[This one gives the "Correct" tree with INAASE stepmatrix]

#NEXUS 

Begin data;
	Dimensions ntax=18 nchar=[2801] 2845;
	Format datatype=rna interleave gap=- symbols="1234567890bdefhijklopquvwxacgtrsy*";
	Matrix
[Note:  Taxon lables, except Cow, were encrypted while alignment was performed, and then labelled when the alignment was finished]
[		 	                  1         2     1Õ      3             4              5          6             7                   8     ]                      
Cow     				-CAU AGGUU UGG UCC C AGCCU U CCUGUUAACU C UUAAUAAA CUUA CACAUGC AA GCAUCUAC ACCCCA GUG -AGAAUGC CCUCUAG--GUU A-U----UAA AACUAAGAGG AGCU
Rhinoceros_unicornis 	-CAU AGGUU UGG UCC U AGCCU U UCUAUUAACU A UUAGUAAA AUUA CACAUGC AA GUAUCCGC ACUCCA GUG -AGAAUGC CCUCUAA--AUC ACCCAU-AAC GAUUAAAAGG AGCA
Gorilla_gorilla 		-AAU AGGUU UGG UCC U AGCCU U UCUAUUAACU C UUAGUAGG AUUA CACAUGC AA GCAUCCCC GCCCCA GUG -AA-UCAC CCUCUAA--AUC ACC-----AC GAUCAAAAGG AACA
Equus_caballus 			-CAU AGGCU UGG UCC U AGCCU U UUUAUUAGUU A UUAAUAGA AUUA CACAUGC AA GUAUCCGC ACCCCA GUG -AGAAUGC CCUCUAA--AUC ACGUCUCUAC GAUUAAAAGG AGCA
Platypus  				AUAA AGGUU UGG UCC U AGCCU U ACUGUUAGAU U UGAUUAGA UUUA UACAUGC AA GUAUCCGC AACCCA GUG -AGAAUAC CCUAAAA--ACU CUUA---ACA AGUUAGAAGG AGUA
Equus_asinus 			-CAU AGGCU UGG UCC U GGCCU U UUUAUUAGUU A UUAAUAAA AUUA CACAUGC AA GUAUCCGC ACCCCA GUG -AGAAUGC CCUCUAA--AUC GCA-CUCUAC GAUCAAAAGG AGCA
Pongo_pygmaeus_a  		-AAU AGGUU UGG UCC U AGCCU U UCUAUUAGCU C UUAGUGAG GUUA CACAUGC AA GCAUCCCC GCCCCA GUG -AGU-CGC CCUCCAA--GUC AC-----UCU GACUAAGAGG AGCA
Pan_troglodytes 		-AAC AGGUU UGG UCC U AGCCU U UCUAUUAGCU C UUAGUAAG AUUA CACAUGC AA GCAUCCCC GC-CCC GUG -AGU-CAC CCUCUAA--AUC GC-----CAU GAUCAAAAGG AACA
Balaenoptera 			-UAA AGGUU UGG UCC C AGCCU U UCUAUUAGUU C UUAACAGA CUUA CACAUGC AA GUAUCCAC AUCCCA GUG -AGAACGC CCUCUAA--AUC AU-----AAA GAUUAAAAGG AGCG
Didelphis_virginiana 	--AU AGGUU UGG UCC U AGCCU U AUUAUUAGUU C UAAUUAGA CCUA CACAUGC AA GUUUCCGC UACCCA GUG -AGAAUGC CCUUUAAGUCUU --AUA-AAUU AAGCAAAAGG AGCU
Macropus_robustus 		-CAA AGGUU UGG UCC U GGCCU U ACUGUUAAUU G UAGUUAGA CCUA CACAUGC AA GUUUCCGC UGCCCG GUG -AAAAUGC CCUCAAA--AUU --AAA-ACUA AAUCAACAGG AGCG
Balaenoptera_musculus	--AA AGGUU UGG UCC C AGCCU U UCUAUUAGUU C UUAACAAA CUUA CACAUGC AA GCGUCUAC AUCCCG GUG -AGAAUGC CCUCUAA--AUC --ACA--AA- GAUCAAAAGG AGCA
Hylobates				-AAU AGGUU UGG UCC U AGCCU U UCUAUUAGCC C CUGGCAAG AUUA CACAUGC AA GCAUCCCC GCCCCG GUG -AAAUCGC CCUUCAA--AUC --ACC--CGU GAUCAAAAGG AGCA
Homo					-AAU AGGUU UGG UCC U AGCCU U UCUAUUAGCU C UUAGUAAG AUUA CACAUGC AA GCAUCCCC GUUCCA GUG -AGUUCAC CCUCUAA--AUC --ACC---AC GAUCAAAAGG GACA
Pongo_pygmaeus			-AAC AGGUU UGG UCC U AGCCU U UCUAUUAGCC C UUAGUGAG AUUA CACAUGC AA GCAUCCCC GCCCCA GUG -AG-UCGC CCUCCAA--GCC --ACU---CU GACUAAGAGG AACA
Pan_paniscus			-AAC AGGUU UGG UCC U AGCCU U UCUAUUAGCU C UUAGUAAG AUUA CACAUGC AA GCAU--CC GUCCC- GUG -AG-UCAC CCUCUAA--AUC --ACC---AU GAUCAAAAGG AACA
Echidna 				ACAA AGGUU UGG UCC U AGCCU U AUUGUUAGAU U UGACUAAA UUUA UACAUGC AA GUAUCCGC AGACCA GUG -AGAAUAC CCUAAAA--ACU --UUAA-GCA AGUUAAAAGG AGUU       
Papio   				AAAU AGGCU UGG UCC U GGCCU U UCUAUUGACU C UUAGCAAG AUUA CACAUGC AA GCAUCCCC AUUCCG GUG AAG-ACGC CCUUCCC--AUC -AAC----AU GACCAGAAGG AGCA



[                            9                               7Õ                     5Õ                                          4Õ]
Cow       GGCAUCAAGCACACA CCC--- UGUAGCUCACGACGCC UUGC-UUAAC CAC ACC-CCACGGGAAACA GCAGUG ACAAAAAUUAAGCCAUAAACGAAAGUUUGACUAAG UUA-UAUUA-A 
Taxon_1   GGUAUCAAGUACACU AAUAAC AGUAGCUAACAACACC UUGC-UCAAC CAC ACCCCCACGGGAGACA GCAGUG ACAAAAAUUAAGCAAUAAACGAAAGUUUGACUAAG UUA-UACUA-A 
Taxon_2   AGCAUCAAGUACGCA -GAAA- UGCAGCUCAAAACGCU UAGC-CUAGC CAC ACCCCCACGGGGGACA GCAGUG AUUAACCUUUAGCAAUAAACGAAAGUUUAACUAAG CCA-UACUA-A 
Taxon_3   GGUAUCAAGCACACU AG-AA- AGUAGCUCAUAACACC UUGC-UCAGC CAC ACCCCCACGGGACACA GCAGUG AUAAAAAUUAAGCUAUGAACGAAAGUUCGACUAAG UCA-UAUUA-A 
Taxon_17  GAUAUCAGGCACA-C UAA--A G-UAGCCCACAACAUC UUGCCCUAGC CAC ACCCCCACGGGACACA GCAGUA AUAGAAAUUAGUCAAUAAACGCAAGUUUGAACAAG UCA-UAAUC-A 
Taxon_4   GGUAUCAAGCACACU AC-AA- AGUAGCUCAUAACACC UUGC-UAGGC CAC ACCCCCACGGGACACA GCAGUG AUAAAAAUUAAGCUAUGAACGAAAGUUCGACUAAG UUA-UAUUA-A 
Taxon_5   AGCAUCAAGCACGCA AC-AG- CGCAGCUCAAGACGCU CAGC-CUAGC CAC ACCCCCACGGGAGACA GCAGUG AUAAGUCUUUAGCAAUAAACGAAAGUUCAACUAAG CUA-CACUA-A 
Taxon_6   AGUAUCAAGCACGCA -GCAA- UGCAGCUCAAAACGCU UAGC-CUAGC CAC ACCCCCACGGGAGACA GCAGUG AUAAACCUUUAGCAAUAAACGAAAGUUUAACUAAG CCA-UACUA-A 
Taxon_7   GGUAUCAAGCACGCU AGCACU AGCAGCUCACAACGCC UCGC-UUAGC CAC GCCCCCACGGGACACA GCAGUG AUAAAAAUUAAGCUAUAAACGAAAGUUCGACUAAG UCA-UGUUA-A 
Taxon_8   GGUAUCAGGCACACA -AA-A- UGUAGCCGAUAACACC UUGC-UUUAC CAC ACCCCCACGGGAGACA GCAGUG AUUAAAAUUAAGCAAUAAACGAAAGUUUGACUAAG UCA-UAAUUUA 
Taxon_9   GGUAUCAGGCACACU -UAUA- AGUAGCCCAUGACGCC UUGC-UUUGC CAC ACCCCCACGGGAUACA GCAGUG ACUAAUAUUAAGCUAUAAACGAAAGUUUGACUAAA UCA-UAACU-A 
Taxon_11  GGUAUCAAGCACGCU AGUACU AGCAGCUCACAACGCC UCGC-UUAGC CAC ACCCCCACGGGACACA GCAGUG AUAAAAAUUAAGCUAUAAACGAAAGUUUGACUAAG UUA-UGUUA-A 
Taxon_12  GGUAUCAAGCACGCA -GUAA- UGCAGCUCAAAACACC CUGC-CUAGC CAC ACCCCCACGGGAGACA GCAGUG AUAAACCUUUAGCAAUAAACGAAAGUUUAACUAAG CUA-UGCCA-A 
Taxon_13  AGCAUCAAGCACGCA -GCAA- UGCAGCUCAAAACGCU UAGC-CUAGC CAC ACCCCCACGGGAAACA GCAGUG AUUAACCUUUAGCAAUAAACGAAAGUUUAACUAAG CUA-UACUA-A 
Taxon_15  AGCAUCAAGCACGCA -ACAA- CGCAGCUCAAGACGCU UAGC-CUAGC CAC ACCCCCACGGGAGACA GCAGUG ACAAAUCUUUAGCAAUGAACGAAAGUUCAACUAAG CUA-CACUA-G 
Taxon_16  AGUAUCAAGCACACA -GCAA- UGCAGCUCAAGACGCU UAGC-CUAGC CAC ACCCCCACGGGAGACA GCAGUG AUAAACCUUUAGCAAUAAACGAAAGUUUAACUAAG CCA-UACUA-A 
Taxon_18  GAUAUCAGGCACA-C --UAAC G-UAGCCCACAACAUC UUGCCUUAGC CAC ACCCCCACGGGACACA GCAGUA AUAAAAAUUGGUCAAUAAACGUAAGUUUGAACAAG UUA-UAGUC-A 
Taxon_10  AGUAUCAAGCACG-C CCA--U G-CAGCUCAAAACACU UUGC-CCAGC CAC ACCCCCACGGGAGACA GCAGUG ACAAACCUUUAGCAAUGAACGAAAGUUUAACUAAG CUA-UGCUAUG 

          [                           21                              3Õ    ]               
Cow      --U--UA  GGGUUGGUAAAUCUCGUGCCAGCCACCGCGGUCAUACGAUUAACCC A AGCUAACA-GG -AGUAC GGC GUAAAAC
Taxon_1  GC----A  GAGCCGGUAAAUUUCGUGCCAGCCACCGCGGCCAUACGAUUGACUC A AAUUAAUA-GA ACCUC- GGC GUAAAGC
Taxon_2  CCC--CA  GGGUUGGUCAAUUUCGUGCCAGCCACCGCGGUCACACGAUUAACCC A AGCCAAUA-GA -AAUC- GGC GUAAAGA
Taxon_3  AUA---A  GGGUUGGUAAAUUUCGUGCCAGCCACCGCGGUCAUACGAUUAACCC A AAUUAAUA-AA UC-UCC GGC GUAAAGC
Taxon_17 A-U--AA  GAGUCGGUAAAUUUCGUGCCAGCCACCGCGGUCAUACGAUUGACUC A ACCUAACA-AA U--AAC GGU GUAAAAC
Taxon_4  ACU---A  GGGUUGGUAAAAUUCGUGCCAGCCACCGCGGUCAUACGAUUAACCC A AAUUAAUA-AA CCCUCC GGC GUAAAGC
Taxon_5  CCC--CA  GGGUUGGUCAACUUCGUGCCAGCCACCGCGGUCACACGAUUAGCCC A AGUUAAUA-GA -GAUC- GGC GUAGAGA
Taxon_6  CCU--CA  GGGUUGGUCAAUUUCGUGCUAGCCACCGCGGUCAUACGAUUAACCC A AGUCAAUA-GA -AACC- GGC GUAAAGA
Taxon_7  UUU--AA  GGGUUGGUAAACUUCGUGCCAGCCACCGCGGUCAUACGAUCGACCC A AAUUAAUA-GA AGCAC- GGC GUAAAGA
Taxon_8  CAU--UA  GGGUUGGUCAAUUUCGUGCCAGCCACCGCGGUCAUACGAUUAACCC A AAUUAAUAAAU -AA-C- GGC GUAAAGA
Taxon_9  AC---UA  GGGUUGGUAAAUCUCGUGCCAGCCACCGCGGUCAUACGAUUAACCC A AAUUAACA-GA CAAAC- GGC GUAAAGC
Taxon_11 U----AA  GGGUUGGUAAACUUCGUGCCAGCCACCGCGGUCAUACGAUUAACCC A AAUUAAUA-GA AACAC- GGC GUAAAGA
Taxon_12 CCC---A  GGGUUGGUCAACUUCGUGCCAGCCACCGCGGUCAUACGAUUAACCC C AGUUAAUA-GA -GCCC- GGC GUAAAGA
Taxon_13 CCC--CA  GGGUUGGUCAAUUUCGUGCCAGCCACCGCGGUCACACGAUUAACCC A AGUCAAUA-GA -AGCC- GGC GUAAAGA
Taxon_15 CCA--CA  GGGCUGGUCAACUUCGUGCCAGCCACCGCGGUCACACGAUUAGCCC A AGUUAAUA-GA -GAUC- GGC GUAGAGA
Taxon_16 CCU--CA  GGGUUGGUCAAUUUCGUGCUAGCCACCGCGGUCACACGAUUAACCC A AGUCAAUA-GA -AACC- GGC GUAAAGA
Taxon_18 AC---AA  GAGUCGGUAAAUUUCGUGCCAGCCACCGCGGUUAUACGAUUGACUC A ACCUAACA-AA -UAAC- GGU GUAAAGC
Taxon_10 --C--CA  GGGUUGGUCAACUUCGUGCCAGCCACCGCGGUUAUACGAUUAACCC C AGCCAAUA-GA -AAC-C GGC GUAGAGG


[         23                                                                                                                                23Õ]
Cow       GUGU UAAAGC ACCAUA----CC-AAA  UAGGGUU  AAAUUC-UAA CUAAGCUGUAAAAAGCCAUGA UUAAAAUAAAAAUA-AAUG ACGAAAGU  GACCCUA  CAAUA- GC C--GAC  GCAC 
Taxon_1   GUGU CAAAGA UAUAAC----CCCUAA  UAAAGUU  AAAAACAUAG UUAAGCUGUAAAAAGCUAUAA CCAAGAU-AAAAUA-AACC ACGAAAGU  GACUUUA  AUAUA- UC AC--CC  ACAC 
Taxon_2   GUGU UUUAGA UCA-----AUCCCCAA  UAAAGCU  AAAAUU-CAC CUGAGUUGUAAAAAACUCCAG CUGAUAU-AAAAUA-AACU ACGAAAGU  GGCUUUA  AUAUA- UC UG-AAC  ACAC 
Taxon_3   GUGU CAAAGA CUAAUA----CCAAAA  UAAAGUU  AAAACC-CAG UUAAGCCGUAAAAAGCUACAA CCAAAGU-AAAAUA-GACU ACGAAAGU  GACUUUA  AUACC- UC UG-ACU  ACAC 
Taxon_17  GUGU UUAAAA ACUUAAA-----CUAA  UAAGAUU  AAAGUA-GAA CUAAACUGUGAUAAGUCAUAG UUAAUAC-UAAAGCCAUCU ACGAAAGU  GAUCUUA  GACUAA -U UG-AAU  ACAC 
Taxon_4   GUGU CAAAGA CCCAUA----CUAAAA  UAAAGUU  AAAACC-CAG UUAAGCUGUAAAAAGCUACAA CUAAAGU-AAAAUA-AACU ACGAAAGU  GACUUUA  AUACC- UC UG-ACC  ACAC 
Taxon_5   GUGU UUUAGA UUCUUUUUCUCCCCAA  UAAAGCU  AAAAUU-UAC CUGAGUUGUAGAAAACUUAAG CUAAUAC-AAAAUA-AACU ACGAAAGU  GGCUUUA  AUAUA- UC UG-AAC  ACAC 
Taxon_6   GUGU UUUAGA U-CACCCCC-CC---A  UAAAGCU  AAAAUU-CAC CUGAGUUGUAAAAAACUCCAG CUGAUAC-AAAAUA-AACU ACGAAAGU  GGCUUUA  ACACA- UC UG-AAU  ACAC 
Taxon_7   GUGU UAAGGA GCCACAUGA-----AA  UAAAGUC  AAACCU-UAA UUAAGCUGUAAAAAGCCCUAA UUAAAAUUAAGCCA-AACU ACGAAAGU  GACUUUA  AUAUAA UC UG-AUC  ACAC 
Taxon_8   GUGU UUAAGU --UAUAU-ACAAA-AA  UAAAGUU  AAUAAU-UAA CUAAACUGUAGCACGUUCUAG UUAAUAUUAAAAUA-CAUA AUAAAAAU  GACUUUA  AUAUC- AC CG-ACU  ACAC 
Taxon_9   GUGU UUAAGC --CAAAACACACACAA  UAAAGCU  AAGAUC-UAA CUAAACUGUAAUACGUUAUAG UUAACAUCAAAAUA-CAUG ACCAAAGU  AGCUUUA  ACCAU- GC UG-AAG  ACAC 
Taxon_11  GUGU UAAGGA GUCUCAUAG-----AA  UAAAGUC  AAACCU-UAA UUAAGCUGUAAAAAGCCAUAA UUAAAAUUAAGCCA-AACU ACGAAAGU  GACUUUA  AUAUGA UC UG-AUC  ACAC 
Taxon_12  GUGU UUUAGA UUG-----CUCCCUAA  UAAAGCU  AAGCUC-CAU CCAAGUCGUAAAAAACUCUGG CUGCUAU-AAAAUA-AACU ACGAAAGU  GGCUUUA  ACACC- UC UG-AAU  ACAC 
Taxon_13  GUGU UUUAGA U-CACCCCCUCCCCAA  UAAAGCU  AAAACU-CAC CUGAGUUGUAAAAAACUCCAG UUGACAC-AAAAUA-GACU ACGAAAGU  GGCUUUA  ACAUA- UC UG-AAC  ACAC 
Taxon_15  GUGU UUUAGA UU-UUUUUCCCCCCAA  UAAAGCU  AAAAUU-UAC CUGAGUUGUAGAAAACUUAAG UUAAUAC-AAAAUA-AACU ACGAAAGU  GGCUUUA  AUAUA- UC UG-AAC  ACAC 
Taxon_16  GUGU UUUAGA UC-ACCCCCCCCCCAA  UAAAGCU  AAAAUU-CAC CUGAGUUGUAAAAAACUCCAG CUGAUAC-AAAAUA-AACU ACGAAAGU  GGCUUUA  ACACA- UC UG-AAC  ACAC 
Taxon_18  GUGU UUAAAA CU------UUAAUCAA  UAAGAUU  CAAGCA-GGA CUAAUCCGUGACAAGUCCUAG UCCAUGC-UAAAAUCACCC ACGAAAGU  GAUCUUA  UAAUUC -U UG-AAU  ACAC 
Taxon_10  GUGU UUUAGA UCUAGUCCAA------  UAAAGCU  AAACCC-CAU CUAAACUGUAAAA--CCCUAG CUAACGU-AAAAUA-AACU ACGAAGGU  GGCUUUA  UAAUU- CC UG-AAC  ACAC  

