#NEXUS 
[MacClade 4.06 registered to Ecology and Evolutionary Biology, U. Connecticut]


BEGIN DATA;
	DIMENSIONS  NTAX=18 NCHAR=1823;
	FORMAT DATATYPE=DNA  MISSING=? GAP=-  INTERLEAVE symbols="0123456789EFJO";
MATRIX

[                    10        20        30        40        50        60        70]
[                    .         .         .         .         .         .         .]

Cow         			??????????TTCATT-AT-----GAATATCTTGA ACTAGACCT---AGCCCAAAGATACCCTCTCGACT   [61]
papio       			CACTCAGAAGATCTAACATTGCTTGGTGACCTTGA GCCAACACT---AGCTCCAAGCA--CAACCAACAC   [65]
Pongo_pygmaeus			?????????ATTCAAC-CT-----GACCCCTCTGA GCTAATCCT---AGCCCCGA---ACCCAATCCACC   [58]
Pongo_pygmaeus_a		?????????ATTCAAC-CT-----GGCCCCTCTGA GCTAACCCT---AGCCCCAA---ACCCAACCCACC   [58]
Gorilla_gorilla     	?????????ACTCAAC-TT-----GACCGCTCTGA GCAAAACCT---AGCCCCAA---ACCCACCCCACA   [58]
Rhinoceros_unicornis 	??????????TACAAA-AT-----GACCACTTTGA ACCAAAGCT---AGCCCAAACAAATCCTAACCCAA   [61]
Balaenoptera_musculus	??????????CAGCCC-GT-----GCATATCTTGA ACCAGCTCT---AGCCCACC---CCCACCCCCCTT   [58]
Hylobates   			?????????ATTAA-C-TT-----GACCACCCTGA GCCAACCCT---AGCCCCAA---ATCACCCCAACC   [57]
Homo        			?????????ACTTAAC-TT-----GACCGCTCTGA GCTAAACCT---AGCCCCAAA--CCCACTCCACCT   [59]
Pan       			    ?????????ACTCAAC-TT-----GACCACTCTGA GCCAAACCT---AGCCCCAA---ACCCCCTCCACC   [58]
Equus_caballus  		??????????CTCAAA-AT-----GAACACTTTGA ACTAAAGCT---AGCCCAAA---CAATACCTAATT   [58]
Equus_asinus     		??????????CTCAGA-GT-----GAACACTTTGA ACTAAAGCT---AGCCCAAA---CAATACCCAACT   [58]
Pan         			?????????ACTCAAC-TT-----GACCACTCTGA GCCAAACCT---AGCCCCAA---ACCCCCTCCACC   [58]
Balaenoptera     		??????????CAGCCC-GT-----GTATATCTTGA ACTAGCCCT---AGCCCACA---CCCTCCCCACCT   [58]
Didelphis_virginiana	?????????GTCTAAT-CT-----GACCATTTTGA ACTAACCAC---AGCCCTAAA--ATCATATCAAAT   [59]
Macropus_robustus		?????????GCTAATC-CT-----GACCATTTTGA GCCAATTTA---AGCCCATC---CAACTATCAAAT   [58]
platypus    			?ACCTGAAAGATATTT-ATCACAAAATCATTTTGA GCCAACTCT---AGCCCAAATT--AATCTTAATAC   [64]
echidna     			?ACCTGAAAGATATTT-TACATA-AATCATTTTGA GCCTTAACTCTTAGCCCAAATCAACACAATCA-AC   [67]

[                    80        90        100       110       120       130       140]
[                    .         .         .         .         .         .         .]

Cow         AAA-CAACCAA--GATAGAATAAA-ACAAAACATTTA------ATCCCAAT--TTAAAGTATAGGAGATA   [119]
papio       TAA-TATCAAA--CCCACATGTATACCAAACCATTA--------ACCCAT---ATTAAGTATAGGCGATA   [121]
Taxon_15    CTA-CTACCAA--ATCAACCTTAA-CCAAACCATTCA--------CCCAA---GCAAAGTATAGGCGATA   [113]
Taxon_5     CTA-CTACCA---ACCAACCCTAA-CCAAACCATTCA--------CCCAA---ACAAAGTATAGGCGATA   [112]
Taxon_2     TTA-CTACCA---AACAACTTTAA-TCAAACCATTTA--------CCCAA---ATAAAGTATAGGCGATA   [112]
Taxon_1     CTA-CCACTA---AGCCCACTTAA-ACAAAACATTCA------CTTAAACCCACTAAAGTATAGGAGATA   [120]
Taxon_11    TTA-CTACCATAGACCAATC--AA-ATAAAACATTCA--------CCAACCTTCTAAAGTATAGGAGATA   [116]
Taxon_12    CTA-CTATCAA--GTA-ACATCAA-CCAAACCATTTA--------CCCGT---ACAAAGTATAGGCGATA   [111]
Taxon_13    -TA-CTACCAG--ACAACC-TTAG-CCAAACCATTTA--------CCCAA---ATAAAGTATAGGCGATA   [112]
Taxon_16    CTA-CTACCA---AACAACCTTAA-CCAAACCATTTA--------CCCAA---ATAAAGTATAGGCGATA   [112]
Taxon_3     CAA-TTACCCT--TAGTCACTTAA-CTAAAACATTCA--------CCAAACCATTAAAGTATAGGAGATA   [116]
Taxon_4     CAA-CTACCCT--TAGTCACTTAA-CTAAAACATTCA--------CCAAACCATTAAAGTATAGGAGATA   [116]
Taxon_6     CTA-CTACCA---AACAACCTTAA-CCAAACCATTTA--------CCCAA---ATAAAGTATAGGCGATA   [112]
Taxon_7     CTA-CTACCAC--AAATCAATCAA-ATAAAACATTTA--------CCATCCCTTCAAAGTATAGGAGATA   [116]
Taxon_8     TAA-CTAAC----TACTTTTTCAATTTAAACCATTTT-----------AATTATCCTAGTATAGGTGATA   [113]
Taxon_9     CAA-ATATCAC--AAACACCT-AATCTAAACCATTCA-------ACCTG----TCTAAGTATAGGTGATA   [113]
platypus    A---CATATAA--ACTCTAATAAA-CTAAAACATTTTAACGCTAACCC-------CTAGTATAGGAGATA   [121]
echidna     ----CTATG----TATTTCAACAAACTAAAACATTTTAACATCAACCC-------CTAGTATTTGAGACA   [122]

[                    150       160       170       180       190       200       210]
[                    .         .         .         .         .         .         .]

Cow         GAAATCTAAGT-AC---GGCGCTATAGAG-AAAGTACCGCAAGGGAAC-GATGAAAGAAAAAAACTAAAA   [183]
papio       GAAATC-TTAA-CCT--GGCGCTATAGAT-ACAGTACCGTAAGGGAAA-GAC--AAGAAAACCACCC-AA   [182]
Taxon_15    GAAATTATAAT-CC---GGCGCAATAGAT-GCAGTACCGCAAGGGAAA-GATGAAAAAACGAAACC--AA   [175]
Taxon_5     GAAATT-ACAATCC---GGCGCAATAGAC-ACAGTACCGTAAGGGAAA-GATGAAAAAACACAACC--AA   [174]
Taxon_2     GAAATTGTAAATC----GGCGCAATAGAT-ATAGTACCGCAAGGGAAA-GATGAAAAAATATAACC--AA   [174]
Taxon_1     GAAATTTTAA--TC---GGCGCTATAGAA-AAAGTACCGCAAGGGAAC-GATGAAAGAAATTTT--AAAA   [181]
Taxon_11    GAAATTTAAACATCAGTGGCGCTATAGAA-ATAGTACCGTAAGGGAAA-GATGAAAGAAAA-ACCCAAAA   [183]
Taxon_12    GAAATT-ACCAACCT--GGCGCAATAGAT-ACAGTACCGCAAGGGAAA-GATGAAAAACACG-ACC--AA   [173]
Taxon_13    GAAATTGAAA--CCT--GGCGCAATAGAT-ATAGTACCGCAAGGGAAA-GATGAAAAATTATAACC--AA   [174]
Taxon_16    GAAATTGTAAATC----GGCGCAATAGAT-ATAGTACCGCAAGGGAAA-GATGAAAAATTACACCC--AA   [174]
Taxon_3     GAAATTTTAA--CTT--GGCGCTATAGAG-AAAGTACCGTAAGGGAAC-GATGAAAGATGCATT--AAAA   [178]
Taxon_4     GAAATTTTAA--CTT--GGCGCTATAGAG-AAAGTACCGTAAGGGAAC-GATGAAAGATGTATT--AAAA   [178]
Taxon_6     GAAATTGTAAA-CC---GGCGCAATAGAC-ATAGTACCGCAAGGGAAA-GATGAAAAATTATACCC--AA   [174]
Taxon_7     GAAATTTAAATATCAGTGGCGCTATAGAG-ATAGTACCGTAAGG-AAA-GATGAAAGAAAA-ACCTAAAA   [182]
Taxon_8     GAAAA-GATATAAT--AGGAGCTATAGTTTATAGTACCGCAAGGGAAA-AATGAAAGATAAATTAT---A   [176]
Taxon_9     GAAAA-GACTGACTCCAGGCGCAATAACG-CAAGTACCGCGAGGGAAA-CATGAAAGACTAATTAT--AA   [178]
platypus    GAAAAG-GAAATT----GGAGCCTTAGAC-ATAGTACTGTGAAGGAAA-AATGAAAGATTAGCTT--AAA   [182]
echidna     GAAAGGAATAA-CC---GGAGCTTTAGAT-AAAGTACTGTGAAGGAACAAATGAAAGATTTCCCC---AA   [184]

[                    220       230       240       250       260       270       280]
[                    .         .         .         .         .         .         .]

Cow         GTATAA-AAAAGCAAAGATTACCCCTTGTACCTTTTGCATAA-TGAATTAACTAGTATAAGAC-TTAACA   [250]
papio       GCACAA-AACAGCAAGGACTAACCCCTGTACCTTTTGCATAA-TGAATTAGCCAGAAACAA-T-TTCACA   [248]
Taxon_15    GCACAA-CACAGCAAGGATTAACCCCTGTACCTTTCGCATAA-TGAATTAACTAGAAACAA-C-TTTGCA   [241]
Taxon_5     GCACAA-CATAGCAAGGACTAACCCCTGTACCTTTTGCATAA-TGAATTAACTAGAAACAA-C-TTTGCA   [240]
Taxon_2     GCACGA-CACAGCAAGGACTAACCCCTGTACCTTCTGCATAA-TGAATTAACTAGAAATAA-C-TTTGCA   [240]
Taxon_1     GTACCA-AACAGCAAAGCTCACCCCTTTTACCTTTTGCATAA-TGATTTAACTAGAACAAT-T-TTAGCA   [247]
Taxon_11    GTAATA-AAAAGCAAAGCTTACCCCTTGTACCTTTTGCATAA-TGACTTAACTAGTAATAA-C-TTAGCA   [249]
Taxon_12    GCACAA-AACAGCAAAGATAAACCCCTGTACCTTCTGCATAA-TGAATTAACTAGACACAA-C-TTAGCA   [239]
Taxon_13    GCATAA-TATAGCAAGGACTAACCCCTATACCTTCTGCATAA-TGAATTAACTAGAAATAA-C-TTTGCA   [240]
Taxon_16    GCATAA-TACAGCAAGGACTAACCCCTGTACCTTTTGCATAA-TGAATTAACTAGAAATAA-C-TTTGCA   [240]
Taxon_3     GTACTA-AACAGCAAAGCTTACCCCTTTTACCTTTTGCATAA-TGATTTAACTAGAATAAA-C-TTAGCA   [244]
Taxon_4     GTACTA-AACAGCAAAGCTTACCCCTTTTACCTTTTGCATAA-TGATTTAACTAGAATAAA-C-TTAGCA   [244]
Taxon_6     GCATAA-TACAGCAAGGACTAACCCCTGTACCTTTTGCATAA-TGAATTAACTAGAAATAA-C-TTTGCA   [240]
Taxon_7     GTAATA-AAAAGCAAAGCTTACCACTTGTACCTTTTGCATAA-TGACTTAACTAGTAATAA-A-TTAGCA   [248]
Taxon_8     GTAATT-AAAAGCAAAGATTAACTCTTGTACCTTTTGCATAA-TGATTTAGCCAGTCAACA-C--GGACA   [241]
Taxon_9     GCACTA-AAAAGCAAAGATTAAACCTTCTACCTTTTGCATAA-TGATTTAGCCAGTCA-AA-C-CGGACA   [243]
platypus    GCACAA-AAAAGCCAGGATTTAACCCTGTACCTTTTGCATAA-TGGTTTAGCTAGAAAA---CTTATATA   [247]
echidna     GCACGA-AAAAGCCAAGTTTAAATCTTGTACCTTTTGCATAAATGGTTTAGCTAGAAAAT--C-TATACA   [250]

[                    290       300       310       320       330       340       350]
[                    .         .         .         .         .         .         .]

Cow         AAATGAATTTTAGCTAAGCAGCCCGAAACCAGACGAGCTACTCACAAACAGTTTACCAAGAACTAACTCA   [320]
papio       AAGAGAACTGAAGCCAAATTCCCCGAAACCAGACGAGCTACCCAAAAACAGCTG--AAAGAGCGCACCCG   [316]
Taxon_15    AGGAGAACCGAAGCCAAGACCCCCGAAACCAGACGAGCTACCCATAAACAGCTA--AAAGAGCGCACCCG   [309]
Taxon_5     AGGAGAGCCAAAGCCAAGACCCCCGAAACCAGACGAGCTACCCATAAACAGCTA--AAAGAGCACACCCG   [308]
Taxon_2     AAGAGAACCGAAGCTAAGACCCCCGAAACCAGACGAGCTACCTAAGAACAGCTA--AAAGAGCACACCCG   [308]
Taxon_1     AAGAGAACTTAAGTTAAACACCCCGAAACCAGACGAGCTACCTATGAACAGTTC--AAAAAACAAACTCG   [315]
Taxon_11    AAGAGACCTTAAGTTAAACTACCCGAAACCAGACGAGCTACTTATGAGCAGTAC--CTAGGACGAACTCA   [317]
Taxon_12    AGGAGGCCCAAAGCTAAGAGCCCCGAAACCAGACGAGCTACCTAAGAACCGCTG--AAAGAGCACACCCG   [307]
Taxon_13    AGGAGAGCCAAAGCTAAGACCCCCGAAACCAGACGAGCTACCTAAGAACAGCTA--AAAGAGCACACCCG   [308]
Taxon_16    AAGAGAACTAAAGCCAAGATCCCCGAAACCAGACGAGCTACCTAAGAACAGCTA--AAAGAGCACACCCG   [308]
Taxon_3     AAGAGAACTTAAGCTAAGCACCCCGAAACCAGACGAGCTACCTATGAACAGTTACAAATGAACCAACTCA   [314]
Taxon_4     AAGAGAACTTAAGCTAAGCACCCCGAAACCAGACGAGCTACCTATGAACAGTTA-TAAAGAACCAACTCA   [313]
Taxon_6     AAGAGAACCAAAGCTAAGACCCCCGAAACCAGACGAGCTACCTAAGAACAGCTA--AAAGAGCACACCCG   [308]
Taxon_7     AAGAGACCTTAAGTTAAATTACCCGAAACCAGACGAGCTACTTATGAGCAGCAC--CTAGAACGAACTCA   [316]
Taxon_8     AAAAGAATTAT-GCCCGACATCCCGAAATTAAGTGAGCTACTATAAGACAGTTACTAATGAACCAACTCA   [310]
Taxon_9     AAAAGAATTAC-GCCCGCCTTCCCGAAATCAAGTGAGCTACTATAAAACAGTTG--ACAGAACCAACTCA   [310]
platypus    CAAAGAATTTTAATATAAAATCCCGAAACTAGATGAGCTACTATCGAGCAATTTA-TTAGAATCAACCCG   [316]
echidna     CAAAGATTTGTAATATAAAACCCCGAAACTAAATGAGCTACTATAGGACAATTTA-TCAGAATGCACCCG   [319]

[                    360       370       380       390       400       410       420]
[                    .         .         .         .         .         .         .]

