#NEXUS
[Triticeae, 5S sequences, long locus, 570 chars, with polymorphisms; 10/92]
begin data;
		dimensions ntax=13 nchar=1100;
		format datatype=dna interleave missing=- equate="1={A-} 2={C-} 3={G-} 4={T-}";
		matrix
Aeg_sears	-TTTTTAA-TTATTTTTTG-CGCCTCG-TGACAAACATATCGCACGTGCGCGA-----TATATATT-AACCCCGTTATATTATTT-TTGACGTTTGCGATATG-TT
Aeg_shar	-TTTTTAA-TTATTTTTTG-CGCCTCG-TGACAAACATATCACACGTGCGCGA-----TATATATT-AACCCCGTTATATTATTT-GTGACGTTTGTGATATG-TT
Aeg_tau		-TTTTTAA-TTAKTTTTTG2CGCCTCG-TGACAAACATATCGCATGTGCGCGA-----TATATATT-AACCCCGTYATATTATTT-TTGAYATTTGCGATATG-TT
Aeg_umb		-TTTTTAA-TTATTTTTTG-CGCCTAG-TGACAAACATATCGCACGTGCGCGG-----TATATATT-AACCCCGTTATATTATTT-TTGACRTTYGCGATATG-TT
Aust_vel	4TTTTTMA-TTTTTTT4-VYGR-CTCG-TGACAAACAKAACRCACGTGCGCGA-----TATATATY-AACAGWGTTATC-TTATTTTTGACGTATGCGATATGTTT
Pse_spic	TTTTTTAATTTTTTTTTTG-CGACTCA-TGACAAACAAAACGCACGTGCGCGA-----TATATATT-AACCCTGTTATATTATTT-TTGACGTTTGCGATATG-TT
Sec_cer		-TTTTTAAWTTTTTTTT4G-CGTGTCG-TGAGAAACRAAATGCACGTGCGTGA-----TATATATT-AACCT2GTTATATYATTTATTGACGTTTGCGATAT--TT
Sec_mon		-TTTTTAA-TTTTTTTT4G-CGTGTCG-TGAGAAACAAAATGTACGTGCGTGA-----TATATATT3AACCYCGTTATATTATTTATTGACGTTTGCGATAT--TT
Sec_syl		-TTTTTAA-TATTTTTTTGCCGTGTCCGTGAGAAACAAAATGCACGTGCGTGATA---TATATATT-AACCCCGTTATATTATTTA4431234TTGCGATA-3-KK
Sec_vav		-TTTTTAAWTTTTTTTT-G-CGTGTCG-TGAGAAACAAAATGCACGTGCGTGA-----TATATATT-AACCTCGTTATATYATTTATTGACGTTTGCGATAT--TT
Thino_el	-TTTTTAA-TTATTTTTTG-CGCCTCG-TGACAAACATGTCGCACGTGCGTGA-----TATATATT-AACCCCGCTGTATTCTTT-TTGACATTTCCTATATG-TT
Trit_mon	-TTTTTAA-TTATTTTTTG-TACGTACATGAGGAACAGAACGCACGTGCGTGA-----TATATATT-AAGCCTGTCATCATATTT-TTAACATTTGCGATATGTTT
Trit_mon2	-TTTTTAA-TTATTTTT-G-TACGTACGTGAGGAACAGAACGCACGTGCGTGA-----TATATATT-AAGCCTGTCATCATATTT-TTGACATTTGCGATATGTTT

Aeg_sears	TTAGCTCGCTGCTCA-TTGGTCACGC-GTCTAGAGGCG-GCTTTG---TGGCAC-G-AGG----AGCGCG-TT-C-TGAAA-GGGGTGAAAAAA-TA-------------CG-TGTTGC--T
Aeg_shar	TTAGCTCGCTGCTCA-TTGGTCACGC-GTCTAGAGGCG-GCTTTG---TGGCAC-G-AGG----AGCGCG-TT-T-TGAAA-GGGGTGAAAAAA-TA-------------CG-TGTTGG--T
Aeg_tau		TTAGCTCGYTGCTCA-TTGGTCAMGC-GTCTAGAGGYG-GCTTTG---TGGCGY4G-ASG----A3CGCS-TY-C-TGWAA-GGGRT-AAAAAA1TA-------------CG1TGTTGC21T
