CLUSTAL W (1.83) multiple sequence alignment mpo_U3.1_supercont1.6_88390,8867 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCCC-AC mgi_U3.1_Supercontig_6.24_24340, GTCGATCTTACTTCAAAGAATCATTTCTATAGTAATCGACCC-AC mor_U3.1_adopted_3_2971155,29714 GTCGATCTTACTTCAAAGAATCATTTCTATAGTAATCGACCC-AC opi_U3.3_scaffold_10_248590,2489 GTCGACAATACTTCAAAGAATCATTTCTATAGTTATTGTCC--TC opi_U3.1_scaffold_07_346298,3466 GTCGACAATACTTCAAAGAATCATTTCTATAGTTATTGTCC--TC opi_U3.2_scaffold_13_777488,7778 GTCGACAATACTTCAAAGAATCATTTCTATAGTTATTGTCC--TC cpr_U3.1_scaffold_4_4573575,4573 GTCGAC-ATACTCTAGAGAATCATTTCTATAGGTATCGTCCCATC pan_U3.2_chromosome_5_2959505,29 GTCGACAATACTTCAGAGAATCATTTCTATAGTAGTCGTCC--TC tte_U3.2_chromosome_3_423167,423 TGCGACAATACTTCAGAGAATCATTTCTATAGTAGTTGTCC--TC tte_U3.1_chromosome_6_245316,245 TGCGACAATACTTCAGAGAATCATTTCTATAGTAGTTGTCC--TC ndi_U3.3_scaffold_7_997991,99825 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC ncr_U3.3_Supercontig_12.1_519200 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC nte_U3.3_scaffold_81_4699595,469 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC mth_U3.2_chromosome_7_399422,399 GTCGACAATACTTCAGAGAATCATTTCTATAGTAGTTGTCC--TC pan_U3.1_chromosome_1_5861063,58 GTCGACAATACTTCAGAGAATCATTTCTATAGTAGTCGTCC--TC pan_U3.3_chromosome_6_198157,198 GTCGACAATACTTCAGAGAATCATTTCTATAGTAGTCGTCC--TC cgl_U3.1_Supercontig_1.1_304529, GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGTCC--TC cgl_U3.2_Supercontig_1.5_4455721 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGTCC--TC mth_U3.1_chromosome_5_4134858,41 AGCGACAATACTTCAGAGAATCATTTCTATAGTAGTTGTCC--TC tar_U3.1_scaffold_41_24194,24462 GTCGACAATACTTCAGAGAATCATTTCTATAGTAGTTGTCC--TC ndi_U3.1_scaffold_4_320040,32031 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC ndi_U3.2_scaffold_10_249805,2500 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC ncr_U3.2_Supercontig_12.2_383607 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC nte_U3.2_scaffold_4_535351,53562 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC ncr_U3.1_Supercontig_12.1_934495 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC nte_U3.1_scaffold_32_2878,3147_- GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCC--TC tvi_U3.1_adopted_91_1724878,1725 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGTCT--CT tre_U3.1_GL985066_934413,934691_ GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGTCT--CT tre_U3.2_GL985057_45210,45477_-_ GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGTCT--CT tat_U3.2_contig_26_2105290,21055 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCT--CT tvi_U3.3_adopted_6_1230147,12304 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGTCT--CT tre_U3.3_GL985090_19413,19679___ GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGTCT--CT tvi_U3.2_adopted_91_852020,85229 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGTCT--CT tat_U3.3_contig_12_192229,192492 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCT--CT tat_U3.1_contig_22_919089,919362 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTTGTCT--CT cmt_U3.1_scaffold_00002_756556,7 GTCGACAATACTTCAGAGAATCATTTCTATAGTAATCGACC--CA fgr_U3.2_adopted_3_5416089,54163 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT fve_U3.1_adopted_4_3439796,34400 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT fox_U3.1_adopted_12_659471,65974 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT nha_U3.2_adopted_7_924835,925104 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT fgr_U3.1_adopted_1_5358155,53584 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT fve_U3.2_adopted_1_837631,837906 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT fox_U3.2_adopted_1_793773,794045 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT fgr_U3.3_adopted_2_5912849,59131 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT fve_U3.3_adopted_11_395602,39587 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT fox_U3.3_adopted_13_1543981,1544 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT nha_U3.1_adopted_1_516432,516701 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT nha_U3.3_adopted_11_639971,64023 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TT vda_U3.1_Supercontig_1.11_81432, GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TA val_U3.2_Supercontig_10_753475,7 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TA val_U3.3_Supercontig_21_51559,51 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TA vda_U3.3_Supercontig_1.38_72377, GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TA val_U3.1_Supercontig_6_1364667,1 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TA vda_U3.2_Supercontig_1.15_871054 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TA aac_U3.1_scaffold_3_1603416,1603 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--CA sal_U3.1_scaffold_1_2252300,2252 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--CA aac_U3.2_scaffold_1_1566430,1566 GTCGACAATACTTCAGAGAATCATTTCTATAGTATTCGACC--TA mpo_U3.1_supercont1.6_88390,8867 TTCTTTGTTTCCCAAAGAAGCTTCAG-ATCCCACCCTGGTTGATG mgi_U3.1_Supercontig_6.24_24340, TTCTTTGTTTCCCAAAGAAGCTTCAG-ACCATACCCTGGTTGATG mor_U3.1_adopted_3_2971155,29714 TTCTTTGTTTCCCAAAGAAGCTTCAG-ACCATACCCTGGTTGATG opi_U3.3_scaffold_10_248590,2489 TTCTAGGTTCTCAAAAAGAGCCAGAA-ACCCCACCCGGGTTGATG opi_U3.1_scaffold_07_346298,3466 TTCTAGGTTCTCAAAAAGAGCCAGAA-ACCCCACCCGGGTTGATG opi_U3.2_scaffold_13_777488,7778 TTCTAGGTTCTCAAAAAGAGCCAGAA-ACCCCACCCGGGTTGATG cpr_U3.1_scaffold_4_4573575,4573 TTCTATGTTTCCCAACATAGCTACAG-AACCTACCCTGGACGATG pan_U3.2_chromosome_5_2959505,29 TTTTGTATTCCCCAAAGGAGCCACAG-ATCCCACCCGGGTTGATG