Cow         TCTATGTGGCAAAATAGTGAGAAGATTTGTAAGTAGAGGTGACATGCCTAACGAGCCTGGTGATAGCTGG   [390]
papio       TCTATGTGGCAAAATAGTGGGAAGATTTCTGGGTAGAGGTGACAAGCCTACCGAGCCTGGTGATAGCTGG   [386]
Taxon_15    TCTATGTGGCAAAATAGTGGGAAGATTTATGGGATGAGGCGACAAACCATCCGAGCCTGGTGATAGCTGG   [379]
Taxon_5     TCTATGTAGCAAAATAGTGGGAAGATTTATGGGTAGAGGCGACAAACCTACCGAGCCTGGTGATAGCTGG   [378]
Taxon_2     TCTATGTAGCAAAATAGTGGGAAGATTCCTAGGTAGAGGCGACAAACCTACCGAGCCTGGTGATAGCTGG   [378]
Taxon_1     TCTATGTAGCAAAATAGTGAGAAGATTTATAGGTAGAGGTGAAAAGCCTAACGAGCCTGGTGATAGCTGG   [385]
Taxon_11    TCTATGTGGCAAAATAGTGAGAAGACTTATAAGTAGAGGTGAAAAGCCTAACGAGCCTGGTGATAGCTGG   [387]
Taxon_12    TCTATGTAGCAAAATAGTGGGAAGATTCATAGGTAGAGGTGACAAGCCTACCGAGCCTGGCGATAGCTGG   [377]
Taxon_13    TCTATGTAGCAAAATAGTGGGAAGATTTATAGGTAGAGGCGACAAACCTACCGAGCCTGGTGATAGCTGG   [378]
Taxon_16    TCTATGTAGCAAAATAGTGGGAAGATTTATAGGTAGAGGCGACAAACCTACCGAGCCTGGTGATAGCTGG   [378]
Taxon_3     TCTATGTCGCAAAATAGTGAGAAGATTCGTAGGTAGAGGTGAAAAGCCCAACGAGCCTGGTGATAGCTGG   [384]
Taxon_4     TCTATGTCGCAAAATAGTGAGAAGATTCATAGGTAGAGGTGAAAAGCCCAACGAGCCTGGTGATAGCTGG   [383]
Taxon_6     TCTATGTAGCAAAATAGTGGGAAGATTTATAGGTAGAGGCGACAAACCTACCGAGCCTGGTGATAGCTGG   [378]
Taxon_7     TCTATGTGGCAAAATAGTGAGAAGACTTATAAGTAGAGGTGAAAAGCCTAACGAGCCTGGTGATAGCTGG   [386]
Taxon_8     TCTATGTAGCAAAATAGTGAGAAGATTTTATAGTAGAAGTGAAAAACCTATCGAACTTAATGATAGCTGG   [380]
Taxon_9     TCTATGTAGCAAAATAGTGAGAAGATTTTATAGTAGAGGTGAAAAGCCTACCGAACTTGATGATAGCTGG   [380]
platypus    TCTATGTTGCAAAATAGTGGGATGACTTTATAGTAGAGGTGAAAAATCAACCGGACCTAGTGATAGCTGG   [386]
echidna     TCTATGTCGCAAAATAGTGGGACGATTTTATAGTAGAGGTGAAAAATCAACCGGATTTAGTGATAGCTGG   [389]

[                    430       440       450       460       470       480       490]
[                    .         .         .         .         .         .         .]

Cow         TTGTCCAGAAAATGAATCTAAGTTCAG-CTTTAAAGATAC-CAAAAATTCAAAT-AAACCCCACT----G   [453]
papio       TTATCCAAG-ATAGAATCTTAGTTCAG-CCTTAAGTTTACCCACAGAATAACCCAATCCCAATCCCTCTG   [454]
Taxon_15    TTGTCCAAG-ACAGAATCTTAGTTCAA-CTTTAAATTTACTTACAGAG--TCCCTAATCCCCTC-----G   [440]
Taxon_5     TTGTCCAAG-ACAGAATCTTAGTTCAA-CTTTAAATTTACTTACAGA---ACCCCTAATCCCCTC----G   [439]
Taxon_2     TTGTCCAAG-ACAGAATCTTAGTTCAA-CTTTAAATTTACCCACAGAA-CCCTCCAAATCCTCCC----G   [441]
Taxon_1     TTGTCCAAG-TCAGGATATAAGTTCAA-ATTTAAATTTACCTA-AAAG-CCCCAACAACTCTAAT----G   [447]
Taxon_11    TTGTCCATGAAAAGAATCTCAGTTCAA-CATTAAATGATACTA-AAAGCCATGCCAAGCCTTGAC----G   [451]
Taxon_12    TTGTCCAAG-ACAGAATCTTAGTTCAA-CTTTAAATCTACCCGTAGAA-CCCCT-AAATCTTCTT----G   [439]
Taxon_13    TTGTCCAAG-ATAGAATCTTAGTTCAA-CTTTAAATTTGCCCACAGAA-CCCTCTAAATCCCCTT----G   [441]
Taxon_16    TTGTCCAAG-ATAGAATCTTAGTTCAA-CTTTAAATTTACCTACAGAA-CCCTCTAAATCCCCCT----G   [441]
Taxon_3     TTGTCCAGAAACAGAATTTCAGTTCAA-ATTTAAATTTACCTAAAAA---CTACTCAATTCTAAT----G   [446]
Taxon_4     TTGTCCAGAAACAGAATCCCAGTTCAA-ATTTAAATTTACCTAAAAA---CCACTTAATTCTAAT----G   [445]
Taxon_6     TTGTCCAAG-ATAGAATCTTAGTTCAA-CTTTAAATTTACCTACAGAA-CCCTCTAAATCCCCTT----G   [441]
Taxon_7     TTGTCCCTGAAAAGAATCTCAGTTCAA-CATTAAATAATACTAAAA-GCCCATGCCAAGCCTTAAC---G   [451]
Taxon_8     TTATCCAAA-AAAGAATTTAAGTTCAA-CTTTAAGTCCTATTACAATG----CCTATTCAAAGCACACAA   [444]
Taxon_9     TTGTCCAAAATATGAATTTCAGTTCAA-CTTTAAATTTAATTAAATTA-CCAAC-AAA-CTTAAC----T   [442]
platypus    TTAGCCAAAAAACGAATTTAAGTTCAA-CAATAAGTTTAT-TTCCTGATATACT-ATATTAACC-----A   [448]
echidna     TTAACCAAGAAATGAATTTAAGTTCAA-CAGTAAGTTTAT-TTCCCTAGCACCCTATATGACTC-----A   [452]

[                    500       510       520       530       540       550       560]
[                    .         .         .         .         .         .         .]

Cow         TAGCTTTAAAAGTTAGTCTAAAAAGGTACAGCCTTTTAGAAA--CGGATACAACCTTGACTAGAGAGTAA   [521]
papio       TAAACTTAATTGTTAGTCTAAAGAGGGACAGCTCTTTAGACACTAGGAAA-AACCTTACATAGAGAGTAA   [523]
Taxon_15    TAAATTTAACTGCTAGTCTAAAGAGGAACAGCTCTTTAGACACTAGGAAAAAACCTTAAAAAGAGAGTAA   [510]
Taxon_5     TAAATTTAATTGCTAGTCTAAAGAGGAACAGCTCTTTAGACACTAGGAAAAAACCTTAAAAAGAGAGTAA   [509]
Taxon_2     TAAATTTAACTGTTAGTCCAAAGAGGAACAGCTCTTTGGACACTAGGAAAAAACCTTGTAAAGTGAGTAA   [511]
Taxon_1     TAAATTTAAATTATAATCTAAAAAGGTACAGCTCTTTAGATTC-AGGATACAACCTCAGTTAGAGAGTAA   [516]
Taxon_11    TACATTTAACTGTTAGTCTAAAAAGGTACAGCTTTTTAGATA--TGGGTACAACCTTCACTAGAGAGTAA   [519]
Taxon_12    TAAATTTAACTGTTAGTCTAAAGAGGAACAGCTCTTTAGACTCTAGGAAAAAACCTTATAAAGAGAGTAA   [509]
Taxon_13    TAAATTTAACTGTTAGTCCAAAGAGGAACAGCTCTTTGGACACTAGGAAAAAACCTTGTAGAGAGAGTAA   [511]
Taxon_16    TAAATTTAACTGTTAGTCCAAAGAGGAACAGCTCTTTAGACACTAGGAAAAAACCTTATGAAGAGAGTAA   [511]
Taxon_3     TAAATTTAAATTATAGTCTAAAAAGGTACAGCTTTTTAGATAC-AGGTTACAACCTTCATTAGAGAGTAA   [515]
Taxon_4     TAAACTTAAATTATAGTCTAAAAAGGTACAGCTTTTTAGATAC-AGGATACAACCTTTATTAGAGAGTAA   [514]
Taxon_6     TAAACTTAACTGTTAGTCCAAAGAGGAACAGCTCTTTAGACACTAGGAAAAAACCTTGTAAAGAGAGTAA   [511]
Taxon_7     TATATTTAACTGTTAATCTAAAAAGGTACAGCTTTTTAGAAA--TGGGTACAACCTTGACTAGAGAGTAA   [519]
Taxon_8     TAAGCTTAAAAGTTAGTCAAAGAAGGGACAACTTCTTTGACCA-AGTATACAAACTACATTAGAGGGTAA   [513]
Taxon_9     TAAATTTAAAAGCTAATCAAAAGGGGGACAACTCTTTTGATCA-TGTAAACAAACTTTATTAGAGGATAA   [511]
platypus    TAAACTTATAAGTTATTCATAAGAGGGTCAGCCCTTATGAATA-AGGAAACAACCTCTAATAGAGGGAAA   [517]
echidna     TAAACTTACTAGCTACTTATAAGAGGGTCAGCCCTTATAAGTA-AGGAAACAACCTCCAATAGAGGGAAA   [521]

[                    570       580       590       600       610       620       630]
[                    .         .         .         .         .         .         .]

Cow         AATTTAACA-------CTACCATAGTAGGCCTAAAAGCA-GCCATCAATTAAGAAAGCGTTAAAGCTC-A   [582]
papio       AAACCCCC-------GTCACCATAGTTGGCCTAAAAGCA-GCCATCAATTAAGAAAGCGTTCAAGCTC-A   [584]
Taxon_15    AAAACACAG-------CACCCATAGTGGGCCCAAAAGCA-GCCATCAATTAAGAAAGCGTTCAAGCTC-G   [571]
Taxon_5     AAAACACAA-------CACCCATAGTGGGCCCAAAAGCA-GCCATCAATTAAGAAAGCGTTCAAGCTC-G   [570]
Taxon_2     AAAATTTAA-------TACCCATAGTAGGCCTAAAAGCA-GCCACCAATTAAGAAAGCGTTCAAGCTC-A   [572]
Taxon_1     GATCAGAAT-------TACACATAGTTGGCCTAAAAGCA-GCCATCAATTAAGAAAGCGTCTAAGCTC-A   [577]
Taxon_11    AACCAAACA------TACACCATAGTTGGCCTAAAAGCA-GCCATCAATTAAGAAAGCGTTCAAGCTC-G   [581]
Taxon_12    AAAGTGTAA-------ACCCCATAGTTGGCCTAAAAGCA-GCCACCAATTAAGAAAGCGTTCAAGCTC-A   [570]
Taxon_13    AAAATTTAA-------CACCCATAGTAGGCCTAAAAGCA-GCCACCAATTAAGAAAGCGTTCAAGCTC-A   [572]
Taxon_16    AAAATTTAA-------TGCCCATAGTAGGCCTAAAAGCA-GCCACCAATTAAGAAAGCGTTCAAGCTC-A   [572]
Taxon_3     GAACAAGAT------AAACCCATAGTTGGCTTAAAAGCA-GCCATCAATTAAGAAAGCGTTCAAGCTC-A   [577]
Taxon_4     GAATAAGAT-----TAATCCCATAGTTGGCTTAAAAGCA-GCCATCAATTAAGAAAGCGTTCAAGCTC-A   [577]
Taxon_6     AAAATTTAA-------CACCCATAGTAGGCCTAAAAGCA-GCCACCAATTAAGAAAGCGTTCAAGCTC-A   [572]
Taxon_7     AATCAAACA-------TAAACATAGTTGGCCTAAAAGCA-GCCATCAATTAAGAAAGCGTTCAAGCTC-G   [580]
Taxon_8     TAATTAATA------ATCCACATCGTTGGCTTAAAAGCA-GCCATCAACTAAGAAAGCGTTAAAGCTCAA   [576]
Taxon_9     TGAATACTAA------GAACCATTGTAGGCCCAAAAGCA-GCCACCAATTAAGAAAGCGTTAAAGCTC-A   [573]
platypus    TTTATTCTTA------TTTACATAGTAGGCCTAAAAGCA-GCCATCAATTAAAAAAGCGTTAAAGCTTAA   [580]
echidna     CTCTTACCAC-------GTACATAGTAGGCTTAAAAGCA-GACACCTATTAAGAAAGCGTTAAAGCTCAA   [583]

[                    640       650       660       670       680       690       700]
[                    .         .         .         .         .         .         .]

Cow         ACAACA-AAAATTAAATAGATTCC-AACAACAAATGA---TTAACTCCTAGCCCCA--ATACTGGACTAA   [645]
papio       ACATTA-ACCACCTAAAAAATCCCAAACATACTAT-----TGAACTCCTTAAATC---ACATTGGATTAA   [645]
Taxon_15    ACACCC-AAACACCAAAAAATACCAAACATAAGAC-----TGAACTCCTTACTCC---CAATTGGACCAA   [632]
Taxon_5     ACACCT-AAACACCAAAAAATACCAAACACAAAAC-----TGAACTCCTTACTCC---CCATTGGACTAA   [631]
Taxon_2     ACACTATCACCCAAAAT-AATCCCAAACACACAAC-----TGAACTCCCTACACC---CAATTGGACCAA   [633]
Taxon_1     ACAACA--CAACTACCTTAATTCC-AACAATAATTAA---CCAACTCCTAACTTA---ATACTGGACTAA   [638]
Taxon_11    ACAATAAAACAATGTTTTAATTCC-AACATTAGACAAA--TCAACTCCTAGCATGA--TTATTGGACTAA   [646]
Taxon_12    ACACCACCTATCCAACA-AATCCCAAACACACAAC-----TGAACTCCTTCCACC---ACATTGGACCAA   [631]
Taxon_13    ACACCC-ACTACCTAAAAAATCCCAAACATATAAC-----TGAACTCCTCACACC---CAATTGGACCAA   [633]
Taxon_16    ACACCCACAACCTCAAAAAATCCCAAGCATACAAG-----CGAACTCCTTACGCT---CAATTGGACCAA   [634]
Taxon_3     AC-GAC-ACATCTATCTTAATCCC-AACAATCAACCCAAACTAACTCCTAATCTC---ATACTGGACTAT   [641]
Taxon_4     AC-GTC-ACACATATCTTAATCCC-AATAATAGACTCAGACTAACTCCTAATCTT---ATACTGGACTAT   [641]
Taxon_6     ACACCC-ACAACCTTAAAGATCCCAAACATACAAC-----CGAACTCCTTACACC---CAATTGGACCAA   [633]
Taxon_7     ACAACAAAATAATGTTTTAATTCC-AACATTAAGTAAA--TCAACTCCTAGCCTGA--CTATTGGACTAA   [645]
Taxon_8     ACTCAC--ATTCCAATTTAATACC-ATAAAAAAACTA----AAACCCCTAAAATA---CTATTGGATGAT   [636]
Taxon_9     AATGTATTAACAGACCTTAATCCCAATAATATTAT----CAAAATCCCTAACATAGA-CTATTGGACGAT   [638]
platypus    ACTTC---ATTCTTTCTTAATCCC--TTAAC-TTCTTA--ACTACCCCTAAAATA---ATATTGGCTTAA   [639]
echidna     ACCCAA-CCCTTTTCTCTAATTCC-ACAATATCTCA----ACTACCCCTAAATCA---ATATTGGTTTAT   [644]

[                    710       720       730       740       750       760       770]
[                    .         .         .         .         .         .         .]

Cow         -TCTATTATAGAATAGAAGCAATAATGTTAATATGAGTAACAAGAAA-AATTTTCTC--CTT-GCATAAG   [710]
papio       -TCTATCACCCCATAGAAGCAATAATGCTAGTATAAGTAACATGAACTCTCTCTCTCCCTACTGCATAAG   [714]
Taxon_15    -TCTATTGCCCTATAGAAGAAACAATGTTAGTATAAGTAACGTGAAA--ACATTCTC--CTCTGCATAAG   [697]
Taxon_5     -TCTATTGCCCCATAGAAGAAACAATGTTAGTATAAGTAACATGAAG--ATATTCTC--CCCCGCATAAG   [696]
Taxon_2     -TCTATTACCCTATAGAAGAGCTAATGTTAGTATAAGTAACATGAAA--CCATTCTC--CTCCGCATAAG   [698]
Taxon_1     -TCTATTAATAAATAGAAGCAATAATGTTAATATGAGTAACAAGAAC--TATTTCTC--CTT-GCATAAG   [702]
Taxon_11    -TCTATATAAACATAGAAGCAACACTGTTAATATGAGTAACAAGAAA--TTTTTCTC--CTA-GCACGAG   [710]
Taxon_12    -TCTATCATTTTATAGAAGAAATAATGTTAGTATAAGTAACATGAAT-AACATTCTC--CCCCGCATAAA   [697]
Taxon_13    -TCTATCACCCTATAGAAGAACTAATGTTAGTATAAGTAACATGAAA--ACATTCTC--CTCCGCATAAG   [698]
Taxon_16    -TCTATTACCCCATAGAAGAGCTAATGTTAGTATAAGTAACATGAAA--ACATTCTC--CTCCGCATAAG   [699]
Taxon_3     -TCTATCAACACATAGAAGCAATAATGTTAATATGAGTAACAAGAAT--TATTTCTC--CTT-GCATAAG   [705]
Taxon_4     -TCTATCGACACATAGAAGCAATAATGTTAATATGAGTAACAAGAAT--TATTTCTC--CTT-GCATAAG   [705]
Taxon_6     -TCTATTACCCCATAGAAGAACTAATGTTAGTATAAGTAACATGAAA--ACATTCTC--CTCCGCATAAG   [698]
Taxon_7     -TCTATACAAATATAGAAGCAATACTGTTAATATGAGTAACAAGAAA--TTTTTCTC--CTA-GCACAAG   [709]
Taxon_8     -TCTATGATATTATAGAATACATAATGCTAAAATTAGTAATAAGAAC-CCCGTTCTC--CTC-GCACAAG   [701]
Taxon_9     -TCTATAATCTTATAGAAGACATAATGCTAAAATAAGTAACAAGAAA--TATTTCTC--CTA-GCACAAG   [702]
platypus    -TCTATGTCCCCATAGAAGAAATAATGCTAAAATAAGTAAACCAGAA-TTTATTCTC--CAT-GCACTAG   [704]
echidna     -TCTATATCTTTATAGAAGAAATAATGCTAAAATAAGTAACCAGAAT--TTATTCTC--CTT-GCACTAG   [708]

[                    780       790       800       810       820       830       840]
[                    .         .         .         .         .         .         .]