Aeg_umb		TTAGCTCGCTGCTCA-TTGGTCACGC-GCCTAGAGGCG-GCTTGG---TGGCGC-G-AGG----ARCGCG-TT-C-TGAAA-GGGATGAAAAAA-TA-------------CG-TGTTGC--T
Aust_vel	-TAGCTCKYTGCTCA-TTASTCACGC-RTCTAGGRGCR-SSGTWG---TGGCG-MGAAWA-----32GCG-TT-C-TCAAAGGGG-TGR--AAAATA-------------CG-TGTTAA--C
Pse_spic	TAAGCTCGCTGCTCA-TTACTCACGCACTCTAGGGGCG-GCGTTG---TGGCGC-GAAA-----AGCG---TT-C-TCAAA--GGGTGGAAAA--TA-------------CG-TGTTGC--C
Sec_cer		TTAGCTCGCTGMTCA-TAACTCACGC-GTGTAGGGGCG-GCGTTG---TGACGC-G-AAA----AGCGCG-TT-C-TGAGAAGGGA-GG--AAAATA-------------CG-TGYTGC--T
Sec_mon		TTAGCTCGCTGCTCA3TAACTCACGC-GTGTAGGG23S-GCGTTG---TGACGC-G-AAA----AGCGCG-TT-C-TGAGAAGGGA-GG--AAAAWA-------------CG-YGTTGC--T
Sec_syl		KWRGCTCGCTGCTCA-TAACTCACGC-GTGTA3GGGCG-TCGTTG---TGACGC-G-AAA----AGCGCG1TT-C-TGAGAAGG-A-G---AAAATA-------------CG-CGTTGC--T
Sec_vav		TTAGCTCGCTGMTCA-TAACTCACGC-GYGTAGGGGCG-GCGTTG---TGACGC-G-AAA----AGCGYG-TT-C-TGAGAAGGGA-GG--AAAATA-------------CG-TGTTGC--T
Thino_el	TTAGCTCGCTGCTCA-TTGCTCACGC-GTCTAGGGGCG-GCCTTG---TGGCGC-G-AAG----AGCGC-ATTGC-TGAAAGGGG-TG-AAAAAATA-------------CG-TCTTGC--T
Trit_mon	TTAGCTCGGAGCTCA-TTAGTCACGC-GTCTAGGGAGA-G--TTG---GGGCGC-G-AAA----AGCG---TT-C-TGAAAGGGG-TGT--AAAATA-------------CGGTGTTGC--T
Trit_mon2	-TAGCTCGGAGCTCA-TTAGTCACGC-GTCTAGGGAGA-G--TTG----GGCGC-G-AAA----AGCGCG-TT-C-TAGAAAGGGGTGT--AAAATA-------------CG-TGTTGC--T

Aeg_sears	-GTGGTATAG-AGGGA-GG-GGTAGAAACCGTGGTAAACTCGTCT-CCGTGTTTGA--G-GGGCAGAGTAAGTAGTATATACAGGGCA-TTATCC--ATTATTA-GGCAACGGTTG
Aeg_shar	-GTGGTATAG-AGGGA-GG-GGTGGAAACCGTGGTAAACTCGTCT-CCGTGTTTGA--G-GGGGAGAGTAAGTAGTATATATAGGGCA-TTATCC--ATTATTA-GGCAACGGTTG
Aeg_tau		-GYGGTATAG-AGGGAR-G-GGTGGAAACCGTGGTAAACTCGTCT-YCGTGTTTGA3GG3GGGGGGAGTAAGTAGTATATATAGGGCA-TTATCC--ATTATTA-GGCWRMGGTTG
Aeg_umb		-GCGGYATAG-AGGGA-GG-GGTGGAAACCGTGGTAAACCMGTTT3CYGTGTTTGA--GGGGG2AGAGTAA3TASTATATATAGGGCA-TTATCC--ATTATTA-GGCAACGGTTG
Aust_vel	-RCKGTATAG-AGGYA-GG-GGTGGAAACCGTGGTAAMCTCGTCT-TCGTAKTTGA--G-TGGGAGARTAAGTGG----TRTAGGGCA-TTGTCC--ATTAYTA-GGCAACGGTTG
Pse_spic	-GCGGTATAG-AGGGA--G-GGTGGAAACCGTGGTAAAGTCGTCT-CCGTAGTTGA--G-CGGGAGAGTAAGTAG----CATAGGACACTTATCC--ATTGTTA-GGCCAAGGTTG