tte_U3.2_chromosome_3_423167,423 TCTTGGTTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG tte_U3.1_chromosome_6_245316,245 TCTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG ndi_U3.3_scaffold_7_997991,99825 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCGCGGTTGATG ncr_U3.3_Supercontig_12.1_519200 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCGCGGTTGATG nte_U3.3_scaffold_81_4699595,469 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCGCGGTTGATG mth_U3.2_chromosome_7_399422,399 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG pan_U3.1_chromosome_1_5861063,58 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG pan_U3.3_chromosome_6_198157,198 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG cgl_U3.1_Supercontig_1.1_304529, TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG cgl_U3.2_Supercontig_1.5_4455721 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG mth_U3.1_chromosome_5_4134858,41 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG tar_U3.1_scaffold_41_24194,24462 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG ndi_U3.1_scaffold_4_320040,32031 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCAGGTTGATG ndi_U3.2_scaffold_10_249805,2500 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGATGATG ncr_U3.2_Supercontig_12.2_383607 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGATGATG nte_U3.2_scaffold_4_535351,53562 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG ncr_U3.1_Supercontig_12.1_934495 TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG nte_U3.1_scaffold_32_2878,3147_- TTTTGTGTTCCCTAAAGGAGCCACAG-ATCCCACCCGGGTTGATG tvi_U3.1_adopted_91_1724878,1725 TGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG tre_U3.1_GL985066_934413,934691_ CGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG tre_U3.2_GL985057_45210,45477_-_ CGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG tat_U3.2_contig_26_2105290,21055 TGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG tvi_U3.3_adopted_6_1230147,12304 TGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG tre_U3.3_GL985090_19413,19679___ CGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG tvi_U3.2_adopted_91_852020,85229 TGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG tat_U3.3_contig_12_192229,192492 TGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG tat_U3.1_contig_22_919089,919362 TGCTTTGGTTCCCAAAAGAGCCATCG-AATCCACCCTGGTTGATG cmt_U3.1_scaffold_00002_756556,7 TTCTTGGTTCCTCAAAAGAGCCACAGAAATCCACCCTGGTTGATG fgr_U3.2_adopted_3_5416089,54163 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG fve_U3.1_adopted_4_3439796,34400 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG fox_U3.1_adopted_12_659471,65974 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG nha_U3.2_adopted_7_924835,925104 CTCTTGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG fgr_U3.1_adopted_1_5358155,53584 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG fve_U3.2_adopted_1_837631,837906 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG fox_U3.2_adopted_1_793773,794045 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG fgr_U3.3_adopted_2_5912849,59131 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG fve_U3.3_adopted_11_395602,39587 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG fox_U3.3_adopted_13_1543981,1544 CTCTTGGTTCCCTAAAAGAGCCACAG-ATCCCACCCTGGTTGATG nha_U3.1_adopted_1_516432,516701 CTCTTGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG nha_U3.3_adopted_11_639971,64023 CTCTTGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG vda_U3.1_Supercontig_1.11_81432, CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG val_U3.2_Supercontig_10_753475,7 CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG val_U3.3_Supercontig_21_51559,51 CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG vda_U3.3_Supercontig_1.38_72377, CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG val_U3.1_Supercontig_6_1364667,1 CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG vda_U3.2_Supercontig_1.15_871054 CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG aac_U3.1_scaffold_3_1603416,1603 CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG sal_U3.1_scaffold_1_2252300,2252 CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG aac_U3.2_scaffold_1_1566430,1566 CTCTGGGTTCTCCAAAAGAGCCACAG-ATCCCACCCTGGTTGATG mpo_U3.1_supercont1.6_88390,8867 ACCACAA-ATCCTCG--CCGCCCT-CGAGT--------------- mgi_U3.1_Supercontig_6.24_24340, ACTT-TT-ATGCTCG--TTGCCCT-AGGGT--------------- mor_U3.1_adopted_3_2971155,29714 ACTT-TT-ATGCTCG--TTGCCCT-AGGGT--------------- opi_U3.3_scaffold_10_248590,2489 ACTTTAT-ATCCTCGACTTGCCCGTTTTTACGAAAAC-TTAGCTG opi_U3.1_scaffold_07_346298,3466 ACTTTAT-ATCCTCGACTTGCCCGTTTTTACGAAAACTTTAGCTG opi_U3.2_scaffold_13_777488,7778 ACTTTAT-ATCCTCGACTTGCCCGTTTTTACGAAAACTTTAGCTG cpr_U3.1_scaffold_4_4573575,4573 ACCACAA-ATCCTCG--ACACCCT-AGGGT--------------- pan_U3.2_chromosome_5_2959505,29 AACG-AT-ATCCTCG--ACACCTACACAAT--------------- tte_U3.2_chromosome_3_423167,423 AACG-AT-ATCCTCG--ACGCCCT-TCAGT--------------- tte_U3.1_chromosome_6_245316,245 AACG-AT-ATCCTCG--ATGCCCT-ACTGT--------------- ndi_U3.3_scaffold_7_997991,99825 ATCA-AT-ATCCTCG--GCGCCCA-ACAGT--------------- ncr_U3.3_Supercontig_12.1_519200 ATCA-AT-ATCCTCG--GCGCCCA-ACAGT--------------- nte_U3.3_scaffold_81_4699595,469 ATCA-AT-ATCCTCG--GCGCCCA-ACAGT--------------- mth_U3.2_chromosome_7_399422,399 AACG-AT-ATCCTCG--GCACCCT-ACAGT--------------- pan_U3.1_chromosome_1_5861063,58 AACG-AT-ATCCTCG--GTGCCCA-ACAGT--------------- pan_U3.3_chromosome_6_198157,198 