#NEXUS [written Wed Apr 09 08:20:02 EST 2014 by Mesquite version 2.75 (build 566) at aaa.local/10.189.70.140] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=40; TAXLABELS Drosophila_willistoni_R2_SIDE Trypanosoma_brucei_Tb927_04_v4_1473651 Trypanosoma_brucei_Tbg927_04_1420728 Trypanosoma_brucei_Tb927_06_v4_1596247 Trypanosoma_brucei_Tb927_06_v4_1550987 Trypanosoma_brucei_Tb427_03_v4_6279 Trypanosoma_brucei_Tb927_03_v4_5793 Trypanosoma_brucei_Tb927_08_v4_17261 Leishmania_tarentolae_P28_804618 Leishmania_donovani_28_v01s1_832468 Leishmania_infantum_J28_828417 Leishmania_major_F28_813783 Leishmania_mexicana_M28_803106 Leishmania_panamensis_KB453284_328629 Leishmania_braziliensis_M28_836014 Leishmania_panamensis_KB453339_66838 Leishmania_tarentolae_P29_986367 Leishmania_mexicana_M08_29_190165 Leishmania_major_F29_1010562 Leishmania_donovani_20_v01s1_1036612 Leishmania_infantum_J29_1017989 Trypanosoma_brucei_Tb927_09_v4_2520024 Trypanosoma_brucei_Tb427_11_01_v4_4593961 Trypanosoma_brucei_Tb927_11_01_v4_4592751 Trypanosoma_brucei_Tb927_10_v5_452220 Trypanosoma_brucei_Tb427_10_v5_452323 Trypanosoma_brucei_Tbg972_10_401727 Trypanosoma_brucei_Tb427_09_v4_3011406 Trypanosoma_brucei_Tb927_09_v4_3010329 Trypanosoma_congolense_pschr_5_603310 Trypanosoma_congolense_bin_7431359 Trypanosoma_vivax_Y489_03_1238673 Trypanosoma_vivax_Y486_bin_11221740 Trypanosoma_congolense_pschr_10_400469 Trypanosoma_congolense_bin_13361355 Trypanosoma_congolense_pschr_11_3750506 Trypanosoma_congolense_pschr_1_110891 Trypanosoma_congolense_pschr_3_45521 Trypanosoma_congolense_pschr_1_117249 Trypanosoma_congolense_pschr_10_2982978 ; END; BEGIN CHARACTERS; TITLE 'Trypanosomatid SIDER full-length'; DIMENSIONS NCHAR=884; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Drosophila_willistoni_R2_SIDE GGAGGAC---ATGGTCCTG----GTGAACGCAGAAGGTCAACGCAGAAATGCTATACTTCGTAAGTCCGGATCCAGGTCAAGTCGA--CTCGAA----ACCTCCTCGTGGTG---TCCTCTGGATGCTATCTAGGCCA---------------TTGTCTAGTTAGTAACAGATT--CGAG-----------------------------------------------------------------------------------------CGGCGGTATTCTGAAGG---TCTAATCCTGACGAATATTAGAAAACG---------------------------------------TTGGAATATGGTCTAGGAT--------------TACGTCCGCCTACGACCCCA------------------------------------------------------------------------------------------GCGAACCAAGCAGAACTGAAAATTTGAGTACACTTTTAAAT----TGGAGCAAAATC---CAACATAAATG--ATATATG-----ATTTGACACATTCTAATCTTGGGGTTACAAACAAATTAACCAAAGGCGCTTGCTGCCTCAG-------CATGACATCTAAAAGAAGGCAT-------AAACATCGTATGGCTAAA-------AAGAGGAGGTTTTAGTACGTAGGCGCTGTGG---AACTTTATAGTTCTGATGATGCAGT--GAATCGTGCATGCGGCAATTCACC-CGTAGTAAGGTGACCG------TATCTTTCG------AAGATTTCCTCCCTCTGCGATCAAAAAAAAAAAA---AAAAAAA------------ Trypanosoma_brucei_Tb927_04_v4_1473651 CCCTGGTCTAGTGGTCAAGTAGCGTCCGCGTCACAGATAGTACAGGGATCGGTCCCCGCGGCCGGCGAGTATTTAGCTTACACTAAGGATGAATCT--GCCTCAACGTGGCG---CTAGGGTTCAGGA------ACAGAAAAGAAA--------TAAACTGGGAAGTCAAATGT---TCCATCCAAAC----------------------------------------------------------------------------------GGCGGCCGCAACACCG-GATCTGACGCGCCCGCTCCGTGGGGAGAG-----------------------------------------AACTATTACTAAGTATT----------------CCACGGTCCAGCGCCCTG------------------------------------------------------------------------------------------CTCTGGTGTGGGAACCCTAATCCCTTATACAACTTCCGTCCG--GGGAGGCAGATGGATATGGTAAACATGGTTCAAACG-----CAACGTGG----GAGG-ATCGAACGGGCGCCAAATGGAGACCGACCCCCTAGACACACGCA-----CATACGGTCACCCAGCCGTG------------GGTGTCAATTCTCCAAGAAAA--AAACAGGTGGTTTTAGTGGGTAGAAATGACA----ATCTCCAGAGCTGAC-CCCCACACT--ACCACGTTATCGTGGCGTGGTGTG-CGTAAATGCATTTTCT----CTTTGCCCTCGGGTGGACCGACTGCATGGTCCTGACGGTTGCGCGAGAGAAAATCAAATGAAAAAAA------ Trypanosoma_brucei_Tbg927_04_1420728 CCCTGGTCTAGTGGTTAAGTAGCGTCCGCGTCACAGATAGTGCAGGGATAGATCCCAGCTGGCGGAGAGTATTTAGCTTACACTAAGAATGAATCT--GCCTCAACATGGAG---TCAGCGTCCAGGG------CCAGAAGAGAAA--------TCAACTGGGAGGCCAAATGC---TCCATCCAAAC----------------------------------------------------------------------------------GGCGGCCGCAACACCG-GATATGGTGTGACCGCTCCGTGGGGAGAG-----------------------------------------AACCATTACTTAGTGTTCC-------------ACCACGGTTCAGCACCCTG------------------------------------------------------------------------------------------CCCAGGTGAGGGAACAGAAATCCCTTATACAACTTCCGTCCG--GGGAGGCAGATGGATATGGTAAACATGGTTCAAGCG-----CAACGTGG----GGGGAATCGAACGGGCGCCAAATGGAGACCGCCCCCCTAGACACACGCA-----CATACGGTCACCCAGCCGTG------------GGTATCAATTCTTCAAAAAAAGAAAACTGAGGGTTTTAGTGGGTAGAAACGCCA----GTATCCAGCGTTGAG-TCACACACT--ACAATTTCGTTGTGGCATGGTGTG-CGGAAGTGCATTCCCT----CCTTACACTCGGGCAGACCGACTGCATGGTCCTGACGGTTGCGCGAGAGAAAATCAAATGAAAAAAA------ Trypanosoma_brucei_Tb927_06_v4_1596247 CCCTGGTTTAGTGGTTAAGTAGAGTGCTCGTCGCAGATAATTCCTGGGTGAATCCCCGCGGGCGCAGATTATTTAGCTTACACTAAGAATGAATCT--GCCTCAATGTGGCG---CCAGGGTCACGTA------CCAGAAGAGAAA--------TCGACTGGAAAGCCAAATGT---TCCATCCAAAA----------------------------------------------------------------------------------GTCGGTTGCAATACTG-AATATGCTGTGGCTGCTCCATGAAGAAAG-----------------------------------------AACCATTACTTAGTGTTGC-------------ACCACGGTTCAGTACCCTG------------------------------------------------------------------------------------------CTCAGGTGGGGGAACCAAAATCCCTGACCCAACTTCCGGCCG--GGGAGGCAGATGGATATGGTAAACATGGTTCAGATG-----CAATGTGG----GAGGGATCGGATGGACGGCAAATGGACAACG-CCCCCTAGAATCGCACA-----CATGCGGTGGCCCACCTGTA------------TGTGTCGATTCTCAAAG----AAACAAAGGGGGTTTTAGTGGATAGGCACGCTG----GCCTCCAGCGTTGAG-TCCCACACT--ACCATGTCCTCACGGCGTGGTGCG-GATAAATGCATTTAAG----CCTTACCCTCGGCTGGTCAGACTGCATGGACCTGACGGTTGCTCGGTGGAAAATTTAAAAAA----------- Trypanosoma_brucei_Tb927_06_v4_1550987 