Sec_cer		-GCGGTATAG3AGGGA-GG-GGTGGAAACCGTGGTAAACTCGTCT-CCGTAGCTGR--G-MGGGAGAGTGAGTAG----TATAGGGCA-TTAGCC--ATTATTA-GGCAACGGTCG
Sec_mon		-GC3GTATAG-AGGGA-GG-GGTGGAAACCGTGRTAAACTCGTCT-CCGTAGYTGA--G-CGGGAGRGTGAGTAG----TATAGGGCA-TTAGCC--ATTATTA-GGCAACGGTCG
Sec_syl		-GC3GTATAG-AGGGA-GG-GGT-GAAACCGTGATAAACTCGTCT-CCGTA34TGA--G-CGGGAGAGCGAGTAG----TATAGGGCA-TTGGCC--ATTATTA-GGCAACGGTCG
Sec_vav		-GCGGTATAG-AGGGA-GG-GGTGGAAACCGTGGTAAACTCGTCT-CCGTAGCTGA--G-CGGGAGAGTGRGTAG----TATAGGGCA-TTAGCC--ATTATTA-GGCAACGGTCG
Thino_el	-GCTGTATAG-AGGGA-GG-GGTAGAAACCGTGGTAAACTCGTCC-CCGTGTTTGA--G-CGGGACATTAAGTAG----TATAG-CGA-TTATCC--ATTATTA-GGCAACGGTTG
Trit_mon	-GCGGTATAG-AGGGA-GG-GGTGGAAATCATGGTAAACTCGTCT-TCGTAGTTGA--G-CGAGAGAGTAAGTAG----TATAGGGCA-TTATCC--ATTAGTA-GGCGACGGT-G
Trit_mon2	-GTGGTGTAG-AGGGA-GG-GGTGGAAATCGTGGTAAACTCGTCT-TCGTAGTTGA--G-CGAGAG--TAAGTAG----TATAGGGCA-TTATCCCCATTAGTA-GGGGACGGTTG

Aeg_sears	TAA-TGGTAGTAA----GAA-TG-ACAA-TCATCTTTGCAGTGGA-CCTGGGA-GTGGCAAGCA-TAAGGGA-CG--CAGGCGGGGGTAACA-TGTCGGA-TGC-GATCAT-A
Aeg_shar	TAA-TGGTAGTAA----TAA-TG-ACA-TTCATCCTTGTAGTGGA-CCTGGGA-GTGGCAAGCA-TAAGGGA-CG--CAGGCGGGGGTAACA-TGTCGGA-TGC-GATCAT-A
Aeg_tau		TAA-TGGTAGTAA----GAA-TK-ACAA-TCATCTTTGYAGTGGA3CCT3GGA-GTGGCAAGCA-TAAGGGA3CG--AAGGCGGGSGTAACA-TGTCGGA3TGC1GATCAT-A
Aeg_umb		TAA2TGGTAGTAA----GAA2TG-ACAA2TCATCTCTGCAGTGGA-CCTGGGA-GTGGCAAGCA-TAAGGGA-SG11AAGGSGGAGGTAACA2TGTCGGA-KGY-GATCAT-A
Aust_vel	TAA-YGATAGTAA----GAA-TGTACAAT-CGTCWTTCTCGTGGA-MCTSGGA-GTGRCAAGCA-TAAGKRG-CG--AAGGCGGGKGTAACA-TGTYGGA-TGC-GATCAT-A
Pse_spic	TCA-TGGTAGTAA----GAA-TGTACAA-TCGTCATTGTTGTGG--CCTAGGAAGTGGCAAG-AATAAGGAA-CG--AAG-GGGGGGTAACA-TGTCGGA-TGC-GATCAT-A
Sec_cer		TGAA-GGTGGCAA----GAG-TGTAATAC-CGTCTTCGTACTGGA-CCTGGGA-GTGGCAAGCA-TAAGGSA-CG-1AAGGCAGGGGTAACA-TGTCGGA-TGC-GATCAT-A
Sec_mon		TGAA-GGTRGYAA----GAG-TGTAATAC-SGTCTTCGTACTGGA-CCTGGGA-GTGGCAAGCA-TAAGGGA-CG--AAGGCAGGGGTAACA-TGTCRGA-TGC-GATCAT-A
Sec_syl		TGAA-GGTAGTAA----GAG-TGTAATAC-CGTCTTCGTACTGGA-CCTGGGA-GTGGCAAGCA-TAAGGGA-CG--AAGGCAGGGGTAACA-TGTCGGA-TGC-GATCAT-A
Sec_vav		TGAA-GGTGGCAA----GAG-TGTAATAC-CGTCTTCGTACTGGA-CCTGGGA-GTGGCAAGCA-TMMGGGA-CG--AAGGCAGGGGTAACA-TGTCGGA-TGC-GATCAT-A