Cow         TCTAAGTCAGTG--CCTGATAATA-CTCTGACCACTAACAGTC-AATAAAAATAA-TCC----AACAATA   [771]
papio       CCTAAACCAAA----CCAAAACCC-CACTGATACTTAACAGCCCAGTACTAACAAACTC----AAACAAG   [775]
Taxon_15    CCTACGTCAGAC---CAAAACATCACACTGGCAATTAACAGTCCAATATGCATAA-TTA----ACAAATA   [759]
Taxon_5     TCTACGTCAGAC---CGAAACATCACACTGACAATTAACGGTCCAATATGCATAG-TTA----ACAAATA   [758]
Taxon_2     CCTACATCAGAC---CAAAATATTAAACTGACAATTAACAACTCAATATCTACAA-CTA----ACCAACA   [760]
Taxon_1     CCTATATCAGAA---CGAATAACC--ACTGATAATTAACAATAAGATAAACACAA-TCC----AACAACA   [762]
Taxon_11    CTTATATTAGTA--ACTGATAATA-TACTAATAATTAACAGCA-AATAAATAAAA-TCT----AACACTA   [771]
Taxon_12    CCTATATCAGAC---CAAAAAACTTCGCTGACAGTTAACAGCCCAATATCTAAAA-CCA----ACTGATA   [759]
Taxon_13    CCTGCGTCAGAT---CAAAACACTGAACTGACAATTAACAGCCCAATATCTACAA-TCA----ACCAACA   [760]
Taxon_16    CCTACTACAGAC---CAAAATATTAAACTGACAATTAACAGCCCAATATCTACAA-TCA----ACCAACA   [761]
Taxon_3     CTTATATCAGAA---CGAATACTC--ACTGATAGTTAACAACAAGATAGGGATAA-TCC----AAAAACT   [765]
Taxon_4     CCTATATCAGAA---CGAATACTC--ACTGATAGTTAACAACAGAATAGACACAA-TCC----AAAAACT   [765]
Taxon_6     CCTACATCAGAC---CAAAATATTAAACTGACAATTAACAGCCTAATATCTACAA-TCA----ACCAACA   [760]
Taxon_7     CTTACACCAGTA--ACTGATAATA-TACTGATAATTAACAGCA-AATAAATAAAA-CCC----AACACTA   [770]
Taxon_8     CCTAAGTTAGAATAACGGATATCC-CACTAATAGTTAACAAAAACATA-ATAACA-TTC----ATCAACC   [764]
Taxon_9     CCTAAATTAGCA--ACGGAATACC-CACTAACAATTAACAAATCAATAATCCTAA-CCA----AATAACT   [764]
platypus    CTTAAATTAGAA---CGGAGCATC-CACTAATAATTAACAGCTAAATAATCATAAATATT---AACTAGA   [767]
echidna     CTTAAGTTAGAA---CGGAACAAC-CACTAACAATTAACAGTTAAATAATTAAAA-CTAT---AAACAAG   [770]

[                    850       860       870       880       890       900       910]
[                    .         .         .         .         .         .         .]

Cow         AACAAT-TTATTGATTATACTGTTAACCCAACACAGGAGTGCATC--TAAGGAAAGATTAAAAGAAGTAA   [838]
papio       T-CCATACTACTCTTA---CTGTTAATCCAACACAGGCATGCTTT--TAAGGAAAGGTTAAAAAAAGTAA   [839]
Taxon_15    AACTAC--TATTACCCCCACTGTTAATCCAACACAGGCATGCCCA--TCAGGAAAGGTTAAAAAAAGTAA   [825]
Taxon_5     AACTAT-TATTTTTTCCCCCCGTTAATCCAACACAGGCATGCCTA--TAAGGAAAGGTTAAAAAAAGTAA   [825]
Taxon_2     AGCTAT--TATTACCCCCACTGTTAACCCAACACAGGCATGCCCA--CGAGGAAAGGTTGAAAAAAGTAA   [826]
Taxon_1     AACTAC-CTATCAAATCAATTGTTAACCCAACACAGGCATGCACTTCAAAGGAAAGATTAAAAAAAGTAA   [831]
Taxon_11    GACTAT--TTATTAAGACACTGTTAACCCAACACAGGAGTGCAT---TAAGGAAAGATTAAAAAAAGTAA   [836]
Taxon_12    AACCAT--TATTGCCCACACTGTCAACCCAACATAGGCATGCCCA--CAAGGAAAGGTTAAAAAAAGTAA   [825]
Taxon_13    AGTCAT--TATTACCCTCACTGTCAACCCAACACAGGCATGCTCA--TAAGGAAAGGTTAAAAAAAGTAA   [826]
Taxon_16    AGCCGT--TATTACCCCCACTGTTAACCCAACACAGGCATGCACA--CAAGGAAAGGTTAAAAAAAGTAA   [827]
Taxon_3     AATCAT-CTATTTAAACCATTGTTAACCCAACACAGGCATGCATCTATAAGGAAAGATTAAAAGAAGTAA   [834]
Taxon_4     AACCAT-CTATTTAGACTATTGTTAACCCAACACAGGTGTGCACCCATAAGGAAAGATTAAAAGAAGTAA   [834]
Taxon_6     AGCCAT--TATTACCCCCGCTGTTAACCCAACACAGGCATGCCCA--CAAGGAAAGGTTAAAAAAAGTAA   [826]
Taxon_7     AATTAT-TTATT-AAAATACTGTTAACCCAACACAGGCGTGCAT---TAAGGAAAGATTAAAAAAAGTAA   [835]
Taxon_8     AGCCTC-TTATACAAAATTTTGTTAATCCAACACAGGTGTGCATT--AAAGGAAAGATATAAAAGAACAA   [831]
Taxon_9     AGTAAAATTCTTACAACTATTGTTAACCCGACACAGGAGTGCTA---ACAGGAAAGATTAAAAGGAATAA   [831]
platypus    AACATT---ATTTTATAAACTGTTAACCCGACACAGGAGTGCATC--TAAGGAAAGATTAAAAGGAGTAA   [832]
echidna     AGCCA--TTATTTTT----CTGTTAACCCGACACAGGCGTGCACT--AAAGGAAAGATAAAAAAGAGTAA   [832]

[                    920       930       940       950       960       970       980]
[                    .         .         .         .         .         .         .]

Cow         AAGGAACTCGGCAAACACAAACCCCGCCTGTTTACCAAAAACATCACCTCCAGCATTCCCAGTATTGGAG   [908]
papio       AAGGAACTCGGCAAAC-TTAGCCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTACTAGTATTAGAG   [908]
Taxon_15    AAGGAACTCGGCAAAT-CTCACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTACCAGTATTAGAG   [894]
Taxon_5     AAGGAACTCGGCAAAT-CTCACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTACCAGTATTAGAG   [894]
Taxon_2     AAGGAACTCGGCAAAT-TTTACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTACCAGTATTAGAG   [895]
Taxon_1     AAGGAACTCGGCAAACATAAACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATACCCAGTATTAGAG   [901]
Taxon_11    AAGGAACTCGGCAAACACAAACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATAACCAATATTAGAG   [906]
Taxon_12    AAGGAACTCGGCAAACAC-TACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTACCAGTATTAGAG   [894]
Taxon_13    AAGGAACTCGGCAAAC-CTTACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATCACCAGTATTAGAG   [895]
Taxon_16    AAGGAACTCGGCAAAT-CTTACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTACCAGTATTAGAG   [896]
Taxon_3     AAGGAACTCGGCAAACACAAACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTTCCAGTATTAGAG   [904]
Taxon_4     AAGGAACTCGGCAAACACAAACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTCCCAGTATTAGAG   [904]
Taxon_6     AAGGAACTCGGCAAAT-CTTACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTACCAGTATTAGAG   [895]
Taxon_7     AAGGAACTCGGCAAACACAAACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATAACCAGTATTAGAG   [905]
Taxon_8     AAGGAACTCGGCAAACATGAACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATTACAAGTATTAGAG   [901]
Taxon_9     AAGGAACTCGGCAAATACAAACCCCGCCTGTTTACCAAAAACATCACCTCTAGCATAACAAATATTAGAG   [901]
platypus    AAGGAACTCGGCAAACTAGGATTTCGCCTGTTTACCAAAAACATCGCCTCTAGCATAACAAGTATTAGAG   [902]
echidna     AAGGAACTCGGCAAATTAGGATTTCGCCTGTTTACCAAAAACATCGCCTCTAGCATAACAAGTATTAGAG   [902]

[                    990       1000      1010      1020      1030      1040      1050]
[                    .         .         .         .         .         .         .]

Cow         GCATTGCCTGCCCAGTGACAACT-GTTT-AACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCA   [976]
papio       GCACTGCCTGCCCAGTGACACAC-GTTT-AACGGCCGCGGTACCCTGACCGTGCAAAGGTAGCATAATCA   [976]
Taxon_15    GCACCGCCTGCCCGGTGACATGT-GTTT-AACGGCCGCGGTACCCTGACCGTGCAAAGGTAGCATAATCA   [962]
Taxon_5     GCACCGCCTGCCCGGTGACATAC-GTTT-AACGGCCGCGGTACCCTGACCGTGCAAAGGTAGCATAATCA   [962]
Taxon_2     GCACCGCCTGCCCAGTGACATGC-GTTC-AACGGCCGCGGTACCCTAACCGTGCAAAGGTAGCATAATCA   [963]
Taxon_1     GCACTGCCTGCCCAGTGACATCT-GTTTCAACGGCCGCGGTATCCTAACCGTGCAAAGGTAGCATAATCA   [970]
Taxon_11    -CACTGCCTGCCCGGTGACTAATCGTT-AAACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCA   [974]
Taxon_12    GCACCGCCTGCCCAGTGACACAT-GTTC-AACGGCCGCGGTACCCTAACCGTGCAAAGGTAGCATAATCA   [962]
Taxon_13    GCACCGCCTGCCCAGTGACACAT-GTTT-AACGGCCGCGGTACCCTAACCGTGCAAAGGTAGCATAATCA   [963]
Taxon_16    GCACCGCCTGCCCGGTGACATAT-GTTT-AACGGCCGCGGTACCCTAACCGTGCAAAGGTAGCATAATCA   [964]
Taxon_3     GCACTGCCTGCCCAGTGACATCT-GTTTAAACGGCCGCGGTATCCTAACCGTGCAAAGGTAGCATAATCA   [973]
Taxon_4     GCACTGCCTGCCCAGTGACATCT-GTTTAAACGGCCGCGGTATCCTAACCGTGCAAAGGTAGCATAATCA   [973]
Taxon_6     GCACCGCCTGCCCGGTGACATAT-GTTT-AACGGCCGCGGTACCCTAACCGTGCAAAGGTAGCATAATCA   [963]
Taxon_7     -CACTGCCTGCCCGGTGACTAATCGTT-AAACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCA   [973]
Taxon_8     GCACTGCCTGCCCAGTGAATAAACTTTT-AACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCA   [970]
Taxon_9     GCAACGCCTGCCCAGTGAGTAAC-ACTTCAACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCA   [970]
platypus    GTCCTGCCTGCCCAGTGATTCTA--TT-AAACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCA   [969]
echidna     GTCCTGCCTGCCCAGTGATATTA--TT-AAACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCA   [969]

[                    1060      1070      1080      1090      1100      1110      1120]
[                    .         .         .         .         .         .         .]

Cow         TTTGTTCTCTAAATAAGGACTTGTATGAATGGCCGCACGAGGGTTTTACTGTCTCTTACTTCCAATCAGT   [1046]
papio       CTTGTTCTTTAAATAGGGACTCGCATGAATGGCAACACGAGGGTTCAGCTGTCTCTTACTTTTAACCAGT   [1046]
Taxon_15    CTTGTTCTTTAAATGAGGACTTGTATGAATGGCTCCACGAGGGTTCGACTGTCTCTTACTTTTAACCAGT   [1032]
Taxon_5     CTTGTTCCTTAAATGGGGACTTGTATGAATGGCTTCACGAGGGTTCGACTGTCTCTTACTTTTAACCAGT   [1032]
Taxon_2     CTTGTTCCTTAAATAGGGACTCGTATGAATGGCTCCACGAGGGTTCAGCTGTCTCTTACTTTTGACCAGT   [1033]
Taxon_1     CTTGTTCTCTAAATAAGGACTTGTATGAATGGCCACACGAGGGTTTTACTGTCTCTTACTTTCAATCAGT   [1040]
Taxon_11    CTTGTTCTCTAATTAAGGACTTGTATGAACGGCCACACGAGGGTTTTACTGTCTCTTACTTTTAATCAGT   [1044]
Taxon_12    CTTGTTCCTTAAATGGGGACTTGTATGAATGGCTCCACGAGGGTTCAGCTGTCTCTTACTTTCAACCAGT   [1032]
Taxon_13    CTTGTTCCTTAAATAGGGACCTGTATGAATGGCTCCACGAGGGTTCAGCTGTCTCTTACTTTTAACCAGT   [1033]
Taxon_16    CTTGTTCCTTAAATAGGGACTTGTATGAATGGCTCCACGAGGGTTTAGCTGTCTCTTACTTTCAACCAGT   [1034]
Taxon_3     CTTGTTCCCTAAATAGGGACTTGTATGAATGGCCACACGAGGGTTTTACTGTCTCTTACTTCCAATCAGT   [1043]
Taxon_4     CTTGTTCTCTAAATAGGGACTTGTATGAATGGCCACACGAGGGTTTTACTGTCTCTTACTTCCAATCAGT   [1043]
Taxon_6     CTTGTTCCTTAAATAGGGACTTGTATGAATGGCTCCACGAGGGTTTAGCTGTCTCTTACTTTCAACCAGT   [1033]
Taxon_7     CTTGTTCTCTAATTAGGGACTTGTATGAATGGCCACACGAGGGTTTTACTGTCTCTTACTTTTAATCAGT   [1043]
Taxon_8     CTTGTCTCCTAAATAGGGACTTGTATGAATGGCATAACGAGGGTTCAACTGTCTCTTTTTCTTAATCAAT   [1040]
Taxon_9     CTTGTCTCTTAATTAGAGACTCGTATGAATGGCATCACGAGGGTTTAACTGTCTCTTATTCCCAATCAGT   [1040]
platypus    TTTGTCTCCTAATTAGAGACTAGTATGAATGGCTAGACGAAAATCCAACTGTCTCTTACTCCCAATCAGT   [1039]
echidna     CTTGTCTCCTAATTAGAGACTAGCATGAACGGCTAAACGAAAATCCAACTGTCTCTTACTCTCAATCAGT   [1039]

[                    1130      1140      1150      1160      1170      1180      1190]
[                    .         .         .         .         .         .         .]

Cow         GAAATTGACCTTCCCGTGAAGAGGCGGGAATGCACAAATAAGACGAGAAGACCCTATGGAGCTTTA-ACT   [1115]
papio       GAAATTGACCTATCCGTGAAGAGGCGGACATGAAACAATAAGACGAGAAGACCCCATGGAGCTTCA-ATT   [1115]
Taxon_15    GAAATTGACCTGCCCGTGAAGAGGCGGGCATAACATAACAAGACGAGAAGACCCTATGGAGCTTCA-ATC   [1101]
Taxon_5     GAAATTGACCTGCCCGTGAAGAGGCGGGCATAACATAACAAGACGAGAAGACCCTATGGAGCTTCA-ATT   [1101]
Taxon_2     GAAATTGACCTGCCCGTGAAGAGGCGGACATAACATAACAAGACGAGAAGACCCTATGGAGCTTTA-ATT   [1102]
Taxon_1     GAAATTGACCTCCCCGTGAAGAGGCGGGGATAACACAATAAGACGAGAAGACCCTATGGAGCTTTA-ATC   [1109]
Taxon_11    GAAATTGACCTCCCCGTGAAGAGGCGGGGATAACAAAATAAGACGAGAAGACCCTATGGAGCTTCA-ATT   [1113]
Taxon_12    GAAATTGACCTGTCCGTGAAGAGGCGGACATAACCTAACAAGACGAGAAGACCCTATGGAGCTTTA-GTC   [1101]
Taxon_13    GAAATTGACCTGCCCGTGAAGAGGCGGGCATGACACAGCAAGACGAGAAGACCCTATGGAGCTTTA-ATT   [1102]
Taxon_16    GAAATTGACCTACCCGTGAAGAGGCGGGCATAACATAGCAAGACGAGAAGACCCTATGGAGCTTTA-ATT   [1103]
Taxon_3     GAAATTGACCTTCCCGTGAAGAGGCGGGAATGACTAAATAAGACGAGAAGACCCTATGGAGCTTTA-ATT   [1112]
Taxon_4     GAAATTGACCTTCCCGTGAAGAGGCGGGAATAATCAAATAAGACGAGAAGACCCTATGGAGCTTTA-ATT   [1112]
Taxon_6     GAAATTGACCTACCCGTGAAGAGGCGGGCATAACATAACAAGACGAGAAGACCCTATGGAGCTTTA-ATT   [1102]
Taxon_7     GAAATTGACCTCTCCGTGAAGAGGCGGAGATAACAAAATAAGACGAGAAGACCCTATGGAGCTTCA-ATT   [1112]
Taxon_8     GAAATTGACCTACCCGTGCAGAGGCGGGTATATTAATATAAGACGAGAAGACCCTGTGGAGCTTAA-GAT   [1109]
Taxon_9     GAAATTGACCTTCCCGTGCAGAGGCGGGAATATTAATACAAGACGAGAAGACCCTGTGGAGCTTAA-GAT   [1109]
platypus    GAAATTGCCCTCCCCGTGCAGAGACGGGGATAACACCATAAGACGAGAAGACCCTGTGGAGCTTTA-ATC   [1108]
echidna     GAAATTGCCCTCCCCGTGCAGAGACGGGGATAAGAACATAAGACGAGAAGACCCTGTGGAGCTTTA-ATT   [1108]

[                    1200      1210      1220      1230      1240      1250      1260]
[                    .         .         .         .         .         .         .]