[                                                                                                                                  2Õ        35	]			
Cow      UAUA GCUAAGACCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACACAGA UAAUU ACA-UAA ACAAAAUUA UUC GCC AGAGUACUACUAGCAACAGCUUAAAACUCAAA GGA CU UGGCGGUGCUUUA 
Taxon_1  UACA GCUAAGACCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCCAAACUCAAA UAAUU CUUCCCA ACAAAAUUA UUC GCC AGAGUACUACUAGCAACAGCCUAAAACUCAAA GGA CU UGGCGGUGCUUUA 
Taxon_2  AAUA GCUAGGACCCAAACUGGGAUUAGAUACCCCACUAUGCCUAGC CCUAAACUUCAA CAGUU -AAAUUA ACAAGACUG CUC GCC AGAACACUACGAGCCACAGCUUAAAACUCAAA GGA CC UGGCGGUGCUUCA 
Taxon_3  GAUA GCUAAGACCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACUAAAA UAGCU UACCACA ACAAAGCUA UUC GCC AGAGUACUACUAGCAACAGCCUAAAACUCAAA GGA CU UGGCGGUGCUUUA 
Taxon_17 GAUA GCUAAGGUACAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACUCAAG UCGUU UAA--UA ACAAAACUA CUC ACC AGAGAACUACUAGCAACAGCUUAAAACUCAAA GGA CU UGGCGGUGCUUCA 
Taxon_4  GAUA GCUAAGGCCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACCAAAA UAGCU CACCAUA ACAAAGCUA UUC GCC AGAGUACUACUAGCAACAGCCUAAAACUCAAA GGA CU UGGCGGUGCUUUA 
Taxon_5  AAUA GCUAAGGCCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACUUUAA CAGUU -AAAUCA ACAAAACUG CUC GCC AGAACACUACGAGCCACAGCUUAAAACUCAAA GGA CC UGGCGGUGCUUCA 
Taxon_6  AAUA GCUAAGACCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACUUCAA CAGUU -AAAUUA ACAAAACUG CUC GCC AGAACACUACGAGCCACAGCUUAAAACUCAAA GGA CC UGGCGGUGCUUCA 
Taxon_7  GACA GCUAAGAUCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGU CGUAAACCCCAA UAGUC -ACA-AA ACAAGACUA UUC GCC AGAGUACUACUAGCAACAGCCUAAAACUCAAA GGA CU UGGCGGUGCCUCA 
Taxon_8  GAAA ACUAAGACACAAACUGGGAUUAGAUACCCCACUAUGCUUAGU AAUAAACUAAAA UAAUU -UAACAA ACAAAAUUA UUC GCC AGAGAACUACUAGCAAUUGCUUAAAACUCAAA GGA CU UGGCGGUGCCCUA 
Taxon_9  UACA GCUAAGAGACAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CUUAAACCUAGA UAAUU -UAA-UA ACAAAAUUA UUC GCC AGAGAACUACUAGCCAAUGCUUAAAACUCAAA GGA CU UGGCGGUGCC-UA 
Taxon_11 GACA GCUAAGAUCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CAUAAACCCCAG UAGUC -ACA-AA ACAAGACUA UUC GCC AGAGUACUACUAGCAACAGCUUAAAACUCAAA GGA CU UGGCGGUGCUUCA 
Taxon_12 AAUA GCUGAGACCCAAACUGGGAUUAGAUACCCCACUAUGCUCAGC CCUAAACUUCAA CAGUC -AAAUCA ACAAGACUG CUC GCC AGAACACUACGAGCAACAGCUUAAAAAUCAAA GGA CC UGGCGGUGCUUCA 
Taxon_13 AAUA GCUAAGACCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACCUCAA CAGUU -AAAUCA ACAAAACUG CUC GCC AGAACACUACGAGCCACAGCUUAAAACUCAAA GGA CC UGGCGGUGCUUCA 
Taxon_15 AAUA GCUAAGACCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACUUUAA CAGUU -GAAUCA ACAAAACUG CUC GCC AGAACACUACGAGCCACAGCUUAAAACUCAAA GGA CC UGGCGGUGCUUCA 
Taxon_16 AAUA GCUAAGACCCAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACUUCAA CAGUU -AAAUUA ACAAAACUG CUC GCC AGAACACUACGAGCCACAGCUUAAAACUCAAA GGA CC UGGCGGUGCUUCA 
Taxon_18 GAUA GCUAAGACACAAACUGGGAUUAGAUACCCCACUAUGCUUAGC CCUAAACUUAAG UCGUU --AAACA ACAAAACCA CUC ACC AGAGAACUACUAGCAACAGCUUAAAACUCAAA GGA CU UGGCGGUGCUUCA  
Taxon_10 AAUA GCCAAGACCCAAACUGGGAUUAGACACCCCACUAUCGUUGGC CCUAAACCUCAA UAGUU A-AAAUA ACAAAACUA UUC GCC AGAAUACUACAAGCAACAGCUUAAAACUCAAA GGA CU UGGCGGUGCUUCA 


 [                  36       37               38                                                          ]   
Cow      UAUCCUU CUAGA GG AGCCUGUUCU AUA AUCGAUAAACCCCGAU AAACCUCACCAAUUCUUGCUAAUACAGUCUAUAUACCGCCAUCUUCA
Taxon_1  UAUCCCC CUAGA GG AGCCUGUUCC AUA ACCGAUAAACCCCGAU AAACCUUACCAGCCCUUGCUAAUUCAGCCUAUAUACCGCCAUCUUCA
Taxon_2  UAUCCCU CUAGA GG AGCCUGUUCU GUA AUCGAUAAACCCCGAU CAACCUCACCACCUCUUGC---U-CAGCCUAUAUACCGCCAUCUUCA
Taxon_3  CAUCCCU CUAGA GG AGCCUGUUCC AUA AUCGAUAAACCCCGAU AAACCCCACCAUCCCUUGCUAAUUCAGCCUAUAUACCGCCAUCUUCA
Taxon_17 --CCCCU CUAGA GG AGCCUGUUCU AUA AUCGAUAAACCCCGAU ACACCUCACCAUCUUUUGCCACUACUGUCUAUAUACCGCCAUCGUCA
Taxon_4  CAUCCCU CUAGA GG AGCCUGUUCC GUA AUCGAUAAACCCCGAU AAACCCCACCAUCCCUUGCUAAUUCAGCCUAUAUACCGCCAUCUUCA
Taxon_5  UAUCCCU CUAGA GG AGCCUGUUCU GUA AUCGAUAAACCCCGAU CAACCUCACCACCCCUUGC---U-CAGCCUAUAUACCGCCAUCUUCA
Taxon_6  UAUCCCU CUAGA GG AGCCUGUUCU GUA AUCGAUAAACCCCGAU CAACCUCACCGCCUCUUGC---U-CAGCCUAUAUACCGCCAUCUUCA
Taxon_7  UACCCAU CUAGA GG AGCCUGUUCU GUA ACCGAUAAACCCCGAU CAACCUCACCAACCCUUGCUACUUCAGUCUAUAUACCGCCAUCUUCA
Taxon_8  AACCCAC CUAGA GG AGCCUGUUCU AUA AUCGAUAAACCCCGAU AAACCAGACCUUAUCUUGCCAAUACAGCCUAUAUACCGCCAUCGUCA
Taxon_9  AACCCAC CUAGA GG AGCCUGUUCU AUA AUCGAUAAACCCCGAU AAACCCCACCUUUUCUUGCCAAUCCAGCCUAUAUACCGCCAUCGUCA
Taxon_11 UACCCCU CUAGA GG AGCCUGUUCU GUA ACCGAUAAACCCCGAU UAACCUCACCAACCCUUGCUACUUCAGUCUAUAUACCGCCAUCUUCA
Taxon_12 CACCCCC CUAGA GG AGCCUGUCCU AUA AUCGAUAAACCCCGUU CAACCUCACCAUCUCUUGC---U-CAGCCUAUAUACCGCCAUCUUCA
Taxon_13 UAUCCCU CUAGA GG AGCCUGUUCU GUA AUCGAUAAACCCCGAU CAACCUCACCACCUCUUGC---U-CAGCCUAUAUACCGCCAUCUUCA
Taxon_15 UACCCCC CUAGA GG AGCCUGUUCU GUA AUCGAUAAACCCCGAU CAACCUCACCACCCCUUGC---U-CAGCCUAUAUACCGCCAUCUUCA
Taxon_16 UAUCCCU CUAGA GG AGCCUGUUCU GUA AUCGAUAAACCCCGAU CAACCUCACCGCCUCUUGC---U-CAGCCUAUAUACCGCCAUCUUCA
Taxon_18 --CCCCU CUAGA GG AGCCUGUUCU AUA AUCGAUAAACCCCGAU ACACCCCACCAUCUUUUGCCACUACUGUCUAUAUACCGCCAUCGUCA 
Taxon_10 UACCCC- CUAGA GG AGCCUGUUCU GUA AUCGAUAAACCCCGAU CCACCCCACCCUCUCUUGC---U-UAGUCUAUAUACCGCCAUCUUCA 


[                                                       42]
Cow       GCAAAC  CCU A-AAA AGG AAAAAAA GUAAGC GUAA-UU AU GAUA---C AU AAAAACGUUAGGUCAAGGUGUAACCUA
Taxon_1   GCCAAC  CCU A-AAA AGG AACCAAA GUAAGC ACAA-GU AU AAGA---C AU AAAAACGUUAGGUCAAGGUGUAGCUUA
Taxon_2   GCAAAC  CCU GAUGA AGG CCACAAA GUAAGC ACAA-GU AC CCA----C GU AAAGACGUUAGGUCAAGGUGUAGCCCA
Taxon_3   GCAAAC  CCU AAACA AGG UACCGAA GUAAGC ACAA-AU AU CCAA---C AU AAAAACGUUAGGUCAAGGUGUAGCCCA
Taxon_17  GCCAAC  CCU A-AAA AGG AACAAAA GUAGGC GUAA-UC AU --UUUU-C AU AAAAACGUUAGGUCAAGGUGUAGCCUA
Taxon_4   GCAAAC  CCU AAACA AGG UACCAAA GUAAGC ACAA-UC AU CCAA---C AU AAAAACGUUAGGUCAAGGUGUAGCCCA
Taxon_5   GCAAAC  CCU GAUGA AGG CCACGAA GUAAGC GCAA-GC AU CCA----C AU AAAGACGUUAGGUCAAGGUGUAGCCCA
Taxon_6   GCAAAC  CCU GAUGA AGG UUACAAA GUAAGC ACAA-GU AC CCA----C GU AAAGACGUUAGGUCAAGGUGUAGCCUA
Taxon_7   GCAAAC  CCU A--AA GGG AGA-AAA GUAAGC AUAA-CC AU CCUA---C AU AAAAACGUUAGGUCAAGGUGUAACCCA
Taxon_8   GCUAAC  CUU U-AAA AAG AAUUACA GUAAGC AAAA-UC AU ACAA---C AU AAAAACGUUAGGUCAAGGUGUAGCAUA
Taxon_9   GCUAAC  CCC A-ACA GGG AUAAAAA GUAAGC AAGA-UC AU CAAC---C AU AAAAACGUUAGGUCAAGGUGUAGCAUA
Taxon_11  GCAAAC  CCU A-AAA GGG AACGAAA GUAAGC AUAA-UC AU CCUA---C AU AAAAACGUUAGGUCAAGGUGUAACCAA
Taxon_12  GCAAAC  CCU GACAA AGG CUAUAAA GUAAGC ACAA-AC AC CCA----C AU AAAGACGUUAGGUCAAGGUGUAGCCCA
Taxon_13  GCAAAC  CCU GAUGA AGG CUACAAA GUAAGC GCAA-GU AC CCA----C GU AAAGACGUUAGGUCAAGGUGUAGCCCA
Taxon_15  GCAAAC  CCU GAUGA AGG CCACGAA GUAAGC GCAA-AC AC CCA----C GU AAAGACGUUAGGUCAAGGUGUAGCCCA
Taxon_16  GCAAAC  CCU GAUGA AGG UUACAAA GUAAGC GCAA-GU AC CCA----C GU AAAGACGUUAGGUCAAGGUGUAGCCUA
Taxon_18  GCCAAC  CCU A-AAA AGG AAUAACA GUAGGC ACAA-UU AU UCUU---C AU AAAAACGUUAGGUCAAGGUGUAGCCUA
Taxon_10  GCAAAC  CCU GAUGA AGG CUACGAA GUGAGC GCAA-AU GC CCUCCCCC GC AAAAACGUUAGGUCAAGGUGUAACUUA


 [                     37Õ                   46                                          47                                 36Õ]
Cow      UGAAAUGGGA AGAAAUGGGCU ACAUU CUCU ACACCA- AGAG  AAUC-------AAGC-- ACGAAA GUUAUUAUGAAAC -C- AAU--AAC  C-- AAAGGAGGA UUUAG CAGUA
Taxon_1  UGGGAUGGAG AGAAAUGGGCU ACAUU UUCU ACUUCA- AGAA  CAACAA---CUACCCAA ACGAAG GCUUUUAUGAAAU --U AAA--AGC  U-- AAAGGAGGA UUUAG CAGUA
Taxon_2  UGAGGUGGCA AGAAAUGGGCU ACAUU UUCU ACUUC-- AGAA  AACU------------- ACGAUA ACCCUUAUGAAAC -CU AAG--GGU  A-- GAAGGUGGA UUUAG CAGUA
Taxon_3  UGGGAUGGAG AGAAAUGGGCU ACAUU UUCU ACCCUA- AGAA  CAAGAACUUUAACCCGG ACGAAA GUCUCCAUGAAAC --U GGA--GAC  U-- AAAGGAGGA UUUAG CAGUA
Taxon_17 UAAGAUGG-A AGAAAUGGGCU ACAUU UUCU ACAU-U- AGAA  C--------------AU ACGAAA AACUCUAUGAAAC --U AGA--GUA  U-- UAAGGAGGA UUUAG UAGUA
Taxon_4  UGGGAUGGAG AGAAAUGGGCU ACAUU UUCU ACUCUA- AGAA  CAAGAACUC-AACCCAA ACGGAA GUCUCCAUGAAAU --U AGA--GAC  C-- GAAGGAGGA UUUAG UAGUA
Taxon_5  UGGAGUGGCA AGAAAUGGGCU ACAUU UUCU ACUUC-- AGAA  AACU------------- ACGAUA GCCCUCAUGAAAC -CU GAG--GGU  C-- GAAGGUGGA UUUAG CAGUA
Taxon_6  UGAGGUGGCA AGAAAUGGGCU ACAUU UUCU ACCCC-- AGAA  AAUU------------- ACGAUA ACCCUUAUGAAAC -CU AAG--GGU  C-- AAAGGUGGA UUUAG CAGUA
Taxon_7  UGGGUUGGGA AGUAAUGGGCU ACAUU UUCU AAGCUA- AGAA  CAUCCCCUA-UACUCAC ACGAAA GUUUUUAUGAAAC -UU AAA--AAC  U-- AAAGGAGGA UUUAG UAGUA
Taxon_8  UGAUAAGGAA AGUAAUGGGCU ACAUU CUCU ACUAU-- AGAG  CAUA------------- ACGAAU CAUAUUAUGAAAC --U AAA--AUG  CUU GAAGGAGGA UUUAG UAGUA
Taxon_9  UGAAAAGGUA AGUAAUGGGCU ACAUU UUCU AAAUU-- AGAA  AACA------------- ACGAAU UAUCUCAUGAAAC -UU GAGCAAUA  U-- GAAGGAGGA UUUAG UAGUA
Taxon_11 UGGGUUGGGA AGAAAUGGGCU ACAUU UUCU AAACUA- AGAA  UAUCC-CUA-UACA--C ACGAAA GUUUUUAUGAAAC -UU AAA--AAC  C-- AAAGGAGGA UUUAG UAGUA
Taxon_12 UGAGAUGGGA AGAGAUGGGCU ACAUU UUCU AUGCC-- AGAA  AACC------------- ACGAUA ACCCUCAUGAAAC -UU GAGC-GGU  C-- GAAGGAGGA UUUAG CAGUA
Taxon_13 UGAGGUGGCA AGAAAUGGGCU ACAUU UUCU ACCCC-- AGAA  AACU------------- ACGAUA GCCCUUAUGAAAC -UU AAG--GGU  C-- GAAGGUGGA UUUAG CAGUA
Taxon_15 UGGAGUGGCA AGAAAUGGGCU ACAUU UUCU ACUUC-- AGAA  AACU------------- ACGAUA ACCCUCAUGAAAU -UU GAA--GGU  C-- GAAGGUGGA UUUAG CAGUA
Taxon_16 UGAGGCGGCA AGAAAUGGGCU ACAUU UUCU ACCCC-- AGAA  AAUU------------- ACGAUA ACCCUUAUGAAAC -CU AAG--GGU  C-- GAAGGUGGA UUUAG CAGUA
Taxon_18 UAAGAUGG-A AGAAAUGGGCU ACAUU UUCU AACC-U- AGAA  UAU-------------- ACGAAA AACCCUAUGAAAC --U AGA--GUC  C-- CAAGGAGGA UUUAG CAGUA 
Taxon_10 UGAGACGGUA A-AAAUGGGCU ACAUU UUCU ACUU-C- AGAA  AA-----------CCCC ACGAUA GCUCUUAUGAAAU -CU AGG--AGC  C-- CAAGGAGGA UUUAG CAGUA