AACG-AT-ATCCTCG--GCGCCCA-ACAGT--------------- cgl_U3.1_Supercontig_1.1_304529, AACA-AT-ATCCTCG--GCACCCC-ACAGT--------------- cgl_U3.2_Supercontig_1.5_4455721 AACG-AT-ATCCTCG--GCACCCT-ACAGT--------------- mth_U3.1_chromosome_5_4134858,41 ATCG-AT-ATCCTCG--GCACCCT-ACAGT--------------- tar_U3.1_scaffold_41_24194,24462 ATCA-AT-ATCCTCG--GCACCCT-ACAGT--------------- ndi_U3.1_scaffold_4_320040,32031 ACCT-AT-ATCCTCG--TTTCCCA-ACAGT--------------- ndi_U3.2_scaffold_10_249805,2500 ATGG-AT-ATCCTCG--GTTCCCA-ACAGT--------------- ncr_U3.2_Supercontig_12.2_383607 AACT-AT-ATCCTCG--TTTCCCA-ACAGT--------------- nte_U3.2_scaffold_4_535351,53562 AATT-AT-ATCCTCG--TTTCCCA-ACAGT--------------- ncr_U3.1_Supercontig_12.1_934495 AACT-AT-ATCCTCG--TTTCCCA-ACAGT--------------- nte_U3.1_scaffold_32_2878,3147_- AACT-AT-ATCCTCG--TTTCCCA-ACAGT--------------- tvi_U3.1_adopted_91_1724878,1725 ACTGTAT-ATCCTCG--ACATCCA-AGAGT--------------- tre_U3.1_GL985066_934413,934691_ ATTGTAC-ATCCTCG--ATACCCA-AGAGT--------------- tre_U3.2_GL985057_45210,45477_-_ ATTGCAT-ATCCTCA--GCACCCA-AGAGT--------------- tat_U3.2_contig_26_2105290,21055 ATTGTAT-ATCCTCG--ACACCCA-AGAGT--------------- tvi_U3.3_adopted_6_1230147,12304 ATTGTAT-ATCCTCA--GCACCCA-AGAGT--------------- tre_U3.3_GL985090_19413,19679___ ATTGCAT-ATCCTCG--GCATCCA-AGAGT--------------- tvi_U3.2_adopted_91_852020,85229 ATTGTAT-ATCCTCG--ATGCCCA-AGAGT--------------- tat_U3.3_contig_12_192229,192492 ATTGCAT-ATCCTCG--ACATCCA-AGAGT--------------- tat_U3.1_contig_22_919089,919362 ATTGCAT-ATCCTCG--ATACCCA-AGAGT--------------- cmt_U3.1_scaffold_00002_756556,7 ATTGCAT-ATCCTCG--ACACCCT-AGAGT--------------- fgr_U3.2_adopted_3_5416089,54163 AATGAAT-ATCCTCG--ATGCCCT-AGAGT--------------- fve_U3.1_adopted_4_3439796,34400 AATGAAT-ATCCTCG--ATGCCCT-AGAGT--------------- fox_U3.1_adopted_12_659471,65974 AATGAAT-ATCCTCG--ATGCCCT-AGAGT--------------- nha_U3.2_adopted_7_924835,925104 AATGTAT-ATCCTCA--ACACCCT-AGAGT--------------- fgr_U3.1_adopted_1_5358155,53584 AGTGTAT-ATCCTCG--ACACCCT-AGAGT--------------- fve_U3.2_adopted_1_837631,837906 AGTGCAT-ATCCTCG--ACACCCT-AGAGT--------------- fox_U3.2_adopted_1_793773,794045 AGTGCAT-ATCCTCG--ACACCCT-AGAGT--------------- fgr_U3.3_adopted_2_5912849,59131 AGTGTAT-ATCCTCG--ACACCCT-AGAGT--------------- fve_U3.3_adopted_11_395602,39587 AATGTAT-ATCCTCG--ACACCCT-AGAGT--------------- fox_U3.3_adopted_13_1543981,1544 AATGTAT-ATCCTCG--ACACCCT-AGAGT--------------- nha_U3.1_adopted_1_516432,516701 AGTGCAT-ATCCTCG--ACACCCT-AGAGT--------------- nha_U3.3_adopted_11_639971,64023 AGTGCAT-ATCCTCG--ACACCCT-AGAGT--------------- vda_U3.1_Supercontig_1.11_81432, A-TGCAT-ATCCTCG--ACACCCT-AGAGT--------------- val_U3.2_Supercontig_10_753475,7 A-TGTAT-ATCCTCG--ACACCCT-AGAGT--------------- val_U3.3_Supercontig_21_51559,51 ATTG-AT-ATCCTCG--GCACCCT-AGAGT--------------- vda_U3.3_Supercontig_1.38_72377, ATTG-AT-ATCCTCG--GCACCCT-AGAGT--------------- val_U3.1_Supercontig_6_1364667,1 ATTG-AT-ATCCTCG--ACACCCT-AGAGT--------------- vda_U3.2_Supercontig_1.15_871054 ATTG-AT-ATCCTCG--ACACCCT-AGAGT--------------- aac_U3.1_scaffold_3_1603416,1603 AGGG-AT-ATCCTCG--GCACCTA-AGAGT--------------- sal_U3.1_scaffold_1_2252300,2252 ATAG-AT-ATCCTCG--GCACCCT-AGAGT--------------- aac_U3.2_scaffold_1_1566430,1566 AGAC-AT-ATCCTCG--GCATCCT-AGAGT--------------- mpo_U3.1_supercont1.6_88390,8867 ---------------------GAATACTC---TTATTTTTGTCCC mgi_U3.1_Supercontig_6.24_24340, ---------------------GAAAACCA----CTTATTTCGTCC mor_U3.1_adopted_3_2971155,29714 ---------------------GAAAACCA----CTTATTTCGTCC opi_U3.3_scaffold_10_248590,2489 CGCTTTTGCCGGCGTGCTTTGGGGTCTTCACGGATCCCGTTACCC opi_U3.1_scaffold_07_346298,3466 CGCTTTTGCCGGCGTGCTTTGGGGTCTTCACGGATCCCGTTACCC opi_U3.2_scaffold_13_777488,7778 CGCTTTTGCCGGCGTGCTTTGGGGTCTTCATTGATCCCGTTACCC cpr_U3.1_scaffold_4_4573575,4573 ---------------------GAAACACC------ATTTTGACTC pan_U3.2_chromosome_5_2959505,29 ---------------------GAGGCCCT---------TTTACTT tte_U3.2_chromosome_3_423167,423 ---------------------GAGGTTCC----TTTTTTTTACTC tte_U3.1_chromosome_6_245316,245 ---------------------GAGGTCCT------TTTCTTACTC ndi_U3.3_scaffold_7_997991,99825 ---------------------GAGGTCCT-------TAATTACTT ncr_U3.3_Supercontig_12.1_519200 ---------------------GAGGTCCT-------TATTTACTC nte_U3.3_scaffold_81_4699595,469 ---------------------GAGGTCCT-------TATTTACTT mth_U3.2_chromosome_7_399422,399 ---------------------GAGATTTT--------TTTTATTC pan_U3.1_chromosome_1_5861063,58 ---------------------GAGAAGCC--------TTTTACTC pan_U3.3_chromosome_6_198157,198 ---------------------GAGGAGCC-----TTTTTTTACTC cgl_U3.1_Supercontig_1.1_304529, ---------------------GAGATCCT-------TTTTTACTC cgl_U3.2_Supercontig_1.5_4455721 ---------------------GAGATCCT------TTTTTTACTC mth_U3.1_chromosome_5_4134858,41 ---------------------GAGGCTTT--ATGTTTTTTTACTC tar_U3.1_scaffold_41_24194,24462 ---------------------GAGGTCCC-------TTTTTACTC ndi_U3.1_scaffold_4_320040,32031 ---------------------GAGGTCCCATTTTTATATTTACTC ndi_U3.2_scaffold_10_249805,2500 ---------------------GAGGTCCT-----TTTATTTACTC ncr_U3.2_Supercontig_12.2_383607 ---------------------GAGGTCCT-TTTTATTTTTTACTC nte_U3.2_scaffold_4_535351,53562 ---------------------GAGGTCCT--TTTATTTTTTACTC ncr_U3.1_Supercontig_12.1_934495 ---------------------GAGGTCCC---TTTTATTTTACTC nte_U3.1_scaffold_32_2878,3147_- ---------------------GAGGTCCC----TTTATTTTACTC tvi_U3.1_adopted_91_1724878,1725 ---------------------GAATATTT------TCTGGTCCTC tre_U3.1_GL985066_934413,934691_ ---------------------GAATACTT-----TTTTGGTCCTC tre_U3.2_GL985057_45210,45477_-_ ---------------------GAATACTT------CCTGGTCCTC tat_U3.2_contig_26_2105290,21055 ---------------------GAATTTTC--------TGGTCCTC