Cow         AACCAACCCA--------AAGAGAATAGATTTAACCATT----AAGGAA-TAACAACAATCTCCATGAGT   [1172]
papio       TACTAATGTAG-------CTAAGAATCGTATAAATCCT------CGGACTCTAAAACTTCTATGCCTACA   [1172]
Taxon_15    TACCAGTGCA--------AATAACATATAACAAGCCCAC-----AGGCCCTAATTCACCAAACC-TGCAC   [1157]
Taxon_5     TACCAGTGCA--------AATAACATACAACAAGCCCAC-----AGGCCCTAAATCACCAAACC-TGCAC   [1157]
Taxon_2     CATTAATGCA--------AGCAACACTTAATAAACCCAC-----AGGTCCTAAACTACCAAACC-TGCAT   [1158]
Taxon_1     AACTAATTCA-------CAAAATAAAATCTTCAACCTACATATAAGGG-ATAACAAAATTTTAACTGAAT   [1171]
Taxon_11    AATCAACCCA-------AAAATCACAACCTTAAACCACCA----AGGG-ATAACAAAATTTTATATGGGC   [1171]
Taxon_12    TATCAATGCA--------AACAACATTCAATAAACCAAC-----AGGTCATAAATTACCAAACC-TGCAT   [1157]
Taxon_13    TATTAATGCA--------AACAGTACCTAACAAACCCAC-----AGGTCCTAAACTACCAAACC-TGCAT   [1158]
Taxon_16    CATTAATGCA--------AACAATACTTAACAAACCCAC-----AGGTCCTAAACTATTAAACC-TGCAT   [1159]
Taxon_3     AACTGATTCACAAAAAACAACACACAAACCTTAACCTTC-----AGGGA-CAACAAAACTTTTGATTGAA   [1176]
Taxon_4     AACTGATTCACAAAAAACAACATACAAACCT-AACCCTC-----AGGG-ACAACAAAACTTTTGATTGAA   [1175]
Taxon_6     CATTAATGCA--------AACAATACTTAACAAACCTAC-----AGGTCCTAAACTATTAAACC-TGCAT   [1158]
Taxon_7     AATCAACCCAA-------AAACCATAACCTTAAACCACCA----AGGGA-TAACAAAACCTTATATGGGC   [1170]
Taxon_8     TAATAACTTA-------AATAAAACTAGTACAAACCCT------AGGGAATAACATTATTATTATTAAGT   [1166]
Taxon_9     TCATAGTCTA--------ATTCAAACAATTCT-ACCCTACATACAGGAA-CAAACACAGA--CC-TACTA   [1166]
platypus    ATA-GATTTA--------TTCTTTTTCATACAGACCCAA----AAG--CTCAACACCTTAAGAATTTTTT   [1163]
echidna     AA--AA-GTA---------ACTTCTTCGAACATTCAACT---TAAGGGTGTAGCATCTAAAAATTTTACT   [1163]

[                    1270      1280      1290      1300      1310      1320      1330]
[                    .         .         .         .         .         .         .]

Cow         TGG---TAGTTTCGGTTGGGGTGACCTCGGAGAATAAAAAATCCTCCGAGCGATTTTAAAGACTAGACC-   [1238]
papio       TTAA--AAATTTTGGTTGGGGCGGCCTCGGAGCACAAACAAACCTCCGAGTGATCC--ACGCCAAGGCCT   [1238]
Taxon_15    TGA---AGATTTCGGTTGGGGCGACCTCGGAGTATAACCCAACCTCCGAGAAACAC--ATGTTAAGACTT   [1222]
Taxon_5     TGA---AGATTTCGGTTGGGGCGACCTCGGAGCACAACCCAACCTCCGAGAAACAC--ATGTTAAGACCT   [1222]
Taxon_2     TAA---AAATTTCGGTTGGGGCGACCTCGGAGTATAATCTAACCTCCGAACAACAC--ATGCCAAGACTT   [1223]
Taxon_1     TAA---CGATTTCGGTTGGGGTGACCTCGGAGAACAAAACAACCTCCGAGTGATTA--AATTCCAGACTT   [1236]
Taxon_11    TGA---CAATTTCGGTTGGGGTGACCTCGGAGCACAAAAAATCCTCCGAGTGATTA--AAACTTAGGCT-   [1235]
Taxon_12    CGA---AGACTTCGGTTGGGGCGACCTCGGAGCATAGACTAACCTCCGAGCAGTAT--ATGCTAAGACCA   [1222]
Taxon_13    TAA---AAATTTCGGTTGGGGCGACCTCGGAGCAGAACCCAACCTCCGAGCAGTAC--ATGCTAAGACTT   [1223]
Taxon_16    TAA---AAATTTCGGTTGGGGCGACCTCGGAGCACAACCCAACCTCCGAGCAACAC--ATGCTAAGACCT   [1224]
Taxon_3     TCAG--CAATTTCGGTTGGGGTGACCTCGGAGAACAAAACAACCTCCGAGTGATTT--AAATCCAGACT-   [1241]
Taxon_4     TCAG--CAATTTCGGTTGGGGTGACCTCGGAGAACAAAACAACCTCCGAGTGATTT--AAATCTAGACT-   [1240]
Taxon_6     TAA---AAATTTCGGTTGGGGCGACCTCGGAGCACAACCCAACCTCCGAGCAATAC--ATGCTAAGACCT   [1223]
Taxon_7     TGA---CAATTTCGGTTGGGGTGACCTCGGAGTACAAAAAACCCTCCGAGTGATTA--AAACTTAGGCC-   [1234]
Taxon_8     TAT---ATTCTTTGGTTGGGGTGACCTCGGAGAACAAAAAAACCTCCGAATGACAT--AA-CCTAGA-TT   [1229]
Taxon_9     GACTATAACCTTTGGTTGGGGTGACCTCGGAGCATAAAAAAACCTCCGAATGACT---AAGCCAAGA-TT   [1232]
platypus    CAAC--TGATTTTGGTTGGGGTGACCTCGGAGTACAACAAAACCTCTGAATG-CA---TAGTAATAACTT   [1227]
echidna     CAAC--TAGTTTCGGTTGGGGTGACCTCGGAGAACAGTTAAACCTCCGAATGA-A---CAGTAAAGACCT   [1227]

[                    1340      1350      1360      1370      1380      1390      1400]
[                    .         .         .         .         .         .         .]

Cow         CA-CA-AGTCAAATC--ACT----CTATCGC-----TCATTGATCCAAAAAC---TTGATCAACGGAACA   [1292]
papio       CA-CA-AGCCAAAGC--GAA----CTAATAT--TCACAATTGACCCAATAAT---TTGATCAACGGAACA   [1295]
Taxon_15    CA-CA-AGTCAAAAC--AAA----CTTCCAC--ACACAATTGATCCAATAAC---TTGACCAACGGAACA   [1279]
Taxon_5     CA-CA-AGTCAAAAC--GAA----CTTCCAC--ACACAATTGATCCAACAAC---TTGACCAACGGAACA   [1279]
Taxon_2     CA-CC-AGTCAAAGC--GAG----CTACCAC--ATTTAATTGATCCAATGAC---TTGACCAACGGAACA   [1280]
Taxon_1     -A-CT-AGTCAAAAA--TA-----TTACATC---ACTTATTGATCCAAATTA---TTGATCAACGGAACA   [1290]
Taxon_11    CA-CT-AGCCAAAGT--GTA----ATATCAC-----TTATTGATCCAATCTC---TTGATCAACGGAACA   [1289]
Taxon_12    CA-CC-AGTCAAAAC--GAA----ACTCCAT--GTGCAATTGACCCAATAAC---TTGATCAACGGAACA   [1279]
Taxon_13    CA-CC-AGTCAAAGC--GAA----CTACTAT--ACTCAATTGATCCAATAAC---TTGACCAACGGAACA   [1280]
Taxon_16    CA-CC-AGTCAAAGC--GAA----TTATTAC--ATCCAATTGATCCAATTAC---TTGACCAACGGAACA   [1281]
Taxon_3     AA-CC-AGTCAAAAT--ATA----TAATCAC-----TTATTGATCCAAACCA---TTGATCAACGGAACA   [1295]
Taxon_4     AA-CC-AGTCAAAAT--ACA----TAATCAC-----TTATTGATCCAAACCT---TTGATCAACGGAACA   [1294]
Taxon_6     CA-CC-AGTCAAAGC--GAA----TTACTAC--ATCCAATTGATCCAATGAC---TTGACCAACGGAACA   [1280]
Taxon_7     CA-CT-AGCCAAAGT--ACA----ATATCAC-----TTATTGATCCAATCCT---TTGATCAACGGAACA   [1288]
Taxon_8     AA-CT-AATCCAAGT--GCA----CAAAAGC--CAGTAATTGACCCAAATAT----TGATCAACGGAACA   [1285]
Taxon_9     CA-TT-AATCTAAGC--GTA----ACACTAC--CAGTAATTGACCCA-TATT---TTGATCAACAGAACA   [1288]
platypus    -A-CA-AGTTTAAAC--GCA----AAACTGC--CAGTAATAGACCCAAATTA---TTGATCAAAGGACCA   [1283]
echidna     -A-CA-AGTCTAAAC--GCA----ATACTGC--CAGTAATAGACCCATATTA---TTGATCAAAGGACCA   [1283]

[                    1410      1420      1430      1440      1450      1460      1470]
[                    .         .         .         .         .         .         .]

Cow         AGTTACCCTAGGGATAACAGCGCAATCCTATTCAAGAGTCCATATCGACAAT--AGGGTTTACGACCTCG   [1360]
papio       AGTTACCCTGGGGATAACAGCGCAATTCTATTCTAGAGTCCATATCAACAAT--AGAGTTTACGACCTCG   [1363]
Taxon_15    AGTTACCCTAGGGATAACAGCGCAATCCTGTTCTAGAGTCCATATCAACGAC--AGGGTTTACGACCTCG   [1347]
Taxon_5     AGTTACCCTAGGGATAACAGCGCAATCCTGTTCTAGAGTCCATATCAACAAC--AGGGTTTACGACCTCG   [1347]
Taxon_2     AGTTACCCTAGGGATAACAGCGCAATCCTATTCTAGAGTCCATATCAACAGT--AGGGTTTACGACCTCG   [1348]
Taxon_1     AGTTACCCTAGGGATAACAGCGCAATCCTATTCTAGAGTCCATATCGACAAT--AGGGTTTACGACCTCG   [1358]
Taxon_11    AGTTACCCTAGGGATAACAGCGCAATCCTATTCTAGAGTCCATATCGACAAT--AGGGTTTACGACCTCG   [1357]
Taxon_12    AGTTACCCTAGGGATAACAGCGCAATCCTATTCTAGAGTCCATATCAACAAT--AGGGTTTACGACCTCG   [1347]
Taxon_13    AGTTACCCTAGGGATAACAGCGCAATCCTATTCTAGAGTCCATATCAACAAT--AGGGTTTACGACCTCG   [1348]
Taxon_16    AGTTACCCTAGGGATAACAGCGCAATCCTATTCCAGAGTCCATATCAACAAT--AGGGTTTACGACCTCG   [1349]
Taxon_3     AGTTACCCTAGGGATAACAGCGCAATCCTATTCCAGAGTCCATATCGACAAT-TAGGGTTTACGACCTCG   [1364]
Taxon_4     AGTTACCCTAGGGATAACAGCGCAATCCTATTCCAGAGTCCATATCGACAAT-TAGGGTTTACGACCTCG   [1363]
Taxon_6     AGTTACCCTAGGGATAACAGCGCAATCCTATTCCAGAGTCCATATCAACAAT--AGGGTTTACGACCTCG   [1348]
Taxon_7     AGTTACCCTAGGGATAACAGCGCAATCCTATTCTAGAGTCCATATCGACAAT--AGGGTTTACGACCTCG   [1356]
Taxon_8     AGTTACCCCAGGGATAACAGCGCAATCCTATTTAAGAGCCCATATCGAAAATCTAGGGTTTACGACCTCG   [1355]
Taxon_9     AGTTACCCCAGGGATAACAGCGCAATCCTATTTAAGAGCCCATATCGACAAT-TAGGGTTTACGACCTCG   [1357]
platypus    AGTTACCCCAGGGATAACAGCGCAATCCTATTCAAGAGTTCATATCGACAAT--AGGGTTTACGACCTCG   [1351]
echidna     AGTTACCCCAGGGATAACAGCGCAATCCCATTCTAGAGTTCATATCGACAAT--GGGGTTTACGACCTCG   [1351]

[                    1480      1490      1500      1510      1520      1530      1540]
[                    .         .         .         .         .         .         .]

Cow         ATGTTGGATCAGGACATCCTGATGGTGCAACCGCTATCAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1430]
papio       ATGTTGGATCAGGACATCCTAATGGTGCAGCAGCTATCAAGGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1433]
Taxon_15    ATGTTGGATCAGGACATCCCAATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1417]
Taxon_5     ATGTTGGATCAGGACATCCTAATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1417]
Taxon_2     ATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATCAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1418]
Taxon_1     ATGTTGGATCAGGACATCCCAATGGTGCAACCGCTATTAATGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1428]
Taxon_11    ATGTTGGATCAGGACATCCTAATGGTGCAGCCACTATTAAGGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1427]
Taxon_12    ATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATCAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1417]
Taxon_13    ATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1418]
Taxon_16    ATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1419]
Taxon_3     ATGTTGGATCAAGACATCCTAATGGTGCAACCGCTATTAAGGGTTCGTTTGTTCAACGATTAAAGTCTTA   [1434]
Taxon_4     ATGTTGGATCAAGACATCCTAATGGTGCAACCGCTATTAAGGGTTCGTTTGTTCAACGATTAAAGTCTTA   [1433]
Taxon_6     ATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1418]
Taxon_7     ATGTTGGATCAGGACATCCTAATGGTGCAGCTGCTATTAAGGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1426]
Taxon_8     ATGTTGGATCAGGACATCCTAATGGTGCAACCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1425]
Taxon_9     ATGTTGGATCAGGACATCCAAATGGTGCAGCCGCTATTAATGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1427]
platypus    ATGTTGGATCAGGACATCCAAATGGTGCAGCCGCTATTAATGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1421]
echidna     ATGTTGGATCAGGACATCCAAATGGTGCAGCAGCTATTAATGGTTCGTTTGTTCAACGATTAAAGTCCTA   [1421]

[                    1550      1560      1570      1580      1590      1600      1610]
[                    .         .         .         .         .         .         .]

Cow         CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTATTACGTA-TTTCTCCCAGT-ACG-   [1497]
papio       CGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTTTCTATCTATTCCACA-TTTCTCCCTGT-ACG-   [1500]
Taxon_15    CGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTTTCTATCTATTTCACA-TTTCTCCCTGT-ACG-   [1484]
Taxon_5     CGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTTTCTATCTATTTCACA-TTTCTCCCTGT-ACG-   [1484]
Taxon_2     CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTATTCCGTG-TTTCTCCCTGT-ACG-   [1485]
Taxon_1     CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTATTTAATA-TTTCTCCCAGT-ACG-   [1495]
Taxon_11    CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTATTACGCA-TTTCTCCTAGT-ACG-   [1494]
Taxon_12    CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTGTTCTATA-TTTCTCCCTGT-ACG-   [1484]
Taxon_13    CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTACTTCAAA-TTCCTCCCTGT-ACG-   [1485]
Taxon_16    CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTGTTCTAAA-TTTCTCCCTGT-ACG-   [1486]
Taxon_3     CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTATTCTATA-CTTTTCCCAGT-ACG-   [1501]
Taxon_4     CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTATTCTACA-CTTTTCCCAGT-ACG-   [1500]
Taxon_6     CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTGTTCTAAA-TTTCTCCCTGT-ACG-   [1485]
Taxon_7     CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTATTACGCA-TTTCTCCCAGT-ACG-   [1493]
Taxon_8     CGTGATCTGAGTTCAGACCGGAGAAATCCAGGTCGGTTTCTATCTATATATTAATTTCTCCCAGT-ACG-   [1493]
Taxon_9     CGTGATCTGAGTTCAGACCGGAGAAATCCAGGTCGGTTTCTATCTGTACATTAATTCCTCCCAGT-ACG-   [1495]
platypus    CGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTTTCTATCTATGGGTAA-TTTCTCCTAGT-ACGG   [1489]
echidna     CGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTTTCTATCTATGAGTTA-TTTCTCCCAGT-ACG-   [1488]

[                    1620      1630      1640      1650      1660      1670      1680]
[                    .         .         .         .         .         .         .]