  [                  48                                35Õ                           50  ]      
Cow       AACUAAGAAUAGAGUGCUUAGUU GAA-UUAGGCCA UGAAG-CACGCACA CACCGCCCGUCACCCUCCUC AA--AU-AG AUUC---AGUGCAUCUAACCCUAUUUAAACGCACUAG----CU ACAU GA---- GAGGAGACAAGUCGUAAC
Taxon_1   AAUUAAGAAUAGAGAGCUUAAUU GAA-CCAGGCCA UAAAG-CACGCACA CACCGCCCGUCACCCUCCUU AA--AU-AU CAUA---AACCACAAC--ACAACAUAUUAACGUACGUUGA-AC AUAU AA---- AAGGAGACAAGUCGUAAC
Taxon_2   AACUAAGAGUAGAGUGCUUAGUU GAA-CAGGGCCC UGAAG-CGCGUACA CACCGCCCGUCACCCUCCUC AA--GU-AU ACUUCAAAGGA------CAUUUAACUAAAACCCCUACGCAUCU AUAU A----- GAGGAGAUAAGUCGUAAC
Taxon_3   AAUUAAGAAUAGAGAGCUUAAUU GAA-UCAGGCCA UGAAG-CGCGCACA CACCGCCCGUCACCCUCCUU AA--AU-AU CACAA-AUCAUA----ACAUAACAUAAAACCGUGACCCAA-AC AUAU GA---- AAGGAGACAAGUCGUAAC
Taxon_17  AGCCAAGAAUAGAGAGCUUGACU GAA-CUGGGCAA UGAAG-CACGCACA CACCGCCCGUCACCCUCCUC AAUCAA-GC -------AACACAA-ACAUUC---------CUAAAAUCCCAAC GCUU UU-CAA GAGGAGAUAAGUCGUAAC 
Taxon_4   AAUUAAGAAUAGAGAGCUUAAUU GAA-UCAGGCCA UGAAG-CGCGCACA CACCGCCCGUCACCCUCCUU AA--AU-AU UACAA-AUCACA----AUAUUACACAAAACCAUGAUCCAA-AC AUAU GA---- AAGGAGACAAGUCGUAAC
Taxon_5   AACUAAGAGUAGAGUGCUUAGUU GAA-CAGGGCCC UGAAG-CGCGUACA CACCGCCCGUCACCCUCUUC AA--GU-AU AUUUC-AGGGAC-----UACCUAACUAAAACCCCCACGCAUCU AUAU A----- GAGGAGGCAAGUCGUAAC
Taxon_6   AACUAAGAGUAGAGUGCUUAGUU GAA-CAGGGCCC UGAAG-CGCGUACA CACCGCCCGUCACCCUCCUC AA--GU-AU ACUUCAAAGGA-----UACUUAACUUAAACCCCCUACGUAUUU AUAU A----- GAGGAGAUAAGUCGUAAC
Taxon_7   AAUCAAGAGCAGAGUGCUUGAUU GAA-UAAGGCCA UGAGGGCACGCACA CACCGCCCGUCACCCUCCUC AA--GU-AC CCCAGCUAUAAACCCCAGUUCGUUAACUCAGGCCAAGCA-AUU AUAC GA---- GAGGAGACAAGUCGUAAC
Taxon_8   AAUUAAGAAUAGAGAGCUUAAUU GAA-UUAGGCAA UAGGG-CGCGCACA CACCGCCCGUCACCCUCCUC AACAUA-AU -------AAUCCAACA--UACCUAAUACAAUUAUU-------C AUUA AA---- GAGGAGAAAAGUCGUAAC
Taxon_9   AAUUAAGAAUAGAGAGCUUAAUU GAA-AUAGGCAA UAGGG-CGCGCACA CACCGCCCGUCACCCUCCUC GA-----CA AAACC--UUGCAAAU-----AACUAAUAAAAAUAA-------- ACAC AAA--- GAGGAGAAAAGUCGUAAC
Taxon_11  AAUCAAGAGCAGAGUGCUUGAUU GAA-UAAGGCCA UGAAG-CACGCACA CACCGCCCGUCACCCUCCUC AA--GU-AC CCCAGCUAAAGCCACAGUUCAUUAACUCAGGCCAAGCAA-CUU AUAC GA---- GAGGAGACAAGUCGUAAC
Taxon_12  AAUUAAGAAUAGAGUGCUUAGUU GAA-CAAGGCCC UGAAG-CGCGUACA CACCGCCCGUCACCCUCCUC AA--GC-AU AUUUCAAGGAA------CCCCUAACUAAAUACUCCACGCAUCU AUGU A----- GAGGAGACAAGUCGUAAC
Taxon_13  AACUGAGAGUAGAGUGCUUAGUU GAA-CAGGGCCC UGAAG-CGCGUACA CACCGCCCGUCACCCUCCUC AA--GU-AU ACUUCAAAGGA------CAUUUAACUAAAACCCCUACGCAUUU AUAU A----- GAGGAGACAAGUCGUAAC
Taxon_15  AACUAAGAGUAGAGUGCUUAGUU GAA-CAAGGCCC UGAAG-CGCGUACA CACCGCCCGUCACCCUCUUC AA--GU-AU AUUUCA-GGGAC-----UACCUAACUAAAACCCCCACGCAUCU AUAU A----- GAAGAGGCAAGUCGUAAC
Taxon_16  AACUAAGAGUAGAGUGCUUAGUU GAA-CAGGGCCC UGAAG-CGCGUACA CACCGCCCGUCACCCUCCUC AA--GU-AU ACUUCAAAGGA------UAUUUAACUUAAACCCCUACGCAUUU AUAU A----- GAGGAGAUAAGUCGUAAC
Taxon_18  AGUUGAGAAUAGAGAGCUUAACU GAA-CCGGGCAA UGAAG-CACGCACA CACCGCCCGUCACCCUCCUC AACCAG-UA ACA--------------------CCCCAAUCCCUAAUACAAAA UACU AAACAA GAGGAGAUAAGUCGUAAC
Taxon_10  AAUUAAGAAUAGAGUGCUUAAUU GAA-CUAGGCCA UAAAG-CACGCACA CACCGCCCGUCACUCCCCUC AA--AU-AU AUU-UA-AGGAAUAACUUA----ACUAAAUGCCCUAACAUUU- AUAU A----- GAGGGGAUAAGUCGUAAC 


[                             51]
Cow      AAGG UAAGCAUACUGGAAAGUGUGCUUG GAUAAAU 
Taxon_1  AAGG UAAGUGUACUGGAAAGUGCGCUUG GA-UAAU 
Taxon_2  AUGG UAAGUGUACUGGAAAGUGCACUUG GACGAAC 
Taxon_3  AAGG UAAGUAUACCGGAAGGUGUACUUG GA-UAAC 
Taxon_17 AAGG UAAGCAUACCGGAAGGUGUGCUUG GA-AUAU 
Taxon_4  AAGG UAAGUAUACCGGAAGGUGUACUUG GA-UAAC 
Taxon_5  AUGG UAAGCGUACUGGAAAGUGCGCUUG GACGAAC 
Taxon_6  AUGG UAAGUGUACUGGAAAGUGCACUUG GACGAAC 
Taxon_7  AAGG UAAGCAUACCGGAAGGUGUGCUUG GACAAAA 
Taxon_8  ACGG UAAGUGUACUGGAAAGUGCACUUG GA-AUAU 
Taxon_9  AUGG UAAGUGUACUGGAAAGUGCACUUG GA-ACAU 
Taxon_11 AAGG UAAGCAUACCGGAAGGUGUGCUUG GACAAAA 
Taxon_12 AUGG UAAGUGUACUGGAAAGUGCACUUG GACAAAC 
Taxon_13 AUGG UAAGUGUACUGGAAAGUGCACUUG GACGAAC 
Taxon_15 AUGG UAAGCGUACUGGAAAGUGCGCUUG GACGAAC 
Taxon_16 AUGG UAAGUGUACUGGAAAGUGCACUUG GACGAAC 
Taxon_18 AAGG UAAGCAUACCGGAAGGUGUGCUUG GA-AUAU
Taxon_10 ACGG UAAGUGUACUGGAAGGUGCACUUG GAUAAAU 

[                          tRNA]
Cow       CAAGAU AUA GCUU AA---AC-A AAGC A UCCAGUUUACACCUAGA AGACUU CAU --UCAUU AUG AAU AUCUUGA[    * -]
Taxon_1   CAAAGU GUA GCUU AA---AC-A AAGC A CCUAGUUUACACCCAGG AGAUUU CAU -ACAAA- AUG ACC ACUUUGA[    * -]
Taxon_2   CAGAGU GUA GCUU AAC--AC-A AAGC A CCCAACUUACACUUAGG AGAUUU CAA CUCAA-C UUG ACC GCUCUGA[    * -]
Taxon_3   CAAAGU GUA GCUU AA---AC-A AAGC A UCCAGCUUACACCUAGA AGAUUU CAC -UCAAA- AUG AAC ACUUUGA[    * -]
Taxon_17  CAAAAU GUA GCUU AAC--CC-A AAGC A CUCAGCUUACACCUGAA AGAUA- UUU AUC-ACA AAA -UC AUUUUGA[    * -]       
Taxon_4   CAAAGU GUA GCUU AA---AC-A AAGC A UCCAGCUUACACCUAGA AGAUUU CAC -UCAGA- GUG AAC ACUUUGA[    * -]
Taxon_5   CAGAGG GUA GCUU AAC--AC-A AAGC A CCCGGCUUACACCUGGG AGAUUU CAA UUCAA-C CUG GCC CCUCUGA[    * -]
Taxon_6   CAGAGU GUA GCUU AAC--AU-A AAGC A CCCAACUUACACUUAGG AGAUUU CAA CUCAA-C UUG ACC ACUCUGA[    * -]
Taxon_7   CAAGAU AUA GCUU AA---AC-A AAGC A UGUAGUUUACACCUAGA AGAUUC CAC AGCC--C GUG UAU AUCUUGA[    * -]
Taxon_8   CAAAAU GUA GCUU GAUUUAUUA AAGC A UUUAGUUUACACCUAAA AGAUUU CAG UCUAAU- CUG ACC AUUUUGA[    * -]
Taxon_9   CAAAAU GUA GCUU AAC--AU-A AAGC A UUUAGCUUACACCUAAA AGAUUU CAG -CUAAUC CUG ACC AUUUUGA[    * -]
Taxon_11  CAAGAU AUA GCUU AA---AC-A AAGC A UCUAGUUUACACCUAGA AGAUUC CAC AGCC--C GUG CAU AUCUUGA[    * -]
Taxon_12  CAAGGU GUA GCUU AAC--AC-A AAGC A CCCGGCUUACACCCGGG AGAUUU CAA -UUAA-C UUG ACC ACCCUGA[    * -]
Taxon_13  CAGAGU GUA GCUU AAC--AC-A AAGC A CCCAACUUACACUUAGG AGAUUU CAA CUUAA-C UUG ACC GCUCUGA[    * -]
Taxon_15  CAGAGA GUA GCUU AAU--AC-A AAGC A CCCGGCUUACACCUGGG AGAUUU CAA UUCAA-C CUG ACC CCUCUGA[    * -]
Taxon_16  CAGAGU GUA GCUU AAC--AU-A AAGC A CCCAACUUACACUUAGG AGAUUU CAA CUCAA-C UUG ACC ACUCUGA[    * -]
Taxon_18  CAAAAU GUA GCUU AAU--CC-A AAGC A CUCAGCUUACACCUGAA AGAUAU UUU AC---AU AAA -UC AUUUUGA[    * -]
Taxon_10  CAAGGU AUA GCUU A-A-U-AUA AAGC A UCUGACUUACACUCAGA AGAUC- UAA CAUUG-C UUG GUG ACCUUGA[    * -]

[16S]
Cow      AC--UAGACCU-AGCCC AAA--GAUACCCU-CUCGACUAA-ACAACCAAGAUAGAAUAAAAC  AAAACAUU  UAAU--CCCAAUUU  AAAGUAUAGGAGAUAGAA-AU  -C-UAAGUA---CG GCGCUAUA[    * -]
Taxon_1  AC--CAAAGCU-AGCCC -AAACAAAUCCUAACCCAACUACCACUAAGCCCACUU----AAAC  AAAACAUU  CACUUAAACCCACU  AAAGUAUAGGAGAUAGAA-AU  UUUAA-U-----CG GCGCUAUA[    * -]
Taxon_2  GC--AAAACCU-AGCCC CAAACCCACCCCACA-UUACUACCA-AA-CAACUUU----AAUC-  AAACCAUU  UACC-----CAAAU  AAAGUAUAGGCGAUAGAA-AU  --UGUAAAU---CG GCGCAAUA[    * -]
Taxon_3  AC--UAAAGCU-AGCCC -AAACAAUACCUAAUUCAAUUACC-CUUAGUC-ACUU----AACU  AAAACAUU  CACC-AAACC-AUU  AAAGUAUAGGAGAUAGAA-AU  UUUAACU-----UG GCGCUAUA[    * -]
Taxon_17 GC--CAACUCU-AGCCC AAA------UUAAUCUUAAUACACAU-AUAAACUCUAAUAAACU-  AAAACAUU  UUAACGCUAACCC-  CUAGUAUAGGAGAUAGAAAAG  G-----AAA-U-UG GAGCCUUA[    * -]
Taxon_4  AC--UAAAGCU-AGCCC -AAACAAUACCCAACUCAACUACC-CUUAGUC-ACUU----AACU  AAAACAUU  CACC-AAACC-AUU  AAAGUAUAGGAGAUAGAA-AU  UUUAACU-----UG GCGCUAUA[    * -]
Taxon_5  GC--UAACCCU-AGCCC CAAACCCAACCCACC-CUACUACCA-AC-CAACCCU----AACC-  AAACCAUU  CACC-----CAAAC  AAAGUAUAGGCGAUAGAA-AU  --UACAAUC---CG GCGCAAUA[    * -]
Taxon_6  GC--CAAACCU-AGCCC CAAACCCCCUCCACC-CUACUACCA-AA-CAACCUU----AACC-  AAACCAUU  UACC-----CAAAU  AAAGUAUAGGCGAUAGAA-AU  --UGUAAAC---CG GCGCAAUA[    * -]
Taxon_7  AC--UAGCCCU-AGCCC -ACACCCUCCCCACCUCUACUACCACAAAUCAA----UC-AAA-U  AAAACAUU  UACC--AUCCCUUC  AAAGUAUAGGAGAUAGAA-AU  UUAAAUAUC-AGUG GCGCUAUA[    * -]
Taxon_8  AC--UAACCAC-AGCCC -UA-AA--AUCAUAU-CAAAU-UAACUAACUACUUUUUC-AAUUU  AAACCAUU  UUAA----UUAUCC  UA-GUAUAGGUGAUAGAA-AA  GAUAUAAU----AG GAGCUAUA[    * -]
Taxon_9  GC--CAAUUUA-AGCCC AUCCAACUAUCAAAU-CAAAUAUCACAAAC-ACCU-----AAUCU  AAACCAUU  CAAC-----CUGUC  UAAGUAUAGGUGAUAGAA-AA  GACUGACUC--CAG GCGCAAUA[    * -]
Taxon_11 AC--CAGCUCU-AGCCC -ACCCCCACCCCCCUUUUACUACCAUAGACCAA----UC-AAA-U  AAAACAUU  CACC--AACCUUCU  AAAGUAUAGGAGAUAGAA-AU  UUAAACAUC-AGUG GCGCUAUA[    * -]
Taxon_12 GC--CAACCCU-AGCCC CAAAUCACCCCAACC-CUACUAUCA-AG-UAACAUC----AACC-  AAACCAUU  UACC-----CGUAC  AAAGUAUAGGCGAUAGAA-AU  -UACCAACC---UG GCGCAAUA[    * -]
Taxon_13 GC--UAAACCU-AGCCC CAAACCCACUCCACC-UUACUACCA-GA-CAACCUU----AGCC-  AAACCAUU  UACC-----CAAAU  AAAGUAUAGGCGAUAGAA-AU  -UGA-AACC---UG GCGCAAUA[    * -]
Taxon_15 GC--UAAUCCU-AGCCC CGAACCCAAUCCACC-CUACUACCA-AAUCAACCUU----AACC-  AAACCAUU  CACC-----CAAGC  AAAGUAUAGGCGAUAGAA-AU  -UAUAAUC----CG GCGCAAUA[    * -]
Taxon_16 GC--CAAACCU-AGCCC CAAACCCCCUCCACC-CUACUACCA-AA-CAACCUU----AACC-  AAACCAUU  UACC-----CAAAU  AAAGUAUAGGCGAUAGAA-AU  -UGUAAAU----CG GCGCAAUA[    * -]
Taxon_18 GCCUUAACUCUUAGCCC AAAUCAACACAAUCA-ACCUAUGUA-UUUCAACAAA------CU-  AAAACAUU  UUAACAU-CAACCC  CUAGUAUUUGAGACAGAA-AG  -GAAU-AA---CCG GAGCUUUA[    * -]
Taxon_10 GC--CAACACU-AGCUC CAAGCACAACCAACAC-----UAAUAUCAAACCCACAUGUAUACC  AAACCAUU  AAC--CC--AUAUU  A-AGUAUAGGCGAUAGAA-AU  CUUA-ACCU----G GCGCUAUA[    * -]


Cow      GAG-AA AGUA CCGCAAGG GAAC-GAUGAAAGAAAAAAACUAAAAGUAUAAAAAAG-CA AAGAUUACCCCUU GUACCUUUUGCAUAA-UGA AUUAAC UAGUAUAAGA  CUUAACAAAAUGAAUUUUAGC-UAAG  -CA  
Taxon_1  GAAAA- AGUA CCGCAAGG GAAC-GAUGAAAGAAAUUUU--AAAAGUACCAAACAG-CA AAGCUCACCCCUU UUACCUUUUGCAUAA-UGA UUUAAC UAGAACAA-U  UUUAGCAAAGAGAACUUAAGU-UAAA  -CA
Taxon_2  GA-UAU AGUA CCGCAAGG GAAA-GAUGAAAAAAUAUAA--CCAAGCACGACACAG-CA AGGACUAACCCCU GUACCUUCUGCAUAA-UGA AUUAAC UAGAAAUA-A  CUUUGCAAAGAGAACCGAAGC-UAAG  -AC
Taxon_3  GAGAA- AGUA CCGUAAGG GAAC-GAUGAAAGAUGCAUU--AAAAGUACUAAACAG-CA AAGCUUACCCCUU UUACCUUUUGCAUAA-UGA UUUAAC UAGAAUAA-A  CUUAGCAAAGAGAACUUAAGC-UAAG  -CA
Taxon_17 GA-CAU AGUA CUGUGAAG GAAA-AAUGAAAGAUUAGCU--UAAAGCACAAAAAAG-CC AGGAUUUAACCCU GUACCUUUUGCAUAA-UGG UUUAGC UAGAAAAC-U  UAUA-UACAAAGAAUUUUAA--UAUA  AAA
Taxon_4  GAGAA- AGUA CCGUAAGG GAAC-GAUGAAAGAUGUAUU--AAAAGUACUAAACAG-CA AAGCUUACCCCUU UUACCUUUUGCAUAA-UGA UUUAAC UAGAAUAA-A  CUUAGCAAAGAGAACUUAAGC-UAAG  -CA
Taxon_5  GA-CAC AGUA CCGUAAGG GAAA-GAUGAAAAAACACAA--CCAAGCACAACAUAG-CA AGGACUAACCCCU GUACCUUUUGCAUAA-UGA AUUAAC UAGAAACA-A  CUUUGCAAGGAGAGCCAAAGC-CAAG  -AC
Taxon_6  GA-CAU AGUA CCGCAAGG GAAA-GAUGAAAAAUUAUAC--CCAAGCAUAAUACAG-CA AGGACUAACCCCU GUACCUUUUGCAUAA-UGA AUUAAC UAGAAAUA-A  CUUUGCAAAGAGAACCAAAGC-UAAG  -AC
Taxon_7  GAG-AU AGUA CCGUAAGG -AAA-GAUGAAAGAAAAACCU-AAAAGUAAUAAAAAG-CA AAGCUUACCACUU GUACCUUUUGCAUAA-UGA CUUAAC UAGUAAUA-A  AUUAGCAAAGAGACCUUAAGUUAAAU  --U
Taxon_8  GUUUAU AGUA CCGCAAGG GAAA-AAUGAAAGAUAAAUU--AUA-GUAAUUAAAAG-CA AAGAUUAACUCUU GUACCUUUUGCAUAA-UGA UUUAGC CAGUCAAC-A  CGGA-CAAAAAGAAUU-AUGC--CCG  ACA
Taxon_9  ACGCA- AGUA CCGCGAGG GAAA-CAUGAAAGACUAAUU--AUAAGCACUAAAAAG-CA AAGAUUAAACCUU CUACCUUUUGCAUAA-UGA UUUAGC CAGUCAAA-C  CGGA-CAAAAAGAAUU-ACGC--CCG  CCU
Taxon_11 GAA-AU AGUA CCGUAAGG GAAA-GAUGAAAGAAAAACCC-AAAAGUAAUAAAAAG-CA AAGCUUACCCCUU GUACCUUUUGCAUAA-UGA CUUAAC UAGUAAUA-A  CUUAGCAAAGAGACCUUAAGU-UAAA  -CU
Taxon_12 GA-UAC AGUA CCGCAAGG GAAA-GAUGAAAAAC-ACGA--CCAAGCACAAAACAG-CA AAGAUAAACCCCU GUACCUUCUGCAUAA-UGA AUUAAC UAGACACA-A  CUUAGCAAGGAGGCCCAAAGC-UAAG  -AG
Taxon_13 GA-UAU AGUA CCGCAAGG GAAA-GAUGAAAAAUUAUAA--CCAAGCAUAAUAUAG-CA AGGACUAACCCCU AUACCUUCUGCAUAA-UGA AUUAAC UAGAAAUA-A  CUUUGCAAGGAGAGCCAAAGC-UAAG  -AC
Taxon_15 GA-UGC AGUA CCGCAAGG GAAA-GAUGAAAAAACGAAA--CCAAGCACAACACAG-CA AGGAUUAACCCCU GUACCUUUCGCAUAA-UGA AUUAAC UAGAAACA-A  CUUUGCAAGGAGAACCGAAGC-CAAG  -AC
Taxon_16 GA-UAU AGUA CCGCAAGG GAAA-GAUGAAAAAUUACAC--CCAAGCAUAAUACAG-CA AGGACUAACCCCU GUACCUUUUGCAUAA-UGA AUUAAC UAGAAAUA-A  CUUUGCAAAGAGAACUAAAGC-CAAG  -AU
Taxon_18 GA-UAA AGUA CUGUGAAG GAACAAAUGAAAGAUUUCC---CCAAGCACGAAAAAG-CC AAGUUUAAAUCUU GUACCUUUUGCAUAAAUGG UUUAGC UAGAAAAU-C  UAUA-CACAAAGAUUUGUAA--UAUA  AAA
Taxon_10 GA-UAC AGUA CCGUAAGG GAAA-GACAAGA-AAACCAC--CCAAGCACAAAACAG-CA AGGACUAACCCCU GUACCUUUUGCAUAA-UGA AUUAGC CAGAAACA-A  UUUCACAAAGAGAACUGAAGC-CAAA  -UU

