggagggctg
            sacPar  tgggcttttccaatggcgttgacaaagccatgctcgcgatcaatagaagcaacctttacttgaagggctg
            sacMik  tgagcttttccaatggcattgataaagccatgttcgcggtcaactgaagaaaccttcacttgaagagctg
            sacKud  tgagcttttccaatagcattgacaaagccatgttcgcgatcaatagaagcaaccttcacttggagagctg
            sacBay  tgagcttttccaatgacattgacgaaaccatgctcttggtcaatagaggcaacctttacttggatagctg
            sacCas  tgcgacctaccggtaacattaacaacaccatgctcagtatcaatagatgttactttaactggtagagcac
            sacKlu  tgaaacctgcctgttacagaaacaacattgtgttctgtatcgatgtcaactgctttcaccttcaacgcag

     S. cerevisiae  aacctaatgggaaaacagattcaatattttctgaaaaatttgaatcgttatcagctaaatctagtagaga
            sacPar  aacctaatgggaaaacggattcaatagtttctgataagttgacattgttatcagctagatctagtaggga
            sacMik  agcctaatggaaaactggattcaatattttctgagaaacttataccattatcggctagatctaatagaga
            sacKud  aacctaatgggaaaacggattcaatattttcagagaagttgacatcattttcagctaaatctaaaagaga
            sacBay  agcctaatgggaaaacagattcaatattatctgaaaagtctttatcattctctgccaaatctaacaaaga
            sacCas  agcctagaggaaagttgtcctcaaccttttcagatgattttaaaccatcttcagccaaatcaaataacga
            sacKlu  agcctagtgggaaactttccggaatatcagaggcaaacgtagatccatcgtcagacaaattgatgttgga

     S. cerevisiae  aattctcgccttcaaaactggagaaattgttagccataggtggttacctgatgaattgttgacaaagcca
            sacPar  aatcctagccttcaaaactggagaaattgtcaaccataagtggttacctgatgaattgttgacgaaacca
            sacMik  aatcctcgcttttaaaactggggaaattgttaaccatagatgatttcctgatgagttgttgacaaagcca
            sacKud  aattctcgccttcaaaactggagaaattgttaaccagagatggttggccgacgagttgttgacaaaaccg
            sacBay  gattctagccttcaagactggggaaatggttaaccatagatggtttcctgatgaattattgacaaaaccg
            sacCas  tattttagcctttagtgtgggagagacagttaaccaaagagtgttagaaccataattatttacgaaaccg
            sacKlu  aattttagcctttaaaacgggagatagggttaaccacaggaagccctttgagaaattgttaacaaaccca

     S. cerevisiae  gttaactcttgcccaatgttgatttcctcaagactttttgtgtgcacttccttagattttaattctgatg
            sacPar  gttaagtcttccccaatattgatctcctcaagagttttggtgtgcacttccttggattttaattctgatg
            sacMik  gttaattcttcgccgatattgattccttcaagggttttagtatgcacttccttagatgttaattctgatg
            sacKud  gttaattcttcacaaacttcaactttctcaagagtttttgtgtgaacatccttagatctcaattcagatg
            sacBay  gtcagttcttcaccaatggtaatttcttttaggttcttagtgtgtacatcctttgctttcaattctgaag
            sacCas  gttaattcatccccaacggcaacgtctgaaatggagagtgttttaatatctttgcttctcatttgagatg
            sacKlu  acaagctcatcattctctttgacattcttgatggttaaagaagattcattttcttcagttagcttagatg

     S. cerevisiae  gtttcatggataattccaaaacgctagcctttgagattttg-tgtgtaatcggcaagaacttatggctct
            sacPar  gttttatggataattccaaaatgctagcctttgagattctg-tgtgtaatcggcaaaaacttatggctct
            sacMik  gtttcattgataattccaaaatgctggctttcgaaattcta-tgtgtaattggcaaaaatttatggctcc
            sacKud  gtttcatggataattccaaaatgctggcctttgagattttg-tgagttattggcagaaatttatggcttt
            sacBay  gtttcatggataattctaagatgctagcctttgaaattctg-tgagtgattggtaagaatttatggctct
            sacCas  gtttcaatgatagttctagaaca-gagcctttaacagcatgatgagaaattggtaagaatctgtgactct
            sacKlu  gcttagcagttagctccaaaatggtgtttttagaagctcta-tgagaaattggcaaaaacctatgtgttt

     S. cerevisiae  tgacatcgtgattacctatgatttttaccttgatgacatcgtcttttttgtaattactcaacggctgttt
            sacPar  tgacatcgtggttacctatgattttaacttcaataatgtcgtctttcttgtaattactcagaggttgttt
            sacMik  taacatcgtggttacctatgatttttacgtgaataatatcgtctttcttgtaatgactcaaaggttgctt
            sacKud  taacatcgtggttacctatgattttcacctggataacatcatccttcttgtaatgactcaaaggttgttt
            sacBay  taacatcgtggttaccaatgattttcacttgaataacgtcatccttcttgtagtgacttaaaggctgttt
            sacCas  ttatgtcatgagttccaataatttttgcatctatgatatttccttttttaaagtctattagaggatgtgt
            sacKlu  taatgtcatggtagccaataaccttaacttcaatgacgtctccctttttgtagcatgatagtggagcctt