Thino_el	TAA-TGGTAGTAA----GAA-TGTACAAT-CGTCTTTGTAGTGGA-CCTGGGA-GTGGCAAGCA-TAAGGGA-CG--AAGGCGGGGGTAACAC-GCCGGA-TGC-GATCAT-A
Trit_mon	TAA-TGGTAGTAG----GAA-TGTATAGC-CGTCGGTGTAGCGGA-CGTGGGA-GTGGCAAGC-TTAAGGGA-TG--AAGCC-GGGGTAACA-TGTCGGA-TGC-GATCAT-A
Trit_mon2	TAA-TGGTAGTAC----GAA-TGTATAAC-CGTCTTTGTAGCGAA-CGTGGGA-GTAGCAAGCA-TAAGGGA-TG--AAGCCGGGGGTAACA-TGTCGGA-TGCA-ATCAT-A

Aeg_sears	CCAGCAGTAAAG-C-ACC-GGATCCCAT-CAG-AACTCCGAAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATAGGTGACCTCCTGGGAAG-TCCTCGTGTT
Aeg_shar	CCAGCACTAAAG-C-ACC-GGATCCCAT-CAG-AACTCCGAAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAG-TCCTCGTGTT
Aeg_tau		CCAGCACTAAMG-C-W2C-GGATCCCAT-CA32AMCTYYKAAGTTAAGCGTGCTTGGGCGAGAGTWGTACTAGGATGGGTGACCTC24333AAG2TCCTCGTGTT
Aeg_umb		CCAGCACTAAAGC22ACC-GGATCCCAT-CAR-AMCTCCGAAGTTAAGCGTGCTTGGSCGAGAGTARTACTAGGATGVGTGACCTCCTGGGAAG-TCCTCGTGTT
Aust_vel	CCAGCACTAAAG4C-WM--GGATCCCAT1CAG-AACTCCGAAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATDGGTGACCTCCTGGGAAG-TCSTCGTGTT
Pse_spic	CCAGCACTAAAG-C-ACC-GGATCCCAT-CAG-AACTCCGAAGTTAAGCATGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAG-TACTCCTGTT
Sec_cer		CCAGCACTAAAG-C-ACC-GGATCCCAT-CAR-AAMTCCGAAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAG-TCCTCGTGTT
Sec_mon		CCAGCACTAAA3Y2-ACC-GGATCCCAT-CAG-AACTCCGAAGTTAAGCGTGCTTGGGCGAGAGTRGTACTAGGATGGGTGACCTCCTGGGAAG-TCCTCRTGTT
Sec_syl		CCAGCACTAAAG-C-ACCGGGATCCCAT-CAG-AACTCCGAAGTTAAGCGTGCTTGGGCGAGRGTAGTACTAGGATGGGTGACCTCCTGGGAAG-TCCTCGTGTT
Sec_vav		CCAGCACTAAAG-C-ACC-GGATCCCAT-CAR-AAATCCGAAGTTAAGCGTGCTTGGSCGAGAGTAGTACTAGGWWGGGTGACCTCCTGKGAAG-TCCTCGTGTT
Thino_el	ATGGCAGTAAAG-C-TGT-GGATCCCAT-GAG-AACTCTGAAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCTTGGGAAG-TCCTCGTGTT
Trit_mon	CCAGCACTAAAG-C-ACC-GGATCCCATT-AG-AACTCTGATGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAG-TCCTCGTGTT
Trit_mon2	CCAGCACTAAAG-C-ACC-GGATCCCAT-CAG-AACTCCGAAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAG-TCCTCGTGTT

Aeg_sears	GCATTCCC
Aeg_shar	GCATTCCC
Aeg_tau		GCATTCCC
Aeg_umb		GCATTCCC
Aust_vel	GCATTCC2
Pse_spic	GCATTCCC