Cow      G CC CGAAA CCAGAC GAG CUACUCACAAAC A GUU UACCAAG AAC UAA CUCAUCUAUGUGGCAAAAUAGUGAG AA GAUUUGUAAGUAG A GGUGACAUGCC UAACGA GCCUGG UGAUAGCU GG 
Taxon_1  C CC CGAAA CCAGAC GAG CUACCUAUGAAC A GUU CAAA--A AAC AAA CUCGUCUAUGUAGCAAAAUAGUGAG AA GAUUUAUAGGUAG A GGUGAAAAGCC UAACGA GCCUGG UGAUAGCU GG 
Taxon_2  C CC CGAAA CCAGAC GAG CUACCUAAGAAC A GCU AAAA--G AGC ACA CCCGUCUAUGUAGCAAAAUAGUGGG AA GAUUCCUAGGUAG A GGCGACAAACC UACCGA GCCUGG UGAUAGCU GG 
Taxon_3  C CC CGAAA CCAGAC GAG CUACCUAUGAAC A GUU ACAAAUG AAC CAA CUCAUCUAUGUCGCAAAAUAGUGAG AA GAUUCGUAGGUAG A GGUGAAAAGCC CAACGA GCCUGG UGAUAGCU GG 
Taxon_17 U CC CGAAA CUAGAU GAG CUACUAUCGAGC A AUU UAU-UAG AAU CAA CCCGUCUAUGUUGCAAAAUAGUGGG AU GACUUUAUAGUAG A GGUGAAAAAUC AACCGG ACCUAG UGAUAGCU GG  
Taxon_4  C CC CGAAA CCAGAC GAG CUACCUAUGAAC A GUU AUAAA-G AAC CAA CUCAUCUAUGUCGCAAAAUAGUGAG AA GAUUCAUAGGUAG A GGUGAAAAGCC CAACGA GCCUGG UGAUAGCU GG 
Taxon_5  C CC CGAAA CCAGAC GAG CUACCCAUAAAC A GCU AAAA--G AGC ACA CCCGUCUAUGUAGCAAAAUAGUGGG AA GAUUUAUGGGUAG A GGCGACAAACC UACCGA GCCUGG UGAUAGCU GG 
Taxon_6  C CC CGAAA CCAGAC GAG CUACCUAAGAAC A GCU AAAA--G AGC ACA CCCGUCUAUGUAGCAAAAUAGUGGG AA GAUUUAUAGGUAG A GGCGACAAACC UACCGA GCCUGG UGAUAGCU GG 
Taxon_7  A CC CGAAA CCAGAC GAG CUACUUAUGAGC A GCA CCUA--G AAC GAA CUCAUCUAUGUGGCAAAAUAGUGAG AA GACUUAUAAGUAG A GGUGAAAAGCC UAACGA GCCUGG UGAUAGCU GG 
Taxon_8  U CC CGAAA UUAAGU GAG CUACUAUAAGAC A GUU ACUAAUG AAC CAA CUCAUCUAUGUAGCAAAAUAGUGAG AA GAUUUUAUAGUAG A AGUGAAAAACC UAUCGA ACUUAA UGAUAGCU GG 
Taxon_9  U CC CGAAA UCAAGU GAG CUACUAUAAAAC A GUU GACA--G AAC CAA CUCAUCUAUGUAGCAAAAUAGUGAG AA GAUUUUAUAGUAG A GGUGAAAAGCC UACCGA ACUUGA UGAUAGCU GG 
Taxon_11 A CC CGAAA CCAGAC GAG CUACUUAUGAGC A GUA CCUA--G GAC GAA CUCAUCUAUGUGGCAAAAUAGUGAG AA GACUUAUAAGUAG A GGUGAAAAGCC UAACGA GCCUGG UGAUAGCU GG 
Taxon_12 C CC CGAAA CCAGAC GAG CUACCUAAGAAC C GCU GAAA--G AGC ACA CCCGUCUAUGUAGCAAAAUAGUGGG AA GAUUCAUAGGUAG A GGUGACAAGCC UACCGA GCCUGG CGAUAGCU GG 
Taxon_13 C CC CGAAA CCAGAC GAG CUACCUAAGAAC A GCU AAAA--G AGC ACA CCCGUCUAUGUAGCAAAAUAGUGGG AA GAUUUAUAGGUAG A GGCGACAAACC UACCGA GCCUGG UGAUAGCU GG 
Taxon_15 C CC CGAAA CCAGAC GAG CUACCCAUAAAC A GCU AAAA--G AGC GCA CCCGUCUAUGUGGCAAAAUAGUGGG AA GAUUUAUGGGAUG A GGCGACAAACC AUCCGA GCCUGG UGAUAGCU GG 
Taxon_16 C CC CGAAA CCAGAC GAG CUACCUAAGAAC A GCU AAAA--G AGC ACA CCCGUCUAUGUAGCAAAAUAGUGGG AA GAUUUAUAGGUAG A GGCGACAAACC UACCGA GCCUGG UGAUAGCU GG 
Taxon_18 C CC CGAAA CUAAAU GAG CUACUAUAGGAC A AUU UAUC-AG AAU GCA CCCGUCUAUGUCGCAAAAUAGUGGG AC GAUUUUAUAGUAG A GGUGAAAAAUC AACCGG AUUUAG UGAUAGCU GG 
Taxon_10 C CC CGAAA CCAGAC GAG CUACCCAAAAAC A GCU GAAA--G AGC GCA CCCGUCUAUGUGGCAAAAUAGUGGG AA GAUUUCUGGGUAG A GGUGACAAGCC UACCGA GCCUGG UGAUAGCU GG 


Cow      UU GUCCAG  AAAAU  GAAUCUAAGUUC AG-CU UUAAAGA-UAC CAAAAAUUCAAA-------UAAACCCCACU GUAGCUUUAA AAGUUAG UCUAAAAAGGUACAGCCUUUUAGA  AA--C  GGAUACAACC UUGA-CUAGAGAGUAA
Taxon_1  UU GUCCAA  GU-CA  GGAUAUAAGUUC AA-AU UUAAAUU-UAC CUAAA-AGCCCC------AACAACUCUAAU GUAAAUUUAA AUUAUAA UCUAAAAAGGUACAGCUCUUUAGA  UUC-A  GGAUACAACC UCAG-UUAGAGAGUAA
Taxon_2  UU GUCCAA  GA-CA  GAAUCUUAGUUC AA-CU UUAAAUU-UAC CCACAGAACCCU------CCAAAUCCUCCC GUAAAUUUAA CUGUUAG UCCAAAGAGGAACAGCUCUUUGGA  CACUA  GGAAAAAACC UUGU-AAAGUGAGUAA
Taxon_3  UU GUCCAG  AAACA  GAAUUUCAGUUC AA-AU UUAAAUU-UAC CUAAA-AACUA-------CUCAAUUCUAAU GUAAAUUUAA AUUAUAG UCUAAAAAGGUACAGCUUUUUAGA  UAC-A  GGUUACAACC UUCA-UUAGAGAGUAA
Taxon_17 UU AGCCAA  AAAAC  GAAUUUAAGUUC AA-CA AUAAGUU-UAU UUCCUGAUAUACU--AU---A--UUAACC- AUAAACUUAU AAGUUAU UCAUAAGAGGGUCAGCCCUUAUGA  AU-AA  GGAAACAACC UCUA-AUAGAGGGAAA 
Taxon_4  UU GUCCAG  AAACA  GAAUCCCAGUUC AA-AU UUAAAUU-UAC CUAAA-AACCA-------CUUAAUUCUAAU GUAAACUUAA AUUAUAG UCUAAAAAGGUACAGCUUUUUAGA  UAC-A  GGAUACAACC UUUA-UUAGAGAGUAA
Taxon_5  UU GUCCAA  GA-CA  GAAUCUUAGUUC AA-CU UUAAAUU-UAC UUACAGAACCC-------CUAA-UCCCCUC GUAAAUUUAA UUGCUAG UCUAAAGAGGAACAGCUCUUUAGA  CACUA  GGAAAAAACC UUAA-AAAGAGAGUAA
Taxon_6  UU GUCCAA  GA-UA  GAAUCUUAGUUC AA-CU UUAAAUU-UAC CUACAGAACCCU------CUAAAUCCCCUU GUAAACUUAA CUGUUAG UCCAAAGAGGAACAGCUCUUUAGA  CACUA  GGAAAAAACC UUGU-AAAGAGAGUAA
Taxon_7  UU GUCCCU  GAAAA  GAAUCUCAGUUC AA-CA UUAAAUAAUAC UAAAAGCCCAUG------CCAAGCCUUAAC GUAUAUUUAA CUGUUAA UCUAAAAAGGUACAGCUUUUUAGA  AA--U  GGGUACAACC UUGA-CUAGAGAGUAA
Taxon_8  UU AUCCAA  AA-AA  GAAUUUAAGUUC AA-CU UUAAGUCCUAU UACAAUGCCUAU------UCAAAGCACACA AUAAGCUUAA AAGUUAG UCAAAGAAGGGACAACUUCUUUGA  CCA-A  GUAUACAAAC UACA-UUAGAGGGUAA
Taxon_9  UU GUCCAA  AAUAU  GAAUUUCAGUUC AA-CU UUAAAUU-UAA UUAAAUUACCA--------ACAAACUUAAC UUAAAUUUAA AAGCUAA UCAAAAGGGGGACAACUCUUUUGA  UCA-U  GUAAACAAAC UUUA-UUAGAGGAUAA
Taxon_11 UU GUCCAU  GAAAA  GAAUCUCAGUUC AA-CA UUAAAUGAUAC UAAA-AGCCAUG------CCAAGCCUUGAC GUACAUUUAA CUGUUAG UCUAAAAAGGUACAGCUUUUUAGA  UA--U  GGGUACAACC UUCA-CUAGAGAGUAA
Taxon_12 UU GUCCAA  GA-CA  GAAUCUUAGUUC AA-CU UUAAAUC-UAC CCGUAGAACCC-------CUAAAUCUUCUU GUAAAUUUAA CUGUUAG UCUAAAGAGGAACAGCUCUUUAGA  CUCUA  GGAAAAAACC UUAU-AAAGAGAGUAA
Taxon_13 UU GUCCAA  GA-UA  GAAUCUUAGUUC AA-CU UUAAAUU-UGC CCACAGAACCCU------CUAAAUCCCCUU GUAAAUUUAA CUGUUAG UCCAAAGAGGAACAGCUCUUUGGA  CACUA  GGAAAAAACC UUGU-AGAGAGAGUAA
Taxon_15 UU GUCCAA  GA-CA  GAAUCUUAGUUC AA-CU UUAAAUU-UAC UUACAGAGUCC-------CUAA-UCCCCUC GUAAAUUUAA CUGCUAG UCUAAAGAGGAACAGCUCUUUAGA  CACUA  GGAAAAAACC UUAA-AAAGAGAGUAA
Taxon_16 UU GUCCAA  GA-UA  GAAUCUUAGUUC AA-CU UUAAAUU-UAC CUACAGAACCCU------CUAAAUCCCCCU GUAAAUUUAA CUGUUAG UCCAAAGAGGAACAGCUCUUUAGA  CACUA  GGAAAAAACC UUAU-GAAGAGAGUAA
Taxon_18 UU AACCAA  GAAAU  GAAUUUAAGUUC AA-CA GUAAGUU-UAU UUCCCUAGC-AC------CCUAUAUGACUC AUAAACUUAC UAGCUAC UUAUAAGAGGGUCAGCCCUUAUAA  GUAA-  GGAAACAACC UCCA-AUAGAGGGAAA 
Taxon_10 UU AUCCAA  G-AUA  GAAUCUUAGUUC AG-CC UUAAGUU-UAC CCACAGA-AUAACCCAAUCCCAAUCCCUCU GUAAACUUAA UUGUUAG UCUAAAGAGGGACAGCUCUUUAGA  CACUA  GGAAA-AACC UUAC-AUAGAGAGUAA 


Cow       --AAUUUAACA-C----UA CCA UAGUAGGCCUAAAAGCA-GCCAUCAA UUAA GAAAGCGUUAAAGCUC  AA---CAACAAAAAUUAAAUAGAUUCCAACAACAAAU---GAUUAACUCCUAG--CCCCAAUA  CUGGAC UAA-
Taxon_1   GA-----UC-AGAAUU-AC ACA UAGUUGGCCUAAAAGCA-GCCAUCAA UUAA GAAAGCGUCUAAGCUC  AA--CAACACAACUACC--UUAAUUCCAACAAUA-A-UUA-ACCAACUCCUAA---CUUAAUA  CUGGAC UAA-
Taxon_2   AAAAUU-UA-AU-----AC CCA UAGUAGGCCUAAAAGCA-GCCACCAA UUAA GAAAGCGUUCAAGCUC  AA---CACUAUC-ACCCAAAAUAAUCC-CAAACACAC--AACUGAACUCCCU---ACACCCAA  UUGGAC CAA-
Taxon_3   GAA----CA-AGA-UAAAC CCA UAGUUGGCUUAAAAGCA-GCCAUCAA UUAA GAAAGCGUUCAAGCUC  AA--CGACACAUCUAUC--UUAAUCCCAACAAUCAACCCAAACUAACUCCUAA---UCUCAUA  CUGGAC UAU-
Taxon_17  UUUAUU-CUUAUUU----- ACA UAGUAGGCCUAAAAGCA-GCCAUCAA UUAA AAAAGCGUUAAAGCUU  AAACUUC-----AUUCUUUCUU-AAUCCCUUAACUUC--UUAA--CUACCCCUAAA-AUAAUA  UUGGCU UAA-
Taxon_4   GAA----UA-AGAUUAAUC CCA UAGUUGGCUUAAAAGCA-GCCAUCAA UUAA GAAAGCGUUCAAGCUC  AA--CGUCACACAUAUC--UUAAUCCCAAUAAUAGACUCAGACUAACUCCUAA---UCUUAUA  CUGGAC UAU-
Taxon_5   AAAACA-CA-AC-----AC CCA UAGUGGGCCCAAAAGCA-GCCAUCAA UUAA GAAAGCGUUCAAGCUC  GA---CACCUAAACACCAAAA-AAUAC-CAAACACAA--AACUGAACUCCUU---ACUCCCCA  UUGGAC UAA-
Taxon_6   AAAAUU-UA-AC-----AC CCA UAGUAGGCCUAAAAGCA-GCCACCAA UUAA GAAAGCGUUCAAGCUC  AA---CACCCACAACCUUAAA-GAUCC-CAAACAUAC--AACCGAACUCCUU---ACACCCAA  UUGGAC CAA-
Taxon_7   AA----UCA-AACA--UAA ACA UAGUUGGCCUAAAAGCA-GCCAUCAA UUAA GAAAGCGUUCAAGCUC  GA--CAACAAAAUAAUGUUUUAAUUCCAACAUUAAGU--AAAUCAACUCCUAG--CCUGACUA  UUGGAC UAA-
Taxon_8   UAAUUAAUA-AU-----CC ACA UCGUUGGCUUAAAAGCA-GCCAUCAA CUAA GAAAGCGUUAAAGCUC  AAAC----UCACAUUCCAAUUUAAUAC-CA-UAAAAA--AACUAAAACCCCUAAAAUA--CUA  UUGGAU GAU-
Taxon_9   UGAAUACUA-AG-----AA CCA UUGUAGGCCCAAAAGCA-GCCACCAA UUAA GAAAGCGUUAAAGCUC  AAAUGUAUUAACAGACC---UUAAUCC-CAAUAAUAU--UAUCAAAAUCCCUAACAUAGACUA  UUGGAC GAU-
Taxon_11  AA----CCA-AACA-UACA CCA UAGUUGGCCUAAAAGCA-GCCAUCAA UUAA GAAAGCGUUCAAGCUC  GA--CAAUAAAACAAUGUUUUAAUUCCAACAUUAGAC--AAAUCAACUCCUAG--CAUGAUUA  UUGGAC UAA-
Taxon_12  AAAGUG-UA-AA-----CC CCA UAGUUGGCCUAAAAGCA-GCCACCAA UUAA GAAAGCGUUCAAGCUC  AA---CACCACCUAUCCAACA-AAUCC-CAAACACAC--AACUGAACUCCUU---CCACCACA  UUGGAC CAA-
Taxon_13  AAAAUU-UA-AC-----AC CCA UAGUAGGCCUAAAAGCA-GCCACCAA UUAA GAAAGCGUUCAAGCUC  AA---CACCCACUACCUAAAA-AAUCC-CAAACAUAU--AACUGAACUCCUC---ACACCCAA  UUGGAC CAA-
Taxon_15  AAAACA-CA-GC-----AC CCA UAGUGGGCCCAAAAGCA-GCCAUCAA UUAA GAAAGCGUUCAAGCUC  GA---CACCCA-AACACCAAAAAAUAC-CAAACAUAA--GACUGAACUCCUU---ACUCCCAA  UUGGAC CAA-
Taxon_16  AAAAUU-UA-AU-----GC CCA UAGUAGGCCUAAAAGCA-GCCACCAA UUAA GAAAGCGUUCAAGCUC  AA---CACCCACAACCUCAAAAAAUCC-CAAGCAUAC--AAGCGAACUCCUU---ACGCUCAA  UUGGAC CAA-
Taxon_18  CUCUUA-CC-AC-----GU ACA UAGUAGGCUUAAAAGCA-GACACCUA UUAA GAAAGCGUUAAAGCUC  AA--ACCCAACCCUUUUCUCUAAUUCC-ACAAUAUCU---CAACUACCCCUA---AAUCAAUA  UUGGUU UAU-
Taxon_10  AAACCC--CCGU-----CA CCA UAGUUGGCCUAAAAGCA-GCCAUCAA UUAA GAAAGCGUUCAAGCUC  AA---CAUUAACC----ACCUA-AAAAAUCCCA-AACAUA-CUAUUGAACUCCUUAAAUCACA  UUGGAU UAA-