     S. cerevisiae  cttatctgtaatttcttcatacgtgtcaaacacttcagcaatgtccactctgccatgcaaatttgccgct
            sacPar  cttatccttaatttcttcatacgtgtcaaacacttcagcaatgtcaactctaccgtgcaagtttgaagct
            sacMik  cttatccttgatttcttcatacgtgtcaaatacttcagcaatatcaactctaccgtgcaagtttgccgct
            sacKud  tttatctttaatttcttcatatgtatcaaatacttcagcaatgtcaactcttccgtgcaggtttgcagct
            sacBay  tttatccttaatgtcttcatatctgtcaaacacttcagcgatgtcgactctaccgtgcaagtttgcagcc
            sacCas  ggcgtttttaatatcagaaaatgaatcaaaaacttctgcaatatcaattctaccatgtaaattatctgca
            sacKlu  ggtatccttaatattttcaaacttatcaaaaatttcagagacatccacacggccatgcaggttatcagcc

     S. cerevisiae  aaaataacattcaattgatttttcttgacgctcttgatttttgctttaacaatactaccaatagacaaat
            sacPar  aaaatgacattcaattggttcttcttgacactcttgattttcgctctaacgatactaccaatagacaagt
            sacMik  aaaatgacgttaagttggttttttttaacgctcttaatctttgctttgacgatactaccaatagataagt
            sacKud  aaaatgacgttcaattgattctttttgacactcttgatttttgctttaacaatactaccaatggataggt
            sacBay  aagatgacgttcagttgattctttttgacgcttttgattttggctttcacaacactaccgatggacaagt
            sacCas  agaacaacgttcaattggtttttctttatacccttaatttggaccttaacgacttttcctgtagtgaaat
            sacKlu  aacaaaacatttagctgatttttcttaacagctttaatcttggctttggtaaccttcccgacgacgtatt

     S. cerevisiae  cgtcccagcttttgatagacgaatcaacaggatcttcgatat---tagattcaactttcttcttc---tc
            sacPar  catcccagcttttgatcgatggatcaatagcatcttcgatat---tagattcaactttctttttc---tc
            sacMik  catcccagcttttgatagatgagtcgatgggattttcgatag---cagattcaacttctttcttc---tc
            sacKud  catcccaacttttgatggatgaatcaattggatcttcgatgt---cggactcaacctgtttcttt---tc
            sacBay  catcccaacttttgatagatgaatcaattggattttcaattt---tagattcatcttgtttcttt---tc
            sacCas  ctttcaaatctttcatagctgggtcaattggtttcaaggttt---cagtaccagttaccttagatgaatc
            sacKlu  ccgacaattctttgacggactcgtctattgggttaacggcattaacagaaccattgtcttgtctc---tt

     S. cerevisiae  ttctttgacctttggagcttttagagataataggaatttctggtttttgtcgtctgttcttaataaatag
            sacPar  ttctttgacctttggagctttcaaagataataagaatttctggttttgatcgtctattctcaataaatag
            sacMik  ttctttgactttcggagcttttaacgacaataaaaatttttggttttggtcgtctgttcttaataaatag
            sacKud  ttccttgaccttgggagctttcaatgataataagaatttctggttttggtcgtccgttcttagcaaatag
            sacBay  ttccttgaccttaggggcttttagcgataataagaatttctgattttggtcatctgttcttagcaaatac
            sacCas  atccttagttgaaggtgttctcaatgtaagtagaaatctttcattatcatcgtcagatctaagcaagtat
            sacKlu  ttcagccactttaggctccttcaaagtcagcaaaaatctttcattttcatcatcggttcttagcaaataa

     S. cerevisiae  acggtaacggattggttaatataaaacgccttgctgatatcaatatccctactatcaacagcgtaacttg
            sacPar  acagtaacagactggttaatataaaaagtcttactaatatcaatatccctactatcaacagcgtaacttg
            sacMik  acggtaacagactggttaatatagaatgttttaccaatatcaatatccctactatcaacagcataacttg
            sacKud  acggtaacagattggttgatataaaatgtcttactaatatcgatatctctactatcaactgcgtaacttg
            sacBay  acagtaacggattggttgacatagaatgtcttactgatatcgatatctctactatcaacggcatagcttg
            sacCas  gcagtaaccgattggttgatatagaaagttttagaaatgtcgacatctctgctctcgacggcataacttg
            sacKlu  gcagtaatagactgattaatgtgaaatttctttaaaatatcaacatccctgctttctacagcataacttg