CCCTTGTTTGGTGGTTAAGTAGAGTGCTTGTCGAACATTGTACAAGGGTAGATCCCAGGGGGCGGAGAGTATCTAGCTTACACTAAGAATGAATCT--GCCTCAATGTGGCG---CCAGGGTCACGTA------CCAGAAGAGAAA--------TCGACTGGAAAGCCAAATGT---TCCATCCAAAA----------------------------------------------------------------------------------GTCGGTTGCAATACTG-AATATGCTGTGGCTGCTCCATGAAGAAAG-----------------------------------------AACCATTACTTAGTGTTGC-------------ACCACGGTTCAGTACCCTG------------------------------------------------------------------------------------------CTCAGGTGGGGGAACCAAAATCCCTGACCCAACTTCCGGCCG--GGGAGGCAGATGGATATGGTAAACATGGTTCAGATG-----CAATGTGG----GAGGGATCGAATGGGCGTCAAGTGGAGACCACCCCCCTAGACACGCACA-----CATGCGGTCTCTCACCCGTG------------GGTATCAATTCTCCAAA----AAACA--GGGAATTTCAGTGGGTAGGCACGCTG----GTCTCCAGCGCTGAG-TCCCACACT--ACCATATCGTCGTGGCGTGGTGTG-CGTAAATGCATTTCCT----CCTTACCATCGGGTGGACAGACTGCATGGTCCTGAAGGTTGCGCGAGGGGAAAAA------------------ Trypanosoma_brucei_Tb427_03_v4_6279 CGCTGGTTTAGTGGTTAAGTAGATTGGTCGTCGCAGATAGTACCGGAATCGATCCCCGCGGCCAGCGAGTATTTAGCTTACACTAAGGATGGATCT--GCCTCAACGTGGCG---CCAGGGTCCAGTA------CCAGAAGAGAAA--------TCGACTGGGAAGCCAAATGT---TCCATCCAAA?----------------------------------------------------------------------------------GGCGGCCGCAACACCG-GATATGGTGCGACCGCTCCGTGGGGAGAG-----------------------------------------AACCATTACTTAGTGTT----------------CCACGGTCCAGTACCCTG------------------------------------------------------------------------------------------CTCAGGTGGGGGAACCAAAATCCCTGATACAACTTCCGTCCG--GGGAGGCAGATGGATATGGTAAACATGGTTCAGACG-----CAACGTGG----GGGGAATCGAACTGGCGTCAAGTGGAGACCGCCCCCCTAGACACGCGCA-----CATGCGGTCCCCCACCCGTG------------TGTATAAATTCTCTAA------AAAACAAGGGAGTTTAGTGAGTAGGAATGACA----ATCTCCAGCGTTGAG-TCTCACACT--ACCACGTTCTCGTGGTGTGGTGTG-CGTAAATGCATTT?CT----CTTTACCCTCGTGTAGACCGACAGCATGGTCTTGAAGGTTGCGCGAGGAAAAATCAAAAAAA----------- Trypanosoma_brucei_Tb927_03_v4_5793 CCCTGGTATAGTGGTTGAGTAGAGTGCTCGTTGCTGATAGTGCTGGCATCGATCCCCGTGGGCGGCGAGTATTTAGCTTACACTACGGATGAATCT--GCCTCAACGTGGCG---CCAGGGTCTAGGA------CCAGAAGAGAAA--------TCGACTAGGAAGGCAAATGT---TCTATCCAAAA----------------------------------------------------------------------------------GGCTGCCACACCACAG-GATATGGTGTGACCGCTCCGTGAGGAGAG-----------------------------------------AACCATTACTTAGTGTT----------------CCACGGTCCAGTACGCTG------------------------------------------------------------------------------------------CTCAGGTGAGGGAACAGAAATCCCTGATACAACTTCCGTCCG--GGGAGGCAGATGGATATGGTAAATATGGTTCAGACG-----CAACATGA----GGGGAATCGAACTGGCGTCAAATGGAGACCGCCACCCTAGACACGCGCA-----CATGCGGTCCCCCACCCGTG------------TGTATAAATTCTCTAA------AAAACAAGGGAGTTTAGTGAGTAGGAATGACA----ATCTCCAGCGTTGAG-TCTCACACT--ACCACGTTCTCGTGGTGTGGTGTG-CGTAAATGCATTTACT----CTTTACCCTCGTGTAGACCGACAGCATGGTCTTGAAGGTTGCGCGAGGAAAAATCAAAAAAA----------- Trypanosoma_brucei_Tb927_08_v4_17261 CCCTGGTTTAGTGGTAAAGTAGAGGTCTCGTCGCATATAGTACCGGCATCGATCCCCGTGGGCGGAAAGTATTTAGCTTACACTAAGGATGGATCT--GCCTCAACGTGGCG---CCAGGGCCCAGTA------CAAGAAGAGAAA--------TCGGCTGGGAAGTCAAATGT---CCCATCGGAAAC---------------------------------------------------------------------------------AGCGGCTGCAACACCG-GATATGGTGCGACCGCTCCGTGGG--GAG-----------------------------------------AACCATTACTTAGCTTT----------------CCACGGGCCAATACTCTG------------------------------------------------------------------------------------------CTCAGGTGGGAGAACCAAAATCCCTGATACAACCTCCGTCCG--GGGAGGCAGATGGATATGGTAAACATGGTTCCAACG-----CAACGTGTGTGTGGGGAGTCGAACTGGCGTCAAATGGAGACCGCCCCCCTAGACAAGCGCA-----CATGCGGTCGGCCTCCAGTT------------GGTATCAATTCTCAAA---------AAAAGGGGGTTTAGTGGGTAGGAACGCCG----GTATCCAGTGTTGAG-TCCCACGCTACACCATGTCATCGCGGCGTGGTGTG-CTTAAAAGCATTTACT----TCTTACCATTGGGTGGAGCGATTGCATGGTGCTGACATCTGCGCGAGGGAAAATAAAAAAAACA--------- Leishmania_tarentolae_P28_804618 CTCTGAT-------------------------------------------------------------------------------AACGGGGGAC--ACCTCAGCGTGGTA---TCAGGGTCCA???------????--------------??????????????????????---????????????????????????????????????????????????????????????????????????????--??????????????????????????????????????????????-??????????????--------------------------------???????????????????????????????????????????????????????????????????????????????????????????????????????????????????????-------------????????????????????????????????AGCGTGCCTGTGGG-CGACGTGCGGGGC-GGGG-TGGGTGCG-----GTTCGAGGAAGAGGCCATG------CTCCGACGACTGAGTCTGGGCATTGCTGCGCCGCG-TGTGCCTAATGCTGCCTCGCGCCA-----CGCGACGG-ACGTGTAACCGGG------------GCCAGGCAGAGTGGG--------AGTTGAGCTCTTGTTGTGTGGCAGCATG---GACACGTTGAAAGAAAATTCAGTGCCCGGCTCTTGTGTCTCAGGTTCCATGTTCCGAGAGTGGAATTTGT-----GGTTTGTAGATGTCG---CGGCGTGTTGCTGGTTGAAAAGAGG---------AACAAAA------------- Leishmania_donovani_28_v01s1_832468 CCCTGAT-------------------------------------------------------------------------------AACGGGGGAC--ACCTCAGCGTGGTA---TCAGGGTCCAGTA------CCCA-----------CTCTCTCTGTGGGGAAGCCAAGCAG------CCCCTATTCCTGCCACTGCACAACCACCTCTGGTGGTGACAGGGTCAGGCG--CGCGTGACGTAGGGACG-----TCAGAGCGATGTATCACTGCCGATGCCCGCAGTGTCCGGTGCTGGA-TGGCGTGGCGCCGG--------------------------------AGCGACCCGCGACCGCGCACACGTTTTCGCCATCCACAGGATGGGCGGAGTGTCGGCGTGACTCGAACGCGTCCCACCCCCGGCCCTCACTGCCCACTGGGGGCGGGGTGAGCCTGGG------CCCCCCGAGAGGGATGCCCCGGGTGATGGCCAGCATAATGTGCGTGGCTGTGGGGCGACCTGTGGGGC-GGGGGTGGGTAAG-----GTTCGAGGCAGAAGCCATG------CACCGATGACCGGGTCTGGGCATTGCTGCACCTCG-TGTGCCTACGGCTGCCTCGCGCCG-----CGCGACGGGGCCTGTGACCGG--------------CCGGGCGGAGATG---------AGCGTAGCTCTT---GTGTGGCAGAGAG---GAGACGAC-AAAAAAAT-TCAGTTTCCGGTTCTCGTGTCTCAGGCACCATGTATCTTGAGTGGAGTGTGC-----AGTTTGTAGATAGCATGACGGCGTGTGCTTTTTTGAACAGAGG---------AACAAAA------------- Leishmania_infantum_J28_828417 