Cow       UCUAUUAUAGAAUAGA AGCAAUAAU GUUAAU AUGAGUAA-CAAGAAAAAUU-[    * -]
Taxon_1   UCUAUUAAUAAAUAGA AGCAAUAAU GUUAAU AUGAGUAA-CAAGAACUAU--[    * -]
Taxon_2   UCUAUUACCCUAUAGA AGAGCUAAU GUUAGU AUAAGUAA-CAUGAA-ACC-A[    * -]
Taxon_3   UCUAUCAACACAUAGA AGCAAUAAU GUUAAU AUGAGUAA-CAAGAAUUAU--[    * -]
Taxon_17  UCUAUGUCCCCAUAGA AGAAAUAAU GCUAAA AUAAGUAAACCAGAA-UUU-A
Taxon_4   UCUAUCGACACAUAGA AGCAAUAAU GUUAAU AUGAGUAA-CAAGAAUUAU--[    * -]
Taxon_5   UCUAUUGCCCCAUAGA AGAAACAAU GUUAGU AUAAGUAA-CAUGAA-GAU-A[    * -]
Taxon_6   UCUAUUACCCCAUAGA AGAACUAAU GUUAGU AUAAGUAA-CAUGAA-AAC-A[    * -]
Taxon_7   UCUAUACAAAUAUAGA AGCAAUACU GUUAAU AUGAGUAA-CAAGAA-AUU-U[    * -]
Taxon_8   UCUAUGAUAUUAUAGA AUACAUAAU GCUAAA AUUAGUAA-UAAGAACCCC-G[    * -]
Taxon_9   UCUAUAAUCUUAUAGA AGACAUAAU GCUAAA AUAAGUAA-CAAGAAAUAU--[    * -]
Taxon_11  UCUAUAUAAACAUAGA AGCAACACU GUUAAU AUGAGUAA-CAAGAA-AUU-U[    * -]
Taxon_12  UCUAUCAUUUUAUAGA AGAAAUAAU GUUAGU AUAAGUAA-CAUGAAUAAC-A[    * -]
Taxon_13  UCUAUCACCCUAUAGA AGAACUAAU GUUAGU AUAAGUAA-CAUGAA-AAC-A[    * -]
Taxon_15  UCUAUUGCCCUAUAGA AGAAACAAU GUUAGU AUAAGUAA-CGUGAA-AAC-A[    * -]
Taxon_16  UCUAUUACCCCAUAGA AGAGCUAAU GUUAGU AUAAGUAA-CAUGAA-AAC-A[    * -]
Taxon_18  UCUAUAUCUUUAUAGA AGAAAUAAU GCUAAA AUAAGUAA-CCAGAA-UUU-A
Taxon_10  UCUAUCACCCCAUAGA AGCAAUAAU GCUAGU AUAAGUAA-CAUGAACUCUCU


Cow       UUCU CCU---U G-CAU AAGUCUAAG UCAG UGC--CUGAUAAUACU CUGA CCACUAA- CAG U-CAAUAAAAAUAAUCCAACAAUAAACAAUU--UAUUGAUUAU-A CUG UUAAC CCAACACAGG A GUGC  A----UCUA  AGGA 
Taxon_1   UUCU CCU---U G-CAU AAGCCUAUA UCAG ---AACGAAUAAC-CA CUGA UAAUUAA- CAA UAAGAUAAACACAAUCCAACAACAAACUAC-C-UAUCAAAUCA-A UUG UUAAC CCAACACAGG C AUGC  ACU--UCAA  AGGA 
Taxon_2   UUCU CCU--CC G-CAU AAGCCUACA UCAG ACCAAA--AUAUUAAA CUGA CAAUUAA- CAA CUCAAUAUCUACAACUAACCAACAAGC--UAU-UAUUACC-CCCA CUG UUAAC CCAACACAGG C AUGC  CC----ACG  AGGA 
Taxon_3   UUCU CCU---U G-CAU AAGCUUAUA UCAG ---AACGAAUACU-CA CUGA UAGUUAA- CAA CAAGAUAGGGAUAAUCCAAAAACUAAUCAU-C-UAUUUAAACC-A UUG UUAAC CCAACACAGG C AUGC  AUC--UAUA  AGGA 
Taxon_17  UUCU CCAU--- G-CAC UAGCUUAAA UUAG --AACGGAGCAUCCA- CUAA UAAUUAA- CAG CUAA-AUAAUCAUAAAUAUUAAC-UAG-AAACAUUAUUUUAUAAA CUG UUAAC CCGACACAGG A GUGC  A----UCUA  AGGA 
Taxon_4   UUCU CCU---U G-CAU AAGCCUAUA UCAG ---AACGAAUACU-CA CUGA UAGUUAA- CAA CAGAAUAGACACAAUCCAAAAACUAACCAU-C-UAUUUAGACU-A UUG UUAAC CCAACACAGG U GUGC  ACC--CAUA  AGGA 
Taxon_5   UUCU CCC--CC G-CAU AAGUCUACG UCAG ACCGAA--ACAUCACA CUGA CAAUUAA- CGG UCCAAUAUGCAUAGUUAACAAAUAAAC--UAU-UAUUUUUUCCCC CCG UUAAU CCAACACAGG C AUGC  CU----AUA  AGGA 
Taxon_6   UUCU CCU--CC G-CAU AAGCCUACA UCAG ACCAAA--AUAUUAAA CUGA CAAUUAA- CAG CCUAAUAUCUACAAUCAACCAACAAGC--CAU-UAUUACC-CCCG CUG UUAAC CCAACACAGG C AUGC  CC----ACA  AGGA 
Taxon_7   UUCU CCU--A- G-CAC AAGCUUACA CCAG --UAACUGAUAAUAUA CUGA UAAUUAA- CAG -CAAAUAAAUAAAACCCAAC-ACUAAAUUAUU-UAUUA--AAAUA CUG UUAAC CCAACACAGG C GUGC  AU-----UA  AGGA 
Taxon_8   UUCU CCU--C- G-CAC AAGCCUAAG UUAG AAUAACGGAUAUCCCA CUAA UAGUUAA- CAA AAACAUAAUAACAUUCAUC-AACCAGCCUC-U-UAUACAAAAU-U UUG UUAAU CCAACACAGG U GUGC  AU----UAA  AGGA 
Taxon_9   UUCU CCU--A- G-CAC AAGCCUAAA UUAG CA--ACGGAAUACCCA CUAA CAAUUAA- CAA AUCAAUAAUCCUAACCAAAUAACUAGUAAAAU-UCUUACAACU-A UUG UUAAC CCGACACAGG A GUGC  -U----AAC  AGGA 
Taxon_11  UUCU CCU--A- G-CAC GAGCUUAUA UUAG --UAACUGAUAAUAUA CUAA UAAUUAA- CAG -CAAAUAAAUAAAAUCUAAC-ACUAGACUAUU-UAUUA--AGACA CUG UUAAC CCAACACAGG A GUGC  AU-----UA  AGGA 
Taxon_12  UUCU CCC--CC G-CAU AAACCUAUA UCAG ACCAAA--AAACUUCG CUGA CAGUUAA- CAG CCCAAUAUCUAAAACCAACUGAUAAAC--CAU-UAUUGCC-CACA CUG UCAAC CCAACAUAGG C AUGC  CC----ACA  AGGA 
Taxon_13  UUCU CCU--CC G-CAU AAGCCUGCG UCAG AUCAAA--ACACUGAA CUGA CAAUUAA- CAG CCCAAUAUCUACAAUCAACCAACAAGU--CAU-UAUUACC-CUCA CUG UCAAC CCAACACAGG C AUGC  UC----AUA  AGGA 
Taxon_15  UUCU CCU--CU G-CAU AAGCCUACG UCAG ACCAAA--ACAUCACA CUGG CAAUUAA- CAG UCCAAUAUGCAUAAUUAACAAAUAAAC--UAC-UAUUACC-CCCA CUG UUAAU CCAACACAGG C AUGC  CC----AUC  AGGA 
Taxon_16  UUCU CCU--CC G-CAU AAGCCUACU ACAG ACCAAA--AUAUUAAA CUGA CAAUUAA- CAG CCCAAUAUCUACAAUCAACCAACAAGC--CGU-UAUUACC-CCCA CUG UUAAC CCAACACAGG C AUGC  AC----ACA  AGGA 
Taxon_18  UUCU CCU---U G-CAC UAGCUUAAG UUAG A-ACGG--AACAACCA CUAA CAAUUAA- CAG UUAAAUA----AUUAAAACUAUAAAC--AAGAGCCAUUAU-UUUU CUG UUAAC CCGACACAGG C GUGC  AC----UAA  AGGA 
Taxon_10  CUCU CCCUACU G-CAU AAGCCUAAA CCAA ACCAAA---ACCCCA- CUGA UACUUAA- CAG CCCAGUACUAACAAACUCAAAC--AAGUCCAUACUACUC---UUA CUG UUAAU CCAACACAGG C AUGC  UUU----UA  AGGA 

Cow      AAGAUUAAAA GAAGUAAAAGG  AACUCGGCAAA CACAA--  ACCCCG CC UGUUUACCAAAAACA UCAC CUCCAGCAUUCCCAGUAUUGGAG GCAUU GCC UGCCCAGUGAC -AACU GUUU-AACGGC
Taxon_1  AAGAUUAAAA AAAGUAAAAGG  AACUCGGCAAA CAUAA--  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUACCCAGUAUUAGAG GCACU GCC UGCCCAGUGAC -AUCU GUUUCAACGGC
Taxon_2  AAGGUUGAAA AAAGUAAAAGG  AACUCGGCAAA UUUU---  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUACCAGUAUUAGAG GCACC GCC UGCCCAGUGAC -AUGC GUUC-AACGGC
Taxon_3  AAGAUUAAAA GAAGUAAAAGG  AACUCGGCAAA CACAA--  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUUCCAGUAUUAGAG GCACU GCC UGCCCAGUGAC -AUCU GUUUAAACGGC
Taxon_17 AAGAUUAAAA GGAGUAAAAGG  AACUCGGCAAA CUAGG--  AUUUCG CC UGUUUACCAAAAACA UCGC CUCUAGCAUAACAAGUAUUAGAG GUCCU GCC UGCCCAGUGAU UCU-- AUUA-AACGGC
Taxon_4  AAGAUUAAAA GAAGUAAAAGG  AACUCGGCAAA CACAA--  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUCCCAGUAUUAGAG GCACU GCC UGCCCAGUGAC -AUCU GUUUAAACGGC
Taxon_5  AAGGUUAAAA AAAGUAAAAGG  AACUCGGCAAA UCUC---  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUACCAGUAUUAGAG GCACC GCC UGCCCGGUGAC -AUAC GUUU-AACGGC
Taxon_6  AAGGUUAAAA AAAGUAAAAGG  AACUCGGCAAA UCUU---  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUACCAGUAUUAGAG GCACC GCC UGCCCGGUGAC -AUAU GUUU-AACGGC
Taxon_7  AAGAUUAAAA AAAGUAAAAGG  AACUCGGCAAA CACAA--  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUAACCAGUAUUAGAG -CACU GCC UGCCCGGUGAC UAAUC GUUA-AACGGC
Taxon_8  AAGAUAUAAA AGAACAAAAGG  AACUCGGCAAA CAUGA--  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUACAAGUAUUAGAG GCACU GCC UGCCCAGUGAA UAAAC UUUU-AACGGC
Taxon_9  AAGAUUAAAA GGAAUAAAAGG  AACUCGGCAAA UACAA--  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUAACAAAUAUUAGAG GCAAC GCC UGCCCAGUGAG UAACA CUUC-AACGGC
Taxon_11 AAGAUUAAAA AAAGUAAAAGG  AACUCGGCAAA CACAA--  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUAACCAAUAUUAGAG -CACU GCC UGCCCGGUGAC UAAUC GUUA-AACGGC
Taxon_12 AAGGUUAAAA AAAGUAAAAGG  AACUCGGCAAA CACU---  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUACCAGUAUUAGAG GCACC GCC UGCCCAGUGAC -ACAU GUUC-AACGGC
Taxon_13 AAGGUUAAAA AAAGUAAAAGG  AACUCGGCAAA CCUU---  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUCACCAGUAUUAGAG GCACC GCC UGCCCAGUGAC -ACAU GUUU-AACGGC
Taxon_15 AAGGUUAAAA AAAGUAAAAGG  AACUCGGCAAA UCUC---  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUACCAGUAUUAGAG GCACC GCC UGCCCGGUGAC -AUGU GUUU-AACGGC
Taxon_16 AAGGUUAAAA AAAGUAAAAGG  AACUCGGCAAA UCUU---  ACCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUACCAGUAUUAGAG GCACC GCC UGCCCGGUGAC -AUAU GUUU-AACGGC
Taxon_18 AAGAUAAAAA AGAGUAAAAGG  AACUCGGCAAA UUAGG--  AUUUCG CC UGUUUACCAAAAACA UCGC CUCUAGCAUAACAAGUAUUAGAG GUCCU GCC UGCCCAGUGAU -AUU- AUUA-AACGGC 
Taxon_10 AAGGUUAAAA AAAGUAAAAGG  AACUCGGCAAA CU-UA--  GCCCCG CC UGUUUACCAAAAACA UCAC CUCUAGCAUUACUAGUAUUAGAG GCACU GCC UGCCCAGUGAC -ACAC GUUU-AACGGC

[                                                                          67Õ        64Õ              61Õ    ] 
Cow      CGCGGUAUCCUGACCGUGCAAAGGUAGCAUAAUCAUUUGUUCUCUAAAUAAGGACUUGUAUGAAU GGC CGCA CGAGGGU UUUACUG UCUCUUACUUC CAAUCAGUGAAAUUGACCU UCCCGUGAAGAGGCGGGA 
Taxon_1  CGCGGUAUCCUAACCGUGCAAAGGUAGCAUAAUCACUUGUUCUCUAAAUAAGGACUUGUAUGAAU GGC CACA CGAGGGU UUUACUG UCUCUUACUUU CAAUCAGUGAAAUUGACCU CCCCGUGAAGAGGCGGGG 
Taxon_2  CGCGGUACCCUAACCGUGCAAAGGUAGCAUAAUCACUUGUUCCUUAAAUAGGGACUCGUAUGAAU GGC UCCA CGAGGGU UCAGCUG UCUCUUACUUU UGACCAGUGAAAUUGACCU GCCCGUGAAGAGGCGGAC 
Taxon_3  CGCGGUAUCCUAACCGUGCAAAGGUAGCAUAAUCACUUGUUCCCUAAAUAGGGACUUGUAUGAAU GGC CACA CGAGGGU UUUACUG UCUCUUACUUC CAAUCAGUGAAAUUGACCU UCCCGUGAAGAGGCGGGA 
Taxon_17 CGCGGUAUCCUGACCGUGCAAAGGUAGCAUAAUCAUUUGUCUCCUAAUUAGAGACUAGUAUGAAU GGC UAGA CGAAAAU CCAACUG UCUCUUACUCC CAAUCAGUGAAAUUGCCCU CCCCGUGCAGAGACGGGG 
Taxon_4  CGCGGUAUCCUAACCGUGCAAAGGUAGCAUAAUCACUUGUUCUCUAAAUAGGGACUUGUAUGAAU GGC CACA CGAGGGU UUUACUG UCUCUUACUUC CAAUCAGUGAAAUUGACCU UCCCGUGAAGAGGCGGGA 
Taxon_5  CGCGGUACCCUGACCGUGCAAAGGUAGCAUAAUCACUUGUUCCUUAAAUGGGGACUUGUAUGAAU GGC UUCA CGAGGGU UCGACUG UCUCUUACUUU UAACCAGUGAAAUUGACCU GCCCGUGAAGAGGCGGGC 
Taxon_6  CGCGGUACCCUAACCGUGCAAAGGUAGCAUAAUCACUUGUUCCUUAAAUAGGGACUUGUAUGAAU GGC UCCA CGAGGGU UUAGCUG UCUCUUACUUU CAACCAGUGAAAUUGACCU ACCCGUGAAGAGGCGGGC 
Taxon_7  CGCGGUAUCCUGACCGUGCAAAGGUAGCAUAAUCACUUGUUCUCUAAUUAGGGACUUGUAUGAAU GGC CACA CGAGGGU UUUACUG UCUCUUACUUU UAAUCAGUGAAAUUGACCU CUCCGUGAAGAGGCGGAG 
Taxon_8  CGCGGUAUCCUGACCGUGCAAAGGUAGCAUAAUCACUUGUCUCCUAAAUAGGGACUUGUAUGAAU GGC AUAA CGAGGGU UCAACUG UCUCUUUUUCU UAAUCAAUGAAAUUGACCU ACCCGUGCAGAGGCGGGU 
Taxon_9  CGCGGUAUCCUGACCGUGCAAAGGUAGCAUAAUCACUUGUCUCUUAAUUAGAGACUCGUAUGAAU GGC AUCA CGAGGGU UUAACUG UCUCUUAUUCC CAAUCAGUGAAAUUGACCU UCCCGUGCAGAGGCGGGA 
Taxon_11 CGCGGUAUCCUGACCGUGCAAAGGUAGCAUAAUCACUUGUUCUCUAAUUAAGGACUUGUAUGAAC GGC CACA CGAGGGU UUUACUG UCUCUUACUUU UAAUCAGUGAAAUUGACCU CCCCGUGAAGAGGCGGGG 
Taxon_12 CGCGGUACCCUAACCGUGCAAAGGUAGCAUAAUCACUUGUUCCUUAAAUGGGGACUUGUAUGAAU GGC UCCA CGAGGGU UCAGCUG UCUCUUACUUU CAACCAGUGAAAUUGACCU GUCCGUGAAGAGGCGGAC 
Taxon_13 CGCGGUACCCUAACCGUGCAAAGGUAGCAUAAUCACUUGUUCCUUAAAUAGGGACCUGUAUGAAU GGC UCCA CGAGGGU UCAGCUG UCUCUUACUUU UAACCAGUGAAAUUGACCU GCCCGUGAAGAGGCGGGC 
Taxon_15 CGCGGUACCCUGACCGUGCAAAGGUAGCAUAAUCACUUGUUCUUUAAAUGAGGACUUGUAUGAAU GGC UCCA CGAGGGU UCGACUG UCUCUUACUUU UAACCAGUGAAAUUGACCU GCCCGUGAAGAGGCGGGC 
Taxon_16 CGCGGUACCCUAACCGUGCAAAGGUAGCAUAAUCACUUGUUCCUUAAAUAGGGACUUGUAUGAAU GGC UCCA CGAGGGU UUAGCUG UCUCUUACUUU CAACCAGUGAAAUUGACCU ACCCGUGAAGAGGCGGGC 
Taxon_18 CGCGGUAUCCUGACCGUGCAAAGGUAGCAUAAUCACUUGUCUCCUAAUUAGAGACUAGCAUGAAC GGC UAAA CGAAAAU CCAACUG UCUCUUACUCU CAAUCAGUGAAAUUGCCCU CCCCGUGCAGAGACGGGG 
Taxon_10 CGCGGUACCCUGACCGUGCAAAGGUAGCAUAAUCACUUGUUCUUUAAAUAGGGACUCGCAUGAAU GGC AACA CGAGGGU UCAGCUG UCUCUUACUUU UAACCAGUGAAAUUGACCU AUCCGUGAAGAGGCGGAC