Sec_cer		GCATTCCM
Sec_mon		GCATTCCM
Sec_syl		GCATTCCC
Sec_vav		GCATTCCC
Thino_el	ACATTCCC
Trit_mon	GCATTCCC
Trit_mon2	GCATTCCC

[SS DNA, Triticeae, short locus, Diploids only - polymorphisms - edited JAN. 93
hordeum vulgare exluded because probably not homologous; large unique duplications omitted
begin data;
	dimensions ntax=13 nchar=530;
	format datatype=dna interleave missing=- equate="1={A-} 2={C-} 3={G-} 4={T-}";
	matrix]
Aeg_sears	-TTTTTAATT-TTTTTTA---CGCCG-CGTG-CAAAA-CAAA--ACGCACGTGCGCGA-CATAT----GCTTAGCACGTTTTATT-----------AGTTT-GCACGTTTGC-G
Aeg_shar	-TTTTTAATWTTWTTTT44G-CGCTG-CGTG-CAAAA-CAAA--ACGCACGTGCGCGA-CATAT----GTTTAGCACGTTTTAYT-----------ATATT-GCACGTTTGC-G
Aeg_tau		4TTTTTAATT-TTTTTT--G2CGCCG-CGT3-CAAAA1CAAA--ACGCA2GTGCGCGA-CATAT----GTTTAGCACG444TATT-----------ATTTT-GCACGTTTAC-G
Aeg_umb		TTTTTCAATT-TTTTTT--G-CGCCG-CGTG-CAAAA-CAAA--ACGCACGTGCGCGA-CATAT----GTTTAGCACGTTTTATT-----------ATTTTTGCACGTTTGT-G
Aust_vel	-TTTTTAACATTTTTTTT-G-CGCGT-CRTGACAAA--CAGAAT-C-----------------------------CGTTTTCTT------------ATTTT-GCACGTTGGC-G
Pse_spic	TTTTTTAATT-TTTTTT--G-CGCGT-CGTGACAAA--CAAA--ACGCACGYGCGTGA-CATAT----ATTAACCCCGTTT-TCTT----------ATTTT-CCATGTTTGC-G
Sec_cer		-TTTTWAATWATTTTKT--G-YGTCT-CGTGACAAG-TAYA4141CGCACGTGCARGA-TATAT----RTT3RCCVCRTTTA4TTTTCTTCTTCYRRTTTT-YCACGTTTRY1G
Sec_mon		-TTTTWAATWATTTTTT--G-CGTCT-CGTGACAGG-TAT--A4ACGCACGTGCARGA-TATRT----ATTGACCCCGTTTATTTTTCTTCTTCTGMTTTT-CCACGTTTGC-G
Sec_syl		-TTTTTAATTATTTTTT--G-CGTCT-CGTGACAAG---KATA4ACGCACGTGCAAGA-TAT14----ATTGA2CMCRTTTMTTTTTC4TCTTCTGATTT4-CCACGTTTGC-G
Sec_vav		-TTTTTAATTATTTTTT--G-CGTCT-CGTGACAAG141KATA4ACGCACGTGCAAGA-TAT14----ATTGACCMCGTTTM4TTTTCTTCTTCTGATTTT-CCACGTTTGC-G
Thino_el	-TTTTAAATT-TTTTTTT-G-CGCGT-CGTGA-AAAA-GAAA--ACGCACGTGCGTGA-CATATA---TTTCCCCCCATTTTATT-----------ATTTT-CCACGTTTGC-G
Trit_mon	-TTTTTAAWTATTTTT---G-CGTGA2CGTG-CRAAW-MAAA--ACRCACGTGCGCGG-CATATA----TTTACCACGTTTCATT-----------ATTTT-GCAYGTTTGC-G
Trit_mon2	-TTTTTAATTATTTTTT--G-TGACGACGTG-CGAAA-CAAAA--CGCACGTGCGCGG-CATATA----TTTACCACGTTTCATT-----------ATTTT-GGACGTTTGCCG