CCCTGAT-------------------------------------------------------------------------------AACGGGGGAC--ACCTCAGCGTGGTA---TCAGGGTCCAGTA------CCCA-----------CTCTCTCTGTGGGGAAGCCAAGCAG------CCCCTATTCCTGCCACTGCACAACCACCTCTGGTGGTGACAGGGTCAGGCG--CGCGTGACGTAGGGACG-----TCAGAGCGATGTATCACTGCCGATGTCCGCAGTGTCCGGTGCTGGA-CGGCGTGGCGCCGG--------------------------------AGCGACCCGCGGCCGCGCACACGTTTTCGCCATCCACAGGATGGGCGGAGTGTCGGCGTGACTCGAACGCGTCCCACCCCCGGCCCTCACTGCCCACTGGGGGCGGGGTGAGCCTGGCCCCCCCCCCCCCGAGAGGGATGCCCCGGGTGATGGCCAGCATAATGTGCGTGGCTGTGGGGCGACCTGTGGGGC-GGGGTTGGGTAAG-----GTTCGAGGCAGAAGCCATG------CACCGATGACCGGGTCTGGGCATTGCTGCACCTCG-TGTGCCTACGGCTGTCTCGCGCCG-----CGCGACGGGGCCTGTGACCGG--------------CCGGGCAGAGATG---------AGCTTAGCTCTTGTTGTGTGGCAGAGAG---GAGACGAC-AAAAAAAT-TCAGTTTCCGGTTCTCGTGTCTCAGGCACCATGTATCTTGAGTGGAGTGTGC-----AGTTTGTAGATAGCATGACGGCGTGTGCTTTTTTGAACAGAGG---------AACAAAA------------- Leishmania_major_F28_813783 CCCTGAT-------------------------------------------------------------------------------AACGGGGGAC--ACCTCATCGTGGTA---TCAGGGTCCAGTA------CCCA-----------CTCTCTCTGTGGGGAAGCCAAGCAG------CCCCTACTCCTGCCACTGCACAACCACCTCTGGTGGTGACAGGGTCAGGCG--CGCATGACGTAGGGAGG-----TCAGAGCGATGTATCACTGCCGATGTCCGCAGTGTCCGGTCCTG-------------------------------------------------------------------------------------------------------------------------------------------------------GAGG-----------------------------------------------------------GCGTGGCTGTGGGGCGACCTGCGGGGC-GGGGGTGGGTACG-----GTTCGAGGCAGAAGCCATG------CACCGATGACCGGGTCTGGGCATGGCAGCACCTCG-TGTGCCTACGGCTGCCTCGCGCCG-----CGCGACGGGGCCTGTGACCGG--------------CCGGGCAGAGATG---------AGCTTAGCTCTT---GTGTGGCAGAGAGATGGGGACGAC-AAAGAAGT-TCAGTCTCCTGTTCTCGTGTCTCAGGCTCCATGTACCTTGAGTGGAGTGTGC-----GGTTCGTAGATAGCATGACGGCGTGCGCTTGTTTGAACAGAGG---------AGCAAAA------------- Leishmania_mexicana_M28_803106 CCCTGAT-----------------------------------------------------------------------------AACATGGGTGAC--ACCTCAGCGTGGTA---TCAGGATCCAGTA------TCCA-----------CTCTCTCTGTGGGGAAGCCAAGCAG------CCCCTATTCCTCCCACTGCACAGCCACCTCTGGTGGCGACAGGGTCAGGCG--CGCATGACGTAGGGAGG-----TCAGAGCGACGCATCGCTGCCGATGTCCGCG--GTCCTGTCCTGGA-CGGCGTGGCGTCGG--------------------------------AGGGGCCTGCCACCGCGCACGCGCTTGCACGACCCACTGGATGGGCAGAGTGTCGGCATGACTCGAACGCG--CCCCACCCGGCCCTCGCTGCCCACTG---GCGGGGTAAGGCTGGGG-----CACCCCGAGAGGGATGCCCTGGGCGATGGCCGGGATAATGCGCGCGGCTGTGGGGCGACCTGCGGGGC-GGGGGTGGGCAAG-----GCTCGAGGCAGAAGCCATG------CATCGATGACCGGGTCCGGGCATTGCTGCGCCTCG-TGTGCCCACGGCTGCCTCGCGCCG-----CGCGACGGGGCCTGTGACCGG--------------GCGGGCGGAGATG---------CGTTGAGGTCATG-TGTGTGG-GGATAG----AGACGAC-AAAAAAAAATCAGTCTCCGGTTCTCGTGTCTCAGGCTCCATGTACCTTGAGTGGAGTGTGT-----GGTTCGTAGATAGCATGATGGGGTGTGCTTGCTTCAACGGAGG---------AACAAAG------------- Leishmania_panamensis_KB453284_328629 CCCTGAT------------------------------------------------------------------------------GACGAGGAAAG--GTCCTAGCGTGGTA---TCAGGGCCCGCCC------CCCG---------------CTCGGCGGGGAGGCCAGGCAG-----CCCCCTATCCCTGCCAATGCCGAACCGCCCTTGGCGATGGTAGGGACAGGTGTCTGAAAGACGAGGGGGGGGGGAGTCGTGGCGGCGTGTCGCTGCTGACGTCGGCG--GTCCGGTTGTGGA-CGGCGCTGCGTCGG--------------------------------TGCGCCCTGCGGCCGTGGGCGCGCCTGTGCCACCCGTGTGGTGAGCGGGTTGCTG-----------------------------------------------GCGG-----------------------------------------------CCAGCGTAATGGCCAGGGGAGCGAGGCTGCCCGGGGGAC-GGGGTCGGGTGGGT-AGCGTTTGTGGCGGGGGTGGTGGTGGCGCCCGGGTGACTGAGTCGGCGCGTTGCTGTGGCGCG-TGTCCC----GCTGTTTCGTACCG-----GGCGATGG-GCCTGCAGTGGG--------------TTGGGTAAAGTGGA--------ATGTAAGCTCAGGTTCTATGGCTGAATG--GATGTTTTAAAAAGAAGTTACTCTCTTCTACTCTCGTGTCCCAACCTCCATATACAATCAGGGGATTGAGT-----GGTTCGCATATGACGCGTCGGTGTGCGCTTGTCGGAACAGAGC---------AATAAA-------------- Leishmania_braziliensis_M28_836014 CCCTGAT------------------------------------------------------------------------------GACGCGGAAAG--GTCCTAGCGTGGTA---TCAGGGCCCGCCC------CCCG---------------CTCGGCGGGGAGGTCAGGCAG-----CCCCCTATCCCTGCCAATGCCGAACCGCCCTTGGCGATGGTAGGGACAGGTGTCTGAAAGACGAGGGGGGGG----TCGTGGCGGCGTGTCGCTGCTGATGTCGGCG--GTCCGGTTGTAGA-GGGCGCTGCGTCGG--------------------------------TGCGGCCTGCGGCCGTGGGCGCGCCTGTGCCACCCGTGTGGTGAGCGGGTTGCTG-----------------------------------------------GCG------------------------------------------------CCAGCGTAATGGCCAGGGCTGCGAGGCTGCCCGGGGGAC-GGGGTCGAGTGGGT-AGCGTTTGTGGCGGGGGTGGTGGTGGCGCCCGGGTGACTGAGTCGGCGCGTTGCTGTGGCGCG-TGTCCC----GCTGTTTCGTACCG-----GGCGATGG-GCCTGCAGTGGG--------------TTGGGTAAAGTGGA--------ATGTAAGCTCGGGCTCTATGGCTGAATG--GATGTTATAAAAAAAAGTGACTCTCTTCTACTCTCGTGTCCCAACCTGCATATACAATCAGGGGATTGAGT-----GGTTCGCATATCACGCGTCGGTGTGCGCTTGTTGGAACAGAGC---------AATAAA-------------- Leishmania_panamensis_KB453339_66838 CCCTGAT-------------------------------------------------------------------------------GATGAGTCAC--CTCTCAGTGCCTGACCTCCAGGGCTTAGTG----CCCCCG--------------CTCTATGTGGGGAAGCCAACCA-GTCCCCCTTCATCCCTACCTCCACTGAACCACTCTAGGCCGTGACGTGGTCCAGTACCCGCGACACGGGGAGG-----TCAAGGCGCGGTGCATCACTGCGGATGCCGGCGGTGTAATGTCCTGGA-CGGCGTGGCGTCGG--------------------------------AGCGACCGGCGACAGCGGGCACGCCTCTGCCGCGTGCATGATGGGCGGGGTGTCAGCGCG------------------------------------------GCTCG----------------------------------------------AATGCATCTCGCGCGGCCCT----CGCTGCTTGCGGGTG-CGTGGGGCCTGGGCCACG--CCGTGGGTCGCACCACG-----TGACGGCCGGCCTTGTAGGGGCG--GCTGCACGGCGACGTGCGGAGCGTTGGTGGGTGGGC-----AGCGCT--TGGGGCGGAGGG-----------------CGGCCGTGCGG-----------AGATGGCTGTG-TCGG--------------------CGCATTGGAG----------GACCGCGTATCTAGTT---TGCTGTGTCGCACG------ACG------CGATGGG------TCTGTG---GGACACG??????????