Cow      AUGCACA AAUAAGACGA GAAGA CCCUAUGGAGCUU U AACUAACCAAC  CCAAAG-AG--AAUAGAU-----UUAACCAUUAAGGAAUAACAACAAUCUCCAUGA  GUUGG--UAGUU UC
Taxon_1  AUAACAC AAUAAGACGA GAAGA CCCUAUGGAGCUU U AAUCAACUAAU  UCACAAAAUAAAAUCUUCAA-CCU-ACAUAUAAGGGAUAACAAAA-UUUUAACUGA  AUUAA--CGAUU UC
Taxon_2  AUAACAU AACAAGACGA GAAGA CCCUAUGGAGCUU U AAUUCAUUAAU  -----GCAAGCAACACUUAAUA---AACCCACAGGUCCUAAACUACCAAACC-UGC  AUUAA--AAAUU UC
Taxon_3  AUGACUA AAUAAGACGA GAAGA CCCUAUGGAGCUU U AAUUAACUGAU  UCACAAAAAACAACACACAAACCUUAACCUUCAGGGACAACAAAACUUUUGAUUGA  AUCAG--CAAUU UC
Taxon_17 AUAACAC CAUAAGACGA GAAGA CCCUGUGGAGCUU U AAUCAU--AGA  UUUAUU-----CUUUUUCAUACAGACCCAAA---AGCUCAA-CACCUUAAGAAUUU  UUUCAACUGAUU UU
Taxon_4  AUAAUCA AAUAAGACGA GAAGA CCCUAUGGAGCUU U AAUUAACUGAU  UCACAAAAAACAACAUACAAACCU-AACCCUCAGGGACAACAAAACUUUUGAUUGA  AUCAG--CAAUU UC
Taxon_5  AUAACAU AACAAGACGA GAAGA CCCUAUGGAGCUU C AAUUUACCAGU  G-----CAAAUAACAUACAACA---AGCCCACAGGCCCUAAAUCACCAAACC-UGC  ACUGA--AGAUU UC
Taxon_6  AUAACAU AACAAGACGA GAAGA CCCUAUGGAGCUU U AAUUCAUUAAU  G-----CAAACAAUACUUAACA---AACCUACAGGUCCUAAACUAUUAAACC-UGC  AUUAA--AAAUU UC
Taxon_7  AUAACAA AAUAAGACGA GAAGA CCCUAUGGAGCUU C AAUUAAUCAAC  CCAA---AAACCAUA-ACCUUA---AACCACCAAGGGAUAACAAAACCUUAUAUGG  GCUGA--CAAUU UC
Taxon_8  AUAUUAA UAUAAGACGA GAAGA CCCUGUGGAGCUU A AGAUUAAUAAC  UUAAAUAAAACUAG-UACAAAC-----CCUAG-GGAAUAACAUUAUUAUUAU-UAA  GUUAU--AUUCU UU
Taxon_9  AUAUUAA UACAAGACGA GAAGA CCCUGUGGAGCUU A AGAUUCAUAGU  CUAAUUCAAACAAU-UCUACCC---UACAUACAGGAACAAACACAGACCUAC-UAG  ACUAU--AACCU UU
Taxon_11 AUAACAA AAUAAGACGA GAAGA CCCUAUGGAGCUU C AAUUAAUCAAC  CCAA---AAAUCACA-ACCUUA---AACCACCAAGGGAUAACAAAAUUUUAUAUGG  GCUGA--CAAUU UC
Taxon_12 AUAACCU AACAAGACGA GAAGA CCCUAUGGAGCUU U AGUCUAUCAAU  -----GCAAACAACAUUCAAUA---AACCAACAGGUCAUAAAUUACCAAACC-UGC  AUCGA--AGACU UC
Taxon_13 AUGACAC AGCAAGACGA GAAGA CCCUAUGGAGCUU U AAUUUAUUAAU  GCAAACAGUACCUAACA--------AACCCACAGGUCCUAAACUACCAAACC-UGC  AUUAA--AAAUU UC
Taxon_15 AUAACAU AACAAGACGA GAAGA CCCUAUGGAGCUU C AAUCUACCAGU  GCAAAUAACAUAUAACA--------AGCCCACAGGCCCUAAUUCACCAAACC-UGC  ACUGA--AGAUU UC
Taxon_16 AUAACAU AGCAAGACGA GAAGA CCCUAUGGAGCUU U AAUUCAUUAAU  GCAAACAAUACUUAACA--------AACCCACAGGUCCUAAACUAUUAAACC-UGC  AUUAA--AAAUU UC
Taxon_18 AUAAGAA CAUAAGACGA GAAGA CCCUGUGGAGCUU U AAUUAAA-AGU  ---AACUUCUUCGAACAUUCAACUUAAG-----GGUGUAGCAUCUAA--AAAUUUU  ACUCAACUAGUU UC 
Taxon_10 AUGAAAC AAUAAGACGA GAAGA CCCCAUGGAGCUU C AAUUUACUAAU  GUAGCUAAGA-AUCGUAUAAA----UCCU--CGGACUCUAAAACUUCUAUGCCUAC  AUUAA--AAAUU UU

Cow       GGUUGGGGUGACC  UCGGAGAAUAAAAAA-UCCUCCGA  GCGAUUUUAAAGACUA GAC C--CACAA----- GUCAAA U----CACUCUA--UCGCUC- AUUGAUC CAA AAAC--- UUG AUCAACGGAAC
Taxon_1   GGUUGGGGUGACC  UCGGAGAACAAAACA-ACCUCCGA  --GUGAUUAAAUUCCA GAC U--UACUA----- GUCAAA AA----UAUUAC-AUCACUU- AUUGAUC CAA AUUA--- UUG AUCAACGGAAC
Taxon_2   GGUUGGGGCGACC  UCGGAGUAUAAUCUA-ACCUCCGA  --ACAACACAUGCCAA GAC U-UCACCA----- GUCAAA GC---GAGCUACCA-CAUUUA AUUGAUC CAA UGAC--- UUG ACCAACGGAAC
Taxon_3   GGUUGGGGUGACC  UCGGAGAACAAAACA-ACCUCCGA  --GUGAUUUAAAUCCA GAC U--AACCA----- GUCAAA AU----AUAUA--AUCACUU- AUUGAUC CAA ACCA--- UUG AUCAACGGAAC
Taxon_17  GGUUGGGGUGACC  UCGGAGUACAACAAA-ACCUCUGA  --AUGCAUAG--UAAU AAC UUA--CAA----- GUUUAA ACGCAAAA----CUGCCAGUA AUAGACC CAA AUUA--- UUG AUCAAAGGACC 
Taxon_4   GGUUGGGGUGACC  UCGGAGAACAAAACA-ACCUCCGA  --GUGAUUUAAAUCUA GAC U--AACCA----- GUCAAA AU----ACAUA--AUCACUU- AUUGAUC CAA ACCU--- UUG AUCAACGGAAC
Taxon_5   GGUUGGGGCGACC  UCGGAGCACAACCCA-ACCUCCGA  --GAAACACAUGUUAA GAC C-UCACAA----- GUCAAA AC---GAACUUCCA-CACACA AUUGAUC CAA CAAC--- UUG ACCAACGGAAC
Taxon_6   GGUUGGGGCGACC  UCGGAGCACAACCCA-ACCUCCGA  --GCAAUACAUGCUAA GAC C-UCACCA----- GUCAAA GC---GAAUUACUA-CAUCCA AUUGAUC CAA UGAC--- UUG ACCAACGGAAC
Taxon_7   GGUUGGGGUGACC  UCGGAGUACAAAAAA-CCCUCCGA  --GUGAUUAAAACUUA GGC C--CACUA----- GCCAAA GU-----A-CAAUAUCACUU- AUUGAUC CAA UCCU--- UUG AUCAACGGAAC
Taxon_8   GGUUGGGGUGACC  UCGGAGAACAAAAAA-ACCUCCGA  --AUGACAUA-ACCUA GAU U--AACUA----- AUCCAA GU---GCACAAAAG-CCAGUA AUUGACC CAA AUA---- UUG AUCAACGGAAC
Taxon_9   GGUUGGGGUGACC  UCGGAGCAUAAAAAA-ACCUCCGA  --AUGACUAA-GCCAA GAU U--CAUUA----- AUCUAA GC---GUAACACUA-CCAGUA AUUGACC CAU AUU---- UUG AUCAACAGAAC
Taxon_11  GGUUGGGGUGACC  UCGGAGCACAAAAAA-UCCUCCGA  --GUGAUUAAAACUUA GGC U--CACUA----- GCCAAA GU------GUAAUAUCACUU- AUUGAUC CAA UCUC--- UUG AUCAACGGAAC
Taxon_12  GGUUGGGGCGACC  UCGGAGCAUAGACUA-ACCUCCGA  --GCAGUAUAUGCUAA GAC C-ACACCA----- GUCAAA AC---GAAACUCCA-UGUGCA AUUGACC CAA UAAC--- UUG AUCAACGGAAC
Taxon_13  GGUUGGGGCGACC  UCGGAGCAGAACCCA-ACCUCCGA  --GCAGUACAUGCUAA GAC U-UCACCA----- GUCAAA GC---GAACUACUA-UACUCA AUUGAUC CAA UAAC--- UUG ACCAACGGAAC
Taxon_15  GGUUGGGGCGACC  UCGGAGUAUAACCCA-ACCUCCGA  --GAAACACAUGUUAA GAC U-UCACAA----- GUCAAA AC---AAACUUCCA-CACACA AUUGAUC CAA UAAC--- UUG ACCAACGGAAC
Taxon_16  GGUUGGGGCGACC  UCGGAGCACAACCCA-ACCUCCGA  --GCAACACAUGCUAA GAC C-UCACCA----- GUCAAA GC---GAAUUAUUA-CAUCCA AUUGAUC CAA UUAC--- UUG ACCAACGGAAC
Taxon_18  GGUUGGGGUGACC  UCGGAGAACAGUUAA-ACCUCCGA  --AUGAACAG--UAAA GAC C-U-ACAA----- GUCUAA ACGCAA---UACUG-CCAGUA AUAGACC CAU AUU---A UUG AUCAAAGGACC
Taxon_10  GGUUGGGGCGGCC  UCGGAGCACAAACAA-ACCUCCGA  --GUGAUCCACGCCAA GGC C-UCACAA----- GCCAAA GC--GAAC--UAAUAUUCACA AUUGACC CAA UAAU--- UUG AUCAACGGAAC 

Cow       AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCAAGAGUCCAUAUCGACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCUGAUGGUGCAACCGCUAUCAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_1   AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCUAGAGUCCAUAUCGACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCCAAUGGUGCAACCGCUAUUAAUGGUUCGUUUGUUCAACGAUUAAA
Taxon_2   AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCUAGAGUCCAUAUCAACAGU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCCGAUGGUGCAGCCGCUAUCAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_3   AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCCAGAGUCCAUAUCGACAAU-UAGGGUUUACG ACCUCGAUGUUGGAUCAAGACAUCCUAAUGGUGCAACCGCUAUUAAGGGUUCGUUUGUUCAACGAUUAAA
Taxon_17  AAGUUACCCCAGGG AUAACAG CGCAAUCCUAUUCAAGAGUUCAUAUCGACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCAAAUGGUGCAGCCGCUAUUAAUGGUUCGUUUGUUCAACGAUUAAA 
Taxon_4   AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCCAGAGUCCAUAUCGACAAU-UAGGGUUUACG ACCUCGAUGUUGGAUCAAGACAUCCUAAUGGUGCAACCGCUAUUAAGGGUUCGUUUGUUCAACGAUUAAA
Taxon_5   AAGUUACCCUAGGG AUAACAG CGCAAUCCUGUUCUAGAGUCCAUAUCAACAAC--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCUAAUGGUGCAGCCGCUAUUAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_6   AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCCAGAGUCCAUAUCAACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCCGAUGGUGCAGCCGCUAUUAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_7   AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCUAGAGUCCAUAUCGACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCUAAUGGUGCAGCUGCUAUUAAGGGUUCGUUUGUUCAACGAUUAAA
Taxon_8   AAGUUACCCCAGGG AUAACAG CGCAAUCCUAUUUAAGAGCCCAUAUCGAAAAUCUAGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCUAAUGGUGCAACCGCUAUUAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_9   AAGUUACCCCAGGG AUAACAG CGCAAUCCUAUUUAAGAGCCCAUAUCGACAAU-UAGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCAAAUGGUGCAGCCGCUAUUAAUGGUUCGUUUGUUCAACGAUUAAA
Taxon_11  AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCUAGAGUCCAUAUCGACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCUAAUGGUGCAGCCACUAUUAAGGGUUCGUUUGUUCAACGAUUAAA
Taxon_12  AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCUAGAGUCCAUAUCAACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCCGAUGGUGCAGCCGCUAUCAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_13  AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCUAGAGUCCAUAUCAACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCCGAUGGUGCAGCCGCUAUUAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_15  AAGUUACCCUAGGG AUAACAG CGCAAUCCUGUUCUAGAGUCCAUAUCAACGAC--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCCAAUGGUGCAGCCGCUAUUAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_16  AAGUUACCCUAGGG AUAACAG CGCAAUCCUAUUCCAGAGUCCAUAUCAACAAU--AGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCCGAUGGUGCAGCCGCUAUUAAAGGUUCGUUUGUUCAACGAUUAAA
Taxon_18  AAGUUACCCCAGGG AUAACAG CGCAAUCCCAUUCUAGAGUUCAUAUCGACAAU--GGGGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCAAAUGGUGCAGCAGCUAUUAAUGGUUCGUUUGUUCAACGAUUAAA 
Taxon_10  AAGUUACCCUGGGG AUAACAG CGCAAUUCUAUUCUAGAGUCCAUAUCAACAAU--AGAGUUUACG ACCUCGAUGUUGGAUCAGGACAUCCUAAUGGUGCAGCAGCUAUCAAGGGUUCGUUUGUUCAACGAUUAAA 


Cow      GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUAUU  -ACGUA  UUUCUCCCAGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_1  GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUAUU  -UAAUA  UUUCUCCCAGU-ACG-AAAGGAAAAGAAAAA [   * -]
Taxon_2  GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUAUU  -CCGUG  UUUCUCCCUGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_3  GUCUUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUAUU  -CUAUA  CUUUUCCCAGU-ACG-AAAGGACAAGAAAAG [   * -]
Taxon_17 GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUAUG  G-GUAA  UUUCUCCUAGU-ACGGAAAGGACCAGAGAAA 
Taxon_4  GUCUUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUAUU  -CUACA  CUUUUCCCAGU-ACG-AAAGGACAAGAAAAG [   * -]
Taxon_5  GUCCUACGUGAUCUGAGUUCA GACCGGAGCAAUCCAGGUC GGUUUCUAUCUAUU  -UCACA  UUUCUCCCUGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_6  GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUGUU  -CUAAA  UUUCUCCCUGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_7  GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUAUU  -ACGCA  UUUCUCCCAGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_8  GUCCUACGUGAUCUGAGUUCA GACCGGAGAAAUCCAGGUC GGUUUCUAUCUAUA  UAUUAA  UUUCUCCCAGU-ACG-AAAGGACCAGAGAAA [   * -]
Taxon_9  GUCCUACGUGAUCUGAGUUCA GACCGGAGAAAUCCAGGUC GGUUUCUAUCUGUA  CAUUAA  UUCCUCCCAGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_11 GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUAUU  -ACGCA  UUUCUCCUAGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_12 GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUGUU  -CUAUA  UUUCUCCCUGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_13 GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUACU  -UCAAA  UUCCUCCCUGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_15 GUCCUACGUGAUCUGAGUUCA GACCGGAGCAAUCCAGGUC GGUUUCUAUCUAUU  -UCACA  UUUCUCCCUGU-ACG-AAAGAACAAGAGAAA [   * -]
Taxon_16 GUCCUACGUGAUCUGAGUUCA GACCGGAGUAAUCCAGGUC GGUUUCUAUCUGUU  -CUAAA  UUUCUCCCUGU-ACG-AAAGGACAAGAGAAA [   * -]
Taxon_18 GUCCUACGUGAUCUGAGUUCA GACCGGAGCAAUCCAGGUC GGUUUCUAUCUAUG  -AGUUA  UUUCUCCCAGU-ACG-AAAGGACCAGAGAAA 
Taxon_10 GUCCUACGUGAUCUGAGUUCA GACCGGAGCAAUCCAGGUC GGUUUCUAUCUAUU  C-CACA  UUUCUCCCUGU-ACG-AAAGGACAAGAGAAA 