     S. cerevisiae  gtaaaaccaacccaatgaacttaccgttaaatgcaacaaagagacccttatcagaaatggatttaatgta
            sacPar  gtaaaaccaacccgatgaacttaccgttaaaggcaacaaaaagacctttatcagaaatggatttaatgta
            sacMik  gtaagatcaacccgatgaacttaccattgaatgcaacgaagaggcctttctcggaaatagattttatgta
            sacKud  gtaaaactaagccgatgaacttaccgttgaatgcgacgaatagacctttattagatatggattttatgta
            sacBay  gtaaaactaaaccaatgaacttaccgttaaatgcaacgaataaacctttgtcagaaatggacttaatgta
            sacCas  gaagcactaaacccacaaacttaccattaaatgcaacaaatagacccttgttggaaatagatttaatata
            sacKlu  gaagaaccaaaccgacgaatctaccgctgaaggcaacaaagatacccttgtcagagaaagacttcacata

     S. cerevisiae  agcgtgcattggtacatctttatttagatccttaacatcatcatatgttaatggaagagtctccttttta
            sacPar  agcgtgcattggaacatctttttttttatccttaacgtcatcatacgttaatggaagagtttctttttta
            sacMik  agcgtgcattggagcatcttttcttatatctttgacgtcatcatacgttaatgggagacttccttttcta
            sacKud  agcatgcattggaacatctttcttcatatttttgatgccgtcataagtcaatggaagaatttctttttta
            sacBay  ggcatgcattggagcatctttttttatgtctttaacgtcatcgtaagttaatggaagaatttcttttttg
            sacCas  accatgtaaaggagtagttttcgacttggattttatgtccgcataagtaagaggggaaacttcattttta
            sacKlu  accatgcattgggaaactgtttcctttagctttcacttcatcataagataatggcaaaagcccgttttgg

     S. cerevisiae  gcgtctttaatcagagaacttttgagggacatattgaaaacgcgggttcttgtatctttatcaattacca
            sacPar  gcgtctttaattaaagaacttttaagggtcatattgaagacgcgggttcttgtatctttgtcgattacta
            sacMik  gcatcctttattagagaacttttaagggtcaaattgaaaacacgagttcttgtatctttgtcaattacca
            sacKud  gcgtccttgattaaagaattcttcatagtcatattgaacacccgagttctcgtatccttgtcaattatca
            sacBay  gcgtctttgatcaaagagctttttagagtcatgttgaacacacgggttcttgtatccttgtcgattacta
            sacCas  gcatccttaatcagtgattgttttaaggaaaggttgaacacttgcgttctagcatctttgtcgattacta
            sacKlu  gcatctttaatcaatgatttcttacaagatagattgaagacacgagttctaatatctttgtcaatgacta

     S. cerevisiae  aaccagtcagttcagtgccgattctgagctttttcaactgagccctattttgttcaattctggaatcaga
            sacPar  aaccagtcagttcggtaccaattctgagctttttcaattgagccctattttgttcaattctggcatcaga
            sacMik  aaccggtcagctctgtaccaatcctgatcttcttcaactgagccctattctgttcaactctggaatcgga
            sacKud  atcccattaattcggtaccaatcttgatcttcttcaattgagctctattttgttcaattctggcatcaga
            sacBay  aaccctttagctcagcaccaattctgatctttttcaattgagccctattttgttcaattctggcatcaga
            sacCas  acccctttagttcagatccaatggcaatttttttaatggctgctctattttgttcaattcttgcatcaga
            sacKlu  atccttccagttctgtaccaacccttaatttttttaactgagccctattctgttcgattctagagtctga

     S. cerevisiae  gagatgaccaacgtagatgacaccacgcaagccaacatcaggaatttcaacaataacagaatctttggtt
            sacPar  aatatggccagcgtagatgacaccacgtaagccaacatctgggatttcaacgataacagaatctttggtc
            sacMik  aagatggccaacatagacaacaccacgcaagccaacattcgggatttcaacgatgacagaatctttggtc
            sacKud  aagatggcctacgtagatgacaccgcgtaggccgacatctgcaatttcaacaacaacagaatctttagtc
            sacBay  aagatggccaacgtaaataacaccacgtaggcctacatctgggatttcaaccactatagattctttagtc
            sacCas  caaatggcctacatagataacaccacgtaaactagtttcagggagctcaacaataaccgagtcctttgtc
            sacKlu  taaatgaccgacgtagatgacaccgcgtaagccgacgtcaactaattcaataacggcggaatctttagtt

     S. cerevisiae  ttttcgataacatggacagtaatgattgttctgcctggaacaatattttcaatggtatctttttgttggg
            sacPar  ttttcgataacgtcgacagtaataattgttctacctggaataattttttcaatagtatctttttgttgag
            sacMik  ttttcgataacatcaacagtaattattgttctacctggaatgatattttcaatggtatccttttgttgag
            sacKud  ttttcaatgacattgacactgataagtgttctaccaggaacaatattttcgatggtatccttttgctgag
            sacBay  ttttcaattacattgacagtaacagttgttctaccaggaacaatgttctcaatcgtatctttttgttgag
            sacCas  ttttcaacaacattaaccttcaccatagacctaccaggaattaatttttcaatagtttctttcttctttt
            sacKlu  tttccaaccactgtcacggtgacgatagaccttccgataaccatgttttcaatggcatctttttgttgag