--------------------------------- Leishmania_tarentolae_P29_986367 CCCTAAT------------------------------------------------------------------------------GACAGGGGGAC--ACCTCGGTGTGGTA---TCAGAGTGCAGCA------CCTA------------ACTCTCTATGGGGAAGCCAAGAAT----CCCCCCAATCCCTGTCAACGCACCACCACTTCAGCTAATGGTGGAACCATGTATGTGCGACATGGGGAGAGGAGA--TCAGAGAGATGCATCTCTACCGATATCGACAGTC--ATGTCATGCA-CTACGTTGCGCCGG--------------------------------AGCCACCTGCAACACTGAAGGTGCTTGCAGCATTTTCAGCAGATGTGAAGTGCCTGCGTC------------------------------------------GCTCA----------------------------------------------AGCATATCTT-CCCAGTCCT----TGCTGCCTGATGGTG-GAGGCAGCTTGTGCCACCGCGCGCGAGATACAGCAGG-----TGTCAGCCGGCGTGATGAGAGCG--TCTTTGAGGCGATCTTCGATGCGG-GGTCCATAAAA-----TTCGCTGCAGGGATGATTGGG---------------CGTGCACTGTTG-----------TAACGCGTATG-TCTGACGCTGCATTT---GAACCACACGAAGGGGGTCTGCGGCAGGTCGTGGGATGAGCTGAGTGGAGCTTCACTCATGCTGTACGG-----CGCCGGGACGG--AGAGGTGGTGGACATGTTGGTGGCCAGAGAGAGCCCCCCTGCAAATCAAGGAATTC--- Leishmania_mexicana_M08_29_190165 CCCTGAT------------------------------------------------------------------------------GCTGGGGGGAT--ACCTTAGCGTGGTA-TCTCAGGGTCCAGTA--CACCCCCA-----------CTCTCTGTGTGGGGAAGCCAAGCAGCCCCTCCCCCTATCCCTGCCAACGCCGAGCCACTTCTCGTGGTGACAGGGTCAAGCACCTTCGACATGGCGGGAGG-----TCAGAGCGATGCATCGCTGCTAGTTTCGGTGGTG--AGGTCCTGGATTGGGGTTGTGTTGA--------------------------------AGCCGCCTGCGACAGTGAGCACGCTTGTACCATTCACATGATAGGCGATGTGTCCCGTGG------------------------------------------GCATG----------------------------------------------AGCGTCCCTTACCCGAGCCT----CACTGCCTGATGGCG-GAGGCGGCCTGCGCGATCGCACGGGAGATGCACCCGG-----TGGCGACCGGTATGATGGGGGCT--ACTGTAAGACGGTCTTCGATGCGG-GACGAGCAGTA-----TTCGTTGCAGAGATGACTGAT---------------TCTACATTGTTG-----------TAAAGCGTGTG-TCTAGCGCTGCATT----GCACCACACGATGGGG-CCTGCGGCAGGCCGTGGGGTGGGTTGCGTGAGGTTTCACTCATGTTGTATGG-----CAGAGAGAGGGGGAGAGAGA-TGGGCACGCTGGTGATGAGAGG---------TAAAAAAAA----------- Leishmania_major_F29_1010562 CCCTGAT------------------------------------------------------------------------------GGCGGGGGGAT--ACCTCAGCGTGGTA---TCAGGGCCCAGTA------CCCA--------------CTCTGTGTGGAGAAGCCAAGCA---GCCCCCCTATCCCGGTCAATGCATGACCACTTCCAGTGGTGGCAGAATCATGTACCTGCGACGTGTGGGG-GG--AGATTAGGGAGATGCATCGCTGCAAATATTGCCGGTG--AAATCCTGGG-CGACTTTGCGTTGG--------------------------------GGCCACCCGCGACAATGACCACGCTTGTACCATTCACGTGATAGGCGACGTGTCCGCGTG------------------------------------------ACTGG----------------------------------------------ACCGTATCTTGCCCGAGCCT----CACTGCCTGATGGCT-GAGGCAGCCCGTGCGACCGCGCAGGAGATGCACCAGG-----TGGCGACCTGCATGATGGGGGCT--GCTGCGCGGCGATCTTCGGTGCGG-AGCGAGTAGTA-----TTCGTTGCAGCGATGACTGGG---------------TCTGCATTGTTG-----------TAACGCGAGTG-TCTACCGCTGCATT----GCACCACACGATGGGG-CCTGTGACAAGCGGTAGGGTGGGTTGAGTGGAGTTTCACTCATGTTGTACGG-----CAGAGAG------AGAGAGA-TGGACACGTTGGGGGTAAGAGG---------TAAAAAA------------- Leishmania_donovani_20_v01s1_1036612 CCCTGAT------------------------------------------------------------------------------GGCGGGGGGAC--ACCTCAGCGTGGTA---TCAGGGTCCAGTA------CCCA--------------CTCTGTGTGGGGAAGCCAAGCA---GCCCCCCTATCCCGGTCAATGCATAACCACTTCCGGTGGTGGCAGGACCATGTACCTGCGACGTGGGGGGGGG--AGATTAGGGCGATGCATCGCTGCTAATGTCGCCTTTG--TGGTCCTGGG-CGACTTTGCGTCGG--------------------------------AGCCACCCGCGACAGTGACCACGCTTGTACTACTCACATGATAGGCGACGTGCCCGCATG------------------------------------------ACGGG----------------------------------------------AGCGTATCTTACGCGGGCCT----CACTGCCTGATGGCG-GAGGTAGCCTGCGCGACCGCGCGGAGGATGCACCAGG-----TGACGATCTGCATGATGGGAGCT--ACTGTGCGGCGATCTTCGGTGCAG-GGCGAATAGTA-----TTCGTTGCAGGGATGACTGGG---------------TCTGCATTCCTG-----------TAACGCGAGTG-TCTACCGCTGCATT----GCACCACACGATGGGG-CCTGCGGCAGGCCGTGGGGCGGGTTGAGTGGAATTTCACTCATGTTGTACGG-----CAGAGAG------AGAGA---TGGACACGCTGGTGGTAAGAGG---------TAAAAAAAAAA--------- Leishmania_infantum_J29_1017989 CCCTGAT------------------------------------------------------------------------------GGCGGGGGGAC--ACCTCAGCGTGGTA---TCAGGGTCCAGTA------CCCA--------------CTCTGTGTGGGGAAGCCAAGCA---GCCCCCCTATCCCGGTCAATGCATAACCACTTCCGGTGGTGGCAGGACCATGTACCTGCGACGTGGGGGG-GG--AGATTAGGGCGATGCATCGCTGCTAATGTCGCCTTTG--TGGTCCTGGG-CGACTTTGCGTCGG--------------------------------AGCCACCCGCGACAGTGACCACGCTTGTACTACTCACATGATAGGCGACGTGCCCGCATG------------------------------------------ACGGG----------------------------------------------AGCGTATCTCACGCGGGCCT----CACTGCCTGATGGCG-GAGGTAGCCTGCGCGACCGCGCGGAGGATGCACCAGG-----TGACGATCTGCATGATGGGAGCT--ACTGTGCGGCGATCTTCGGTGCAG-GGCGAATAGTA-----TTCGTTGCAGGGATGACTGGG---------------TCTGCATTCCTG-----------TAACGCGAGTG-TCTACCGCTGCATT----GCACCACACGATGGGG-CCTGCGGCAGGCCGTGGGGCGGGTTGAGTGGAATTTCACTCATGTTGTACGG-----CAGAGAG------AGAGA---TGGACACGCTGGTGGTAAGAGG---------TAAAAAAAA----------- Trypanosoma_brucei_Tb927_09_v4_2520024 CCCTGGC-----------------------------------------------------------------------------GTTAGTGGTAGCA-ACCTCATTGTGGTG---TCAGGGTCTTGTA------CCGAGGAAGAATAAAAATTTTTTGC--GGAGGCTAACTGT--TACGACGTGAAAACT-------------------------------------------------------------------------------GGTATATCTACCGGGGTAAGTGATTGCTGTGGTGCCATAGTGAGTG-CACTTTTGGACGTTGAAGATATTTATTTGTGTGAAGCGCAACTCAATCTGAGAAAAAGTGAATACTTCATGCTTTGGGGTTAAGTACCCTG------------------------------------------------------------------------------------------TCCAAGGGAAACCCATCGAAGTTGTATACGTGTCATTAGCT---GTAGAGCAAGTGG---TAAATTTACAGGGTGAGATG-----CCGCACCAGCTATATGTGGTGCCGCGTCCTGCAATGGAGACCATG--TATATAGAACGGTGGCCGTGATGTGTTTACCATCTGTTTGCGAAGTTGGTTGGTAAT-AATCTCCACA-------TGAGGAG-GCTTTGGTGGATAGTGGCTTG-----TTCTCCAAGGCTGAA-TCTCACACT--ATCACGCCAT-GTTATATGATGTG-CATAGACACATTTCTT---CCTCATTACTAGTGTAAGGTAGCCACGATAGCCGTGAATCCGCACAGTGATA---AAAAA-------------- Trypanosoma_brucei_Tb427_11_01_v4_4593961 