Aeg_sears	GTAAGTTTT-AGCTCGCTGCTCATTATTCACGC-GTCTA--------------------------GCGTGTT-CTGAAAGGGGTCGAAACCA-TGGTAAATA
Aeg_shar	GTAAGTTTT-AGCTCACTACTCATTATTCACGC-GTCCA--------------------------GCGTGTT-CTGAAA3GGGTCGAAACCA-TGGTAAATA
Aeg_tau		GTAAGTTTT-AGCTCGCTGCTCATTATTCACGC-GTCTA3CGSSGSS--------------AA--GCGTGTT-CTGAAAGGGGTCGAAACCA-TGGTAAATA
Aeg_umb		GTAAGTTTT-AGCTCGCTGCTCATTATTCACGC-GTCTA--------------------------GCGTGTT-CTGAAAGGGGTCGAAAGCA-TGGTAAATA
Aust_vel	----------------------------------------CGGCAAG3TTC-----------------------TGAAAGGGGTGGAGACCG-TGGWAAATA
Pse_spic	GTACGTTTT-CGCTCGCTGCTCATTATTCACGC-GTCTAGCGGCGGCGTT-GTGGCGCGGCAA----SSGTT-CTGAAAGGGGTCGAGACCG-TGGTAAATA
Sec_cer		AT1YGTTTT-AKKYCRGTGCTTATTATTYACSC-GTCCAKCRRCRRCGYT-G4GGCACGKCRA3TCAY-GTT-TYGAAASYGGTCGAAACCR-TRRTAA1GA
Sec_mon		ATACGTTTT-AGGCCGGTGCTTATTATTCACGC-GTCCAGCGGCRRYGTT-G-GGCACGKCAA-TCAC-GTT-TYGAAAGTGGTCGAAACCG-TAGTAAATA
Sec_syl		ATACGTTTT-1GGCCGGTGCTTATTATTCACGC3GTCCW32SGCGACGTT-G4GGCRCGGC1AATCRY-GTT-TYGAAAGTGGTCGAAACCG-TRGTAAAGA
Sec_vav		ATACGTTTT-AKGCCRKTGCTTATTATTCACGC-GTCCAKCRGCGACGTT-GTGGCRCGGC-RATCAC-GTT-TYGAAAGTGGTCGAAACCG-TRGTAAAGA
Thino_el	GTGCATTTT-AGCTCGCTGCTCATTATTCACGC-GTCTAGCCGCGGCATT-GTGGTGCGGCAA--GAGCGTT-CTAAAAGCGGTCGAAAAAA----TA----
Trit_mon	RTAAG4TTT-AGCTCGTTGCYCATKATTCACGC-GTGTA3CGRCGGG-------------------------------------------------------
Trit_mon2	-TAAGTTTT-AGCTCGTTGCTCATGATTCACGC-GTGTAGCGGCGGG-------------------------------------------------------

                                                    
Aeg_sears	GGCACTGGCGCGG--TT-G--------------------AACC-GTGGT-AAACTCGTCTCCGTAG-TTGAGCGGGAGCGG-----CCAAAGGAATGTG-CAA-TCGC
Aeg_shar	GGCACTGGTGTGG--TT-G--------------------AACC-GTGGT-AAAYKCGTCTCCGTAG-TTGAGCGGGAGGGG-----CCAAAGSAATGTG-CAA-TCGT
Aeg_tau		GGCACTGGTGCGG--TT-G--------------------AACC-GTGGTAAAACTCG42TCTGTAG4TTGAGCGGGA3CGG-----CCAAAGGAATGTG-CAA-TCGT
Aeg_umb		GGCACTGGTGCGG--TT-G--------------------AACC-GTGGT-AAACTCGTCTCCGTAG-TTGAGCGGGAGCGG-----CCCAAGGAATGTGG-AA-TCGT
Aust_vel	CGTGCTGGTGCGG--TT-G-AGA-GRGAGG--GGTG-GYAACC-GTSGT-AAACTCGTCTCCGTAG-TTGTGCGGGAGAGG-----CCAAAAGAATGTA-CACCTCGT