     S. cerevisiae  cagcctgttcatttgaaactttgcatgtggcaataattctcctcctgtcagcatcgacgtcaagaagttt
            sacPar  tagcttgctcatttgaaactttgcatgtggcaataattctcctcctgtcagcatcaacgtcaagaagttt
            sacMik  tagcttgttcatttgaaactttgcatgtggcaatgattcttctcctgtcagcatcaacatcaagcagttt
            sacKud  tggcttgctcgtttgaaactttgcaggtagcaatgattcttctcctatcagcatcgacgtcaagaagctt
            sacBay  cagcttgttcatttgaaactttgcatgtcgcaatgattcttcttctatcagcatcgacgtcaagaagctt
            sacCas  cagcttggtcatttgaaattttacaagtcactaacattcttgcattttcttggtcgatcttaagtagctt
            sacKlu  ctgccgcatcgctagagactttgcaggtgataattactctattcttttcttcatcgtgctgtaaaacctt

     S. cerevisiae  tactattactgtttgaccgagtcttaaatgttcttctggtctcttcacaaagacttctgagatctcagaa
            sacPar  tactactaccgtttgaccaagtcttagatgttcctctggcctcttcacgaagacttctgaaatttcagaa
            sacMik  tagtactactgtttgaccgagtcttagatgttcttctggttttttcacaaaaacttctgaaatctcagaa
            sacKud  tactactactgtttgacccagtcttagatgttcttctggcttcttcacaaagacttctgaaatctcagaa
            sacBay  tactactactgtttgaccaagtcttaaatgctcttcgggtttcttcacgaaaacctctgaaatttcagaa
            sacCas  aacgacaattgtctgtcctaacctcaaatgttcctctggcttcctaacaaagacttcagaaatttcagca
            sacKlu  aaccataacggtttgccctagtcttaaatggtcttgaggtcttttaacaaaagcttcagaaatttcacca

     S. cerevisiae  ttaggtaaaaatcccgataaaccaccaaaaaaggaaatgatgcaaccatttggtttgaaaacttgaatag
            sacPar  ttgggcaagaatcccgataaaccaccaaaaaaggaaatgatacaaccgtttgccttgaaaacttgaacag
            sacMik  ttaggcaagaaccccgataacccaccaaaaaaggacacaatgcaaccattcggtttgaaaacttgtacag
            sacKud  ttgggtaagaagcccgatagaccaccgaaaaaagaaacaacacaaccatttggtttgaaaacttgaactg
            sacBay  ttgggcaagaaacctgataaaccaccgaaaaaggaaagaatacaaccatttggcttgaaaacttgaactg
            sacCas  tttggtaaaaaggcagtcataccaccaaaaaatgcaacaatacaaccagatggtctgaatgctgtcacgg
            sacKlu  tttggtaaaaacccctttaggttacctaagaaagacacaacacaaccgtttgtcttgaagaattccactg

     S. cerevisiae  ttgctaaagtcttttcatttttttctttgatatttttggcgttttcataagtggaaaccagtggtaattc
            sacPar  ttgctaaagttttttcgtttttttctttgatattttttgcgttttcataagtggaaactaatggtaattc
            sacMik  ttgctaaagttttctcatttttttctttgatatcatttgcgcctgcataagtggaaaccaagggtaattc
            sacKud  ttgctaaagttttttcattcttctctttgatttctctggcatcttcataactggtaactagtggtgattc
            sacBay  ttgctaaagtcttttcattctttgctttaatatctttagcaatttcgtaagtggaaactagtggtgattc
            sacCas  tagcaacggtcttttgatttttttcttgaatttccttagcaattgcgaagtttgacaataattggatatc
            sacKlu  ttgcagacgttttttcgtcattatcagcaagtttttcaatctgcttaaagttagagactagcttaatttc

     S. cerevisiae  gttgtcttcaatattaactaatgattttttcaaagtgacatgcacattacctcttgaattaactgatata
            sacPar  gttgtcttctatgttgactaatgatttttttaaagtgacatgcacattacctcttgaattgactgatata
            sacMik  gttgtcttctatattaactagagattttttcaaagtgatatgcacgttacctcttgaattgactgatata
            sacKud  gtcatcttcgatgttaactagtgattttttcaaagtgatatgcacattaccccttggattaactgataaa
            sacBay  gtcgtcctcgatattaaccagtgattttttcaatgtcatgtacacattacctctagcattgactgatagt
            sacCas  atcatcctctatattgaccaatgttttctttagtgttacataaatcaaccctctattgttaatattcaat
            sacKlu  gtcttcatccaaattaaccaaagactttttcaaagtcactgtaaccctgcctctattgtcgacgttcaaa