Cow      U AAGGCCAACUU UAAAUC- AAGCGCCUU  AAGA-CAACCAA  UGA UA-ACAUC UCA  A---------CUGACAACACAAAACCCU  GCCCUAGA-ACAGGGC UUACAAAAUGUU-CAUA-
Taxon_1  U AAGGCCCACUU CAUAA-- AAGCGCCUU  CAAACCAAUAGA  UGA UAUA-AUC UCA  AUCUAAUCAAUUUAUACACAAUUUU---  ACCCUAAA-CCAGGGU UC----------------
Taxon_2  C GAGGCCUACUU CACA--- AAGCGCCUC  -CCCC-CGUAAA  UGA UAC-UAUC UCA  AUUUAAU--AUAG--CGCCCACAUCU--  ACUCAAGA-AUAGGGU U-UGUUAAGAUGGCAGAG
Taxon_3  U AGGGCCCACUU UACAAG- AAGCGCCCU  CAAACUAAUAGA  UGA CAUA-AUC UAA  AUCUAACUAAUUUAUAACUUCUACC---  GCCCUAGA-ACAGGGC UC-GUUAGGGUGGCAGAG
Taxon_17 U CAGGCCAAUCU UAAA-A- AGAAGCCUC  CAACUUAACAAA  UGA UUUCAUCU CAA  UUUG------CCACGUUACCCUUACUAA  UCCUA-G--ACCAGGA AUUCU-------------
Taxon_4  U AGGGCCCACUU UAUAAG- AAGCGCCCU  CAAACUAAUAGA  UGA CAUA-AUC UAA  AUCUAACUAAUUUAUUAACCCCACC---  GCCCUAGA-ACAGGGC UC----------------
Taxon_5  U GGGGCCUACUU CACAU-- AAGCGCCUU  UCCCA-AACAAA  UGA UAU-CAUC UCA  AUUUAAC--ACCA--CACCAACACCC--  ACCCAAGA-AAAGGGC UAUGUUAAGAUGGCAGAG
Taxon_6  U GAGGCCUACUU CACA--- AAGCGCCUU  CCCCA-AU-AAA  UGA UAU-UAUC UCA  AUUUAGC--GCCA--UGCCAACACCC--  ACUCAAGA-ACAGAGU U-U---------------
Taxon_7  U AAGGCCAACUU CAAAC-- AAGCGCCUU  -CAAACAAUUAA  UGA CCUAG-UC UCA  ACUUAAU-AAUUAAGCGCAAACAAACCU  GCCCAAGA-CCAGGGC CUUGUUGAGGUGGCAGAG
Taxon_8  U AGGGCCAACAU UAUCU-- AUGCGCCCU  CAUAA-AAUUAA  UGA AAUAUAUC UAA  AUUAAAC-CAUUU--AAACUUUAUCC--  ACUCUAGA-UAAGAGC CCA-UUAAGGUGGCAGAG
Taxon_9  U AAGGCCUACAC UACACA- GUGAGCCUU  AGAAGCAAGAUA  UGA A-UAUAUC UAA  AUAUCCU-AAUUC--AAUCACUUCCC--  ACUCUAGA-AAAGAGA U-A-UUAAGGUGGCAGAG
Taxon_11 U AAGGCCAACUU CAAAC-- AAGCGCCUU  -CAAAUAAUUAA  UGA CCUAG-UC UCA  ACUUAAU-AACCAAGCGCAAACAAGUAU  GCCCAAGA-CCAGGGC CCU---------------
Taxon_12 U AGGGCCCACUU CGCA--- AAGCGCCCU  CCCUC-CUUGGA  UGA UAU-UAUC UCA  AUCCACAACAU-------GCCCAAACCC  GCUCAAGA-ACAGAGC CU----------------
Taxon_13 U AAGGCCUACUU CACA--- AAGCGCCUU  CCCCC-GU-AAA  UGA UAU-CAUC UCA  ACUUAGU--AUUA--UACCCACACCC--  ACCCAAGA-ACAGGGU U-UGUUAAGAUGGCAGAG
Taxon_15 U GGGGCCUACUU CACA--- AAGCGCCUU  UCCCA-AACAAA  UGA UAU-CAUC UCA  AUUUAAC--ACUA--CACCAACACCC--  ACCCAAGA-AAAGGGU U-U---------------
Taxon_16 U GGGGCCUACUU CACA--- AAGCGCCUC  CCCCA-AU-AAA  UGA UAU-UAUC UCA  AUUUAAC--ACCA--CACCUACACCC--  ACUCAAGA-ACAGAGU U-UGUUAAGAUGGCAGAG
Taxon_18 U CAGGCCAAUCU CACA-A- AGAAGCCUU  CUAUCUAACAAA  UGA UAUCAUCU UAA  UUUGU-U-CACACC-ACUC---------  UCUACA-A-UCCUAGA C------AAGGAGCCCG-
Taxon_10 U AAGGCCCACUU CACA--- AAGCGCCUU  CACCAUA-UAAA  UGA CUU-AGUC UUA  AUUUA---CCAAAAUAUUACACAC-CCU  ACCCGAGA-ACAGGGU UU----------------

[Note:  The symbols here represent multistate characters, one column for each of the unaligned regions from "charset unaligned". ]
[                       00000000011111111112222222222333333333344444]
[                       12345678901234567890123456789012345678901234]

Cow                   	*8*709517431840T3050582009407FG40031L017050*
Ahinoceros_unicornis  	519485710*63F1000J145497TF5670F325J705T43788
Gorilla_gorilla       	3973T5354T204016T*97107133T258E9*6*8E*51T6FE
Equus_caballus        	742F44*23783E4082G5*51367*ET714505F471884269
Platypus              	EE2E1TT195531533524G0T1L2C2*03*45EL745966*C0
Equus_asinus          	F21934623971C4091G5E53357EFT715105G4627T4278
Pongo_pygmaeus_a      	837TJ5254T21*01F9635107G30L819C*839336F3F8T6
Pan_troglodytes       	GT82*03546416026ET4C1089328158T89473T*619TJT
Talaenoptera          	95E5664053T3J4026F62855*18G43E260*11G9002325
Didelphis_virginiana  	T03097961892217*C5*T220E4G15440739C4J3**8092
Macropus_robustus     	0G1823T3210302258409674F9J333*1E7T46F4391147
Talaenoptera_musculus 	26T1784150E1G4027E21755T87J43E360*25CT005313
Gylobates             	6*6*C1244E11T01EF78836745669156812502785*T54
Gomo                  	3T76F22546215017*99J108232915T8F428897E1T83E
Pongo_pygmaeus        	825TL5854T21*04FJ8T6107J31C166JT87T817F1F8ET
Pan_paniscus          	4T82E03546417026E*9F4088347158709463*E619T*E
Echidna               	JF0E5E1182*13361437L096C6T0*72L2T8025522E9L1
Papio                	1742G*056T119054G183968335*7279G61E3884174GT

     

	;
End;
charset unaligned=92-101 131-136 234-240 299-304 325-340 413-418 494-500 665-669 695-702 762-768 773-789 820-822 920-962 967-972 1039-1047 1079-1085
1116-1160 1204-1217 1226-1231 1257-1269 1358-1360 1394-1400 1489-1493 1522-1551 1593-1597 1624-1642 1692-1754 1811-1816 1821-1827 1846-1861 1877-1921
1945-1953 1990-1996 2066-2070 2263-2318 2389-2394 2396-2401 2408-2428 2439-2445 2649-2654 2698-2704 2714-2725 2729-2736 2740-2767 2784-2801;
exclude unaligned; 
charset tRNA=1026-1098;
charset 16S=1099-2801 2818-2845;
outgroup Platypus Echidna;

exclude all;
include 16S;

[Note:  Lutzoni et al discuss a problem with INAASE, and we agree with them.  The problem is that some step matrices call for an extreme number of changes in order to move 
from one sequence to another.  Some of the step matrices call for up to 30 or more steps. Is it justified to put such a heavy weight on a region that is fast evolving
and ambiguously aligned, that could have come about from insertions and deletions of whole strings of nucleotides?  We think not.  We can say that 30 is too high.  But what 
about 29? 20? 15? 10? 3?  The cutoff is arbitrary.  So I said "3".]

BEGIN ASSUMPTIONS;



	USERTYPE Region#1 STEPMATRIX = 16
	[0 = AAAACUA]
	[1 = AACAU]
	[2 = ACAAA]
	[3 = ACCAC]
	[4 = ACCAU]
	[5 = ACCCAUAAC]
	[6 = ACCCGU]
	[7 = ACGUCUCUAC]
	[8 = ACUCU]
	[9 = AUAAA]
	[T = AUAAAUU]
	[* = AUUAA]
	[E = CUUAACA]
	[F = GCACUCUAC]
	[G = GCCAU]
	[J = UUAAGCA]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J 
	  [0]      .  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  2.00  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00
	  [2]   2.00  3.00     .  2.00  2.00  2.00  3.00  3.00  3.00  1.00  3.00  2.00  3.00  3.00  3.00  3.00
	  [3]   3.00  2.00  2.00     .  1.00  1.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00
	  [4]   3.00  1.00  2.00  1.00     .  2.00  2.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00  1.00  3.00
	  [5]   3.00  3.00  2.00  1.00  2.00     .  3.00  3.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  2.00  3.00     .  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  2.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  2.00  3.00  2.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   2.00  3.00  1.00  3.00  3.00  2.00  3.00  3.00  3.00     .  2.00  1.00  3.00  3.00  2.00  2.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00  3.00     .  2.00  3.00  2.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [G]   3.00  2.00  3.00  2.00  1.00  3.00  3.00  3.00  3.00  2.00  3.00  2.00  3.00  3.00     .  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#2 STEPMATRIX = 15
	[0 = AAA]
	[1 = AAUAAC]
	[2 = ACAA]
	[3 = ACAG]
	[4 = AGAA]
	[5 = AGCACU]
	[6 = AGUACU]
	[7 = CCAU]
	[8 = CCC]
	[9 = GAAA]
	[T = GCAA]
	[* = GUAA]
	[E = UAAA]
	[F = UAAC]
	[G = UAUA]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G 
	  [0]      .  2.00  1.00  2.00  1.00  3.00  3.00  3.00  3.00  1.00  2.00  2.00  1.00  2.00  2.00
	  [1]   2.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  1.00  3.00
	  [2]   1.00  3.00     .  1.00  1.00  3.00  3.00  2.00  3.00  2.00  1.00  2.00  2.00  2.00  3.00
	  [3]   2.00  3.00  1.00     .  2.00  3.00  3.00  2.00  3.00  3.00  2.00  3.00  3.00  2.00  3.00
	  [4]   1.00  3.00  1.00  2.00     .  3.00  3.00  3.00  3.00  2.00  2.00  2.00  2.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  2.00  2.00  3.00  3.00  3.00     .  2.00  3.00  2.00  3.00  3.00  3.00  2.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   1.00  3.00  2.00  3.00  2.00  3.00  3.00  3.00  3.00     .  1.00  1.00  1.00  2.00  2.00
	  [T]   2.00  3.00  1.00  2.00  2.00  3.00  3.00  2.00  3.00  1.00     .  1.00  2.00  3.00  3.00
	  [*]   2.00  3.00  2.00  3.00  2.00  3.00  3.00  3.00  3.00  1.00  1.00     .  2.00  2.00  2.00
	  [E]   1.00  2.00  2.00  3.00  2.00  3.00  3.00  3.00  3.00  1.00  2.00  2.00     .  1.00  1.00
	  [F]   2.00  1.00  2.00  2.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  2.00  1.00     .  2.00
	  [G]   2.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  2.00  3.00  2.00  1.00  2.00     .
;


	USERTYPE Region#3 STEPMATRIX = 13
	[0 = ACAA]
	[1 = ACUA]
	[2 = AUAA]
	[3 = CAUUA]
	[4 = CCA]
	[5 = CCACA]
	[6 = CCCA]
	[7 = CCCCA]
	[8 = CCUCA]
	[9 = GCA]
	[T = UAA]
	[* = UUA]
	[E = UUUAA]

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


	USERTYPE Region#4 STEPMATRIX = 14
	[0 = AAC]
	[1 = AACAC]
	[2 = AACC]
	[3 = AAUC]
	[4 = ACCUC]
	[5 = AGCAC]
	[6 = AGCC]
	[7 = AGUAC]
	[8 = CAAAC]
	[9 = CCCUCC]
	[T = GAUC]
	[* = GCCC]
	[E = UAAC]
	[F = UCUCC]

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


	USERTYPE Region#5 STEPMATRIX = 18
	[0 = ACCAUACCAAA]
	[1 = ACUUAAACUAA]
	[2 = CAAAACACACACAA]
	[3 = CCCAUACUAAAA]
	[4 = CUAAUACCAAAA]
	[5 = CUUUAAUCAA]
	[6 = GCCACAUGAAA]
	[7 = GUCUCAUAGAA]
	[8 = UAUAACCCCUAA]
	[9 = UAUAUACAAAAA]
	[T = UCAAUCCCCAA]
	[* = UCACCCCCCCA]
	[E = UCACCCCCCCCCCAA]
	[F = UCACCCCCUCCCCAA]
	[G = UCUAGUCCAA]
	[J = UUCUUUUUCUCCCCAA]
	[C = UUGCUCCCUAA]
	[L = UUUUUUUCCCCCCAA]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C     L 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  2.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  1.00  2.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00     .  1.00  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  2.00  1.00     .  3.00  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  2.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00
	  [L]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00     .
;


	USERTYPE Region#6 STEPMATRIX = 13
	[0 = ACACA]
	[1 = ACACC]
	[2 = ACAUA]
	[3 = ACCAU]
	[4 = AUACC]
	[5 = AUAUA]
	[6 = AUAUAA]
	[7 = AUAUC]
	[8 = AUAUGA]
	[9 = CAAUA]
	[T = GACUAA]
	[* = UAAUU]
	[E = UAAUUC]

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


	USERTYPE Region#7 STEPMATRIX = 12
	[0 = AAAAUA]
	[1 = AAACA]
	[2 = AAAUCA]
	[3 = AAAUUA]
	[4 = ACAAA]
	[5 = ACAUAA]
	[6 = CACCAUA]
	[7 = CUUCCCA]
	[8 = GAAUCA]
	[9 = UAACAA]
	[T = UAAUA]
	[* = UACCACA]

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


	USERTYPE Region#8 STEPMATRIX = 7
	[0 = AAA]
	[1 = AAAA]
	[2 = AAACA]
	[3 = AACA]
	[4 = GACAA]
	[5 = GAUGA]
	[6 = UAAA]

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


	USERTYPE Region#9 STEPMATRIX = 10
	[0 = AAGAC]
	[1 = ACAAC]
	[2 = CAACC]
	[3 = CCAAC]
	[4 = CCAC]
	[5 = CCUAC]
	[6 = CCUCCCCC]
	[7 = GAUAC]
	[8 = UCUUC]
	[9 = UUUUC]

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


	USERTYPE Region#10 STEPMATRIX = 13
	[0 = AAACUA]
	[1 = AAAUU]
	[2 = AACCU]
	[3 = AAGCUA]
	[4 = ACACCA]
	[5 = ACAUU]
	[6 = ACCCC]
	[7 = ACCCUA]
	[8 = ACUAU]
	[9 = ACUCUA]
	[T = ACUUC]
	[* = ACUUCA]
	[E = AUGCC]

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


	USERTYPE Region#11 STEPMATRIX = 13
	[0 = AACA]
	[1 = AACC]
	[2 = AACU]
	[3 = AAUCAAGC]
	[4 = AAUU]
	[5 = C]
	[6 = CAACAACUACCC]
	[7 = CAAGAACUCAACCC]
	[8 = CAAGAACUUUAACCC]
	[9 = CAUA]
	[T = CAUCCCCUAUACUC]
	[* = U]
	[E = UAUCCCUAUACA]

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


	USERTYPE Region#12 STEPMATRIX = 4
	[0 = A]
	[1 = C]
	[2 = CUU]
	[3 = U]

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


	USERTYPE Region#13 STEPMATRIX = 17
	[0 = AAACCUUGCAAAUAACUAAUAAAAAUAA]
	[1 = AACACAAACAUUCCUAAAAUCCCAAC]
	[2 = AAUCCAACAUACCUAAUACAAUUAUUC]
	[3 = ACACCCCAAUCCCUAAUACAAAA]
	[4 = ACUUCAAAGGACAUUUAACUAAAACCCCUACGCAUCU]
	[5 = ACUUCAAAGGACAUUUAACUAAAACCCCUACGCAUUU]
	[6 = ACUUCAAAGGAUACUUAACUUAAACCCCCUACGUAUUU]
	[7 = ACUUCAAAGGAUAUUUAACUUAAACCCCUACGCAUUU]
	[8 = AUUCAGUGCAUCUAACCCUAUUUAAACGCACUAGCU]
	[9 = AUUUAAGGAAUAACUUAACUAAAUGCCCUAACAUUU]
	[T = AUUUCAAGGAACCCCUAACUAAAUACUCCACGCAUCU]
	[* = AUUUCAGGGACUACCUAACUAAAACCCCCACGCAUCU]
	[E = CACAAAUCAUAACAUAACAUAAAACCGUGACCCAAAC]
	[F = CAUAAACCACAACACAACAUAUUAACGUACGUUGAAC]
	[G = CCCAGCUAAAGCCACAGUUCAUUAACUCAGGCCAAGCAACUU]
	[J = CCCAGCUAUAAACCCCAGUUCGUUAACUCAGGCCAAGCAAUU]
	[C = UACAAAUCACAAUAUUACACAAAACCAUGAUCCAAAC]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  1.00     .  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  2.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#14 STEPMATRIX = 6
	[0 = A]
	[1 = AA]
	[2 = AAA]
	[3 = AAACAA]
	[4 = GA]
	[5 = UUCAA]

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


	USERTYPE Region#15 STEPMATRIX = 8
	[0 = AAACA]
	[1 = AACACA]
	[2 = AACAUA]
	[3 = AACCCA]
	[4 = AAUACA]
	[5 = AAUAUA]
	[6 = AAUCCA]
	[7 = GAUUUAUUA]

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


	USERTYPE Region#16 STEPMATRIX = 14
	[0 = ACAAA]
	[1 = ACAU]
	[2 = AGCCC]
	[3 = AUCACA]
	[4 = CAUUGC]
	[5 = CUAAUC]
	[6 = CUCAAC]
	[7 = CUUAAC]
	[8 = UCAAA]
	[9 = UCAGA]
	[T = UCAUU]
	[* = UCUAAU]
	[E = UUAAC]
	[F = UUCAAC]

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

[16S]

	USERTYPE Region#17 STEPMATRIX = 17
	[0 = AAACAAAUCCUAACCCAACUACCACUAAGCCCACUUAAAC]
	[1 = AAACAAUACCCAACUCAACUACCCUUAGUCACUUAACU]
	[2 = AAACAAUACCUAAUUCAAUUACCCUUAGUCACUUAACU]
	[3 = AAAGAUACCCUCUCGACUAAACAACCAAGAUAGAAUAAAAC]
	[4 = AAAUCAACACAAUCAACCUAUGUAUUUCAACAAACU]
	[5 = AAAUUAAUCUUAAUACACAUAUAAACUCUAAUAAACU]
	[6 = ACACCCUCCCCACCUCUACUACCACAAAUCAAUCAAAU]
	[7 = ACCCCCACCCCCCUUUUACUACCAUAGACCAAUCAAAU]
	[8 = AUCCAACUAUCAAAUCAAAUAUCACAAACACCUAAUCU]
	[9 = CAAACCCAACCCACCCUACUACCAACCAACCCUAACC]
	[T = CAAACCCACCCCACAUUACUACCAAACAACUUUAAUC]
	[* = CAAACCCACUCCACCUUACUACCAGACAACCUUAGCC]
	[E = CAAACCCCCUCCACCCUACUACCAAACAACCUUAACC]
	[F = CAAAUCACCCCAACCCUACUAUCAAGUAACAUCAACC]
	[G = CAAGCACAACCAACACUAAUAUCAAACCCACAUGUAUACC]
	[J = CGAACCCAAUCCACCCUACUACCAAAUCAACCUUAACC]
	[C = UAAAAUCAUAUCAAAUUAACUAACUACUUUUUCAAUUU]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#18 STEPMATRIX = 16
	[0 = CUAAGUACG]
	[1 = CUUAACCUG]
	[2 = GAAAUUG]
	[3 = GAAUAACCG]
	[4 = GACUGACUCCAG]
	[5 = GAUAUAAUAG]
	[6 = UACAAUCCG]
	[7 = UACCAACCUG]
	[8 = UAUAAUCCG]
	[9 = UGAAACCUG]
	[T = UGUAAACCG]
	[* = UGUAAAUCG]
	[E = UUAAACAUCAGUG]
	[F = UUAAAUAUCAGUG]
	[G = UUUAACUUG]
	[J = UUUAAUCG]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  2.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  1.00  3.00     .  3.00  2.00  3.00  3.00  3.00  3.00  2.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00     .  1.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00     .  3.00  3.00  3.00  2.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  1.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00     .  3.00  3.00
	  [G]   3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  2.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  3.00  2.00  3.00  3.00  2.00     .
;


	USERTYPE Region#19 STEPMATRIX = 12
	[0 = ACGCA]
	[1 = GAAAA]
	[2 = GAAAU]
	[3 = GACAC]
	[4 = GACAU]
	[5 = GAGAA]
	[6 = GAGAU]
	[7 = GAUAA]
	[8 = GAUAC]
	[9 = GAUAU]
	[T = GAUGC]
	[* = GUUUAU]