Pse_spic	CGTGGTGGTGCGG--TT-G-AGA--GGGAGG-GGTG-GAAACC-GTGGT-AAACTCGTCTCCGCAG-TTGAGCGGGAGTGG-----CCAAAAGAATGTG-CAA-TCGY
Sec_cer		Y3CGTTGCTGCRG--YG-R-AGA--GGRAGGT-GTGA3TAAAC1GTGGT-AAAGTCGYGTCCGTRGT-AGAG33R3AGRA3T--GGCCG1AAWAAKGTAG-AA-TCGT
Sec_mon		CGCGTTGCTGCGG--CG-G-AGA--GGGAGGT3GTRM-TAAAC-GTGGT-AAAGTCGCGTCCGWKG4-AGAGGGAGAG-AGT--GGCC3AAAWMAKGTAG-AA-TCGT
Sec_syl		CGCGTTGCTGCGG--CR-G-AGA-3GGGAGGT-GTGA-TAAAC-GYGGT-AAAGTCGYSTMCGTRGT-AGA33GAGWG-AGT--GGCCGAAATAATGTAG-AA-TCGT
Sec_vav		CGCGTTGCTGCGG--CG-G-AGA--GGGAGGT-GTGA-TAAAC-GYGGT-AAAGTCGYGTCCGT13GTAGA33GAGWG-ART--GGCC3AAATAATGTAG-AA-TCGT
Thino_el	CGGCTTGCTGCGG--TT-G-AGAGAGGGAGG-GGTG-GAAACC-GTGGT-AAACTCGTCTCGGTAG-TTGAGCGGGAGCGG-----CCAAAGCAATGTA-CAA-TCGT
Trit_mon	---------------------------------------------------------------------------------------CAAAGCAAAGTG-CAA-CCGT
Trit_mon2	---------------------------------------------------------------------------------------CAAAGCAAAGTG-CAA-CCGT
											

Aeg_sears	GTGTGTAGTGGAGCT--GGGA-GGGGCAAGCAT--AA-GGG-ACGAA-GACGGGGA-TAACA-TGTCGGATG-CGAT-CATACC-AGC-ACTAAA-GCACCG-GAT-CC-CAT-CAGAA-
Aeg_shar	GTGTGTAGTGGAGCW--GGGA-GGGGCAAGCAT--AA-GGG-ACGAA-GACGGGGG-TAACA-TGTCGGATG-CGAT-CATACC-AGC-ASTAAA-GCACMG-GAT-CC-CAT-CAGAA-
Aeg_tau		GTGTGTAGTGGAGCT--GGGA-GGGGCAAGCAT--AA-GGG-ASSAA-GACGGGGG-TAACA-TGTCGGATG-CGAT-CATACC-AGC-ACTAAA3GCACCG-GAT-CC-CAT-CAGAA-
Aeg_umb		GTGTGTAGTGGATCT--GGGA-GGGGCAAGCAT--AA-GGG-ACGAA-GACGGGGG-TAACA-TGTCGGATG-CGAT-CATACC-AGC-ACTAAA-GCACCG-GAT-CC-CAT-CAGAA-
Aust_vel	CTTTGTAGCGGCGCT--GGGA-GGGGMWAGCAT--AA-GGY-ACGAAGG-CGGGAG-TAACA-TGTCGGATG-YGAT-CATACC-AGC-ACTAAA-GCMM2G-GAT-CC-CWT-CAGAA-
Pse_spic	CTTTGTAGTGGAGCT--RGGA-GSGGCAAGCAT--AA-GGG-ACGAAGG-CAGGGG-TAACA-TGTCGGATG-CGAT-CATACC-AGC-ACTAAA-GCACCG-GAT-CC-CAT-CAGAA-
Sec_cer		CCTCGTAGCKGGYCT--RGGA-GGGGMAAGCAT--AA-GGA-GSGAAGR-YGGGGA3TAACA3TGTYRGATG-CGAT-CATACC-AGC1ACTAAA-GCACSG-GAT-CC-CAT-CAGAA-
Sec_mon		CCTC3TAGCGGGCCT--GGGA-GGGGCAAGCAT21MA-GGA-GSGAA3GACGGGGA-TAACA-TGTCGGATG-CGAT-CATACC-AGC-ACTAAA-GCACCG-GAT-CC-CAT-CAGAA-
Sec_syl		CCTCGTAGCGGGYCY--GGGA-GRGGCAAGCAT--AA-GGA-KSGAA-GACGGGGA-TAACA-TGTCGGATG-YGAT-CATACC-AGC-ACTAAA-GCAYCG-GAT-CC-CAT-2AGAM-