     S. cerevisiae  actctacctttaaccttagaacctatcttgaacttcctttctggataaactagcctggtatctgaaatgt
            sacPar  actctacctttaactttagaacctatcttgaattttctttctggataaactagtctagtatctgagatat
            sacMik  accctacctttaaccttagaacctattttgaattttctttctggatatactagtctagtatctgagatat
            sacKud  attctacctttgaccttagaacctatcttgaactttctttctggataaacaagcctggtgtctgagatat
            sacBay  actctacctttaaccttggagcctatcttaaattttctttctggataaacaagtctagtatcagagatat
            sacCas  actctaccttttactttggaaccgattttaaactttctttctggataaactaaacgggtatcggatatgt
            sacKlu  actctgcccttaaccttggaaccaatcttaaactttctttctgggtaaactaattttacatcagaaatgt

     S. cerevisiae  gtaatggtggaacagaagccttaaattgcccgttaaatatcttcaattcaatacctgaactagagacgga
            sacPar  gtaacggtggaacagaagctttaaattgcccattaaatatctttaattcaatacccgagctagagacgga
            sacMik  gcaacggtgggacagtagccttgaattggccattaaatatctttaattcaatacctgaactagagacgga
            sacKud  gcaatggtagaactgtagctttaaattggtcattaaatatcttcagttcaatacccgaactagagacgga
            sacBay  gcaatattggaacagtagctttgaattggtcattaaaaatttttaattcaatacccgagctagaaacgga
            sacCas  gcattggaggtacaatggccttaaattgaccattgaatatttttagttcgatacctttactcgacactgc
            sacKlu  gtaaaggtgggacgaatgccttaaattggctaccaaacaaagtcaattggatacctttatcagaaacagt

     S. cerevisiae  agttatttcacaacttggtaataattctccgattggaatatcatttgttcttagatactttaattttagg
            sacPar  agtaatttcacaactgggtatcaattccccaattggaatatcattcgtccttagatactttaattttagg
            sacMik  agtaatttcacaacttggtatcaattccccaattgggatatcatttgtccttagatacttcagttttaga
            sacKud  ggtaatttcacagtttggtattaattcaccgatcggaatatcattcgttcttaggtactttaacttcaag
            sacBay  agtgatctcacaaccggctatcaattcaccaataggaatatcgtttgttcttaggtacttcaacttcagg
            sacCas  cgttatttcgcaattaggcaaaacttctccaatagggatatctttacttcttaaatacttcaattttaga
            sacKlu  gactatttcacagcccgaaattacttctcctaatggaatatctttagttctcaaatattttaattctaaa

     S. cerevisiae  tattttggatcagtggacaattgataaatgtcatcaacagggctataaccaaggaccctggaacttaaat
            sacPar  tacttcggatcagttgataattgataaatatcatcaacagggctgtaaccaaggaccctggaacttaaat
            sacMik  tactttggatccgtggataattgataaatatcatcaacagggctgtagccaagaaccctggaacttaact
            sacKud  aattttggatctgtggataattggtaaatatcatcaacaggactgtagccaagaactctggaacttagcc
            sacBay  tattttgaatcggtagacaattgataaatatcatcaacagggctaaaaccaagaactctggcacttaact
            sacCas  atttctggatcagttgagagctcatatagattgtcaattgagttaaaccctaacactctagcttttagtt
            sacKlu  accttaggatcagtagacaattgataataaccatcaacaacattgtaacccattactctagc-tttaact

     S. cerevisiae  tt----tctgaattttcaatttcaccaactcttgaagaatgtactttacctaatctatcatcatccaatg
            sacPar  tc----tctgaattttcaatttcaccaactctggaagaatgtactttacctaatctgtcatcatccaatg
            sacMik  tc----tctgagttttcaatttcaccgattctggaagaatgtactttacccaatctatcatcgtccaatg
            sacKud  tt----tctgaattttcgatttcccccactctggaagagtgcactttacctaatctatcatcattcaatg
            sacBay  tt----tcaggattttcgacctcgccaaccctggaagagtgtaccttacctaatctgtcatcatccaggg
            sacCas  ta----tcgaatttttcaagctcaccaattcttgaagaatggacttcacctacacgatcatcatccattg
            sacKlu  tcaccagctggatcttcg---tcaccaactctagagatatggacttgaccgatacggtcctggtccatag

     S. cerevisiae  ctaagtatagatattcggaatcacgccctttaatgctgcatgattcaaatgtgtagccgatagggaatgc
            sacPar  ccaagtataaatattccgaatcacggcctttaatgctacatgattcaaatgtgtagccgatagggaacgc
            sacMik  ccaagtataggtattcagaatcacggcctttaactgtacatgattcaaatgtgtaaccaatagggaacgc
            sacKud  ccaagtataaatattcggaatcacgacccttaacggtgcatgattcaaatgtgtaaccgatagggaacgc
            sacBay  ctaagtatagatagtcagaatcacgacctttaacggcgcatgattcaaatgtgtaaccgatagggaacgc
            sacCas  ccaaatataagtaatcagagtcacgacccttaacggtacatgaatcgatcaggtggccaatagggaatgc
            sacKlu  ataaatagaagtattgagagtcgcgtcccttaacggtacaagactcaaggatgtaaccgacaggaaaagc