CCCTGGC-----------------------------------------------------------------------------GTTAGTGGTAGCA-ACCTCATTGTGGTG---TCAGGGTCTTGTA------CCGAGGAAGAATAAAAATTTTTTGC--GGAGGCTAACTGT--TACGACGTGAAAACT-------------------------------------------------------------------------------GGTATATCTACCGGGGTAAGTGATTGCTGTGGTGCCATAGTGAGTG-CACTTTTGGACGTTGAAGATATTTATTTGTGTGAAGCGCAACTCAATCTGAGAAAAAGTGAATACTTCATGCTTTGGGGTTAAGTACCCTG------------------------------------------------------------------------------------------TCCAAGGGAAACCCATCGAAGTCGTATACGTGTCATTAGCT---GTAGAGCTAGTGG---TGAATTTACAGGGTGAGATG-----CCGCACCAGCTATATGTGGTGCCGCGTCCTGCAATGGAGACCATG--TATATAGAACGGTGGCCGTGTTGTGTTTACCATCTGTTTGCGAAGTTGGTTGGTAAT-AATCTCCACA-------TGAGGAG-GCTTTGGTGGATAGTGGCTTG-----TTCTCCAAGGCTGAA-TCTCACACT--ATCACGCCAT-GTTATATGATGTG-CATAGACACATTTCTT---CCTCATTACTAGTGTAAGGTAGCCACGATAGCCGTGAATCCGCACAGTGATA---AAAAA-------------- Trypanosoma_brucei_Tb927_11_01_v4_4592751 CCCTGAC-----------------------------------------------------------------------------GTTAGTGGTAGCA-ACCTCATTGTGGTG---TCAGGGTCTTGTA------CCGAGGAAGAATAAAAATTTTTTGC--GGAGGCTAACTGT--TACGACGTGAACACT-------------------------------------------------------------------------------GGTATATCTACCGGGGTAAGTGATTCCTGTGGTGCCATAGTGAGTG-CACTTTTGGACGTTGAAGATATTTATGTGTGTGAACCGCAACTCAATCCGAGAAAAAGTGAATACTTCATGCTTTGGGGTTAAGTACCCTG------------------------------------------------------------------------------------------TCCAAGGGAAACCCATCGAAGTCGTATACATGTCATTAGCT---GTAGAGCTAGTGG---TGAATTTACAGGGTGAGATG-----CCGCAGCAGCTATATGTGGTGCCGCGTCCTGCAATGGAGACCATG--TATATAGAACGGTGGCCGCGTTGTGTTTACCGTCTGTTTGCGAAGTGGGTTGGTAAT-AATCTCCACA-------TAAGGAG-GCTTTGGTGGGTAGTGGCTTG-----TTCTCCAAGACTGGA-CCTCACACT--ATCACGCCAT-GTTATATGATGTG-CATAGACACATTTCCT---CCTCATTACTAGTGTAAGGTAGGCACAATAGCCGTGAATCCGCACAGTGATA---AAAAAA------------- Trypanosoma_brucei_Tb927_10_v5_452220 CCCTTAT-----------------------------------------------------------------------------GTTAGAGGTAGAA-GCCTCATTGTGGTG---TCAGGGTCTAGTA------CGCA-GGAATAATTAAATTTTCTAT--GGAAGCTAACTGT--CACCACATGAACACT-------------------------------------------------------------------------------GGAATATCGACCACAGTGGGCAGCTGCTGGGGTGCCATTGTGAGTG-CACTTTTGGACGTTGAAGATATTTATGTGTGTGAAGCGCAAATCAACACGCGGATATGTGGCTACTTCATGTTTTACAGTTGAGCACCTT-------------------------------------------------------------------------------------------TGCAAGTAGAACCCATCGAAGTCGTATACGTGCCATTAGCT---GTAGAGCTAGTGG---TGAATTTACAGGGTGAGATG-----CCACAACAGCTATAGGAGGGGTAGAAGGCTACAATGAAGACCATCCCTTTATACGACCGTG--CGAATTGTGGTCTCCATGCACTGGCAAAGTGGGTGGGTAAT-AATCTCCACT-------TAAGAGG-GTTTTAGTAGGCAGTGGCTCG-----TTCTCCAAGGCTGAG-TCCCACACT--ATCATGTCAT-GTGACATGATCTG-CATAAACGCATTTCCT---TCTGTTCGCTAGTGTGGCGTGGCCACGATTGTCGTCAATCCGCACATTGAAG---AAAAAAA------------ Trypanosoma_brucei_Tb427_10_v5_452323 CCCTTAT-----------------------------------------------------------------------------GTTAGAGGTAGAA-GCCTCATTGTGGTG---TCAGGGTCTAGTA------CGCA-GGAATAATTAAATTTTCTAC--GGAAGCTAACTGT--CACCACATGAACACT-------------------------------------------------------------------------------GGAATATCGACCACAGTGGCCAGCTGCTGGGGTGCCATTGTGAGTG-CACTTTTGGACGTTGAAGATATTTATGTGTGTGAAGCGCAAATCAACACGCGGATATGTGGCCGCTTCATGTTTTACAGTTGAGTACCTT-------------------------------------------------------------------------------------------TGCAAGTAGAACCCATCGAAGTCGTATACGTGCCATTAGCT---GTAGAGCCAGTGG---TGAATTTACAGGGTGAGATG-----CCACAACAGCTATAGGAGGGGTAGAAGGCTACAATGAAGACCATCCCTTTATACGACCGTG--CGAATCGTGGTCTCCATGCACTGGCAAAGTGGGTGGGTAAT-AATCTCCACT-------TAAGAGG-GTTTTAGTAGGCAGTGGCTCG-----TTCTCCAAGGCTGAG-TCCCACACT--ATCATGTCAT-GTGACATGATCTG-CATAAACGCATTTCCT---TCTGCTCGCTAGTGTGGCGTGGCCACGATTGTCGTCAATCCGCACATTGAAG---AAAAAAA------------ Trypanosoma_brucei_Tbg972_10_401727 CCCTTAT-----------------------------------------------------------------------------GTTAGAGGTAGAA-GCCTCATTGTGGTG---TCAGGGTCTAGTA------CGCA-GGAATAATTAAATTTTCTAC--GGAAGCTAACTGT--CACCACATGAACACT-------------------------------------------------------------------------------GGAATATCGACCACAGTGGCCAGCTGCTGGGGTGCCATTGTGAGTG-CACTTTTGGACGTTGAAGATATTTATGTGTGTGAAGCGCAAATCAACACGCGGATATGTGGCCGCTTCATGTTTTACAGTTGAGTACCTT-------------------------------------------------------------------------------------------TGCAAGTAGAACCCATCGAAGTCGTATACGTGCCATTAGCT---GTAGAGCTAGTGG---TGAATTTACAGGGTGAGATG-----CCACAACAGCTATAGGAGGGGTAGAAGGCTACAATGAAGACCATCCCTTTATACGACCGTG--CGAATCGTGGTCTCCATGCACTGGCAAAGTGGGTGGGTAAT-AATCTCCACT-------TAAGAGG-GTTTTAGTAGGCAGTGGCTCG-----TTCTCCAAGGCTGAG-TCCCACACT--ATCATGTCAT-GTGACATGATCTG-CATAAACGCATTTCCT---TCTGCTCGCTAGTGTGGCGTGGCCACGATTGTCGTCAATCCGCACATTGAAG---AAAAAAA------------ Trypanosoma_brucei_Tb427_09_v4_3011406 CCCTTGG----------------------------------------------------------------------------CGTTAATGGTAGCA-GCCTCATCGTGGTG---TAAGGGTCTAGTA------CCCA-GAAATAATTAAATTTTTTCAGAGGAAGCCAACCGT--TACCACATGAAAACT-------------------------------------------------------------------------------GGCATATTGGCCACAGTGAGTGATTTCTGTGGCGCCAGGGCAAGTG-CACTTTTGGACATTGAAGATGTTTATGTGTGCGCAGCGCAAATCGATCCGCGAAAAAGTGAATACTTCATGTTTTGGGGTTAAGTACCCTG------------------------------------------------------------------------------------------TCCAAGGGAAACCCATCGAAGTCGTCTTTATACCACTAGCT---GTAGTGCTATCGGA--TGACTTCAGAGGGTTAGATG-----CCACAAAAGCTATACTGTTGGTAGTGTGCTGAAATCAACATCGTCCCTTTATATGGCCAA---CGAATCGTGGTCACGATCCACTGGCAAAGTGTGTGGGTAAT-AATCTCCACC-------AAAGGAG-GTTTTAGAAGGTAGCGGCTTG-----CCATCCAAGGCTGAG-TCCCACACT--ATCATGTCTT-GTCACATTATGTG-CATAAACGCATTTCCT---CCTATTTCCTATTATGCGGTGACCACAACCGTCGTCAACCCGTACCATGAAG---GAAAAAA------------ Trypanosoma_brucei_Tb927_09_v4_3010329 CCCTTGG----------------------------------------------------------------------------CGTTAATGGTAGCA-GCCTCATCGTGGTG---TAAGGGTCTAGTA------CCCA-GAAATAATTAAATTTTTTCAGAGGAAGCCAACCGT--TACCACATGAAAACT-------------------------------------------------------------------------------GGCATATTGGCCACAGTGAGTGATTTCTGTGGCGCCAGGGCAAGTG-CACTTTTGGACATTGAAGATGTTTATGTGTGCGCAGCGCAAATCGATCCGCGAAAAAGTGAATA-TTCATGTTTTGGGGTTAAGTACCCTG------------------------------------------------------------------------------------------TCCAAGGGAAACCCATCGAAGTCGTCTTTATACCACTAGCT---GTAGTGCTATCGGA--TGACTTCAGAGGGTTAGATG-----CCACAAAAGCTATACTGTTGGTAGTGTGCTGAAATCAACATCGTCCCTTTATATGGCCAA---CGAATCATGGTCACGATCCACTGGCAAAGTGTGTGGGTAAT-AATCTCCACC-------AAAGGAG-GTTTTAGAAGGTAGCGGCTTG-----CCATCCAAGGCTGAG-TCCCACACT--ATCATGTCTT-GTCACATTATGTG-CATAAACGCATTTCCT---CCTATTTCCTATTATGCGGTGACCACAACCGTCGTCAACCCGTACCATGAAG---GAAAAAA------------ Trypanosoma_congolense_pschr_5_603310 CCCTGAT-----------------------------------------------------------------------------GTTAGTGGTAGAT-GCCTCATCGTGGCG---TCAGGGTGTTGCG------GCTT-----GGGATGCTTAATTCACAGGGAATCTGACATT--TACCACGCAAGAACATT-----------------------------------------------------------------------------GGCTTATCGACCATGG-GAACCACTTCTATGGAATCAGGGCTCACGGAAATCGTACCTTTTACGGGGAAGAATGATA---CTGCGCAAATCGATCCGCAGAGATGTGGGTATTATGTGTTCTTTGGTTGAGGACGCTG------------------------------------------------------------------------------------------TCCAAGGGGAACCCACCGAAGTCGTGTACATGCCGCCAGCC---GTAGGGCCTGGGG---TGACTTCAAAAGGCTAGACA-----TCACAGCAACTGTG-GAGGGATAGCGGGTTGCAATGGAGACCGTTCTTCTGGACCAAAGCT--CAAGTCATGGTCACCATCCACTGGCGAAGTGGGCGGGAAAT-AATCTTCACC-------CAAAGGGGGTTTTAGCGGGTAGCGGCCTAG----CACTCCAAGGCTGAG-CTACACACT--GTCACGTTGT-GAAGCATGATGTG-CGTAAATGCATTTCC---CCCTCTTCAACGGTGTAGAGTGACTACTCCGATTGCTAATCCGCAGAATGAAA---AA----------------- Trypanosoma_congolense_bin_7431359 CCCTGAT-----------------------------------------------------------------------------GTTAGTGGTAGAT-GCCTCATCGTGGCG---TCAGGGTGTTGCG------GCTT-----GGGATGCTTAATTCACAGGGAATCTGACATT--TACCACGCAAGAACATT-----------------------------------------------------------------------------GGCTTATCGACCATGG-GAACCACTTCTATGGAATCAGGGCTCACGGAAATCGTACCTTTTACGGGGAAGAATGATA---CTGCGCAAATCGATCCGCAGAGATGTGGGTATTATGTGTTCTTTGGTTGAGGACGCTG------------------------------------------------------------------------------------------TCCAAGGGGAACCCACCGAAGTCGTGTACATGCCGCCAGCC---GTAGGGCCTGGGG---TGACTTCAAAAGGCTAGACA-----TCACAGCAACTGTG-GAGGGATAGCGGGTTGCAATGGAGACCGTTCTTCTGGACCAAAGCT--CAAGTCATGGTCACCATCCACTGGCGAAGTGGGCGGGAAAT-AATCTTCACC-------CAAAGGGGGTTTTAGCGGGTAGCGGCCTAG----CACTCCAAGGCTGAG-CTACACACT--GTCACGTTGT-GAAGCATGATGTG-CGTAAATGCATTTCC---CCCTCTTCAACGGTGTAGAGTGACTACTCCGATTGCTAATCCGCAGAATGAAA---AA----------------- Trypanosoma_vivax_Y489_03_1238673 CCTTGAT-----------------------------------------------------------------------------GTAAGTGGTAAAACGCCTCATCGTGGCA---TCAAGGTCTAGTA------CCTGCGAAATTCCTTTGGAGTTCGGAGGGAAGCTAAGTTT--TACCACGCTCAAAACACT----------------------------------------------------------------------------GGCCTATCGACCATGG-AAATTGCTTCTATGGGGCCAGGGCGCATG-CAGTTGATGCCTTTATGGAGAAAAACGTGA---CTGCGCAAATCGATCCGCGGAGATGTGGCTACTATGTGTTCCGCGGTCTAGTACCCTG------------------------------------------------------------------------------------------TCTAAGGGGAATCCACCGAAGTCGTGTACATGCCGCCAGCT---GTAGAGCCGGGGG---TGACTTCAGAGGGTGAAACG-----CCACAGCAACTATG-GAGGGGTAGCGGGTTGCATTGGAGACCGTCCCTCCAGACCAACGTG--CGAGTCGTGGTCACCATCCACTGGCGAGGTGGGCGGGAAATTAATCTCCACC-------CAAAGGGGGTTTTAGTGGGTATTGGCTAT-----TTCTCCAGGTTTGAG-TCCCACACT--ACCATGTTTA-GTGGCGTGGTGTG-CGTAAATGCATTTCCT---CCTCTTCGCTAGTGTTGGGTGACTACTTCGGTCGTTAATCCGCACAATGAAG---AAAAAAAAAAAAAAAAAAA Trypanosoma_vivax_Y486_bin_11221740 CCTTGAT-----------------------------------------------------------------------------GTAGGTGGTAAAACGCCTCATCGCGGCG---TCAAGGTCTAGTA------CCTGCGAAATTCTCTTGGAGTTTGAAGGGAAGCTAAGTTT--TGCCACGCTCAAAACGCT----------------------------------------------------------------------------GGCCTATCGACTGTGG-GAATTGCTCCTATGGGGCCAGGGCGCACG-AAGTTAATACCTT-ATGGAGAAAAACGTGA---CTGCGCAAATCGATCCGCGAAGATGTGGCTACTATGCGTTCCGCGGCCTAGTGCCCTG------------------------------------------------------------------------------------------CCTAAGGGGAACCCGCCGAAGTCGTGTACATGCCGCTAGCT---GTAGAGCCGGGGG---TGGCTTCAGAGGGTGAAACG-----CCACAGCAACTATG-CAGGGGTAGCGGGTTGCAATGGAGACCAGCCCTCCAGACCAACGTA--CGAGTCGTGGTCACCATCCACTGGCGAGGTGGGCGGGAAATTAATCTCCACC-------CAAAAGGGGTTTTAGTGGGTATTGGCCAT-----CTCTCCAAGTATGAG-CCCCACGCT--ACCACGCTTA-GCGGCGTGGTGTG-CGTAGATGCATTTCCT---CCTCGTCGCTAGTGTGGGGTGACTACCTCGGTCGTTAATCTGCACAATGAAG---AAAAAAATAAATAAATAGA Trypanosoma_congolense_pschr_10_400469 CCTTGAT-----------------------------------------------------------------------------GTAGGTGGTAAAC-GCCTCATCGCGGCG---CCAGGGTCTGGTA------CCTATGAAACTCAGTTAGAGTTAGTAGGGAAGCTAAGCTT--TACCACGTAAAAACATT-----------------------------------------------------------------------------GGCCTATTGACCATGG-GAGATGCTTCTATGGAGCCAGGGCGCACG-AAGTTGATGCCTTTATGGAGAAGTGTGAAA---CTGCGCAAATCGATCCGCTGAGATGTGCCTACTACGTGTTCCGCGGTCTAGTACCCTG------------------------------------------------------------------------------------------TCCAAGGGGAACCCACCGAAGTCGTGTACATGCCGCTGGCC---ATAAGGTAAGTGG---TGACTTCAAAGGGTGAAACG-----CCACAGCAACTATG-GAAGGGTAGCGGGTTGCAAAGGCCACCGTCCCTCCAGACCAACGTG--CGAGTCGTGGTCACCATCCACTGGCGAGGTGGGCGGGAAATTAGTCTCCACC-------CAAAGGGGGCTTTAGTGGGTATTGACTGT-----TTCTCCAAGTATGAG-TCCCACACT--ATCACGTTAT-GGGGCGTGGTGTG-CGTAAATGCAT---CA---CTCCTTCGCTAGTGTTGGGTGACTACTTCGGTCGTTAATCCGCACAATAAAG---AAAAAAAA----------- Trypanosoma_congolense_bin_13361355 