tvi_U3.3_adopted_6_1230147,12304 ---------------------GAAAATTT-----TTCTGGTCCTC tre_U3.3_GL985090_19413,19679___ ---------------------GAATACTT-----TTCTGGTCCTC tvi_U3.2_adopted_91_852020,85229 ---------------------GAATTTTT-------ATGGTCCTC tat_U3.3_contig_12_192229,192492 ---------------------GAATTTCC--------CGGTCCTC tat_U3.1_contig_22_919089,919362 ---------------------GAATTTTC--------TGGTCCTC cmt_U3.1_scaffold_00002_756556,7 ---------------------GAATACTT--GTTTTCTGGTCCTC fgr_U3.2_adopted_3_5416089,54163 ---------------------GAATACCC----TTTTTGGTCCTC fve_U3.1_adopted_4_3439796,34400 ---------------------GAATACCC--CTTTTCTGGTCCTC fox_U3.1_adopted_12_659471,65974 ---------------------GAATACCC----CTTTTGGTCCTC nha_U3.2_adopted_7_924835,925104 ---------------------GAATACCT--------TGGTCCTC fgr_U3.1_adopted_1_5358155,53584 ---------------------GAATACCT------TTTGGTCCTC fve_U3.2_adopted_1_837631,837906 ---------------------GAATACCT-------TTGGTCCTC fox_U3.2_adopted_1_793773,794045 ---------------------GAATACCT-------TTGGTCCTC fgr_U3.3_adopted_2_5912849,59131 ---------------------GAATACCT--------TGGTCCTC fve_U3.3_adopted_11_395602,39587 ---------------------GAATACCC-----TTTTGGTCCTC fox_U3.3_adopted_13_1543981,1544 ---------------------GAATACCC-----TCTTGGTCCTC nha_U3.1_adopted_1_516432,516701 ---------------------GAATACCT--------TGGTCCTC nha_U3.3_adopted_11_639971,64023 ---------------------GAATACCT--------TGGTCCTC vda_U3.1_Supercontig_1.11_81432, ---------------------GAATGCCT------CTGGTTGCCC val_U3.2_Supercontig_10_753475,7 ---------------------GAATGGCT------CTGGTTGCCC val_U3.3_Supercontig_21_51559,51 ---------------------GAATGGCT------CCGGTTGCCC vda_U3.3_Supercontig_1.38_72377, ---------------------GAATGGCT------CTGGTTGCCC val_U3.1_Supercontig_6_1364667,1 ---------------------GAATGGCT------CTGGTTGCCC vda_U3.2_Supercontig_1.15_871054 ---------------------GAATGGCT------CTGGTTGCCC aac_U3.1_scaffold_3_1603416,1603 ---------------------GAAGTTTT------CTGGTTGCTC sal_U3.1_scaffold_1_2252300,2252 ---------------------GAAGTTTT------CTGGTTGCTC aac_U3.2_scaffold_1_1566430,1566 ---------------------GAAGTTTC-------TGGTTGCTC mpo_U3.1_supercont1.6_88390,8867 TCGCT------CTGTCC-GTAAGGATGGCGG-------------- mgi_U3.1_Supercontig_6.24_24340, TCGCT------CTGTCC-GAAAGGATGGCGG-------------- mor_U3.1_adopted_3_2971155,29714 TCGCT------CTGTCC-GAAAGGATGGCGG-------------- opi_U3.3_scaffold_10_248590,2489 TCGCT-----CCTGCCT-GTAAAGGCAGCGGACCAGGAAGTGCAT opi_U3.1_scaffold_07_346298,3466 TCGCT-----TCTGCCT-GCAAAGGCAGCGGACCAGGAAGTGCGT opi_U3.2_scaffold_13_777488,7778 TCGCT-----CCTGCCT-GCAAAGGCAGCGGACCAGGAAGCGCGT cpr_U3.1_scaffold_4_4573575,4573 CTGAT------CTGCCT-GCAAAGGTGGCGG-------------- pan_U3.2_chromosome_5_2959505,29 TCGCTATTTTTCTGCCTGGCACTCGTGCTGG-------------- tte_U3.2_chromosome_3_423167,423 TCGCT------CTGCCT-GCGAAGGCGGCGG-------------- tte_U3.1_chromosome_6_245316,245 TCGCT------CTGCCT-GCAAAGGTGGCGG-------------- ndi_U3.3_scaffold_7_997991,99825 TCGCT------CTGCCT-GCAAAGGTGGCGG-------------- ncr_U3.3_Supercontig_12.1_519200 TCGCT------CTGCCT-GCAAAGGTGGCGG-------------- nte_U3.3_scaffold_81_4699595,469 TCGCA------CTGCCT-GCAAAGGTGGCGG-------------- mth_U3.2_chromosome_7_399422,399 TCGAT------CTGCCT-GCAAAGGTGGCGG-------------- pan_U3.1_chromosome_1_5861063,58 TCGAT------CTGCCT-GCAAAGGTGGCGG-------------- pan_U3.3_chromosome_6_198157,198 TCGAC------CTGCCT-GCAAAGGTGGCGG-------------- cgl_U3.1_Supercontig_1.1_304529, TCGAT------CTGCCT-GCAAAGGCGGCGG-------------- cgl_U3.2_Supercontig_1.5_4455721 TCGTT------CTGCCT-GCAAAGGCGGCGG-------------- mth_U3.1_chromosome_5_4134858,41 TCGAC------CTGCCT-GCAAAGGTGGCGG-------------- tar_U3.1_scaffold_41_24194,24462 TCGCT------CTACCT-GCAAAGGTGGCGG-------------- ndi_U3.1_scaffold_4_320040,32031 TCGCT------CTGCCT-GCAAAGGTGGCGA-------------- ndi_U3.2_scaffold_10_249805,2500 TCGCC------CTGCCT-GCAAAGGTGGCGA-------------- ncr_U3.2_Supercontig_12.2_383607 TCGTC------TTGCCT-GCAAAGGTGGCGA-------------- nte_U3.2_scaffold_4_535351,53562 TCGTC------CTGCCT-GCAAAGGTGGCGA-------------- ncr_U3.1_Supercontig_12.1_934495 TCGCT------CTGCCT-GAAAAGGTGGCGA-------------- nte_U3.1_scaffold_32_2878,3147_- TCGCT------CTGCCT-GCAAAGGTGGCGA-------------- tvi_U3.1_adopted_91_1724878,1725 TCGTA------CCATCC-GGAAGGATGGCGG-------------- tre_U3.1_GL985066_934413,934691_ TCGCT------CTGTCC-GCAAGGACGGCGG-------------- tre_U3.2_GL985057_45210,45477_-_ TCGCT------CTGTCC-GCAAGGATGGCGG-------------- tat_U3.2_contig_26_2105290,21055 TCGCC------CTGTCC-GCAAGGATGGCGG-------------- tvi_U3.3_adopted_6_1230147,12304 TCGAT------CTGTCT-GCAAGGATGGCGG-------------- tre_U3.3_GL985090_19413,19679___ TCGCA------CCATCC-GCAAGGATGGCGG-------------- tvi_U3.2_adopted_91_852020,85229 TCGCC------CTGTCC-GCAAGGATGGCGG-------------- tat_U3.3_contig_12_192229,192492 TCGCA------CCGTCC-GCAAGGATGGCGG-------------- tat_U3.1_contig_22_919089,919362 TCGCT------CTGTCC-GCAAGGATGGCGG-------------- cmt_U3.1_scaffold_00002_756556,7 TCGAA------CTGTCC-GCAAGGATGGCGG-------------- fgr_U3.2_adopted_3_5416089,54163 TCGCC------CTGTCC-GCAAGGATAGCGG-------------- fve_U3.1_adopted_4_3439796,34400 TCGAT------CTGTCC-GCAAGGATGGCGG-------------- fox_U3.1_adopted_12_659471,65974 TCGAT------CTGTCC-GCAAGGATGGCGG-------------- nha_U3.2_adopted_7_924835,925104 TCGAT------CTCTCC-GCAAGGAGGGCGG-------------- fgr_U3.1_adopted_1_5358155,53584 TCGAT------CTGTCC-GCAAGGATGGCGG-------------- fve_U3.2_adopted_1_837631,837906 TCGAT------CTGTCC-GCAAGGACGGCGG-------------- fox_U3.2_adopted_1_793773,794045 TCGAT------CTGTCC-GCAAGGATGGCGG-------------- fgr_U3.3_adopted_2_5912849,59131 TCGCC------CTATCC-GCAAGGATGGCGG-------------- fve_U3.3_adopted_11_395602,39587 