     S. cerevisiae  atcaagaccttcagtagatctcaaagcgtcttctagttttaaaatgtgtggaaggtttgacaaaatcaag
            sacPar  atcaagaccctcggtagatttcaaagcgtcttctagtctcaagatgtgtggaaggtttgacaaaatcaag
            sacMik  atcgagaccttcagtagatttgaaagtgtcttctagtctcaagatgtgtggaaggtttgacaatatcaaa
            sacKud  atcgagaccttcgatagatttcaaagaatcttctagcctcaagacatgtggaaggtttgacaatatcaag
            sacBay  atcaagaccttcagcggatttcaatgagtcctctagttttaagatatgtggaagagttgacagtatcaaa
            sacCas  ggtcaaattttcaacctcacccaaaacattcttgagagattttatgtgtgggagtgtagataataataat
            sacKlu  atctagagcatccgcctctagtatcttggtttctaatgatagaatatgaggcaaggtggataccaaaatg

     S. cerevisiae  accttgtcaccgcttttgttttctaaacaagcaataattcggcatctaatactagaaccaataacaaatt
            sacPar  accttttcaccacttttgttttctaaacaagcaataattcgacatctaatactagaaccgatggcaaatt
            sacMik  accttgtcaccgtttttgttctctaaacaagcaataatacggcatctaatggtagaaccaatagcgaatt
            sacKud  accttgtcaccgtttttattttctaagcaagcaatgattcggcatctaatactagaaccaatagcaaact
            sacBay  accttgtcaccgtttttgttttctagagaggcgatgattcggcatctaacactggaaccgatagcaaact
            sacCas  gtcttatcattttctttggtaattaagacggcaataattctacaagggatattggatccaacagcaaaat
            sacKlu  atcttttcacccttcttgttagttaaagtggccacaattctagctctgatattggatccaatagcatagt

     S. cerevisiae  tatgctttaaatcttcttcggaaaatgttcttaaatgtgatacgttgacaacaccggatactaacccaaa
            sacPar  tatgctttaaatcttcctcggaaaatgttcttaaatgtgatacgttaacaacaccagatactaacccaaa
            sacMik  tatgcttcagatcttcttcggaaaatgttctcaaatgtgataagataacaacaccagagactaacccaaa
            sacKud  tatgctttaaatcttcctcggaaaatgttcttaaatgtgaaacgttaattactccggaaattaacccaaa
            sacBay  tatgtttcaagtcttcttcggaaaatgctcttaaatgtgatagattaacaacaccggataccaaaccgaa
            sacCas  tatgttttagctcttcctctttgaatacccttaggtgggctgtacttatgaaacttggtacaaggccgaa
            sacKlu  tgtgtttgattttatctgcagaaaaggttcttaaatgagaagcacctaaaaacccagatactaaaccgaa

     S. cerevisiae  aactttaccggcaataccatttttagtgattgattcacacaataagtcgacgatttgaccagggataatg
            sacPar  aactttaccgacaataccattcttagtgatagattcacataataggtcgacaatttgtccaggaataatg
            sacMik  aactttaccggcaacaccgttcttattgatagattcacataacaagtcgacgatttgaccagggataatg
            sacKud  agctttaccggaaataccatttttagtgatagcttcacacaataggtcgacaatttgaccagggataacg
            sacBay  agccttaccggaaataccatttttggtgatagcttcacacaataagtcgacaatttgaccagggataacg
            sacCas  ggtcttaccaacgataccattattagttattgtttggcagagtaaatctacaacttgaccaggaacaaca
            sacKlu  tgttttaccgaagataccattagaagagatcttctggcataaaaagtccacactttgacctggaataact

     S. cerevisiae  gcatcaattgaggagatttgagtaattttgtttttcttgtccgaaaagtctgtatttacaacaattgatc
            sacPar  gcgtcaactgaagaaatttgactaattttgttttttttgtctgaaaagtctgtatttacaacaatcgacc
            sacMik  gcgtcaattgaagaaatttgggtaatcttgtttttcttgtctgagaagtctgtatttacaacaatagatc
            sacKud  gcatcaattgaagaaatctgggtaattttattttttttgtccgagaagtctgtatttactacgattgatc
            sacBay  gcatcaattgaagaaatttgagtaattttactctttttgtctgagaagtttgtatttacaacaattgatc
            sacCas  gcatcaactgaggaaatatgggtaattttggctttcttatcagaaaaatctaagtttatagtaacagttc
            sacKlu  gcgtctatggaggatatgtgagaaaccttattgttcttgctggtaaagtcaaaattgacattaactgtcc

     S. cerevisiae  tgtcggattttttggtgatattacctaagaaaacagcccccggcaataatttttcaaaattgccaaaatc
            sacPar  tatcagattttttggtgatattgcccaagaaaacagcacctggcaataagttttcaaaattaccgaaatc
            sacMik  tgtcagattttttggttacattacccaagaaaacagaacctggcaacaagttctcaaaatcaaggaaatc
            sacKud  cgtcaagtttcttagtaatattacctaaaaatacagctcccggtaataaattctcgaaattagcaatatc
            sacBay  tgtcagatttcttggtaatattacccaagaaaacagcaccaggtaacaagttttcgaaatctgtaatgtc
            sacCas  tgtcagatttttttgtcacattacccaaaaacacagcaccaggaagtaatttttcgaattctggatagtc
            sacKlu  tgtcagaacgtttagcaacgttacccaagaaaacagtgccaggcaataattcttcgacgcctggatagtc