Sec_vav		CCTCGTAGCGGGYCY--GGGA-GRGGCAAGCATMM---GGA-KSGAA-GACGGGGA-TAACR-TGTCGGAT3-CGAT-CATACC-AGC-ACTAAA-GCACCG-GAT-CC-CAT-CAGAA-
Thino_el	CTTTGTAGTGGAGCT--GGC--GGGGCAAGCAT--AA-GGG-ACGAA-GACGGGGG-TAACA-TGTCGGATG-CGAT-CATACC-AGC-ACTAAA-GCACCG-GAT-CC-CAT-GAGAA-
Trit_mon	GTGTGTRGTGGA3CT--GRGA-GGGGCAAGCATM--A-GGG-ACGAA-GACGRGGG-TRACA-TGTCGGATG-CGAT-CATACY-AGC-ACTAAA-GCAYCG-GAT-CC-CAT-CAGAA-
Trit_mon2	GTGTGTAGTGGAGCT--GGGA-GGGGCAAGCAT--AA-GGG-ACGAA-GACGGGGG-TAACA-TGTTGGATG-CGAT-CATACC-AGC-ACTAAA-GCACCG-GAT-CC-CAT-CAGAA-


Aeg_sears	CTCCGAAGTT-AAGCGTGC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTGGGAA-G-TCC-TCGTGTTGCATTCCC
Aeg_shar	CTCCGAAG4T-AAGCGTGC--TT3GGCGAGAGTA-GTAC-TA3GAT3GGT-GACCTCCTGRGAA1G-TCC-TCGTGTTGCATTCCC
Aeg_tau		CTCCGAAGTT-AAGCGTGC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCYTGGGAA-G2TCC-TCGTGTTGCATTCC2
Aeg_umb		CTCCGAAGTT-AAGCGTGC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTGGGAA-G-TCC-TCGTGTTGCATTCC-
Aust_vel	CTCCGAAGTT-AAGCGTGC--TTGGGYGAGAGTA-GTAC-TAGGATRGGT-GACCTCCTGGGAA-G-TCC-TCGTGTTGCARTCCC
Pse_spic	CTSCGAAGTT-AAGCGTGC--TTGSGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTGGGAA-G-TCC-TCGTGTTGCATTCCC
Sec_cer		YTCCGAAGTT-AAGCRTGC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTSGGAA-G-TCC4TCRTGTTGCATTCMC
Sec_mon		CTCCGAAGTT-AAGCGTGC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTGGGAA-G-TCC-TCGTGTTGCAYTCCC
Sec_syl		CTYCGAAGTT-AAGCGTKC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTGGGAA-G-TCC-TYGTGTTGCAWTCCC
Sec_vav		CTCCGAAGTT-AAGCGTKC--TTGGGCGAGAGTA-GTAC-TAGGATGSGT-GACCTCCKGGRAR-S-TCC-TCGTGTTGYATTCCC
Thino_el	CTCCGAAGTT-AAGCGTGC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTGGGAA-G-TCC-TCGTGTTGCATTCCC
Trit_mon	CTYCGAAGTT-AAGCRTGC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTGGGAA-G-TCC-TCGTGTTGCATTCCC
Trit_mon2	CTCTGAAGTT-AAGCGTGC--TTGGGCGAGAGTA-GTAC-TAGGATGGGT-GACCTCCTGGGAA-G-TCC-TCGTGTTGCATTCCC
[-CGAGAGTAGTAC-TAGGACAGG insert into gene in psli#1]
[TAAGTAGTATAGGACATTAT, TTATT, GGTTGTAGTGGTAGTAAGAA inserts in thsc5]
;
end;
begin PAUP;                                  
set root=outgroup;
end;