Cow         AAAGGACAAGAGAAATAAGGCCAACTT-TAAATCAAGCGCCTTAAGACA-ACCAATGA-TAACATCTCAA   [1564]
papio       AAAGGACAAGAGAAATAAGGCCCACTT-CACA--AAGCGCCTTCACCAT-ATAAATGA-CTTAGTCTTAA   [1565]
Taxon_15    AAAGAACAAGAGAAATGGGGCCTACTT-CACA--AAGCGCCTTTCC-CAAACAAATGA-TATCATCTCAA   [1549]
Taxon_5     AAAGGACAAGAGAAATGGGGCCTACTT-CACAT-AAGCGCCTTTCC-CAAACAAATGA-TATCATCTCAA   [1550]
Taxon_2     AAAGGACAAGAGAAACGAGGCCTACTT-CACA--AAGCGCCTCCCCCCG--TAAATGA-TACTATCTCAA   [1549]
Taxon_1     AAAGGAAAAGAAAAATAAGGCCCACTT-CATAA-AAGCGCCTTCAAACCAATAGATGA-TATAATCTCAA   [1562]
Taxon_11    AAAGGACAAGAGAAATAAGGCCAACTT-CAAAC-AAGCGCCTTCAAATA-ATTAATGA-CCTAGTCTCAA   [1560]
Taxon_12    AAAGGACAAGAGAAATAGGGCCCACTT-CGCA--AAGCGCCCTCCCTCC-TTGGATGA-TATTATCTCAA   [1549]
Taxon_13    AAAGGACAAGAGAAATAAGGCCTACTT-CACA--AAGCGCCTTCCCCCG--TAAATGA-TATCATCTCAA   [1549]
Taxon_16    AAAGGACAAGAGAAATGGGGCCTACTT-CACA--AAGCGCCTCCCC-CA-ATAAATGA-TATTATCTCAA   [1550]
Taxon_3     AAAGGACAAGAAAAGTAGGGCCCACTT-TACAAGAAGCGCCCTCAAACTAATAGATGA-CATAATCTAAA   [1569]
Taxon_4     AAAGGACAAGAAAAGTAGGGCCCACTT-TATAAGAAGCGCCCTCAAACTAATAGATGA-CATAATCTAAA   [1568]
Taxon_6     AAAGGACAAGAGAAATGAGGCCTACTT-CACA--AAGCGCCTTCCC-CA-ATAAATGA-TATTATCTCAA   [1549]
Taxon_7     AAAGGACAAGAGAAATAAGGCCAACTT-CAAAC-AAGCGCCTTCAAACA-ATTAATGA-CCTAGTCTCAA   [1559]
Taxon_8     AAAGGACCAGAGAAATAGGGCCAACAT-TATCT-ATGCGCCCTCAT-AAAATTAATGAAATATATCTAAA   [1560]
Taxon_9     AAAGGACAAGAGAAATAAGGCCTACAC-TACACAGTGAGCCTTAGAAGCAAGATATGA-ATATATCTAAA   [1563]
platypus    AAAGGACCAGAGAAATCAGGCCAATCT-TAAAA-AGAAGCCTCCAACTTAACAAATGA-TTTCATCTCAA   [1556]
echidna     AAAGGACCAGAGAAATCAGGCCAATCT-CACAA-AGAAGCCTTCTATCTAACAAATGA-TATCATCTTAA   [1555]

[                    1690      1700      1710      1720      1730      1740      1750]
[                    .         .         .         .         .         .         .]

Cow         CTGA------CAAC-----ACAAAACCCTGCCCTAGAACAGGGC -TTACAAAA-TGTTCATAATTAACAT   [1621]
papio       TTTA---CCAAAATA---TTACACACCCTACCCGAGAACAGGGT -T????????????????????????   [1628]
Taxon_15    TTTAACA---CTAC---ACCAACA-CCC-ACCCAAGAAAAGGGT -TT???????????????????????   [1610]
Taxon_5     TTTAACACC---AC---ACCAACA-CCC-ACCCAAGAAAAGGGC TATGTTAAGATGGCAGAGCCCGGTAA   [1612]
Taxon_2     TTTAATATA---GC---GCCCACA-TCT-ACTCAAGAATAGGGT -TTGTTAAGATGGCAGAGCCCGGTAA   [1610]
Taxon_1     TCTAATCAATTTAT---ACACAATTTT--ACCCTAAACCAGGGT -TCAAT????????????????????   [1626]
Taxon_11    CTTAATAACCAAGC---GCAAACAAGTATGCCCAAGACCAGGGC -CCT??????????????????????   [1626]
Taxon_12    TCCA-CAAC---AT---GCCCAAA-CCC-GCTCAAGAACAGAGC -CT???????????????????????   [1609]
Taxon_13    CTTAG-TATT--AT---ACCCACA-CCC-ACCCAAGAACAGGGT -TTGTTAAGATGGCAGAGCCCGGTAA   [1610]
Taxon_16    TTTAACACC---AC---ACCTACA-CCC-ACTCAAGAACAGAGT -TTGTTAAGATGGCAGAGCCCGGTAA   [1611]
Taxon_3     TCTAACTAATTTAT---AACTTCTACC--GCCCTAGAACAGGGC -TCGTTAGGGTGGCAGAGCCCGGAAA   [1633]
Taxon_4     TCTAACTAATTTATT--AACCCCA-CC--GCCCTAGAACAGGGC -TC???????????????????????   [1632]
Taxon_6     TTTAGCGCC---AT---GCCAACA-CCC-ACTCAAGAACAGAGT -TT???????????????????????   [1610]
Taxon_7     CTTAA-TAATTAAGCGCAAACAA--ACCTGCCCAAGACCAGGGC CTTGTTGAGGTGGCAGAGTTCGGTAA   [1626]
Taxon_8     TTAAACCA-TTTA----AACTTTATCC--ACTCTAGATAAGAGC -CCATTAAGGTGGCAGAGAA-GGTAA   [1621]
Taxon_9     TATC-CTAATTC-----AATCACTTCCC-ACTCTAGAAAAGAGA --TATTAAGGTGGCAGAGCC-GGCAA   [1623]
platypus    TTTG---CCACG----TTACCCTTACT-AATCCTAGACCAGGAA -TTC??????????????????????   [1617]
echidna     TTTG-----TTCACACCACTCTCTAC--AATCCTAGACAAGGAG CCC???????????????????????   [1618]

[                    1760      1770      1780      1790      1800]
[                    .         .                  .         .  ]

Cow         CTTAATACTAATTATTCCCATCCTATTGGCCGTAGCATTCCTTACGTTAGTG   [1673]
papio       ????????????????????????????????????????????????????   [1680]
Taxon_15    ????????????????????????????????????????????????????   [1662]
Taxon_5     CTGCATAAAATTTAAAGCTTTACAGTCAGAGGTTCAACTCCTCTTCTTAACA   [1664]
Taxon_2     TCGCATAAAACTTAAAACTTTATAGTCAGAGGTTCAATTCCTCTTCTTAACA   [1662]
Taxon_1     ????????????????????????????????????????????????????   [1678]
Taxon_11    ????????????????????????????????????????????????????   [1678]
Taxon_12    ????????????????????????????????????????????????????   [1661]
Taxon_13    TCGCATAAAACTTAAAACTTTACAGTCAGAGGTTCAATTCCTCTTCTTAACA   [1662]
Taxon_16    TCGCATAAAACTTAAAACTTTACAATCAGAGGTTCAATTCCTCTTCTTAACA   [1663]
Taxon_3     TTGCATAAAACTTAAACCTTTACACTCAGAGGTTCAACTCCTCTCCCTAACA   [1685]
Taxon_4     ????????????????????????????????????????????????????   [1684]
Taxon_6     ????????????????????????????????????????????????????   [1662]
Taxon_7     TTGCATAAAACTTAAACTTTTACACCCAGAGGTTCAAATCCTCTCCCCAACA   [1678]
Taxon_8     TTGCATAAAACTTAAGCTTTTATACTCAGAGGTTCAAACCCTCTCCTTAATA   [1673]
Taxon_9     TTGCATAAAACTTAAACCTTTATAATCAGAGGTTCAAATCCTCTCCTTAATA   [1675]
platypus    ????????????????????????????????????????????????????   [1669]
echidna     ????????????????????????????????????????????????????   [1670]

[Note:  The symbols below represent multistate characters, one column for each of the unaligned regions from the "Exset". ]
[                       ambiguous region ]
[                                111111111122  ]
[                       123456789012345678901 ]
Cow                     ?2002108466g7265g005a
papio                   16140337c470c2t18774E
Pongo_pygmaeus          ?08803J6t256229046F82
Pongo_pygmaeus_a        ?06703g5o01a628035F80
Gorilla_gorilla         ?0cg031Ja14611c01ca68
Rhinoceros_unicornis    ?4J60594576354J2c4379
Balaenoptera_musculus   ?5E16471Ja2F9012aa536
Hylobates               ?875034E61191120o6c9c
Homo                    ?09g032g95482250t6a8t
Pan_1                   ?0cE03at7c4612302E991
Equus_caballus          ?1g95162E86483F4E1424
Equus_asinus            ?1ga8153FE6533g4F2425
Pan                     ?0aJ03cg834712407c99J
Balaenoptera            ?9F26480g92E900299237
cidelphis_virginiana    ?34370F91J3ca27053803
Macropus_robustus       ?73c12Ec3F2104E66811g
platypus                ??5F41oF2t0270o3J46aF
echidna                 ??2t34ta0g6J40a304E8o
;
END;


BEGIN ASSUMPTIONS;
	OPTIONS  DEFTYPE=unord PolyTcount=MINSTEPS ;
	EXSET * UNTITLED  =  1-15 53-95 119-123 146-157 200-208 335-339 429-431 461-489 565-578 629-648 655-671 760-763 847-859 884-888 1008 1009 1201-1241 1264-1267 1313-1366 1379-1385 1654-1661 1669-1674 1685-1709;
END;


BEGIN MacClade;
	Version 4.0  84;
	LastModified -1092861798;
	FileSettings editor  '0' '0' '1' '1';
	Singles 100;
	Editor 0001100111111110010001101 '1' '12' Geneva '9' '100' '1' all;
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	TreeWindowPosition  '46' '6' '815' '1102';
	ListWindow Characters closed Geneva '9' '50' '25' '641' '406' 000;
	ListWindow Taxa closed Geneva '9' '50' '10' '273' '353' 100000;
	ListWindow Trees closed Geneva '9' '497' '171' '129' '379' ;
	ListWindow TypeSets closed Geneva '9' '50' '10' '276' '490' ;
	ListWindow WtSets closed Geneva '9' '50' '10' '276' '490' ;
	ListWindow ExSets closed Geneva '9' '50' '10' '276' '490' ;
	ListWindow CharSets closed Geneva '9' '50' '10' '276' '490' ;
	ListWindow TaxSets closed Geneva '9' '50' '10' '276' '490' ;
	ListWindow CharPartitions closed Geneva '9' '50' '10' '276' '490' ;
	ListWindow CharPartNames closed Geneva '9' '50' '10' '276' '490' ;
	ListWindow WtSets closed Geneva '9' '50' '10' '276' '490' ;
	ChartWindowPosition  '50' '30' '688' '964';
	StateNamesSymbols closed Geneva '9' '10' '50' '30' '148' '220';
	WindowOrder  Data;
	OtherSymbols &/ 00 ?-;
	Correlation  '0' '0' '1000' '0' '0' 10011010;
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	ExportHTML _ MOSS  '100' 110000;
	PrettyPrint 10;
	EditorToolsPosition  '663' '264' '115' '165';
	TreeToolsPosition  '688' '9' '126' '138';
	TreeWindowProgram 10;
	TreeWindow 0000;
	Continuous  '0' '3' 1;
	Calculations 0000001;
	SummaryMode  '0' '0' 0;
	Charts  Geneva '9' (normal) 0010;
	NexusOptions  '0' '0' '70' 101011001;
	TipLabel  '1';
	TreeFont  Geneva '9' (normal);
	TreeShape  1.0 1.0 0100;
	TraceLabels 0101;
	ChartColors  '0' '0' '65535' '9' '0' 1;
	ChartBiggestSpot 1;
	ChartPercent 10;
	ChartBarWidth  '1' 1;
	ChartVerticalAxis 10101;
	ChartMinMax  '0';
	TraceAllChangesDisplay  '1' 1;
	BarsOnBranchesDisplay  '0' '0' '60000' '10000' '10000' '10000' '10000' '60000' '65000' '65000' '65000' '6' '1' 0000101;
	ContinuousBranchLabels 0;
	AllStatesBranchLabels 1;
	IndexNotation  '2' 1;
	PrintTree  10.00 '2' '2' '2' '2' '2' '2' '2' '2' '2' '2' '2' Geneva '9' (normal) Geneva '10' (normal) Geneva '9' (normal) Geneva '9' (normal) Geneva '9' (bold ) Geneva '9' (normal) Geneva '9' (normal) '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '1' '1' '1' '1' '12' '0' '-39' '4' '-40' '0' '1' '2' '1' '8' '0' '0' '0' '2' 1000111000000000000100000111000;
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	BothTools  '1';
END;

[Karen's analysis utilized the INAASE output without modification]
BEGIN ASSUMPTIONS;

	USERTYPE Region#1 STEPMATRIX = 2
	[0 = ]
	[1 = CACTCAGAAGATCTA]

	          0     1 
	  [0]      .  1.00
	  [1]   1.00     .
;



	USERTYPE Region#2 STEPMATRIX = 10
	[0 = AA]
	[1 = AACCA]
	[2 = AAT]
	[3 = AATTA]
	[4 = ACCCA]
	[5 = ACCTT]
	[6 = AT]
	[7 = G]
	[8 = GT]
	[9 = TCCCT]

	          0     1     2     3     4     5     6     7     8     9 
	  [0]      .  1.00  1.00  1.00  1.00  2.00  1.00  2.00  2.00  3.00
	  [1]   1.00     .  2.00  2.00  1.00  3.00  2.00  2.00  3.00  3.00
	  [2]   1.00  2.00     .  2.00  3.00  2.00  1.00  2.00  2.00  3.00
	  [3]   1.00  2.00  2.00     .  3.00  3.00  2.00  2.00  3.00  3.00
	  [4]   1.00  1.00  3.00  3.00     .  2.00  2.00  2.00  3.00  2.00
	  [5]   2.00  3.00  2.00  3.00  2.00     .  1.00  2.00  2.00  2.00
	  [6]   1.00  2.00  1.00  2.00  2.00  1.00     .  2.00  1.00  2.00
	  [7]   2.00  2.00  2.00  2.00  2.00  2.00  2.00     .  1.00  2.00
	  [8]   2.00  3.00  2.00  3.00  3.00  2.00  1.00  1.00     .  2.00
	  [9]   3.00  3.00  3.00  3.00  2.00  2.00  2.00  2.00  2.00     .
;


	USERTYPE Region#3 STEPMATRIX = 16
	[0 = CTAAGTAC]
	[1 = CTTAACCT]
	[2 = GAATAACC]
	[3 = GACTGACTCCA]
	[4 = GATATAATA]
	[5 = GGAAATT]
	[6 = TACAATCC]
	[7 = TACCAACCT]
	[8 = TATAATCC]
	[9 = TGAAACCT]
	[a = TGTAAACC]
	[c = TGTAAATC]
	[E = TTAAACATCAGT]
	[F = TTAAATATCAGT]
	[g = TTTAACTT]
	[J = TTTAATC]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J 
	  [0]      .  3.00  4.00  5.00  7.00  5.00  5.00  5.00  5.00  6.00  3.00  6.00  5.00  4.00  4.00  4.00
	  [1]   3.00     .  5.00  7.00  6.00  5.00  5.00  4.00  4.00  3.00  4.00  5.00  4.00  5.00  2.00  3.00
	  [2]   4.00  5.00     .  4.00  3.00  4.00  4.00  5.00  4.00  4.00  4.00  3.00  6.00  6.00  5.00  4.00
	  [3]   5.00  7.00  4.00     .  5.00  7.00  6.00  5.00  7.00  4.00  6.00  7.00  7.00 10.00  7.00  5.00
	  [4]   7.00  6.00  3.00  5.00     .  4.00  6.00  6.00  5.00  7.00  5.00  4.00  6.00  5.00  5.00  3.00
	  [5]   5.00  5.00  4.00  7.00  4.00     .  5.00  5.00  5.00  3.00  4.00  3.00  4.00  3.00  4.00  4.00
	  [6]   5.00  5.00  4.00  6.00  6.00  5.00     .  3.00  1.00  4.00  3.00  4.00  6.00  5.00  5.00  3.00
	  [7]   5.00  4.00  5.00  5.00  6.00  5.00  3.00     .  4.00  3.00  5.00  5.00  6.00  7.00  4.00  6.00
	  [8]   5.00  4.00  4.00  7.00  5.00  5.00  1.00  4.00     .  4.00  2.00  3.00  6.00  5.00  4.00  2.00
	  [9]   6.00  3.00  4.00  4.00  7.00  3.00  4.00  3.00  4.00     .  3.00  4.00  3.00  4.00  3.00  5.00
	  [a]   3.00  4.00  4.00  6.00  5.00  4.00  3.00  5.00  2.00  3.00     .  1.00  5.00  5.00  4.00  3.00
	  [c]   6.00  5.00  3.00  7.00  4.00  3.00  4.00  5.00  3.00  4.00  1.00     .  5.00  5.00  3.00  2.00
	  [E]   5.00  4.00  6.00  7.00  6.00  4.00  6.00  6.00  6.00  3.00  5.00  5.00     .  1.00  3.00  4.00
	  [F]   4.00  5.00  6.00 10.00  5.00  3.00  5.00  7.00  5.00  4.00  5.00  5.00  1.00     .  4.00  3.00
	  [g]   4.00  2.00  5.00  7.00  5.00  4.00  5.00  4.00  4.00  3.00  4.00  3.00  3.00  4.00     .  2.00
	  [J]   4.00  3.00  4.00  5.00  3.00  4.00  3.00  6.00  2.00  5.00  3.00  2.00  4.00  3.00  2.00     .
;