CCCTGGT-----------------------------------------------------------------------------GACAGTGGTAAAC-GCCTCATCGCGGCG---TCAGGGTCTAGTA------CCTATGAAACTCATCTAGAGTTAGTAGGGAAGCTAAGCTT--TACCACGTAAAAACATT-----------------------------------------------------------------------------GGCATATCGACCATGG-GAGATGTTTCTATGGAGCCAGGGCGCAAG-GGATTGATGCTTTTATGGAGAAGTATCAAA---CTGCGCGAATCGATCCGCGGAGATGTGGCTACTACGTGTTTCGCGGTCTAGTACCCTG------------------------------------------------------------------------------------------TCCAAGGGGAACCCACAGAAGTCGTGTACATGCCGCTAGCT---GTAGGGTTAGGGG---TGACTTCAAAAGGTGAAACG-----CCACAGCAACTATG-GAGGGGTAGCGGGTTGCAATGGAGACCGTCCCTCCAGACCAACGTG--CGAGTCGTGGTCACCATCCACTGGCGAGGTGGGCGGGAAATTAATCTCCACC-------CAAAGGGGGTTTTAGTGGGTATTGACTAT-----TTCTCCAAGTCTGAG-TCCCACACT--ACCACGCTTT-GCGGCGTGGTGTG-CGTAAATGCATTTCCT---CCTCTTCGCTAGTGTTGGGTGACTACTTCGGTCGTTAATCCGCACAATGAAG---AAAAA-------------- Trypanosoma_congolense_pschr_11_3750506 CCCCGAT-----------------------------------------------------------------------------GTTGGTTGCAAAC-GCCTCGTCGTGGCG---GCAGGGCAAAGTA------CCTA-----GAAATACTTGTTTCACAGGGAAGCTAAGATT--TACCACGCAAAAACACT-----------------------------------------------------------------------------GGCATATCGACCATGG-GAGCTGCTTCTATGGAACCAGGGCGCACGGAATTCGTACCTTTTGTGGAAACGAATACTT---TAGCGCAACCCGATCCGCGGAGATGTGGCTAATTTGTGTTCTGCGGTTGAGGACCCTG------------------------------------------------------------------------------------------TCTGAGGGAAACCCACCGAAGTCGTGCACATACCGCGAGTCTGAAGAAGGTAAGTGA---CGACTTCAAAGGGTGAAACG-----CCACAGTAACTATG-GAGGGGTAGCGGGTTGCAATGCAGACCGTCATTCCGGACCAATGTG--CGAACCGTGGTCACCATCCACTGGCGAAGTCGGCGGGAAAT-CACCTCCACC-------GAAGAG-AGTTTTAGTGGGTGGTAGCCTCG----TCCTCCAAGGCTGAG-TCCCACACC--ACCGCGTTGT-GAGGCGTCGTGTG-CGTAAATGCATTATTTCCTCCTCTTCAACGGTGTAGAGTGACTACTTCGGTCGTTAATATGCAGGATGAAGGGGAAAAAA------------- Trypanosoma_congolense_pschr_1_110891 CCCTGAT-----------------------------------------------------------------------------GTTAGTGGTAAAA-GCTTCATCGTGGCA---TTATGGTATAGTA------CCCA-----GAAATGCTTATTTCACAGGGAAGCCAAGATT--TACCACGCAAGAACATT-----------------------------------------------------------------------------GGCTTATGGACAGTGG-GAGCCACTTCCATGGAATCAGGGCTCACGGAATTCGTACTTTTTGTGGAAACGAATGCTT---TAGCGCAAGCCGATCCACCGAGATGTGGCTG--TTGCGTTCCATGGTTTAGTACCCTG------------------------------------------------------------------------------------------TTTAAGGG-AACCCACCGAAGTTGCATACATGCCGCTGGCC---ATAAGGTAAGGGG---TGACTTCAAAGGGTGAAATG-----CCATAGCGACTATG-GATGAGTAGCGGGTTGCAATGGAAACAATCCTCCCGGATCAATGTG--CAAGCCGTGGTCACCATCCACTGGCGGAGTGGGCGGGAAAT-CATCTCCACC-------CAAAGGGTGTTTTAATGGGTAGCGTCCTTG----TTCTCCAAGGCTGAG-TCCCACACT--ACTACGTTGT-GAGGCGTGGTGTG-CGTAAATGCATTATT---TTCTCTTCGCTAGTGTAGGGTGGCAACTTCGGTCGTTAATCCGCACGATGAAG---AAAAA-------------- Trypanosoma_congolense_pschr_3_45521 CCCTGAT-----------------------------------------------------------------------------GTTAGTGGTAAAA-GCTTCATCGTGGCA---TTATGGTATAGTA------CCCA-----GAAATGCTTATTTCACAGGGAAGCCAAGATT--TACCACGCAAAAACACT-----------------------------------------------------------------------------GTCTTATGGGCAATGA-GAGCCACTTCCACGGAATCGGGGCTCACGGAATTCGTACTTTTTGTGGAAACGAATGCTT---TAGCGCAAGCCGATCCACCGAGATGTGGCTG--TTGAGTTCCGCGGTTTAGTACCCTG------------------------------------------------------------------------------------------TTTAAGGGGAGCCCGCCGAAGTCGTGTGCATGCTGCGAGCC---ATAAGGCCAGTGA---TGGCTTCAGAGAATGAAATG-----CCACAGCAACTATT-TAGGGGTAGCGGGTTGCAGTGGAGACCGTTCCTCCGGACAAATGTG--CAAGTCGTGGTCACCATTCACTGGCGAAGTGGGCGGGAAAT-CATCTCCACC-------CAAAAGGGGTTTTAGTGGGTATTGACTAT-----TTTTCCAAGTCTGAG-TCTCACACT--ACTACGCTGT-GAAGCGTGGTGTG-CGTAAATGCACTATT---TTTTCTTCACTAGTGTAGGGTGGCAACTTCGGTCGTTAATCTGCACGATGAAG---AAAAAA------------- Trypanosoma_congolense_pschr_1_117249 CCCTGAT-----------------------------------------------------------------------------GTTAGTGGTAAAA-GCTTCATCGTGGCA---TTATGGTATAGTA------CCCA-----GAAATGCTTATTTCACAGGGAAGCCAAGATT--TACCACGCAAGAACATT-----------------------------------------------------------------------------GGCTTATGGACAGTGG-GAGCCACTTCCATGGAATCAGGGCTCACGGAATTCGTACTTTTTGTGGAAACGAATGCTT---TAGCGCAAGCCGATCCACCGAGATGTGGCTG--TTGCGTTCCGTGGTTTAGTACCCTG------------------------------------------------------------------------------------------TTTAAGGG-AACCCACCGAAGTTGCATACATGCCGCTGGCC---ATAAGGTAAGTGG---TGACTTCAAAGGGTGAAATG-----CCATAGCGACTATG-GATGGGTAGCGGGTTGCAATGGAAACAATCCTCCCGGACCAATGTG--CAAGCCGTGGTCACCATCCACTGGCGGAGTGGGCGGGAAAT-CATCTCCACC-------CAAAGGGTGTTTTAATGGGTAGCGTCCTTG----TTCTCCAAGGCTGAG-TCCCACACT--ACTACGTTGT-GAGGCGTGGTGTG-CGTAAATGCATTATT---TTCTCTTCGCTAGTGTTGGGTGACTACTTCGGTCGTTAATCCGCACGATGAAG---AAAAAA------------- Trypanosoma_congolense_pschr_10_2982978 