     S. cerevisiae  cttcttagcaatgaaccctgtaaagcctggcagaccaacatctaaggtagcaccgtgatcctcgatggat
            sacPar  cttcttagcaataaaccctgtaaagcctgagagacccacatccaggatagcaccatgatcctcgatggat
            sacMik  tttcttagcaataaatcctgtaaagtctggaagacctacatctaagattgcaccatgatcttcgatagac
            sacKud  ttttttagcaatgaaccctgtaaaatctgggagccccacgtctaagacagcaccatggtcttcaatagac
            sacBay  tttcttagcaatgaaacctgtgaaatctgggaggcccacgtctaagatagcaccatggtcttcaatagat
            sacCas  ttttttagaaatgaaccctgtaaatccatcgataccaatatctagcatggcaccatgatcttctatactc
            sacKlu  ttttttcgaaataaaacccgtaatacctttgatacctagatcaagaatggcaccatgatcttctatgctt

     S. cerevisiae  ttgaccgcgcattgaatagacgtggatttaaccaaatcttcatctgcgtatatgttgacggatgaaggtt
            sacPar  ttgaccgcacattgaatagacgtggacttaaccaaatcttcatctgcgtatgtgttgacgaatgaaggtt
            sacMik  ttaaccgcacattgaatagacgtagatttgaccaagtcttcatccgcatacgtgttaacaaaggaaggtt
            sacKud  ttaacggcacattgaatagaggtggacctcaccaaatcctcatcggcgtacttgtttacgaatgaaggtt
            sacBay  ttgacggcacattgaatagaagttgacttaaccaaatcttcgtcggaataagtgtttaccaatgaaggtt
            sacCas  ttgacagcacattgtacggatgcagatctcactatgtcctcttccgtcaatgtatttacaacggatggtt
            sacKlu  ttaacggagcattgaacagtacaattcctagatagatcttcgtcagctaactggttggtggcagatggtt

     S. cerevisiae  cgatggttaactctattctcttctttttggatttcttagttgatggttctaaagaggtattcttgatgac
            sacPar  cgatggttaattctattctcttctttttggatttcttagttgatgattctaaagaggtattcttgatgac
            sacMik  cgatggttaattctattctttttttcagagatttcttagttgatggttctaaagatgtattcttgatgac
            sacKud  cgatggtcaactctattctcttttttttggattttttggttggtggttccaaagaggtgttcttaataat
            sacBay  cgatagttagctctattctcttctttttggattttttagttgaaggctctagcgaagtattcttaatcac
            sacCas  cgatacttaattcgattttcttctttttatttttcttatcttttggtagcaatgcagtattggaaattac
            sacKlu  cgatggttagttcaattcttttttgctt---tttcttggct------tctaaggcggtgttggactgaac

     S. cerevisiae  agagcatcttagccattgaccaatgtgaaagtaccttcttaaattaggtaattcattagatttat
            sacPar  agagcatcttaaccattggccaacgtgaaagtaccttcttaaattaggtaattcattagatttgt
            sacMik  agagcaccttaaccattgtccaatgtggaagtaccttcttaagttgggtagttcattagatttgt
            sacKud  agagcatcttagccattgaccaatgtggaagtacctcctcaaattaggtagctcattagacttgt
            sacBay  ggagcacctcaaccattggccgatgtggaagtactttctcaaattaggaaactcgttggacttgt
            sacCas  cgagcatctcaaccattgtccaaccttgaaataattttccaaagaaggtagtccaattgaatctt
            sacKlu  agtacatctcaaccactgaccaggtttaaagtactttttcagatcaggcagctctttattttt--

Alignment block 21 of 21 in window, 730538 - 730574, 37 bps 
B D  S. cerevisiae  --ctaatttttcatcttcg---tcgtcggacgattcgtattc
            sacPar  --ccaatttttcatcttca---tcgtcggatgattcgtattc
            sacMik  --catttttttcatcttca---ttatcagatgattcgtattc
            sacKud  --cattttttttatattca---tcatcggatgattcgtattc
            sacCas  --tttctttttcttcttca---tcgtcagaagaatcatattc
            sacKlu  tttatttttgctgtgttcatcctcatcagaagaatcgtaatc

View table schema

Go to Conservation track controls

Data last updated at UCSC: 2011-09-01

Description

This track shows a measure of evolutionary conservation in seven species of the genus Saccharomyces based on a phylogenetic hidden Markov model (phastCons). The graphic display shows the alignment projected onto S. cerevisiae.

The genomes were downloaded from:

Display Conventions and Configuration

In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the size of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options.

Pairwise alignments of each species to the S. cerevisiae genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons.

Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. Configuration buttons are available to select all of the species (Set all), deselect all of the species (Clear all), or use the default settings (Set defaults). Note that excluding species from the pairwise display does not alter the the conservation score display.

To view detailed information about the alignments at a specific position, zoom the display in to 30,000 bases or fewer, then click on the alignment.

Gap Annotation

The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. The following conventions are used:

  • Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the S. cerevisiae genome or a lineage-specific deletion between the aligned blocks in the aligning species.
  • Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species.
  • Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species.

Downloads for data in this track are available:

Base Level

When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the S. cerevisiae sequence at those alignment positions relative to the longest non-S. cerevisiae sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a "*" is displayed; other gap sizes are indicated by "+".

Codon translation is available in base-level display mode if the displayed region is identified as a coding segment. To display this annotation, select the species for translation from the pull-down menu in the Codon Translation configuration section at the top of the page. Then, select one of the following modes:

  • No codon translation: The gene annotation is not used; the bases are displayed without translation.
  • Use default species reading frames for translation: The annotations from the genome displayed in the Default species to establish reading frame pull-down menu are used to translate all the aligned species present in the alignment.
  • Use reading frames for species if available, otherwise no translation: Codon translation is performed only for those species where the region is annotated as protein coding.
  • Use reading frames for species if available, otherwise use default species: Codon translation is done on those species that are annotated as being protein coding over the aligned region using species-specific annotation; the remaining species are translated using the default species annotation.

Codon translation uses the following gene tracks as the basis for translation, depending on the species chosen (Table 2). Species listed in the row labeled "None" do not have species-specific reading frames for gene translation.

Gene TrackSpecies
SGD GenesS. cerevisae
No annotationall the other yeast strains
Table 2. Gene tracks used for codon translation.

Methods

Best-in-genome pairwise alignments were generated for each species using lastz, followed by chaining and netting. The pairwise alignments were then multiply aligned using multiz, and the resulting multiple alignments were assigned conservation scores by phastCons.

The phastCons program computes conservation scores based on a phylo-HMM, a type of probabilistic model that describes both the process of DNA substitution at each site in a genome and the way this process changes from one site to the next (Felsenstein and Churchill 1996, Yang 1995, Siepel and Haussler 2005). PhastCons uses a two-state phylo-HMM, with a state for conserved regions and a state for non-conserved regions. The value plotted at each site is the posterior probability that the corresponding alignment column was "generated" by the conserved state of the phylo-HMM. These scores reflect the phylogeny (including branch lengths) of the species in question, a continuous-time Markov model of the nucleotide substitution process, and a tendency for conservation levels to be autocorrelated along the genome (i.e., to be similar at adjacent sites). The general reversible (REV) substitution model was used. Note that, unlike many conservation-scoring programs, phastCons does not rely on a sliding window of fixed size, so short highly-conserved regions and long moderately conserved regions can both obtain high scores. More information about phastCons can be found in Siepel et al. (2005).

PhastCons currently treats alignment gaps as missing data, which sometimes has the effect of producing undesirably high conservation scores in gappy regions of the alignment. We are looking at several possible ways of improving the handling of alignment gaps.

Credits

This track was created at UCSC using the following programs:

  • Lastz (formerly Blastz) and multiz by Minmei Hou, Scott Schwartz and Webb Miller of the Penn State Bioinformatics Group.
  • AxtBest, axtChain, chainNet, netSyntenic, and netClass by Jim Kent at UCSC.
  • PhastCons by Adam Siepel at Cornell University.
  • "Wiggle track" plotting software by Hiram Clawson at UCSC.

The phylogenetic tree is based on the Saccharomyces Phylogeny page from the Department of Genetics at Washington University in St. Louis.

References

Phylo-HMMs and phastCons:

Felsenstein J, Churchill GA. A Hidden Markov Model approach to variation among sites in rate of evolution. Mol Biol Evol. 1996 Jan;13(1):93-104. PMID: 8583911

Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K, Clawson H, Spieth J, Hillier LW, Richards S, et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005 Aug;15(8):1034-50. PMID: 16024819; PMC: PMC1182216

Siepel A, Haussler D. Phylogenetic Hidden Markov Models. In: Nielsen R, editor. Statistical Methods in Molecular Evolution. New York: Springer; 2005. pp. 325-351.

Yang Z. A space-time process model for the evolution of DNA sequences. Genetics. 1995 Feb;139(2):993-1005. PMID: 7713447; PMC: PMC1206396

Chain/Net:

Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11484-9. PMID: 14500911; PMC: PMC208784

Multiz:

Blanchette M, Kent WJ, Riemer C, Elnitski L, Smit AF, Roskin KM, Baertsch R, Rosenbloom K, Clawson H, Green ED, et al. Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res. 2004 Apr;14(4):708-15. PMID: 15060014; PMC: PMC383317

Lastz (formerly Blastz):

Chiaromonte F, Yap VB, Miller W. Scoring pairwise genomic sequence alignments. Pac Symp Biocomput. 2002:115-26. PMID: 11928468

Harris RS. Improved pairwise alignment of genomic DNA. Ph.D. Thesis. Pennsylvania State University, USA. 2007.