	USERTYPE Region#4 STEPMATRIX = 17
	[0 = AAAAACTAA]
	[1 = AAACCCAA]
	[2 = AAACCTAA]
	[3 = AAATTAT]
	[4 = AACCACCC]
	[5 = ACGACC]
	[6 = ATTTTAA]
	[7 = CACAACC]
	[8 = CGAAACC]
	[9 = GCATTAA]
	[a = GTATTAA]
	[c = TAATTAT]
	[E = TACACCC]
	[F = TAGCTTA]
	[g = TATAACC]
	[J = TATACCC]
	[t = TTCCCC]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J     t 
	  [0]      .  3.00  2.00  3.00  5.00  5.00  4.00  4.00  4.00  4.00  4.00  4.00  5.00  4.00  4.00  5.00  6.00
	  [1]   3.00     .  1.00  4.00  4.00  5.00  5.00  6.00  6.00  5.00  5.00  5.00  5.00  5.00  6.00  5.00  5.00
	  [2]   2.00  1.00     .  3.00  5.00  5.00  4.00  6.00  3.00  4.00  4.00  4.00  6.00  4.00  3.00  6.00  5.00
	  [3]   3.00  4.00  3.00     .  6.00  6.00  3.00  6.00  6.00  3.00  3.00  1.00  6.00  5.00  6.00  6.00  4.00
	  [4]   5.00  4.00  5.00  6.00     .  3.00  7.00  3.00  5.00  7.00  6.00  7.00  2.00  6.00  4.00  3.00  3.00
	  [5]   5.00  5.00  5.00  6.00  3.00     .  6.00  2.00  4.00  6.00  4.00  6.00  3.00  6.00  3.00  4.00  4.00
	  [6]   4.00  5.00  4.00  3.00  7.00  6.00     .  7.00  3.00  3.00  2.00  4.00  4.00  5.00  4.00  5.00  5.00
	  [7]   4.00  6.00  6.00  6.00  3.00  2.00  7.00     .  2.00  5.00  6.00  5.00  2.00  6.00  2.00  3.00  4.00
	  [8]   4.00  6.00  3.00  6.00  5.00  4.00  3.00  2.00     .  6.00  6.00  5.00  4.00  7.00  3.00  4.00  5.00
	  [9]   4.00  5.00  4.00  3.00  7.00  6.00  3.00  5.00  6.00     .  1.00  3.00  3.00  3.00  3.00  4.00  4.00
	  [a]   4.00  5.00  4.00  3.00  6.00  4.00  2.00  6.00  6.00  1.00     .  3.00  4.00  5.00  3.00  3.00  6.00
	  [c]   4.00  5.00  4.00  1.00  7.00  6.00  4.00  5.00  5.00  3.00  3.00     .  5.00  4.00  3.00  3.00  6.00
	  [E]   5.00  5.00  6.00  6.00  2.00  3.00  4.00  2.00  4.00  3.00  4.00  5.00     .  5.00  2.00  1.00  2.00
	  [F]   4.00  5.00  4.00  5.00  6.00  6.00  5.00  6.00  7.00  3.00  5.00  4.00  5.00     .  3.00  3.00  5.00
	  [g]   4.00  6.00  3.00  6.00  4.00  3.00  4.00  2.00  3.00  3.00  3.00  3.00  2.00  3.00     .  1.00  3.00
	  [J]   5.00  5.00  6.00  6.00  3.00  4.00  5.00  3.00  4.00  4.00  3.00  3.00  1.00  3.00  1.00     .  2.00
	  [t]   6.00  5.00  5.00  4.00  3.00  4.00  5.00  4.00  5.00  4.00  6.00  6.00  2.00  5.00  3.00  2.00     .
;


	USERTYPE Region#5 STEPMATRIX = 9
	[0 = AAA]
	[1 = ACA]
	[2 = ACCAA]
	[3 = ATCA]
	[4 = ATTA]
	[5 = CAAAT]
	[6 = CTA]
	[7 = CTAAT]
	[8 = TAAA]

	          0     1     2     3     4     5     6     7     8 
	  [0]      .  1.00  1.00  2.00  2.00  2.00  2.00  2.00  1.00
	  [1]   1.00     .  1.00  1.00  2.00  3.00  2.00  3.00  2.00
	  [2]   1.00  1.00     .  2.00  3.00  3.00  2.00  3.00  3.00
	  [3]   2.00  1.00  2.00     .  1.00  4.00  2.00  3.00  3.00
	  [4]   2.00  2.00  3.00  1.00     .  4.00  2.00  3.00  3.00
	  [5]   2.00  3.00  3.00  4.00  4.00     .  2.00  1.00  2.00
	  [6]   2.00  2.00  2.00  2.00  2.00  2.00     .  2.00  3.00
	  [7]   2.00  3.00  3.00  3.00  3.00  1.00  2.00     .  2.00
	  [8]   1.00  2.00  3.00  3.00  3.00  2.00  3.00  2.00     .
;


	USERTYPE Region#6 STEPMATRIX = 6
	[0 = AA]
	[1 = AAA]
	[2 = AAT]
	[3 = GA]
	[4 = GAA]
	[5 = GT]

	          0     1     2     3     4     5 
	  [0]      .  1.00  1.00  1.00  1.00  2.00
	  [1]   1.00     .  1.00  2.00  1.00  3.00
	  [2]   1.00  1.00     .  2.00  2.00  2.00
	  [3]   1.00  2.00  2.00     .  1.00  1.00
	  [4]   1.00  1.00  2.00  1.00     .  2.00
	  [5]   2.00  3.00  2.00  1.00  2.00     .
;


	USERTYPE Region#7 STEPMATRIX = 18
	[0 = CAAAAATTCAAATAAACCCCACT]
	[1 = CCACAGAACCCTCCAAATCCTCCC]
	[2 = CCACAGAACCCTCTAAATCCCCTT]
	[3 = CCACAGAATAACCCAATCCCAATCCCTCT]
	[4 = CCGTAGAACCCCTAAATCTTCTT]
	[5 = CTAAAAACCACTTAATTCTAAT]
	[6 = CTAAAAACTACTCAATTCTAAT]
	[7 = CTAAAAGCCATGCCAAGCCTTGAC]
	[8 = CTAAAAGCCCATGCCAAGCCTTAAC]
	[9 = CTAAAAGCCCCAACAACTCTAAT]
	[a = CTACAGAACCCTCTAAATCCCCCT]
	[c = CTACAGAACCCTCTAAATCCCCTT]
	[E = TTAAATTACCAACAAACTTAAC]
	[F = TTACAATGCCTATTCAAAGCACACA]
	[g = TTACAGAACCCCTAATCCCCTC]
	[J = TTACAGAGTCCCTAATCCCCTC]
	[t = TTCCCTAGCACCCTATATGACTC]
	[o = TTCCTGATATACTATATTAACC]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J     t     o 
	  [0]      . 13.00 11.00 11.00 14.00 10.00 10.00 13.00 12.00 10.00 10.00 11.00 11.00 10.00 13.00 14.00 10.00 16.00
	  [1]  13.00     .  4.00  7.00  7.00 11.00 11.00 13.00 12.00 12.00  4.00  5.00 12.00 13.00  6.00  8.00 14.00 15.00
	  [2]  11.00  4.00     .  7.00  5.00 10.00 11.00 16.00 15.00 13.00  2.00  1.00 14.00 14.00  6.00  8.00 13.00 17.00
	  [3]  11.00  7.00  7.00     . 12.00 12.00 10.00 14.00 14.00 14.00  7.00  8.00 15.00 12.00  9.00  9.00 12.00 15.00
	  [4]  14.00  7.00  5.00 12.00     . 10.00 11.00 15.00 14.00 10.00  7.00  6.00 13.00 16.00  8.00 10.00 16.00 15.00
	  [5]  10.00 11.00 10.00 12.00 10.00     .  2.00 10.00 10.00  6.00  9.00  9.00 12.00 14.00 11.00 12.00 15.00  5.00
	  [6]  10.00 11.00 11.00 10.00 11.00  2.00     . 10.00 10.00  6.00 10.00 10.00 12.00 11.00 13.00 12.00 15.00 14.00
	  [7]  13.00 13.00 16.00 14.00 15.00 10.00 10.00     .  2.00  9.00 15.00 15.00 10.00 14.00 14.00 14.00 17.00 11.00
	  [8]  12.00 12.00 15.00 14.00 14.00 10.00 10.00  2.00     .  8.00 14.00 14.00  9.00 10.00 13.00 14.00 18.00 16.00
	  [9]  10.00 12.00 13.00 14.00 10.00  6.00  6.00  9.00  8.00     . 12.00 12.00  9.00 14.00 14.00 15.00  7.00 17.00
	  [a]  10.00  4.00  2.00  7.00  7.00  9.00 10.00 15.00 14.00 12.00     .  1.00 13.00 12.00  6.00  8.00 13.00 12.00
	  [c]  11.00  5.00  1.00  8.00  6.00  9.00 10.00 15.00 14.00 12.00  1.00     . 13.00 13.00  5.00  7.00 12.00 16.00
	  [E]  11.00 12.00 14.00 15.00 13.00 12.00 12.00 10.00  9.00  9.00 13.00 13.00     . 11.00 11.00 13.00 14.00 11.00
	  [F]  10.00 13.00 14.00 12.00 16.00 14.00 11.00 14.00 10.00 14.00 12.00 13.00 11.00     . 11.00 11.00 16.00 13.00
	  [g]  13.00  6.00  6.00  9.00  8.00 11.00 13.00 14.00 13.00 14.00  6.00  5.00 11.00 11.00     .  2.00 10.00 13.00
	  [J]  14.00  8.00  8.00  9.00 10.00 12.00 12.00 14.00 14.00 15.00  8.00  7.00 13.00 11.00  2.00     . 10.00 13.00
	  [t]  10.00 14.00 13.00 12.00 16.00 15.00 15.00 17.00 18.00  7.00 13.00 12.00 14.00 16.00 10.00 10.00     .  9.00
	  [o]  16.00 15.00 17.00 15.00 15.00  5.00 14.00 11.00 16.00 17.00 12.00 16.00 11.00 13.00 13.00 13.00  9.00     .
;


	USERTYPE Region#8 STEPMATRIX = 17
	[0 = AAACATA]
	[1 = AAACATAC]
	[2 = AAGATAAA]
	[3 = AAGATTAAT]
	[4 = AGAATTA]
	[5 = CACAACA]
	[6 = CACAGCA]
	[7 = CCCCGTC]
	[8 = TAACACT]
	[9 = TAATAATC]
	[a = TACCACG]
	[c = TACTAAGA]
	[E = TGTAAAC]
	[F = TTCTTATT]
	[g = TTTAACA]
	[J = TTTAATA]
	[t = TTTAATG]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J     t 
	  [0]      .  2.00  3.00  5.00  3.00  4.00  3.00  5.00  3.00  4.00  4.00  5.00  6.00  6.00  5.00  4.00  5.00
	  [1]   2.00     .  5.00  5.00  4.00  5.00  5.00  5.00  4.00  4.00  5.00  6.00  5.00  6.00  3.00  6.00  6.00
	  [2]   3.00  5.00     .  2.00  4.00  4.00  5.00  6.00  5.00  6.00  6.00  5.00  5.00  6.00  5.00  5.00  6.00
	  [3]   5.00  5.00  2.00     .  3.00  5.00  6.00  7.00  5.00  5.00  6.00  6.00  5.00  5.00  6.00  6.00  6.00
	  [4]   3.00  4.00  4.00  3.00     .  5.00  5.00  6.00  6.00  5.00  7.00  5.00  5.00  6.00  3.00  4.00  3.00
	  [5]   4.00  5.00  4.00  5.00  5.00     .  1.00  4.00  4.00  5.00  3.00  3.00  5.00  6.00  3.00  4.00  5.00
	  [6]   3.00  5.00  5.00  6.00  5.00  1.00     .  4.00  5.00  6.00  4.00  4.00  6.00  7.00  4.00  5.00  6.00
	  [7]   5.00  5.00  6.00  7.00  6.00  4.00  4.00     .  6.00  6.00  5.00  7.00  3.00  6.00  7.00  6.00  6.00
	  [8]   3.00  4.00  5.00  5.00  6.00  4.00  5.00  6.00     .  4.00  2.00  5.00  5.00  5.00  4.00  5.00  5.00
	  [9]   4.00  4.00  6.00  5.00  5.00  5.00  6.00  6.00  4.00     .  5.00  3.00  3.00  4.00  4.00  3.00  3.00
	  [a]   4.00  5.00  6.00  6.00  7.00  3.00  4.00  5.00  2.00  5.00     .  4.00  5.00  5.00  4.00  5.00  4.00
	  [c]   5.00  6.00  5.00  6.00  5.00  3.00  4.00  7.00  5.00  3.00  4.00     .  4.00  4.00  3.00  3.00  4.00
	  [E]   6.00  5.00  5.00  5.00  5.00  5.00  6.00  3.00  5.00  3.00  5.00  4.00     .  5.00  3.00  3.00  3.00
	  [F]   6.00  6.00  6.00  5.00  6.00  6.00  7.00  6.00  5.00  4.00  5.00  4.00  5.00     .  4.00  3.00  3.00
	  [g]   5.00  3.00  5.00  6.00  3.00  3.00  4.00  7.00  4.00  4.00  4.00  3.00  3.00  4.00     .  1.00  2.00
	  [J]   4.00  6.00  5.00  6.00  4.00  4.00  5.00  6.00  5.00  3.00  5.00  3.00  3.00  3.00  1.00     .  1.00
	  [t]   5.00  6.00  6.00  6.00  3.00  5.00  6.00  6.00  5.00  3.00  4.00  4.00  3.00  3.00  2.00  1.00     .
;


	USERTYPE Region#9 STEPMATRIX = 18
	[0 = AAACCCAACCCTTTTCTCT]
	[1 = AAACTCACATTCCAATTT]
	[2 = AAACTTCATTCTTTCTT]
	[3 = AAATGTATTAACAGACCTT]
	[4 = AACAACAAAAATTAAATA]
	[5 = AACAACACAACTACCTT]
	[6 = AACACCACCTATCCAACA]
	[7 = AACACCCACAACCTCAAAA]
	[8 = AACACCCACAACCTTAAA]
	[9 = AACACCCACTACCTAAAA]
	[a = AACACTATCACCCAAAAT]
	[c = AACATTAACCACCTAAAA]
	[E = AACGACACATCTATCTT]
	[F = AACGTCACACATATCTT]
	[g = GACAACAAAATAATGTTTT]
	[J = GACAATAAAACAATGTTTT]
	[t = GACACCCAAACACCAAAA]
	[o = GACACCTAAACACCAAAA]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J     t     o 
	  [0]      .  9.00  8.00 13.00 11.00 10.00 10.00 10.00 11.00 12.00 12.00 12.00 10.00 10.00 12.00 12.00 14.00 14.00
	  [1]   9.00     .  6.00 11.00 10.00  8.00 10.00  9.00  9.00  7.00 10.00  4.00  7.00  8.00 11.00 11.00 13.00 13.00
	  [2]   8.00  6.00     . 10.00 12.00 10.00 12.00 11.00 11.00 11.00 11.00 11.00  8.00  9.00  9.00 10.00 14.00 13.00
	  [3]  13.00 11.00 10.00     . 12.00  9.00 13.00  5.00 14.00 14.00 10.00 12.00 10.00  8.00 13.00 11.00 14.00 13.00
	  [4]  11.00 10.00 12.00 12.00     .  6.00  7.00  7.00  8.00  8.00  9.00  8.00  8.00  8.00  7.00  8.00  8.00  8.00
	  [5]  10.00  8.00 10.00  9.00  6.00     .  9.00 10.00  8.00  9.00  8.00 10.00  3.00  5.00  7.00  7.00 10.00 10.00
	  [6]  10.00 10.00 12.00 13.00  7.00  9.00     .  6.00  7.00  5.00  8.00  7.00 10.00 10.00 12.00 14.00  4.00  4.00
	  [7]  10.00  9.00 11.00  5.00  7.00 10.00  6.00     .  2.00  2.00  7.00  5.00 11.00 11.00 12.00 13.00  4.00  5.00
	  [8]  11.00  9.00 11.00 14.00  8.00  8.00  7.00  2.00     .  2.00  7.00  5.00  9.00 10.00 11.00 12.00  6.00  7.00
	  [9]  12.00  7.00 11.00 14.00  8.00  9.00  5.00  2.00  2.00     .  6.00  4.00 11.00 12.00 12.00 14.00  6.00  7.00
	  [a]  12.00 10.00 11.00 10.00  9.00  8.00  8.00  7.00  7.00  6.00     .  6.00  9.00  9.00 13.00 11.00  5.00  8.00
	  [c]  12.00  4.00 11.00 12.00  8.00 10.00  7.00  5.00  5.00  4.00  6.00     . 12.00 10.00 13.00 11.00  9.00  9.00
	  [E]  10.00  7.00  8.00 10.00  8.00  3.00 10.00 11.00  9.00 11.00  9.00 12.00     .  3.00  8.00  8.00 13.00 13.00
	  [F]  10.00  8.00  9.00  8.00  8.00  5.00 10.00 11.00 10.00 12.00  9.00 10.00  3.00     .  8.00  9.00 11.00 11.00
	  [g]  12.00 11.00  9.00 13.00  7.00  7.00 12.00 12.00 11.00 12.00 13.00 13.00  8.00  8.00     .  2.00 10.00 10.00
	  [J]  12.00 11.00 10.00 11.00  8.00  7.00 14.00 13.00 12.00 14.00 11.00 11.00  8.00  9.00  2.00     . 10.00 10.00
	  [t]  14.00 13.00 14.00 14.00  8.00 10.00  4.00  4.00  6.00  6.00  5.00  9.00 13.00 11.00 10.00 10.00     .  1.00
	  [o]  14.00 13.00 13.00 13.00  8.00 10.00  4.00  5.00  7.00  7.00  8.00  9.00 13.00 11.00 10.00 10.00  1.00     .
;