CCCTGAT-----------------------------------------------------------------------------GCTAGTGGTAAGT-GCTTCATCGTGGCG---TCAGTGTCTAGTG------CCTA-----GAAATGCTTATCTCACAGAGGAGCCAATATT--TTCCACACAAAAACACT-----------------------------------------------------------------------------GGCCTATCGACCATGG-GAGCTACTTCTATTGAGCCAGGGCGCAAGGGATTCGCATCCCTTAT---TAAGAGTGATA---CCGCACAAACCGATCCGCGGAGATGTGGCTGCAATGTGTTCTGCGGTTTAGCATCCTG------------------------------------------------------------------------------------------TCTCAAGGGAGCCCACCGAAGTCGTACACTTGCCGCCAACC---ATGAGGTAAGGGG---CGATTTCAAAGGGCGAAACG-----CCACAGCAATTATC-AAGTTGTAGCGGCTTGCAGTGGAGACCGTACCCCCGGACAAACGTG--CGAGTCATGGTCACCATCCACTGGCGGAGTGGGCGGGAAAT-CACCCCCACC-------CAAGGG---GTTTAGTGGGTAATGG-ATCG----GTCTCCAAGACTGAA-TCCCACACT--ACTATGTTGT-GAGGCGTGGTGTA-CGTCAATGCATTATC---TCCTCTTCACCGATGTAAGGTGGCTACTTCGGTCGTCAATCCGCACAGTGAAG--AAAAAAA------------- ; END; BEGIN TREES; Title 'Bootstrapping Cladogram SIDER full-length'; LINK Taxa = Taxa; TRANSLATE 1 Drosophila_willistoni_R2_SIDE, 2 Trypanosoma_brucei_Tb927_04_v4_1473651, 3 Trypanosoma_brucei_Tbg927_04_1420728, 4 Trypanosoma_brucei_Tb927_06_v4_1596247, 5 Trypanosoma_brucei_Tb927_06_v4_1550987, 6 Trypanosoma_brucei_Tb427_03_v4_6279, 7 Trypanosoma_brucei_Tb927_03_v4_5793, 8 Trypanosoma_brucei_Tb927_08_v4_17261, 9 Leishmania_tarentolae_P28_804618, 10 Leishmania_donovani_28_v01s1_832468, 11 Leishmania_infantum_J28_828417, 12 Leishmania_major_F28_813783, 13 Leishmania_mexicana_M28_803106, 14 Leishmania_panamensis_KB453284_328629, 15 Leishmania_braziliensis_M28_836014, 16 Leishmania_panamensis_KB453339_66838, 17 Leishmania_tarentolae_P29_986367, 18 Leishmania_mexicana_M08_29_190165, 19 Leishmania_major_F29_1010562, 20 Leishmania_donovani_20_v01s1_1036612, 21 Leishmania_infantum_J29_1017989, 22 Trypanosoma_brucei_Tb927_09_v4_2520024, 23 Trypanosoma_brucei_Tb427_11_01_v4_4593961, 24 Trypanosoma_brucei_Tb927_11_01_v4_4592751, 25 Trypanosoma_brucei_Tb927_10_v5_452220, 26 Trypanosoma_brucei_Tb427_10_v5_452323, 27 Trypanosoma_brucei_Tbg972_10_401727, 28 Trypanosoma_brucei_Tb427_09_v4_3011406, 29 Trypanosoma_brucei_Tb927_09_v4_3010329, 30 Trypanosoma_congolense_pschr_5_603310, 31 Trypanosoma_congolense_bin_7431359, 32 Trypanosoma_vivax_Y489_03_1238673, 33 Trypanosoma_vivax_Y486_bin_11221740, 34 Trypanosoma_congolense_pschr_10_400469, 35 Trypanosoma_congolense_bin_13361355, 36 Trypanosoma_congolense_pschr_11_3750506, 37 Trypanosoma_congolense_pschr_1_110891, 38 Trypanosoma_congolense_pschr_3_45521, 39 Trypanosoma_congolense_pschr_1_117249, 40 Trypanosoma_congolense_pschr_10_2982978; TREE tree_1 = (1:1.0,((((28:1.0,29:1.0)inode99:1.0,((24:1.0,(22:1.0,23:1.0)inode100:1.0)inode100:1.0,(25:1.0,(26:1.0,27:1.0)inode91:1.0)inode99:1.0)inode66:1.0)inode94:1.0,((34:1.0,(35:1.0,(32:1.0,33:1.0)inode94:1.0)inode24:1.0)inode52:1.0,((30:1.0,31:1.0)inode100:1.0,(36:1.0,(40:1.0,(38:1.0,(37:1.0,39:1.0)inode98:1.0)inode97:1.0)inode33:1.0)inode36:1.0)inode71:1.0)inode56:1.0)inode65:1.0,((8:1.0,((6:1.0,7:1.0)inode84:1.0,((2:1.0,3:1.0)inode86:1.0,(4:1.0,5:1.0)inode100:1.0)inode31:1.0)inode72:1.0)inode99:1.0,((16:1.0,(17:1.0,(18:1.0,(19:1.0,(20:1.0,21:1.0)inode100:1.0)inode65:1.0)inode45:1.0)inode59:1.0)inode99:1.0,((14:1.0,15:1.0)inode100:1.0,(9:1.0,(13:1.0,(12:1.0,(10:1.0,11:1.0)inode87:1.0)inode57:1.0)inode71:1.0)inode80:1.0)inode90:1.0)inode98:1.0)inode43:1.0)inode2:1.0)root; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 884; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 884; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 884; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1396995602707; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 645153120345165655; tell It; setDefaultOrder 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 39 38 37 36 35 34 33 32 31 30 23 22 24 21 25 27 28 26 29; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 7695631809459843574; mqVersion 275; checksumv 0 3 3427711469 null getNumChars 884 numChars 884 getNumTaxa 40 numTaxa 40 short true bits 15 states 15 sumSquaresStatesOnly 469894.0 sumSquares 469894.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 218; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1074 542; setLocation 43 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #645153120345165655 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #645153120345165655; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; getTable; tell It; rowNamesWidth 292; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 856 475; setLocation 43 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam; endTell; setActive; endTell; showWindow; getEmployee #mesquite.lists.ColorTaxon.ColorTaxon; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.lists.TaxonListAnnotPanel.TaxonListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #7695631809459843574 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 856 475; setLocation 43 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames on; toggleShowTaxonNames on; toggleTight off; toggleThinRows off; toggleShowChanges off; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames off; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; getWindow; tell It; forceAutosize; endTell; hideWindow; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.categ.StateNamesStrip.StateNamesStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.AnnotPanel.AnnotPanel; tell It; togglePanel off; endTell; getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.QuickKeySelector.QuickKeySelector; tell It; autotabOff; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.align.AlignToDropped.AlignToDropped; tell It; gapCosts 8 3 2 2; subCosts 10 5 10 10 10 5 5 10 10 10 5 10; endTell; getEmployee #mesquite.molec.ColorByAA.ColorByAA; tell It; emphasizeDegeneracy off; endTell; getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;