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


	USERTYPE Region#20 STEPMATRIX = 18
	[0 = AAAAAAACUAAAA]
	[1 = AAAAACCCAAAA]
	[2 = AAAAACCUAAAA]
	[3 = AAACCACCCAA]
	[4 = AAAUUUUAAAA]
	[5 = AACACAACCAA]
	[6 = AACGAAACCAA]
	[7 = AAUAUAACCAA]
	[8 = ACACGACCAA]
	[9 = ACUAAUUAUAA]
	[T = AUAAAUUAUA]
	[* = AUGCAUUAAAA]
	[E = AUGUAUUAAAA]
	[F = AUUACACCCAA]
	[G = AUUAGCUUAAA]
	[J = AUUAUAACCAA]
	[C = AUUAUACCCAA]
	[L = AUUUCCCCAA]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C     L 
	  [0]      .  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   2.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  2.00  2.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  2.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00  2.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  2.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  1.00  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00     .  3.00  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  2.00  1.00  2.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00     .  1.00  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  2.00  3.00  3.00  3.00  1.00  3.00  1.00     .  2.00
	  [L]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  3.00  2.00     .
;


	USERTYPE Region#21 STEPMATRIX = 10
	[0 = AAA]
	[1 = AC]
	[2 = ACA]
	[3 = AG]
	[4 = AU]
	[5 = CA]
	[6 = CCU]
	[7 = CU]
	[8 = U]
	[9 = UU]

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


	USERTYPE Region#22 STEPMATRIX = 11
	[0 = AAAAG]
	[1 = ACAAAUG]
	[2 = ACUAAUG]
	[3 = AUAAAG]
	[4 = CAAAA]
	[5 = CCUAG]
	[6 = GAAAG]
	[7 = GACAG]
	[8 = UACCAAG]
	[9 = UAUCAG]
	[T = UAUUAG]

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


	USERTYPE Region#23 STEPMATRIX = 10
	[0 = AAAA]
	[1 = AAAAC]
	[2 = AAAAU]
	[3 = AAACA]
	[4 = AAUAU]
	[5 = GAAAA]
	[6 = GAAAU]
	[7 = GACA]
	[8 = GAUA]
	[9 = GUCA]

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


	USERTYPE Region#24 STEPMATRIX = 18
	[0 = CAAAAAUUCAAAUAAACCCCACU]
	[1 = CCACAGAACCCUCCAAAUCCUCCC]
	[2 = CCACAGAACCCUCUAAAUCCCCUU]
	[3 = CCACAGAAUAACCCAAUCCCAAUCCCUCU]
	[4 = CCGUAGAACCCCUAAAUCUUCUU]
	[5 = CUAAAAACCACUUAAUUCUAAU]
	[6 = CUAAAAACUACUCAAUUCUAAU]
	[7 = CUAAAAGCCCCAACAACUCUAAU]
	[8 = CUACAGAACCCUCUAAAUCCCCCU]
	[9 = CUACAGAACCCUCUAAAUCCCCUU]
	[T = UAAAAGCCAUGCCAAGCCUUGAC]
	[* = UAAAAGCCCAUGCCAAGCCUUAAC]
	[E = UACAAUGCCUAUUCAAAGCACACA]
	[F = UUAAAUUACCAACAAACUUAAC]
	[G = UUACAGAACCCCUAAUCCCCUC]
	[J = UUACAGAGUCCCUAAUCCCCUC]
	[C = UUCCCUAGCACCCUAUAUGACUC]
	[L = UUCCUGAUAUACUAUAUUAACC]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C     L 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  2.00  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  1.00  3.00  3.00  3.00  3.00  3.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  2.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  2.00  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00
	  [L]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#25 STEPMATRIX = 11
	[0 = AAC]
	[1 = AAU]
	[2 = AUAA]
	[3 = CACUA]
	[4 = CCAA]
	[5 = CUCUA]
	[6 = GUAA]
	[7 = UACA]
	[8 = UAU]
	[9 = UCAU]
	[T = UUCA]

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


	USERTYPE Region#26 STEPMATRIX = 17
	[0 = AAAACACAACAC]
	[1 = AAAACACAGCAC]
	[2 = AAAAUUUAACAC]
	[3 = AAAAUUUAAUAC]
	[4 = AAAAUUUAAUGC]
	[5 = AAACCCCCGUCA]
	[6 = AAAGUGUAAACC]
	[7 = AACCAAACAUACA]
	[8 = AAUCAAACAUAA]
	[9 = AAUUUAACACUA]
	[T = CUCUUACCACGU]
	[* = GAACAAGAUAAAC]
	[E = GAAUAAGAUUAAUC]
	[F = GAUCAGAAUUAC]
	[G = UAAUUAAUAAUCC]
	[J = UGAAUACUAAGAA]
	[C = UUUAUUCUUAUUU]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C 
	  [0]      .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  1.00  2.00  3.00  3.00  3.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  1.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  2.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#27 STEPMATRIX = 18
	[0 = AAACCCAACCCUUUUCUCUAAUUCCACAAUAUCUCAACUACCCCUAAAUCAAUA]
	[1 = AAACUCACAUUCCAAUUUAAUACCAUAAAAAAACUAAAACCCCUAAAAUACUA]
	[2 = AAACUUCAUUCUUUCUUAAUCCCUUAACUUCUUAACUACCCCUAAAAUAAUA]
	[3 = AAAUGUAUUAACAGACCUUAAUCCCAAUAAUAUUAUCAAAAUCCCUAACAUAGACUA]
	[4 = AACAACAAAAAUUAAAUAGAUUCCAACAACAAAUGAUUAACUCCUAGCCCCAAUA]
	[5 = AACAACACAACUACCUUAAUUCCAACAAUAAUUAACCAACUCCUAACUUAAUA]
	[6 = AACACCACCUAUCCAACAAAUCCCAAACACACAACUGAACUCCUUCCACCACA]
	[7 = AACACCCACAACCUCAAAAAAUCCCAAGCAUACAAGCGAACUCCUUACGCUCAA]
	[8 = AACACCCACAACCUUAAAGAUCCCAAACAUACAACCGAACUCCUUACACCCAA]
	[9 = AACACCCACUACCUAAAAAAUCCCAAACAUAUAACUGAACUCCUCACACCCAA]
	[T = AACACUAUCACCCAAAAUAAUCCCAAACACACAACUGAACUCCCUACACCCAA]
	[* = AACAUUAACCACCUAAAAAAUCCCAAACAUACUAUUGAACUCCUUAAAUCACA]
	[E = AACGACACAUCUAUCUUAAUCCCAACAAUCAACCCAAACUAACUCCUAAUCUCAUA]
	[F = AACGUCACACAUAUCUUAAUCCCAAUAAUAGACUCAGACUAACUCCUAAUCUUAUA]
	[G = GACAACAAAAUAAUGUUUUAAUUCCAACAUUAAGUAAAUCAACUCCUAGCCUGACUA]
	[J = GACAAUAAAACAAUGUUUUAAUUCCAACAUUAGACAAAUCAACUCCUAGCAUGAUUA]
	[C = GACACCCAAACACCAAAAAAUACCAAACAUAAGACUGAACUCCUUACUCCCAA]
	[L = GACACCUAAACACCAAAAAAUACCAAACACAAAACUGAACUCCUUACUCCCCA]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C     L 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00
	  [L]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#28 STEPMATRIX = 12
	[0 = AAAUU]
	[1 = AACA]
	[2 = ACCA]
	[3 = AUAU]
	[4 = AUUU]
	[5 = CCCCG]
	[6 = CUAU]
	[7 = CUCUCU]
	[8 = GAUA]
	[9 = UAACA]
	[T = UUAU]
	[* = UUUA]

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


	USERTYPE Region#29 STEPMATRIX = 8
	[0 = CCAU]
	[1 = CCCCC]
	[2 = CCCUACU]
	[3 = CCUA]
	[4 = CCUC]
	[5 = CCUCC]
	[6 = CCUCU]
	[7 = CCUU]

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


	USERTYPE Region#30 STEPMATRIX = 14
	[0 = AACGAAUAACCA]
	[1 = AACGAAUACUCA]
	[2 = AACGGAACAACCA]
	[3 = AACGGAGCAUCCA]
	[4 = AAUAACGGAUAUCCCA]
	[5 = ACCAAAAAACUUCG]
	[6 = ACCAAAACAUCACA]
	[7 = ACCAAAACCCCA]
	[8 = ACCAAAAUAUUAAA]
	[9 = ACCGAAACAUCACA]
	[T = AUCAAAACACUGAA]
	[* = CAACGGAAUACCCA]
	[E = UAACUGAUAAUAUA]
	[F = UGCCUGAUAAUACU]

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


	USERTYPE Region#31 STEPMATRIX = 18
	[0 = AAACAUAAUAACAUUCAUCAACCAGCCUCUUAUACAAAAUU]
	[1 = AUCAAUAAUCCUAACCAAAUAACUAGUAAAAUUCUUACAACUA]
	[2 = CAAAUAAAUAAAACCCAACACUAAAUUAUUUAUUAAAAUA]
	[3 = CAAAUAAAUAAAAUCUAACACUAGACUAUUUAUUAAGACA]
	[4 = CAAGAUAGGGAUAAUCCAAAAACUAAUCAUCUAUUUAAACCA]
	[5 = CAGAAUAGACACAAUCCAAAAACUAACCAUCUAUUUAGACUA]
	[6 = CCCAAUAUCUAAAACCAACUGAUAAACCAUUAUUGCCCACA]
	[7 = CCCAAUAUCUACAAUCAACCAACAAGCCGUUAUUACCCCCA]
	[8 = CCCAAUAUCUACAAUCAACCAACAAGUCAUUAUUACCCUCA]
	[9 = CCCAGUACUAACAAACUCAAACAAGUCCAUACUACUCUUA]
	[T = CCUAAUAUCUACAAUCAACCAACAAGCCAUUAUUACCCCCG]
	[* = CUAAAUAAUCAUAAAUAUUAACUAGAAACAUUAUUUUAUAAA]
	[E = CUCAAUAUCUACAACUAACCAACAAGCUAUUAUUACCCCCA]
	[F = UAAGAUAAACACAAUCCAACAACAAACUACCUAUCAAAUCAA]
	[G = UCAAUAAAAAUAAUCCAACAAUAAACAAUUUAUUGAUUAUA]
	[J = UCCAAUAUGCAUAAUUAACAAAUAAACUACUAUUACCCCCA]
	[C = UCCAAUAUGCAUAGUUAACAAAUAAACUAUUAUUUUUUCCCC]
	[L = UUAAAUAAUUAAAACUAUAAACAAGAGCCAUUAUUUUU]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C     L 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00
	  [L]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#32 STEPMATRIX = 15
	[0 = ACACA]
	[1 = ACCCAUA]
	[2 = ACUAA]
	[3 = ACUUCAA]
	[4 = AUCUA]
	[5 = AUCUAUA]
	[6 = AUUA]
	[7 = AUUAA]
	[8 = CCACA]
	[9 = CCACG]
	[T = CCAUC]
	[* = CUAUA]
	[E = UAAC]
	[F = UCAUA]
	[G = UUUUA]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G 
	  [0]      .  2.00  2.00  3.00  3.00  3.00  3.00  3.00  1.00  2.00  3.00  3.00  3.00  2.00  3.00
	  [1]   2.00     .  3.00  3.00  2.00  2.00  2.00  3.00  2.00  3.00  2.00  2.00  3.00  2.00  3.00
	  [2]   2.00  3.00     .  1.00  2.00  3.00  2.00  1.00  3.00  3.00  3.00  2.00  3.00  3.00  3.00
	  [3]   3.00  3.00  1.00     .  2.00  3.00  2.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  2.00  2.00  2.00     .  1.00  1.00  2.00  3.00  3.00  3.00  2.00  3.00  3.00  2.00
	  [5]   3.00  2.00  3.00  3.00  1.00     .  1.00  3.00  3.00  3.00  3.00  1.00  3.00  3.00  3.00
	  [6]   3.00  2.00  2.00  2.00  1.00  1.00     .  1.00  3.00  3.00  3.00  2.00  3.00  3.00  2.00
	  [7]   3.00  3.00  1.00  2.00  2.00  3.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  2.00
	  [8]   1.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00     .  1.00  2.00  2.00  3.00  2.00  3.00
	  [9]   2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00     .  2.00  3.00  3.00  3.00  3.00
	  [T]   3.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  2.00     .  2.00  3.00  2.00  3.00
	  [*]   3.00  2.00  2.00  3.00  2.00  1.00  2.00  3.00  2.00  3.00  2.00     .  3.00  2.00  2.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [F]   2.00  2.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00  2.00  2.00  3.00     .  2.00
	  [G]   3.00  3.00  3.00  3.00  2.00  3.00  2.00  2.00  3.00  3.00  3.00  2.00  3.00  2.00     .
;


	USERTYPE Region#33 STEPMATRIX = 12
	[0 = CACAA]
	[1 = CACU]
	[2 = CAUAA]
	[3 = CAUGA]
	[4 = CCUU]
	[5 = CUAGG]
	[6 = CUUA]
	[7 = UACAA]
	[8 = UCUC]
	[9 = UCUU]
	[T = UUAGG]
	[* = UUUU]

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


	USERTYPE Region#34 STEPMATRIX = 13
	[0 = AACU]
	[1 = ACAC]
	[2 = ACAU]
	[3 = AUAC]
	[4 = AUAU]
	[5 = AUCU]
	[6 = AUGC]
	[7 = AUGU]
	[8 = AUU]
	[9 = UAAAC]
	[T = UAACA]
	[* = UAAUC]
	[E = UCU]

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


	USERTYPE Region#35 STEPMATRIX = 18
	[0 = AACUUCUUCGAACAUUCAACUUAAGGGUGUAGCAUCUAAAAAUUUU]
	[1 = CCAAAAACCAUAACCUUAAACCACCAAGGGAUAACAAAACCUUAUAUGG]
	[2 = CCAAAAAUCACAACCUUAAACCACCAAGGGAUAACAAAAUUUUAUAUGG]
	[3 = CCAAAGAGAAUAGAUUUAACCAUUAAGGAAUAACAACAAUCUCCAUGA]
	[4 = CUAAUUCAAACAAUUCUACCCUACAUACAGGAACAAACACAGACCUACUAG]
	[5 = GCAAACAACAUUCAAUAAACCAACAGGUCAUAAAUUACCAAACCUGC]
	[6 = GCAAACAAUACUUAACAAACCCACAGGUCCUAAACUAUUAAACCUGC]
	[7 = GCAAACAAUACUUAACAAACCUACAGGUCCUAAACUAUUAAACCUGC]
	[8 = GCAAACAGUACCUAACAAACCCACAGGUCCUAAACUACCAAACCUGC]
	[9 = GCAAAUAACAUACAACAAGCCCACAGGCCCUAAAUCACCAAACCUGC]
	[T = GCAAAUAACAUAUAACAAGCCCACAGGCCCUAAUUCACCAAACCUGC]
	[* = GCAAGCAACACUUAAUAAACCCACAGGUCCUAAACUACCAAACCUGC]
	[E = GUAGCUAAGAAUCGUAUAAAUCCUCGGACUCUAAAACUUCUAUGCCUAC]
	[F = UCACAAAAAACAACACACAAACCUUAACCUUCAGGGACAACAAAACUUUUGAUUGA]
	[G = UCACAAAAAACAACAUACAAACCUAACCCUCAGGGACAACAAAACUUUUGAUUGA]
	[J = UCACAAAAUAAAAUCUUCAACCUACAUAUAAGGGAUAACAAAAUUUUAACUGA]
	[C = UUAAAUAAAACUAGUACAAACCCUAGGGAAUAACAUUAUUAUUAUUAA]
	[L = UUUAUUCUUUUUCAUACAGACCCAAAAGCUCAACACCUUAAGAAUUU]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C     L 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  2.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00
	  [L]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#36 STEPMATRIX = 9
	[0 = CACACA]
	[1 = CCACA]
	[2 = CUACA]
	[3 = CUCACA]
	[4 = UAACA]
	[5 = UCACA]
	[6 = UCAUA]
	[7 = UUACA]
	[8 = UUCACA]

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


	USERTYPE Region#37 STEPMATRIX = 18
	[0 = AAUAUUACAUCACUU]
	[1 = ACAAACUUCCACACACA]
	[2 = ACGAAACUCCAUGUGCA]
	[3 = ACGAACUUCCACACACA]
	[4 = ACGCAAAACUGCCAGUA]
	[5 = ACGCAAUACUGCCAGUA]
	[6 = AUACAUAAUCACUU]
	[7 = AUAUAUAAUCACUU]
	[8 = GCGAACUAAUAUUCACA]
	[9 = GCGAACUACUAUACUCA]
	[T = GCGAAUUACUACAUCCA]
	[* = GCGAAUUAUUACAUCCA]
	[E = GCGAGCUACCACAUUUA]
	[F = GCGUAACACUACCAGUA]
	[G = GUACAAUAUCACUU]
	[J = GUGCACAAAAGCCAGUA]
	[C = GUGUAAUAUCACUU]
	[L = UCACUCUAUCGCUC]

	          0     1     2     3     4     5     6     7     8     9     T     *     E     F     G     J     C     L 
	  [0]      .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [1]   3.00     .  3.00  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [2]   3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [3]   3.00  1.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [4]   3.00  3.00  3.00  3.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [5]   3.00  3.00  3.00  3.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [6]   3.00  3.00  3.00  3.00  3.00  3.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [7]   3.00  3.00  3.00  3.00  3.00  3.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [8]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [9]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [T]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  1.00  3.00  3.00  3.00  3.00  3.00  3.00
	  [*]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  1.00     .  3.00  3.00  3.00  3.00  3.00  3.00
	  [E]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00  3.00
	  [F]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00  3.00  3.00
	  [G]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  2.00  3.00
	  [J]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .  3.00  3.00
	  [C]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  2.00  3.00     .  3.00
	  [L]   3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00  3.00     .
;


	USERTYPE Region#38 STEPMATRIX = 13
	[0 = AAAC]
	[1 = ACCA]
	[2 = ACCU]
	[3 = AUA]
	[4 = AUU]
	[5 = AUUA]
	[6 = CAAC]
	[7 = UAAC]
	[8 = UAAU]
	[9 = UCCU]
	[T = UCUC]
	[* = UGAC]
	[E = UUAC]

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


	USERTYPE Region#39 STEPMATRIX = 14
	[0 = ACGCA]
	[1 = ACGUA]
	[2 = AGUUA]
	[3 = CAUUAA]
	[4 = CCACA]
	[5 = CCGUG]
	[6 = CUAAA]
	[7 = CUACA]
	[8 = CUAUA]
	[9 = GGUAA]
	[T = UAAUA]
	[* = UAUUAA]
	[E = UCAAA]
	[F = UCACA]

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


	USERTYPE Region#40 STEPMATRIX = 12
	[0 = CAAAC]
	[1 = CACA]
	[2 = CACAA]
	[3 = CACAU]
	[4 = CAUAA]
	[5 = CGCA]
	[6 = UAAAA]
	[7 = UAAAUC]
	[8 = UACAAG]
	[9 = UACACA]
	[T = UAUAAG]
	[* = UAUCU]

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


	USERTYPE Region#41 STEPMATRIX = 14
	[0 = AAGACAACCAA]
	[1 = AGAAGCAAGAUA]
	[2 = CAAACAAUUAA]
	[3 = CAA