	USERTYPE Region#10 STEPMATRIX = 17
	[0 = AAACACAAAACT]
	[1 = AAACACACAACT]
	[2 = AAACATAAGACT]
	[3 = AAACATACAACC]
	[4 = AAACATACTATT]
	[5 = AAACATATAACT]
	[6 = AACAACAAATGAT]
	[7 = AACAATAATTAAC]
	[8 = AACAATCAACCCAAAC]
	[9 = AACATTAAGTAAAT]
	[a = AACATTAGACAAAT]
	[c = AAGCATACAAGC]
	[E = AATAATAGACTCAGAC]
	[F = AATAATATTATCA]
	[g = ACAATATCTCAA]
	[J = ATAAAAAAACTA]
	[t = TTAACTTCTTAA]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J     t 
	  [0]      .  1.00  2.00  3.00  4.00  2.00  5.00  7.00  7.00  6.00  6.00  5.00  7.00  7.00  5.00  6.00 11.00
	  [1]   1.00     .  3.00  2.00  3.00  2.00  6.00  8.00  6.00  7.00  5.00  4.00  6.00  7.00  9.00  7.00 10.00
	  [2]   2.00  3.00     .  3.00  3.00  2.00  7.00  6.00  7.00  5.00  7.00  5.00  8.00  6.00  8.00  7.00  6.00
	  [3]   3.00  2.00  3.00     .  3.00  2.00  8.00  6.00  5.00  7.00  6.00  2.00  5.00  6.00  8.00  5.00  9.00
	  [4]   4.00  3.00  3.00  3.00     .  3.00  7.00  6.00  7.00  7.00  6.00  4.00  7.00  5.00  4.00  7.00  8.00
	  [5]   2.00  2.00  2.00  2.00  3.00     .  7.00  6.00  7.00  5.00  6.00  4.00  7.00  5.00  9.00  7.00  3.00
	  [6]   5.00  6.00  7.00  8.00  7.00  7.00     .  4.00  6.00  5.00  6.00  7.00  6.00  3.00  6.00  7.00  8.00
	  [7]   7.00  8.00  6.00  6.00  6.00  6.00  4.00     .  4.00  4.00  5.00  6.00  6.00  4.00  5.00  8.00  8.00
	  [8]   7.00  6.00  7.00  5.00  7.00  7.00  6.00  4.00     .  6.00  5.00  5.00  5.00  8.00  9.00  7.00  9.00
	  [9]   6.00  7.00  5.00  7.00  7.00  5.00  5.00  4.00  6.00     .  3.00  7.00  8.00  7.00  8.00  8.00  9.00
	  [a]   6.00  5.00  7.00  6.00  6.00  6.00  6.00  5.00  5.00  3.00     .  6.00  5.00  8.00  8.00  8.00  9.00
	  [c]   5.00  4.00  5.00  2.00  4.00  4.00  7.00  6.00  5.00  7.00  6.00     .  5.00  7.00  7.00  5.00  7.00
	  [E]   7.00  6.00  8.00  5.00  7.00  7.00  6.00  6.00  5.00  8.00  5.00  5.00     .  5.00  8.00  6.00  8.00
	  [F]   7.00  7.00  6.00  6.00  5.00  5.00  3.00  4.00  8.00  7.00  8.00  7.00  5.00     .  6.00  6.00  7.00
	  [g]   5.00  9.00  8.00  8.00  4.00  9.00  6.00  5.00  9.00  8.00  8.00  7.00  8.00  6.00     .  6.00  5.00
	  [J]   6.00  7.00  7.00  5.00  7.00  7.00  7.00  8.00  7.00  8.00  8.00  5.00  6.00  6.00  6.00     .  4.00
	  [t]  11.00 10.00  6.00  9.00  8.00  3.00  8.00  8.00  9.00  9.00  9.00  7.00  8.00  7.00  5.00  4.00     .
;


	USERTYPE Region#11 STEPMATRIX = 8
	[0 = CAT]
	[1 = CCCC]
	[2 = CTA]
	[3 = CTC]
	[4 = CTCC]
	[5 = CTCT]
	[6 = CTT]
	[7 = TACT]

	          0     1     2     3     4     5     6     7 
	  [0]      .  3.00  2.00  2.00  3.00  2.00  1.00  2.00
	  [1]   3.00     .  3.00  2.00  1.00  2.00  3.00  3.00
	  [2]   2.00  3.00     .  1.00  2.00  2.00  1.00  4.00
	  [3]   2.00  2.00  1.00     .  1.00  1.00  1.00  3.00
	  [4]   3.00  1.00  2.00  1.00     .  1.00  2.00  3.00
	  [5]   2.00  2.00  2.00  1.00  1.00     .  1.00  2.00
	  [6]   1.00  3.00  1.00  1.00  2.00  1.00     .  3.00
	  [7]   2.00  3.00  4.00  3.00  3.00  2.00  3.00     .
;


	USERTYPE Region#12 STEPMATRIX = 16
	[0 = ACTACTCTTA]
	[1 = ATTCTTACAACTA]
	[2 = ATTTTATAAA]
	[3 = CTATCAAATCAA]
	[4 = CTATTTAAACCA]
	[5 = CTATTTAGACTA]
	[6 = TATTACCCCCA]
	[7 = TATTACCCCCG]
	[8 = TATTACCCTCA]
	[9 = TATTGCCCACA]
	[a = TATTTTTTCCCC]
	[c = TTATACAAAATT]
	[E = TTATTAAAATA]
	[F = TTATTAAGACA]
	[g = TTATTGATTATA]
	[J = TTATTTTT]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J 
	  [0]      .  5.00  4.00  8.00  8.00  7.00  5.00  6.00  4.00  6.00  8.00  9.00  8.00  9.00  6.00  5.00
	  [1]   5.00     .  5.00  7.00  5.00  5.00  5.00  6.00  6.00  7.00  9.00  7.00  6.00  7.00  7.00  5.00
	  [2]   4.00  5.00     .  5.00  5.00  6.00  7.00  8.00  7.00  6.00  7.00  7.00  4.00  5.00  5.00  5.00
	  [3]   8.00  7.00  5.00     .  4.00  5.00  6.00  7.00  7.00  8.00  5.00  7.00  5.00  5.00  6.00  5.00
	  [4]   8.00  5.00  5.00  4.00     .  2.00  5.00  6.00  6.00  6.00  6.00  6.00  4.00  4.00  6.00  4.00
	  [5]   7.00  5.00  6.00  5.00  2.00     .  6.00  7.00  7.00  7.00  4.00  6.00  4.00  3.00  4.00  3.00
	  [6]   5.00  5.00  7.00  6.00  5.00  6.00     .  1.00  1.00  2.00  5.00  8.00  7.00  7.00  7.00  7.00
	  [7]   6.00  6.00  8.00  7.00  6.00  7.00  1.00     .  2.00  3.00  5.00  8.00  9.00  8.00  8.00  7.00
	  [8]   4.00  6.00  7.00  7.00  6.00  7.00  1.00  2.00     .  2.00  6.00  8.00  7.00  7.00  7.00  6.00
	  [9]   6.00  7.00  6.00  8.00  6.00  7.00  2.00  3.00  2.00     .  6.00  8.00  7.00  6.00  5.00  7.00
	  [a]   8.00  9.00  7.00  5.00  6.00  4.00  5.00  5.00  6.00  6.00     . 10.00  8.00  7.00  8.00  4.00
	  [c]   9.00  7.00  7.00  7.00  6.00  6.00  8.00  8.00  8.00  8.00 10.00     .  3.00  5.00  5.00  3.00
	  [E]   8.00  6.00  4.00  5.00  4.00  4.00  7.00  9.00  7.00  7.00  8.00  3.00     .  2.00  3.00  3.00
	  [F]   9.00  7.00  5.00  5.00  4.00  3.00  7.00  8.00  7.00  6.00  7.00  5.00  2.00     .  4.00  4.00
	  [g]   6.00  7.00  5.00  6.00  6.00  4.00  7.00  8.00  7.00  5.00  8.00  5.00  3.00  4.00     .  3.00
	  [J]   5.00  5.00  5.00  5.00  4.00  3.00  7.00  7.00  6.00  7.00  4.00  3.00  3.00  4.00  3.00     .
;


	USERTYPE Region#13 STEPMATRIX = 12
	[0 = AA]
	[1 = CAC]
	[2 = CAT]
	[3 = CCCAT]
	[4 = CTA]
	[5 = CTTCA]
	[6 = TAT]
	[7 = TCT]
	[8 = TCTAT]
	[9 = TT]
	[a = TTA]
	[c = TTT]

	          0     1     2     3     4     5     6     7     8     9     a     c 
	  [0]      .  2.00  2.00  2.00  2.00  2.00  2.00  3.00  2.00  2.00  2.00  3.00
	  [1]   2.00     .  1.00  2.00  2.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00
	  [2]   2.00  1.00     .  1.00  2.00  2.00  1.00  2.00  2.00  2.00  2.00  2.00
	  [3]   2.00  2.00  1.00     .  3.00  3.00  2.00  2.00  2.00  2.00  2.00  3.00
	  [4]   2.00  2.00  2.00  3.00     .  1.00  2.00  3.00  4.00  2.00  1.00  2.00
	  [5]   2.00  3.00  2.00  3.00  1.00     .  3.00  2.00  4.00  2.00  2.00  2.00
	  [6]   2.00  2.00  1.00  2.00  2.00  3.00     .  1.00  1.00  1.00  2.00  1.00
	  [7]   3.00  3.00  2.00  2.00  3.00  2.00  1.00     .  1.00  1.00  2.00  1.00
	  [8]   2.00  3.00  2.00  2.00  4.00  4.00  1.00  1.00     .  1.00  3.00  2.00
	  [9]   2.00  3.00  2.00  2.00  2.00  2.00  1.00  1.00  1.00     .  1.00  1.00
	  [a]   2.00  3.00  2.00  2.00  1.00  2.00  2.00  2.00  3.00  1.00     .  1.00
	  [c]   3.00  3.00  2.00  3.00  2.00  2.00  1.00  1.00  2.00  1.00  1.00     .
;


	USERTYPE Region#14 STEPMATRIX = 5
	[0 = A]
	[1 = C]
	[2 = T]
	[3 = TA]
	[4 = TC]

	          0     1     2     3     4 
	  [0]      .  1.00  1.00  1.00  2.00
	  [1]   1.00     .  1.00  2.00  1.00
	  [2]   1.00  1.00     .  1.00  1.00
	  [3]   1.00  2.00  1.00     .  1.00
	  [4]   2.00  1.00  1.00  1.00     .
;


	USERTYPE Region#15 STEPMATRIX = 18
	[0 = AAAACCATAACCTTAAACCACCAAGGGAT]
	[1 = AAAATCACAACCTTAAACCACCAAGGGAT]
	[2 = AACAACATTCAATAAACCAACAGGTCAT]
	[3 = AACAATACTTAACAAACCCACAGGTCCT]
	[4 = AACAATACTTAACAAACCTACAGGTCCT]
	[5 = AACAGTACCTAACAAACCCACAGGTCCT]
	[6 = AAGAGAATAGATTTAACCATTAAGGAAT]
	[7 = AATAAAACTAGTACAAACCCTAGGGAAT]
	[8 = AATAACATACAACAAGCCCACAGGCCCT]
	[9 = AATAACATATAACAAGCCCACAGGCCCT]
	[a = ACTTCTTCGAACATTCAACTTAAGGGTGT]
	[c = AGCAACACTTAATAAACCCACAGGTCCT]
	[E = ATTCAAACAATTCTACCCTACATACAGGAAC]
	[F = CAAAAAACAACACACAAACCTTAACCTTCAGGGAC]
	[g = CAAAAAACAACATACAAACCTAACCCTCAGGGAC]
	[J = CAAAATAAAATCTTCAACCTACATATAAGGGAT]
	[t = GCTAAGAATCGTATAAATCCTCGGACTC]
	[o = TTCTTTTTCATACAGACCCAAAAGCTC]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J     t     o 
	  [0]      .  2.00 10.00 16.00 16.00 16.00 10.00 13.00 13.00 14.00 18.00 15.00 17.00 14.00 13.00  9.00 20.00 18.00
	  [1]   2.00     . 11.00 15.00 15.00 15.00 11.00 12.00 14.00 15.00 18.00 14.00 16.00 13.00 12.00  9.00 20.00 19.00
	  [2]  10.00 11.00     .  6.00  6.00  8.00 12.00 14.00  7.00  8.00 19.00  5.00 17.00 19.00 18.00 13.00 18.00 17.00
	  [3]  16.00 15.00  6.00     .  1.00  2.00 16.00 13.00  7.00  6.00 18.00  3.00 17.00 17.00 17.00 14.00 18.00 15.00
	  [4]  16.00 15.00  6.00  1.00     .  3.00 16.00 14.00  8.00  7.00 17.00  4.00 16.00 18.00 18.00 13.00 19.00 16.00
	  [5]  16.00 15.00  8.00  2.00  3.00     . 15.00 15.00  8.00  7.00 18.00  5.00 18.00 18.00 17.00 16.00 20.00 14.00
	  [6]  10.00 11.00 12.00 16.00 16.00 15.00     . 12.00 15.00 15.00 18.00 16.00 13.00 14.00 16.00 13.00 18.00 20.00
	  [7]  13.00 12.00 14.00 13.00 14.00 15.00 12.00     . 15.00 14.00 16.00 14.00 14.00 14.00 12.00 14.00 12.00 16.00
	  [8]  13.00 14.00  7.00  7.00  8.00  8.00 15.00 15.00     .  1.00 20.00  8.00 16.00 18.00 18.00 15.00 18.00 17.00
	  [9]  14.00 15.00  8.00  6.00  7.00  7.00 15.00 14.00  1.00     . 20.00  7.00 16.00 18.00 18.00 16.00 19.00 17.00
	  [a]  18.00 18.00 19.00 18.00 17.00 18.00 18.00 16.00 20.00 20.00     . 18.00 18.00 18.00 20.00 19.00 20.00 18.00
	  [c]  15.00 14.00  5.00  3.00  4.00  5.00 16.00 14.00  8.00  7.00 18.00     . 18.00 19.00 18.00 17.00 10.00 17.00
	  [E]  17.00 16.00 17.00 17.00 16.00 18.00 13.00 14.00 16.00 16.00 18.00 18.00     . 15.00 15.00 18.00 19.00 17.00
	  [F]  14.00 13.00 19.00 17.00 18.00 18.00 14.00 14.00 18.00 18.00 18.00 19.00 15.00     .  3.00 14.00 18.00 18.00
	  [g]  13.00 12.00 18.00 17.00 18.00 17.00 16.00 12.00 18.00 18.00 20.00 18.00 15.00  3.00     . 12.00 17.00 18.00
	  [J]   9.00  9.00 13.00 14.00 13.00 16.00 13.00 14.00 15.00 16.00 19.00 17.00 18.00 14.00 12.00     . 19.00 19.00
	  [t]  20.00 20.00 18.00 18.00 19.00 20.00 18.00 12.00 18.00 19.00 20.00 10.00 19.00 18.00 17.00 19.00     . 16.00
	  [o]  18.00 19.00 17.00 15.00 16.00 14.00 20.00 16.00 17.00 17.00 18.00 17.00 17.00 18.00 18.00 19.00 16.00     .
;