TCGCT------CTGTCC-GCAAGGATGGCGG-------------- fox_U3.3_adopted_13_1543981,1544 TCGCT------CTGTCC-GCAAGGATGGCGG-------------- nha_U3.1_adopted_1_516432,516701 TCGCT------CTGTCC-GCAAGGATGGCGG-------------- nha_U3.3_adopted_11_639971,64023 TCGCT------CTGTCT-GCAAAGACGGCGG-------------- vda_U3.1_Supercontig_1.11_81432, TCGCA------CCGCCT-GCAAAGGCGGCGG-------------- val_U3.2_Supercontig_10_753475,7 TCGCA------CTGCCT-GCAAAGGTGGCGG-------------- val_U3.3_Supercontig_21_51559,51 TCCAA------CTGCCT-GCAAAGGTGGCGG-------------- vda_U3.3_Supercontig_1.38_72377, TCGCA------CTGCCT-GCAAAGGTGGCGG-------------- val_U3.1_Supercontig_6_1364667,1 TCGCA------CTGCCT-GCAAAGGTGGCGG-------------- vda_U3.2_Supercontig_1.15_871054 TCGCA------CTGCCT-GCAAAGGTGGCGG-------------- aac_U3.1_scaffold_3_1603416,1603 TCGCA------CTGCCT-GCAAAGGTGGCGG-------------- sal_U3.1_scaffold_1_2252300,2252 TCGCA------CTGCCT-GCAAAGGTGGCGG-------------- aac_U3.2_scaffold_1_1566430,1566 TCGCA------CTGCCT-GCAAAGGTGGCGG-------------- mpo_U3.1_supercont1.6_88390,8867 ------------AGACGGTGCGCTTCGCGCGCTGCTGTCTCTGTA mgi_U3.1_Supercontig_6.24_24340, ----------TAGCTGAGTTTTCTTGGCT--------ACT--GTA mor_U3.1_adopted_3_2971155,29714 ----------TAGCTGAGTTTTCTTGGCT--------ACT--GTA opi_U3.3_scaffold_10_248590,2489 TTGTCTCTTCGGATTCAAATGTCTTCTAG-G------ACT--GTA opi_U3.1_scaffold_07_346298,3466 CTGTGTCTTCGGATGCAGATGTCTTCTAG-G------ACT--GTA opi_U3.2_scaffold_13_777488,7778 TTGTCTCTTCGGATTCAAATGTCTTCTAG-G------ACT--GTA cpr_U3.1_scaffold_4_4573575,4573 ----------------TCTTTTCCCTCTGTGGATTTGGCT--GTA pan_U3.2_chromosome_5_2959505,29 ------------------------------G------ATTTGGAA tte_U3.2_chromosome_3_423167,423 ------------TCGCTGGCTCCCTCGCG-GGCTGCGGCT--GTA tte_U3.1_chromosome_6_245316,245 -----------------TCCGGCCTCGAG-CCGTG--GCT--GTA ndi_U3.3_scaffold_7_997991,99825 -------------------TTGCCTTACG-GCG----ACT--GTA ncr_U3.3_Supercontig_12.1_519200 -------------------TCGCTTCACG-GCG----ATT--GTA nte_U3.3_scaffold_81_4699595,469 -------------------TCGCTTCACG-GCG----ACT--GTA mth_U3.2_chromosome_7_399422,399 ---------------TCGCTGGCCTCGCG---CTGTGGCT--GTA pan_U3.1_chromosome_1_5861063,58 --------------TCGCTGGCCTTTGTG---CTGCGGCT--GTA pan_U3.3_chromosome_6_198157,198 --------------TCGCTGGCCTTTGTG---CTGCGGCT--GTA cgl_U3.1_Supercontig_1.1_304529, ---------------TCGCTGGCTTTTGG-GCCGCG-ACT--GTA cgl_U3.2_Supercontig_1.5_4455721 ----------------TTGTTGCTTCGTG---CTGCGACT--GTA mth_U3.1_chromosome_5_4134858,41 ---------------TTGTTGGCTCTTTG-AGCTACAGCT--GTA tar_U3.1_scaffold_41_24194,24462 ----------------TCGCTGGCCTTCG-GGCTGCGGCT--GTA ndi_U3.1_scaffold_4_320040,32031 -----------------TC-TACTGTAAA-GTGGA--TTT--GTA ndi_U3.2_scaffold_10_249805,2500 -----------------TCTGCTTTTACA-GTGG---ATT--GTA ncr_U3.2_Supercontig_12.2_383607 ------------------TCTGCTTTATAAGTAG---ATT--GTA nte_U3.2_scaffold_4_535351,53562 ------------------TCTGCTTTATAAGTAG---ATT--GTA ncr_U3.1_Supercontig_12.1_934495 -----------------TCTTGCTTCACT-GCATG--ATT--GTA nte_U3.1_scaffold_32_2878,3147_- -----------------TCTTGCTTTACT-GCAAG--ATT--GTA tvi_U3.1_adopted_91_1724878,1725 ------------------TAGAAGCCCTGTGCCTCT-GCT--GTA tre_U3.1_GL985066_934413,934691_ ----------------CGGTTGCTCTTTGTGGCTTCCGCT--GTA tre_U3.2_GL985057_45210,45477_-_ ----------------CGGTTGCCTTGCGCAGCT---GCT--GTA tat_U3.2_contig_26_2105290,21055 ----------------TAGTTGCCTCGTGCTTCT---GCT--GTA tvi_U3.3_adopted_6_1230147,12304 -----------------CGTTGCCTTGCGCAATT---GCT--GTA tre_U3.3_GL985090_19413,19679___ -----------------CAAAGCTTTGCGCTTCT---GCT--GTA tvi_U3.2_adopted_91_852020,85229 ---------------CAGTTGCCTTTGTGCTTCT---GCT--GTA tat_U3.3_contig_12_192229,192492 ----------------CAGAAGCCTCGCGCATCT---GCT--GTA tat_U3.1_contig_22_919089,919362 ----------------CAGTAGCCTCGTG---CTTCTGCT--GTA cmt_U3.1_scaffold_00002_756556,7 -----------------TCTTGGCTCTCG-GGCCTTGACT--GTA fgr_U3.2_adopted_3_5416089,54163 ----------------TAATCACTTTTGT-GTGGTT-GCT--GTA fve_U3.1_adopted_4_3439796,34400 ---------------TGGTCTGCTCTTTTGAGTGGCTGCT--GTA fox_U3.1_adopted_12_659471,65974 ----------------TGGTTGCTCTTTG-AGTGGCCGCT--GTA nha_U3.2_adopted_7_924835,925104 ----------------TAGTTGTCTTGAACAGCT---GCT--GTA fgr_U3.1_adopted_1_5358155,53584 ---------------TGGTTTGCCCTTGG-GCGGCT-GCT--GTA fve_U3.2_adopted_1_837631,837906 ------------TCTTGCTTGCCTTCGTG-GCGGGTGGCT--GTA fox_U3.2_adopted_1_793773,794045 ---------------TCGCCTGCTTTGCT-GCGGGTGGCT--GTA fgr_U3.3_adopted_2_5912849,59131 ----------------TGGCTGTCTCGTGCAGCT---GCT--GTA fve_U3.3_adopted_11_395602,39587 ----------------TGGTTGTCTTGTGCAGCT---GCT--GTA fox_U3.3_adopted_13_1543981,1544 ----------------TGGTTGCCTCGTGCAGCT---GCT--GTA nha_U3.1_adopted_1_516432,516701 ----------------TGGTTGCTATGCA-GCT----ACT--GTA nha_U3.3_adopted_11_639971,64023 ----------------CAGTCGCTTTGAGCGGTT---GCT--GTA vda_U3.1_Supercontig_1.11_81432, --------------CTCCTCCTCCTCCCG-GGAGGAAGCT--GTA val_U3.2_Supercontig_10_753475,7 -----------------CTCTCTCCTTCT-GGGAGGAGCT--GTA val_U3.3_Supercontig_21_51559,51 -----------------CTCTTCTTCTGG-AAA----GCT--GTA vda_U3.3_Supercontig_1.38_72377, -----------------CTCTTCCTTCTG-GAAA---GCT--GTA val_U3.1_Supercontig_6_1364667,1 ---------------CTCTTGCCCTTCTC-GGGTGA-GCT--GTA vda_U3.2_Supercontig_1.15_871054 --------------CTCTTGCCCTTCTCGGGTGA---GCT--GTA aac_U3.1_scaffold_3_1603416,1603 -----------------CATGGTTTATCT-GT-----GCT--GTA sal_U3.1_scaffold_1_2252300,2252 -----------------CATAGCTCTGCT-GT-----GCT--GTA aac_U3.2_scaffold_1_1566430,1566 -----------------CATAGTTTCTGT--------GCT--GTA mpo_U3.1_supercont1.6_88390,8867 T-----AGAGG---------------------------------- mgi_U3.1_Supercontig_6.24_24340, T-----AGAGG---------------------------------- mor_U3.1_adopted_3_2971155,29714 T-----AGAGG---------------------------------- opi_U3.3_scaffold_10_248590,2489 TTTTATAGAGG---------------------------------- opi_U3.1_scaffold_07_346298,3466 TTCAACAGAGG---------------------------------- opi_U3.2_scaffold_13_777488,7778 T-TAACAGAGG---------------------------------- cpr_U3.1_scaffold_4_4573575,4573 T-----AGGGA---------------------------------- pan_U3.2_chromosome_5_2959505,29 C-----AGAAA---------------------------------- tte_U3.2_chromosome_3_423167,423 T-----AGAGA---------------------------------- tte_U3.1_chromosome_6_245316,245 T-----AGAGA---------------------------------- ndi_U3.3_scaffold_7_997991,99825 T-----AGAAA---------------------------------- ncr_U3.3_Supercontig_12.1_519200 T-----AGAGA---------------------------------- nte_U3.3_scaffold_81_4699595,469 T-----AGAGA---------------------------------- mth_U3.2_chromosome_7_399422,399 T-----AGAGA---------------------------------- pan_U3.1_chromosome_1_5861063,58 T-----AGAGA---------------------------------- pan_U3.3_chromosome_6_198157,198 T-----AGAGA---------------------------------- cgl_U3.1_Supercontig_1.1_304529, T-----AGAGA---------------------------------- cgl_U3.2_Supercontig_1.5_4455721 T-----AGAGA---------------------------------- mth_U3.1_chromosome_5_4134858,41 T-----AGAGA---------------------------------- tar_U3.1_scaffold_41_24194,24462 T-----AGAGA---------------------------------- ndi_U3.1_scaffold_4_320040,32031 T-----AGAGA---------------------------------- ndi_U3.2_scaffold_10_249805,2500 T-----AGAGA---------------------------------- ncr_U3.2_Supercontig_12.2_383607 T-----AGAGA---------------------------------- nte_U3.2_scaffold_4_535351,53562 T-----AGAGA---------------------------------- ncr_U3.1_Supercontig_12.1_934495 T-----AGAGA---------------------------------- nte_U3.1_scaffold_32_2878,3147_- T-----AGAGA---------------------------------- tvi_U3.1_adopted_91_1724878,1725 T-----AGAGA---------------------------------- tre_U3.1_GL985066_934413,934691_ T-----AGAGA---------------------------------- tre_U3.2_GL985057_45210,45477_-_ T-----AGAGA---------------------------------- tat_U3.2_contig_26_2105290,21055 T-----AGAGA---------------------------------- tvi_U3.3_adopted_6_1230147,12304 T-----AGAGA---------------------------------- tre_U3.3_GL985090_19413,19679___ T-----AGAGA---------------------------------- tvi_U3.2_adopted_91_852020,85229 T-----AGAGA---------------------------------- tat_U3.3_contig_12_192229,192492 T-----AGAGA---------------------------------- tat_U3.1_contig_22_919089,919362 T-----AGAGA---------------------------------- cmt_U3.1_scaffold_00002_756556,7 T-----AGAGAGATGCGCAAGTCAGTTATTGGCCAGCTTCGGTTG fgr_U3.2_adopted_3_5416089,54163 T-----AGAGA---------------------------------- fve_U3.1_adopted_4_3439796,34400 T-----AGAGA---------------------------------- fox_U3.1_adopted_12_659471,65974 T-----AGAGA---------------------------------- nha_U3.2_adopted_7_924835,925104 T-----AGAGA---------------------------------- fgr_U3.1_adopted_1_5358155,53584 T-----AGAGA---------------------------------- fve_U3.2_adopted_1_837631,837906 T-----AGAGA---------------------------------- fox_U3.2_adopted_1_793773,794045 T-----AGAGA---------------------------------- fgr_U3.3_adopted_2_5912849,59131 T-----AGAGA---------------------------------- fve_U3.3_adopted_11_395602,39587 T-----AGAGA---------------------------------- fox_U3.3_adopted_13_1543981,1544 T-----AGAGA---------------------------------- nha_U3.1_adopted_1_516432,516701 T-----AGAGA---------------------------------- nha_U3.3_adopted_11_639971,64023 T-----AGAGA---------------------------------- vda_U3.1_Supercontig_1.11_81432, G-----AGAGG---------------------------------- val_U3.2_Supercontig_10_753475,7 C-----AGAGG---------------------------------- val_U3.3_Supercontig_21_51559,51 T-----AGAGG---------------------------------- vda_U3.3_Supercontig_1.38_72377, T-----AGAGG---------------------------------- val_U3.1_Supercontig_6_1364667,1 T-----AGAGG---------------------------------- vda_U3.2_Supercontig_1.15_871054 T----AAGAGG---------------------------------- aac_U3.1_scaffold_3_1603416,1603 T-----AGAGA---------------------------------- sal_U3.1_scaffold_1_2252300,2252 T-----AGAGG---------------------------------- aac_U3.2_scaffold_1_1566430,1566 T-----AGAGA---------------------------------- mpo_U3.1_supercont1.6_88390,8867 ------ACT------------GTGAT-GATCTCTATCCCGA---- mgi_U3.1_Supercontig_6.24_24340, ------ATT------------GTGAT-GATCTCTACCCCGA---- mor_U3.1_adopted_3_2971155,29714 ------ATT------------GTGAT-GATCTCTACCCCGA---- opi_U3.3_scaffold_10_248590,2489 ------GTG------------GTGAT-GAGTTATACCCTGGA--- opi_U3.1_scaffold_07_346298,3466 ------GTG------------GTGAT-GAGCTATACCCTGG---- opi_U3.2_scaffold_13_777488,7778 ------GTG------------GTGAT-GAGCTATACCCTGG---- cpr_U3.1_scaffold_4_4573575,4573 ------GTG------------GTGAT-GATCTCTACCCCGA---T pan_U3.2_chromosome_5_2959505,29 ------GTG---------GCGATGATCGATCTATACGCCGT---- tte_U3.2_chromosome_3_423167,423 ------GTG------------GCGAT-GATCTGTGCCCCGG-CTT tte_U3.1_chromosome_6_245316,245 ------GTG------------GCGAT-GATCGGTACCCCGG---- ndi_U3.3_scaffold_7_997991,99825 ------GTG------------GCGAT-GATCTGTACCCCGA---- ncr_U3.3_Supercontig_12.1_519200 ------GTG------------GCGAT-GATCTGTACCCCGA---- nte_U3.3_scaffold_81_4699595,469 ------GTG------------GCGAT-GATCTGTACCCCGA---- mth_U3.2_chromosome_7_399422,399 ------GTG------------GCGAT-GATCTGTACCCCGG---C pan_U3.1_chromosome_1_5861063,58 ------GTG------------GCGAT-GATCTGTACCCTGA---T pan_U3.3_chromosome_6_198157,198 ------GTG------------GCGAT-GATCTGTACCCCGA---- cgl_U3.1_Supercontig_1.1_304529, ------GTG------------GCGAT-GATCTGTACCCCGC---- cgl_U3.2_Supercontig_1.5_4455721 ------GTG------------GCGAT-GATCTGTACCCCGG---C mth_U3.1_chromosome_5_4134858,41 ------GTG------------GCGAT-GATCTGTACCCCGG--CT tar_U3.1_scaffold_41_24194,24462 ------GTG------------GCGAT-GATCTGTACCCCGG---- ndi_U3.1_scaffold_4_320040,32031 ------GTG------------GCGAT-GATCTGTACCCCGATTGT ndi_U3.2_scaffold_10_249805,2500 ------GTG------------GCGAT-GATCTGTACCCCGA---- ncr_U3.2_Supercontig_12.2_383607 ------GTG------------GCGAT-GATCTGTACCCCGATTTT nte_U3.2_scaffold_4_535351,53562 ------GTG------------GCGAT-GATCTGTACCCCGATTTT ncr_U3.1_Supercontig_12.1_934495 ------GTG------------GCGAT-GATCTGTACCCCGA---- nte_U3.1_scaffold_32_2878,3147_- ------GTG------------GCGAT-GATCTGTACCCCGA--TT tvi_U3.1_adopted_91_1724878,1725 ------GTT---GTTTTTCTCTTGAT-GATCTCGACCCTAT---- tre_U3.1_GL985066_934413,934691_ ------GTT-----GTTTCTCTTGAT-GATCTCGACCCTGC---- tre_U3.2_GL985057_45210,45477_-_ ------GTT-------GTCTCTTGAT-GATCTCGACCCTGT---- tat_U3.2_contig_26_2105290,21055 ------GTT------GTTCTCTTGAT-GATCTCGACCCTGT---- tvi_U3.3_adopted_6_1230147,12304 ------GTT---GTTTTCTTCTTGAT-GATCTCGACCCTGT---- tre_U3.3_GL985090_19413,19679___ ------GTT----GTTTCTTCTTGAT-GATCTCGACCCTAT---- tvi_U3.2_adopted_91_852020,85229 ------GTT--GTTTTTTCTCTTGAT-GATCTCGACCCTGC---- tat_U3.3_contig_12_192229,192492 ------GTT----GTTTTCTCTTGAT-GATCTCGACCCTGT---- tat_U3.1_contig_22_919089,919362 ------GCT---GTTTTCTTCTTGAT-GATCTCGACCCTAT---- cmt_U3.1_scaffold_00002_756556,7 GTTCATGTCGACTTGCCACTTTTGAT-GATCTCGACCCTGT---- fgr_U3.2_adopted_3_5416089,54163 ------GAT-----GCTACTCTTGAT-GATCTCGGTCCTGA---- fve_U3.1_adopted_4_3439796,34400 ------GAT-----GTTACTCTTGAT-GATCTCGGCCCTTG---- fox_U3.1_adopted_12_659471,65974 ------GAT-----GTTACTCTTGAT-GATCTCGGCCCCCA---- nha_U3.2_adopted_7_924835,925104 ------GTG-----TTTTCTCTTGAT-GATCTCGACCCTGA---- fgr_U3.1_adopted_1_5358155,53584 ------GTTTGTCTTTTCCTCTTGAT-GATCTCGACCCTGA---- fve_U3.2_adopted_1_837631,837906 -TGGTTGTA-----------TTTGAT-GATCTCGACCCTGA---- fox_U3.2_adopted_1_793773,794045 -TGGTTGTA-----------TTTGAT-GATCTCGACCCTGA---- fgr_U3.3_adopted_2_5912849,59131 ------GTT---TGTTTCCTCTTGAT-GATCTCGACCCCAG---- fve_U3.3_adopted_11_395602,39587 -------------TGGTTTGCTTGAT-GATCTCGACCCCAG---- fox_U3.3_adopted_13_1543981,1544 -------------TGGTTTGCTTGAT-GATCTCGACCCCAG---- nha_U3.1_adopted_1_516432,516701 ------GTG----TTTTTCTCTTGAT-GATCTCGATCCCCT---- nha_U3.3_adopted_11_639971,64023 ------GTT----TTTCCCTCTTGAT-GATCTCGACCCCAG---- vda_U3.1_Supercontig_1.11_81432, ------GCG-----------TTTGAT-GATCTCGTCCCTGT---- val_U3.2_Supercontig_10_753475,7 ------GCG-----------TTTGAT-GATCTCGTCCCTGT---- val_U3.3_Supercontig_21_51559,51 ------GCG-----------TTTGAT-GATCTCGTCCCTGT---- vda_U3.3_Supercontig_1.38_72377, ------GCG-----------TTTGAT-GATCTCGTCCCTGT---- val_U3.1_Supercontig_6_1364667,1 ------GCG-----------TTTGAT-GATCTCGTCCCTGC---- vda_U3.2_Supercontig_1.15_871054 ------GCG-----------TTTTAT-GATCTCGTCCCTGC---- aac_U3.1_scaffold_3_1603416,1603 ------GCT-----------GTTGAT-GATCTCGACCCCAT---- sal_U3.1_scaffold_1_2252300,2252 ------GCG-----------GTTGAT-GATCTCGACCCTGT---- aac_U3.2_scaffold_1_1566430,1566 ------GCG-----------GTTGAT-GATCTCGACCCTGT---- mpo_U3.1_supercont1.6_88390,8867 TCACCCAGGGTCTTGCCTTC--------G-GGCGCCTGGGCGGGA mgi_U3.1_Supercontig_6.24_24340, TTACCCAAGGTCTTGCCTTC--------G-GGCGCTTGGGCGGGG mor_U3.1_adopted_3_2971155,29714 TTACCCAAGGTCTTGCCTTC--------G-GGCGCTTGGGCGGGG opi_U3.3_scaffold_10_248590,2489 ---CTGGAGGTC-TGCTTCTCTTTACGAG-GGCTCTCTGCTAGGG opi_U3.1_scaffold_07_346298,3466 --ACTGGAGGTC-TGCTTCTCCTTTGGAG-GGCGCTCTGCCAGGG opi_U3.2_scaffold_13_777488,7778 --ACTGGAGGTC-TGCTTCTCCTTTGGAG-GGCGCTCTGCCAGGG cpr_U3.1_scaffold_4_4573575,4573 TTTCTCGAGGTCTTGCCTTC--------G-GGCGCTTGGGCGGGG pan_U3.2_chromosome_5_2959505,29 -CTCTCGAGGACTTGCCTTT--------G-GGCGCTTGGATGGGC tte_U3.2_chromosome_3_423167,423 TTCCCCGGGGTCTTGCCTTC--------G-GGCGCTCGGGCGGGG tte_U3.1_chromosome_6_245316,245 TATCTTGGGGTCTTGCCTTC--------G-GGCGCTCAAGCGGGG ndi_U3.3_scaffold_7_997991,99825 CTTCCAGAGGTC-TGCCTTC--------G-GGCGCTTTGGCGGGG ncr_U3.3_Supercontig_12.1_519200 TTTCCAGAGGTC-TGCCTTC--------G-GGCGCTTTGGCGGGG nte_U3.3_scaffold_81_4699595,469 TTTCCAGAGGTC-TGCCTTC--------G-GGCGCTTTGGCGGGG mth_U3.2_chromosome_7_399422,399 TTCCCTGAGGTCTTGCTTTC--------G-GGCGCTCAGGCGGGG pan_U3.1_chromosome_1_5861063,58 TTTCTTGAGGTCTTGCCTTT--------G-GGCGCTCAAGCGGGG pan_U3.3_chromosome_6_198157,198 TTTCTCGAGGTCTTGCCTTC--------G-GGCGCTTGAACGGGG cgl_U3.1_Supercontig_1.1_304529, CTTTTCGAGGTCTTGCCTTC--------G-GGCGCTCGGGCGGGG cgl_U3.2_Supercontig_1.5_4455721 TTTCTTGAGGACTTGCCTTC--------G-GGCGCTCAGGCGGGG mth_U3.1_chromosome_5_4134858,41 TTTCTCGAGGTCTTGCCTTC--------G-GGCGCTCGGGCGGGG tar_U3.1_scaffold_41_24194,24462 TTTCTCGAGGTCTTGCCTTC--------G-GGCGCTCGGGCGGGG ndi_U3.1_scaffold_4_320040,32031 TTTCTCAAGGTC-TGCCTTT--------G-GGCGCTTGGGCGGGG ndi_U3.2_scaffold_10_249805,2500 TTTCTCAGGGTC-TGCCTTC--------G-GGCGCTTGGGCGGGG ncr_U3.2_Supercontig_12.2_383607 TTTCTCAAGGTC-TGCCTTC--------G-GGCGCTTGGGCGGGG nte_U3.2_scaffold_4_535351,53562 TTTCTCAAGGTC-TGCCTTC--------G-GGCGCTTGGGCGGGG ncr_U3.1_Supercontig_12.1_934495 TTTCCCAAGGTC-TGCCTTC--------G-GGCGCTTGGGCGGGG nte_U3.1_scaffold_32_2878,3147_- TTTCTCAAGGTC-TGCCTTC--------G-GGCGCTTGGGCGGGG tvi_U3.1_adopted_91_1724878,1725 ----CGATGGTC-TGCCCTT--------G-GGCGCATTGGTTGGG tre_U3.1_GL985066_934413,934691_ ----CGGTTCTTTTGTCTTC--------G-GGCATGCTGGTAGGG tre_U3.2_GL985057_45210,45477_-_ ----CTGTTGTT-TGCCTTC--------GTAGCACGCGGGCAGGG tat_U3.2_contig_26_2105290,21055 ----TCGTGGTCTTGCCTTC--------G-GGCGCATGGGCAGGG tvi_U3.3_adopted_6_1230147,12304 ----TCGTGGTC-TGCCTTT--------G-GGCGCATGGGCAGGG tre_U3.3_GL985090_19413,19679___ ----CGACGGC--TGCCTTT--------G-GGCCCGTTGGTGGGG tvi_U3.2_adopted_91_852020,85229 ----CGGTGGTC-TGCCTTC--------G-GGCGCGCTGGTAGGG tat_U3.3_contig_12_192229,192492 ----CGGCGGTCATGCCTTC--------G-GGCGCGCTGGCAGGG tat_U3.1_contig_22_919089,919362 ----CCGTGGTCATGCCTTC--------G-GGCGCACTGGTAGGG cmt_U3.1_scaffold_00002_756556,7 ----CGGTGGTC-TGCCTTC--------G-GGCGCACTAACAGGG fgr_U3.2_adopted_3_5416089,54163 ----GTGCGGTCTTGCCTTT--------G-GGCGCGCGCTTGGGA fve_U3.1_adopted_4_3439796,34400 ----GGACGGTC-TGCCTTC--------G-GGCGCGTTCTTGGGG fox_U3.1_adopted_12_659471,65974 ----GAGCGGTC-TGCCCTC--------G-GGCGCGCTTTTGGGG nha_U3.2_adopted_7_924835,925104 ----CTGTGGTCTTGCCTTC--------G-GGCGCGCGGTTGGGG fgr_U3.1_adopted_1_5358155,53584 ----TTGCGGTCTTGCCTTC--------G-GGCGCGCGGTCGGGG fve_U3.2_adopted_1_837631,837906 ----TTGCGGTCTTGCCTTC--------G-GGCGCGCAGTCGGGG fox_U3.2_adopted_1_793773,794045 ----TTGCGGTCTTGCCTTC--------G-GGCGCGCGGTCGGGG fgr_U3.3_adopted_2_5912849,59131 ----CTGTGGTC-TGCCTTC--------G-GGCGCGTGGCTGGGG fve_U3.3_adopted_11_395602,39587 ----CTGTGGTCTTGCCTTT--------G-GGCGCGTGGCTGGGG fox_U3.3_adopted_13_1543981,1544 ----CTGTGGTCTTGCCTTC--------G-GGCGCGTGGCTGGGG nha_U3.1_adopted_1_516432,516701 ----CTGCGGTCTTGCCTTC--------G-GGCGCGCGGTCGGGA nha_U3.3_adopted_11_639971,64023 ----CAGCGGTCTTGCCTTC--------G-GGCGCGCGGTTGGGG vda_U3.1_Supercontig_1.11_81432, ---CTTGCGGTCTTGCCCTT--------G-GGCGCGCGGGCGGGG val_U3.2_Supercontig_10_753475,7 ---CTTGCGGTCTTGCCCTT--------G-GGCGCGC-GGTGGGG val_U3.3_Supercontig_21_51559,51 ---CTTGTGGTCTTGCCTTT--------G-GGCGCGCAAACGGGG vda_U3.3_Supercontig_1.38_72377, ---CTTGCGGTCTTGCCCTT--------G-GGCGCGCGGACGGGG val_U3.1_Supercontig_6_1364667,1 ---TTTGCGGTCTTGCCCTT--------G-GGCGCGCGGGCGGGG vda_U3.2_Supercontig_1.15_871054 ---TTCGCGGTCTTGCCCTT--------G-GGCGCGCGGGCGGGG aac_U3.1_scaffold_3_1603416,1603 ---CTCGTGGTCTTGCCTTC--------G-GGCGCACGGGTGGGG sal_U3.1_scaffold_1_2252300,2252 ---CTTGTGGTCTTGCCTTC--------G-GGCGTACGAGCAGGG aac_U3.2_scaffold_1_1566430,1566 ---CTCGTGGTCTTGCCTTC--------G-GGCGCACGGATAGGG mpo_U3.1_supercont1.6_88390,8867 TGGGCA-GCGAT-GGACGTCTGACAGGC mgi_U3.1_Supercontig_6.24_24340, TGGGCT-TCGAC-GCAAATCTGACAGGC mor_U3.1_adopted_3_2971155,29714 TGGGCT-TCGAC-GCAAATCTGACAGGC opi_U3.3_scaffold_10_248590,2489 TGGGTG-TCGAT-GGACGTCTGACCGGC opi_U3.1_scaffold_07_346298,3466 TGGGTG-TCGAT-GGACGTCTGACCGGC opi_U3.2_scaffold_13_777488,7778 TGGGTG-TCGAT-GGACGTCTGACCGGC cpr_U3.1_scaffold_4_4573575,4573 TGGGTG-TCGAT-GGAATTCTGACAGGC pan_U3.2_chromosome_5_2959505,29 TGGGTGTTTGAT-GGAAGTCTGACCGGC tte_U3.2_chromosome_3_423167,423 CGGGTG-TCGAT-GGAAGTCTGACCGGC tte_U3.1_chromosome_6_245316,245 TGGGTG-TCGAT-GGAAGTCTGACCGGC ndi_U3.3_scaffold_7_997991,99825 TGGGTG-TCGAT-GGAAGTCTGACGCGC ncr_U3.3_Supercontig_12.1_519200 TGGGTG-TCGAT-GGAAGTCTGACGCGC nte_U3.3_scaffold_81_4699595,469 TGGGTG-TCGAT-GGAAGTCTGACGCGC mth_U3.2_chromosome_7_399422,399 TGGGTG-TCGAT-GGAAGTCTGACCGGC pan_U3.1_chromosome_1_5861063,58 TGGGTA-TCGAT-GGAAGTCTGACCGGC pan_U3.3_chromosome_6_198157,198 TGGGTG-TCGAT-GGAAGTCTGACCGGC cgl_U3.1_Supercontig_1.1_304529, TGGGTG-TCGAT-GGAAGTCTGACCGGC cgl_U3.2_Supercontig_1.5_4455721 TGGGTA-TCGAT-GGAAGTCTGACCGGC mth_U3.1_chromosome_5_4134858,41 TGGGTG-TCGAT-GGAAGTCTGACCGGC tar_U3.1_scaffold_41_24194,24462 TGGGTG-TCGAT-GGAAGTCTGACCGGC ndi_U3.1_scaffold_4_320040,32031 TGGGTT-TCGAT-GGAAGTCTGACTGGC ndi_U3.2_scaffold_10_249805,2500 TGGGTT-TCGAT-GGAAGTCTGACCGGC ncr_U3.2_Supercontig_12.2_383607 TGGGTT-TCGAT-GGAAGTCTGACCGGC nte_U3.2_scaffold_4_535351,53562 TGGGTT-TCGAT-GGAAGTCTGACCGGC ncr_U3.1_Supercontig_12.1_934495 TGGGTT-TCGAT-GGAAGTCTGACCGGC nte_U3.1_scaffold_32_2878,3147_- TGGGTT-TCGAT-GGAAGTCTGACCGGC tvi_U3.1_adopted_91_1724878,1725 TGGTTG-TCGAT-GGACGTCTGACAGGC tre_U3.1_GL985066_934413,934691_ TGGGTG-TCGAT-GGACGTCTGACAGGC tre_U3.2_GL985057_45210,45477_-_ TGGGTG-TTGAT-GGACGTCTGACAGGC tat_U3.2_contig_26_2105290,21055 TGGGTG-TTGAT-GGACGTCTGACAGGC tvi_U3.3_adopted_6_1230147,12304 TGGGTG-TTGAT-GGACGTCTGACAGGC tre_U3.3_GL985090_19413,19679___ TGGATG-TCGAT-GGACGTCTGACAGGC tvi_U3.2_adopted_91_852020,85229 TGGGTG-TCGAT-GGACGTCTGACAGGC tat_U3.3_contig_12_192229,192492 TGGATG-TCGAT-GGACGTCTGACAGGC tat_U3.1_contig_22_919089,919362 TGGGTG-TCGAT-GGACGTCTGACAGGC cmt_U3.1_scaffold_00002_756556,7 TGGGTG-TTGAT-GGACGTCTGACAGGC fgr_U3.2_adopted_3_5416089,54163 CGGGCA-TTGAT-GGACGTCTGACAGGC fve_U3.1_adopted_4_3439796,34400 CGGGCA-TTGAT-GGACGTCTGACAGGC fox_U3.1_adopted_12_659471,65974 CGGGCA-TTGAT-GGACGTCTGACAGGC nha_U3.2_adopted_7_924835,925104 TGGGTG-TTGAT-GGACGTCTGACAGGC fgr_U3.1_adopted_1_5358155,53584 TGGGTG-TTGAT-GGACGTCTGACAGGC fve_U3.2_adopted_1_837631,837906 TGGGTG-TTGAT-GGACGTCTGACAGGC fox_U3.2_adopted_1_793773,794045 TGGGTG-TTGAT-GGACGTCTGACAGGC fgr_U3.3_adopted_2_5912849,59131 TGGGTG-TTGAT-GGACGTCTGACAGGC fve_U3.3_adopted_11_395602,39587 TGGGTG-TTGAT-GGACGTCTGACAGGC fox_U3.3_adopted_13_1543981,1544 TGGGTG-TTGAT-GGACGTCTGACAGGC nha_U3.1_adopted_1_516432,516701 TGGGTG-TTGAT-GGACGTCTGACAGGC nha_U3.3_adopted_11_639971,64023 TGGGTG-TTGAT-GGACGTCTGACAGGC vda_U3.1_Supercontig_1.11_81432, TGGGTG-TTGAC-GGACGTCTGACAGGC val_U3.2_Supercontig_10_753475,7 TGG-TG-TTGACGGGACGTCTGACAGGC val_U3.3_Supercontig_21_51559,51 TGGGTG-CTGAC-GGACGTCTGACAGGC vda_U3.3_Supercontig_1.38_72377, TGGGTG-CTGAT-GGACGTCTGACAGGC val_U3.1_Supercontig_6_1364667,1 TGGGTG-TTGAC-GGACGTCTGACAGGC vda_U3.2_Supercontig_1.15_871054 TGGGTG-TTGAC-GGACGTCTGACAGGC aac_U3.1_scaffold_3_1603416,1603 TAGGTG-TTGAT-GGACGTCTGACAGGC sal_U3.1_scaffold_1_2252300,2252 TGGGTG-CTGAT-GGACGTCTGACAGGC aac_U3.2_scaffold_1_1566430,1566 TGGGTG-CTGAT-GGACGTCTGACAGGC