	USERTYPE Region#16 STEPMATRIX = 7
	[0 = A]
	[1 = AA]
	[2 = C]
	[3 = CT]
	[4 = GC]
	[5 = T]
	[6 = TATA]

	          0     1     2     3     4     5     6 
	  [0]      .  1.00  1.00  2.00  2.00  1.00  1.00
	  [1]   1.00     .  2.00  2.00  2.00  2.00  2.00
	  [2]   1.00  2.00     .  1.00  1.00  1.00  2.00
	  [3]   2.00  2.00  1.00     .  2.00  1.00  2.00
	  [4]   2.00  2.00  1.00  2.00     .  2.00  3.00
	  [5]   1.00  2.00  1.00  1.00  2.00     .  1.00
	  [6]   1.00  2.00  2.00  2.00  3.00  1.00     .
;


	USERTYPE Region#17 STEPMATRIX = 18
	[0 = AACAGTAAAGACCTACAAGTCTAAACGCAATACTGCCAG]
	[1 = ACACATGCCAAGACTTCACCAGTCAAAGCGAGCTACCACATT]
	[2 = ACACATGCTAAGACCTCACCAGTCAAAGCGAATTATTACATC]
	[3 = ACACATGTTAAGACCTCACAAGTCAAAACGAACTTCCACACA]
	[4 = ACACATGTTAAGACTTCACAAGTCAAAACAAACTTCCACACA]
	[5 = ACATAACCTAGATTAACTAATCCAAGTGCACAAAAGCCAG]
	[6 = ACTAAGCCAAGATTCATTAATCTAAGCGTAACACTACCAG]
	[7 = ATACATGCTAAGACCTCACCAGTCAAAGCGAATTACTACATC]
	[8 = ATCCACGCCAAGGCCTCACAAGCCAAAGCGAACTAATATTCA]
	[9 = ATTAAAACTTAGGCCCACTAGCCAAAGTACAATATCAC]
	[a = ATTAAAACTTAGGCTCACTAGCCAAAGTGTAATATCAC]
	[c = ATTAAATTCCAGACTTACTAGTCAAAAATATTACATCAC]
	[E = ATTTAAATCCAGACTAACCAGTCAAAATATATAATCAC]
	[F = ATTTAAATCTAGACTAACCAGTCAAAATACATAATCAC]
	[g = ATTTTAAAGACTAGACCCACAAGTCAAATCACTCTATCGC]
	[J = CATAGTAATAACTTACAAGTTTAAACGCAAAACTGCCAG]
	[t = GTACATGCTAAGACTTCACCAGTCAAAGCGAACTACTATACT]
	[o = GTATATGCTAAGACCACACCAGTCAAAACGAAACTCCATGTG]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J     t     o 
	  [0]      . 22.00 19.00 18.00 20.00 18.00 15.00 18.00 19.00 25.00 25.00  5.00 19.00 19.00 29.00  7.00 21.00 20.00
	  [1]  22.00     .  7.00  9.00  9.00 21.00 20.00  7.00 14.00 21.00 19.00 24.00 24.00 25.00 30.00 21.00  7.00 14.00
	  [2]  19.00  7.00     .  9.00 11.00 21.00 20.00  2.00 13.00 17.00 15.00 26.00 24.00 25.00 28.00 18.00  8.00 13.00
	  [3]  18.00  9.00  9.00     .  2.00 23.00 23.00  9.00 13.00 25.00 26.00 23.00 24.00 24.00 23.00 17.00 10.00 12.00
	  [4]  20.00  9.00 11.00  2.00     . 23.00 23.00 11.00 15.00 26.00 25.00 21.00 23.00 23.00 29.00 19.00 10.00 14.00
	  [5]  18.00 21.00 21.00 23.00 23.00     . 14.00 22.00 23.00 18.00 15.00 22.00 19.00 17.00 21.00 18.00 22.00 25.00
	  [6]  15.00 20.00 20.00 23.00 23.00 14.00     . 20.00 22.00 22.00 25.00 26.00 20.00 26.00 12.00 17.00 21.00 23.00
	  [7]  18.00  7.00  2.00  9.00 11.00 22.00 20.00     . 12.00 17.00 16.00 25.00 24.00 25.00 26.00 17.00  6.00 11.00
	  [8]  19.00 14.00 13.00 13.00 15.00 23.00 22.00 12.00     . 21.00 21.00 22.00 22.00 23.00 23.00 22.00 11.00 18.00
	  [9]  25.00 21.00 17.00 25.00 26.00 18.00 22.00 17.00 21.00     .  3.00 13.00 13.00 11.00 12.00 23.00 19.00 23.00
	  [a]  25.00 19.00 15.00 26.00 25.00 15.00 25.00 16.00 21.00  3.00     . 12.00 12.00 12.00 15.00 24.00 18.00 19.00
	  [c]   5.00 24.00 26.00 23.00 21.00 22.00 26.00 25.00 22.00 13.00 12.00     .  8.00 10.00 24.00 18.00 25.00 25.00
	  [E]  19.00 24.00 24.00 24.00 23.00 19.00 20.00 24.00 22.00 13.00 12.00  8.00     .  2.00 14.00 19.00 24.00 23.00
	  [F]  19.00 25.00 25.00 24.00 23.00 17.00 26.00 25.00 23.00 11.00 12.00 10.00  2.00     . 12.00 18.00 25.00 23.00
	  [g]  29.00 30.00 28.00 23.00 29.00 21.00 12.00 26.00 23.00 12.00 15.00 24.00 14.00 12.00     . 28.00 28.00 25.00
	  [J]   7.00 21.00 18.00 17.00 19.00 18.00 17.00 17.00 22.00 23.00 24.00 18.00 19.00 18.00 28.00     . 19.00 19.00
	  [t]  21.00  7.00  8.00 10.00 10.00 22.00 21.00  6.00 11.00 19.00 18.00 25.00 24.00 25.00 28.00 19.00     . 11.00
	  [o]  20.00 14.00 13.00 12.00 14.00 25.00 23.00 11.00 18.00 23.00 19.00 25.00 23.00 23.00 25.00 19.00 11.00     .
;


	USERTYPE Region#18 STEPMATRIX = 13
	[0 = AAAC]
	[1 = ACCA]
	[2 = ACCT]
	[3 = ATAT]
	[4 = ATTA]
	[5 = CAAC]
	[6 = TAAC]
	[7 = TAAT]
	[8 = TATT]
	[9 = TCCT]
	[a = TCTC]
	[c = TGAC]
	[E = TTAC]

	          0     1     2     3     4     5     6     7     8     9     a     c     E 
	  [0]      .  3.00  2.00  2.00  2.00  1.00  1.00  2.00  3.00  3.00  3.00  2.00  2.00
	  [1]   3.00     .  1.00  3.00  2.00  3.00  3.00  4.00  4.00  2.00  3.00  2.00  2.00
	  [2]   2.00  1.00     .  2.00  3.00  4.00  3.00  3.00  3.00  1.00  3.00  2.00  2.00
	  [3]   2.00  3.00  2.00     .  2.00  3.00  3.00  2.00  2.00  3.00  3.00  3.00  2.00
	  [4]   2.00  2.00  3.00  2.00     .  4.00  3.00  3.00  2.00  3.00  3.00  3.00  2.00
	  [5]   1.00  3.00  4.00  3.00  4.00     .  1.00  2.00  3.00  4.00  3.00  2.00  2.00
	  [6]   1.00  3.00  3.00  3.00  3.00  1.00     .  1.00  2.00  2.00  2.00  1.00  1.00
	  [7]   2.00  4.00  3.00  2.00  3.00  2.00  1.00     .  1.00  2.00  3.00  2.00  2.00
	  [8]   3.00  4.00  3.00  2.00  2.00  3.00  2.00  1.00     .  2.00  2.00  3.00  3.00
	  [9]   3.00  2.00  1.00  3.00  3.00  4.00  2.00  2.00  2.00     .  2.00  2.00  3.00
	  [a]   3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  2.00  2.00     .  2.00  2.00
	  [c]   2.00  2.00  2.00  3.00  3.00  2.00  1.00  2.00  3.00  2.00  2.00     .  1.00
	  [E]   2.00  2.00  2.00  2.00  2.00  2.00  1.00  2.00  3.00  3.00  2.00  1.00     .
;


	USERTYPE Region#19 STEPMATRIX = 14
	[0 = AAGACAA]
	[1 = AGAAGCAA]
	[2 = CAAACAA]
	[3 = CAAACCAA]
	[4 = CAAACTAA]
	[5 = CAAATAA]
	[6 = CAACTTAA]
	[7 = CACCATA]
	[8 = CATAAAA]
	[9 = CCCCAA]
	[a = CCCCCG]
	[c = CCCTCCT]
	[E = CTATCTAA]
	[F = TCCCAAA]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F 
	  [0]      .  3.00  2.00  3.00  3.00  3.00  4.00  5.00  3.00  4.00  6.00  6.00  5.00  5.00
	  [1]   3.00     .  3.00  3.00  4.00  4.00  5.00  6.00  5.00  4.00  6.00  7.00  5.00  6.00
	  [2]   2.00  3.00     .  1.00  1.00  1.00  3.00  4.00  2.00  3.00  5.00  5.00  3.00  2.00
	  [3]   3.00  3.00  1.00     .  1.00  2.00  3.00  4.00  3.00  2.00  4.00  5.00  3.00  5.00
	  [4]   3.00  4.00  1.00  1.00     .  1.00  2.00  4.00  3.00  3.00  5.00  6.00  2.00  5.00
	  [5]   3.00  4.00  1.00  2.00  1.00     .  2.00  4.00  2.00  4.00  6.00  6.00  3.00  2.00
	  [6]   4.00  5.00  3.00  3.00  2.00  2.00     .  3.00  4.00  3.00  5.00  5.00  3.00  5.00
	  [7]   5.00  6.00  4.00  4.00  4.00  4.00  3.00     .  3.00  2.00  4.00  4.00  4.00  3.00
	  [8]   3.00  5.00  2.00  3.00  3.00  2.00  4.00  3.00     .  4.00  6.00  6.00  3.00  4.00
	  [9]   4.00  4.00  3.00  2.00  3.00  4.00  3.00  2.00  4.00     .  2.00  3.00  3.00  2.00
	  [a]   6.00  6.00  5.00  4.00  5.00  6.00  5.00  4.00  6.00  2.00     .  2.00  5.00  4.00
	  [c]   6.00  7.00  5.00  5.00  6.00  6.00  5.00  4.00  6.00  3.00  2.00     .  5.00  5.00
	  [E]   5.00  5.00  3.00  3.00  2.00  3.00  3.00  4.00  3.00  3.00  5.00  5.00     .  4.00
	  [F]   5.00  6.00  2.00  5.00  5.00  2.00  5.00  3.00  4.00  2.00  4.00  5.00  4.00     .
;


	USERTYPE Region#20 STEPMATRIX = 11
	[0 = AATATA]
	[1 = ATATA]
	[2 = CATAA]
	[3 = CCTAG]
	[4 = CTTAG]
	[5 = TAACA]
	[6 = TACTA]
	[7 = TATAA]
	[8 = TATCA]
	[9 = TATTA]
	[a = TTTCA]

	          0     1     2     3     4     5     6     7     8     9     a 
	  [0]      .  1.00  2.00  4.00  4.00  3.00  3.00  2.00  3.00  2.00  4.00
	  [1]   1.00     .  4.00  4.00  3.00  3.00  3.00  2.00  2.00  2.00  3.00
	  [2]   2.00  4.00     .  2.00  2.00  3.00  3.00  1.00  2.00  2.00  3.00
	  [3]   4.00  4.00  2.00     .  1.00  3.00  3.00  3.00  3.00  3.00  4.00
	  [4]   4.00  3.00  2.00  1.00     .  4.00  5.00  3.00  5.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  4.00     .  2.00  2.00  1.00  2.00  2.00
	  [6]   3.00  3.00  3.00  3.00  5.00  2.00     .  2.00  2.00  1.00  3.00
	  [7]   2.00  2.00  1.00  3.00  3.00  2.00  2.00     .  1.00  1.00  2.00
	  [8]   3.00  2.00  2.00  3.00  5.00  1.00  2.00  1.00     .  1.00  1.00
	  [9]   2.00  2.00  2.00  3.00  3.00  2.00  1.00  1.00  1.00     .  2.00
	  [a]   4.00  3.00  3.00  4.00  3.00  2.00  3.00  2.00  1.00  2.00     .
;


	USERTYPE Region#21 STEPMATRIX = 18
	[0 = ACACCACACCAACACCC]
	[1 = ACACCACACCTACACCC]
	[2 = ACACTACACCAACACCC]
	[3 = ACCATTTAAACTTTATCC]
	[4 = ACTAATTTATAACTTCTACC]
	[5 = ACTAATTTATTAACCCCACC]
	[6 = ATAACCAAGCGCAAACAAGTAT]
	[7 = ATAATTAAGCGCAAACAAACCT]
	[8 = ATATAGCGCCCACATCT]
	[9 = ATCAATTTATACACAATTTT]
	[a = CAACACAAAACCCT]
	[c = CAACATGCCCAAACCC]
	[E = CCAAAATATTACACACCCT]
	[F = CCACGTTACCCTTACTA]
	[g = CTAATTCAATCACTTCCC]
	[J = GCGCCATGCCAACACCC]
	[t = GTATTATACCCACACCC]
	[o = TTCACACCACTCTCTACA]

	          0     1     2     3     4     5     6     7     8     9     a     c     E     F     g     J     t     o 
	  [0]      .  1.00  1.00 10.00 10.00 12.00 11.00  9.00  8.00 13.00  6.00  6.00 10.00  9.00 10.00  4.00  6.00 10.00
	  [1]   1.00     .  2.00  9.00  9.00 11.00 11.00  9.00  8.00 13.00  7.00  6.00 11.00  9.00 10.00  5.00  6.00 10.00
	  [2]   1.00  2.00     .  9.00  9.00 11.00 12.00  9.00  8.00 12.00  6.00  7.00 10.00  9.00  9.00  5.00  5.00 10.00
	  [3]  10.00  9.00  9.00     .  7.00 10.00 13.00 10.00 11.00 11.00 10.00 11.00 12.00  9.00  9.00 12.00 10.00  9.00
	  [4]  10.00  9.00  9.00  7.00     .  5.00 16.00 15.00 12.00 10.00 12.00 11.00 11.00 12.00  8.00 11.00  9.00 12.00
	  [5]  12.00 11.00 11.00 10.00  5.00     . 15.00 14.00 13.00  7.00 11.00 10.00  9.00 14.00 11.00 12.00 10.00 12.00
	  [6]  11.00 11.00 12.00 13.00 16.00 15.00     .  5.00  9.00 10.00  8.00  8.00 12.00 14.00 14.00 14.00 12.00 13.00
	  [7]   9.00  9.00  9.00 10.00 15.00 14.00  5.00     .  8.00 11.00  6.00  9.00 10.00 11.00 10.00 13.00  8.00 12.00
	  [8]   8.00  8.00  8.00 11.00 12.00 13.00  9.00  8.00     . 10.00  9.00  8.00 13.00 12.00 10.00 10.00  7.00 10.00
	  [9]  13.00 13.00 12.00 11.00 10.00  7.00 10.00 11.00 10.00     .  8.00 11.00 10.00 12.00 13.00 14.00  9.00 12.00
	  [a]   6.00  7.00  6.00 10.00 12.00 11.00  8.00  6.00  9.00  8.00     .  5.00  6.00  9.00  8.00  8.00  9.00  9.00
	  [c]   6.00  6.00  7.00 11.00 11.00 10.00  8.00  9.00  8.00 11.00  5.00     .  8.00  8.00 10.00  5.00  6.00 12.00
	  [E]  10.00 11.00 10.00 12.00 11.00  9.00 12.00 10.00 13.00 10.00  6.00  8.00     . 11.00  9.00 11.00 11.00 14.00
	  [F]   9.00  9.00  9.00  9.00 12.00 14.00 14.00 11.00 12.00 12.00  9.00  8.00 11.00     . 11.00 10.00  9.00 10.00
	  [g]  10.00 10.00  9.00  9.00  8.00 11.00 14.00 10.00 10.00 13.00  8.00 10.00  9.00 11.00     . 13.00  8.00  6.00
	  [J]   4.00  5.00  5.00 12.00 11.00 12.00 14.00 13.00 10.00 14.00  8.00  5.00 11.00 10.00 13.00     .  6.00 13.00
	  [t]   6.00  6.00  5.00 10.00  9.00 10.00 12.00  8.00  7.00  9.00  9.00  6.00 11.00  9.00  8.00  6.00     . 11.00
	  [o]  10.00 10.00 10.00  9.00 12.00 12.00 13.00 12.00 10.00 12.00  9.00 12.00 14.00 10.00  6.00 13.00 11.00     .
;end;

ctype region#1: 1803;
ctype region#2: 1804;
ctype region#3: 1805;
ctype region#4: 1806;
ctype region#5: 1807;
ctype region#6: 1808;
ctype region#7: 1809;
ctype region#8: 1810;
ctype region#9: 1811;
ctype region#10: 1812;
ctype region#11: 1813;
ctype region#12: 1814;
ctype region#13: 1815;
ctype region#14: 1816;
ctype region#15: 1817;
ctype region#16: 1818;
ctype region#17: 1819;
ctype region#18: 1820;
ctype region#19: 1821;
ctype region#20: 1822;
ctype region#21: 1823;