Mercurial > repos > earlhaminst > treebest_best

diff test-data/dna_alignment.fasta @ 0:4f9e5110914b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/TreeBest commit 136cba2b8c8a2ac2465e7e9420314f2511b991f2-dirty
author earlhaminst
date Tue, 20 Dec 2016 16:32:25 -0500
parents
children
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/dna_alignment.fasta	Tue Dec 20 16:32:25 2016 -0500
@@ -0,0 +1,168 @@
+>ENSLOCT00000017020_lepisosteusoculatus
+ATGGACAAAGGGCAGAAACCCGAAATTGAGAAGAAAGATGTAATTGTCATTGGGGGTGGT
+TTATCTGGCTTGTCTGCTGCTAAACTGCTGAAAGAGTCTGGATTGAATGTCCTGGTTCTG
+GAAGCACGTGATCGTGTGGGTGGGAGAACGTTGACTGTAAAAGGGCCTGAATTCCAATAT
+GTGGATCTTGGAGGTGCTTATGTTGGTCCAACTCAGAACAGCATTCTGAGACTTGCAAAA
+GAACTGGGGGTGAAGACTCATTTAGTAAACGAGAAAGAGCGACTCATTCATTATTATAAG
+GGTAAGACGTATCCATTTCGAGGGCCATTTCCTCCAGCATGGAACCCCATCGTCTACCTG
+GATTACAACAACCTCTGGAGGACTCTGGACCGAATGGGAAAGGAGATCCCAGCAGATGCT
+CCATGGACTGCTCAACATGCCACACAGTGGGACAATATGACGATGAAAGAACTAATTGAC
+AAACATTGCTGGACAAGGACTGCAAAAAACTTTGCAACTCTCTTCGTCAATGTCAATGTG
+ACCTCTGAACCTCATGAAGTCTCAGCGCTCTGGTTTCTTTGGTATGTGAAGCAGTGTGGA
+GGGACAAAAAGGATATTTTCAACATCTAATGGAGGACAGGAAAGAAAATTCATGGGGGGA
+TCAGGGCAGATTAGTGAACGGATCGCAGACCGGCTGAAGGGCAACGTCCACCTAAACCAG
+CCTGTGATTAAGCTCTTGCAGACTCCAGCTGGTGTGTGTGTCGAAACACTAACTGGAAAT
+AAGTATGAGGCAGCCTATGCCATCAGTGCTATTCCACCAGGGCTGAGCATGAGTTTGCAT
+TATGAGCCCCAGCTGCCTCCAGTGAGAAACCAAATGATCCAAAGAGTCCCAATGGGGTCC
+ATCATTAAATGCATGATGTACTACAAGAGGACCTTCTGGAGAGAGAAGGGGTACTGCGGA
+ACAATGATGATCGAAGATGAGGACTCTCCCATTTCAATGACCCTAGATGACACCAAACCA
+GATGGATCGTATCCCTGTATTATGGGGTTTGTTTTAGCAAGAAAAGCAAGAGATCTTATC
+AATTTGACTAAGGATGAGAGG---AAAAAACGTATCTGTCAGATTTATGCAAAAGTGCTG
+GGAACAAATGAAGCATTGCATCCTGTTCACTATGAAGAAAAAGACTGGTGTGAAGAACAA
+TATTCAGGAGGCTGTTATACTGCCTATTTTCCTCCAGGTACCTTCTGCCAGTTCAGCAGA
+GTTCTAAGGGAGCCTTTTGGTAGGCTCTTCTTCGCAGGCACAGAGACAGCAACCAGATGG
+AGTGGATATATGGATGGTGCTGTTCAAGCTGGTGAGAGAGCTGGAAGAGAGGTACTGCAT
+---GCAATGGGTAAAGTATCCCAGTCAAAAATCTGGAAGGAAGACGTAGAATCACAGGAA
+GTTCCAGCTGAACCAATTACAACAAGTTTCTTAGAAGAGCATCTGCCTTCTGTCCCTGCA
+TTTCTGACAATGATCGGAGTCTCTTTTGCATTTATCACAACAGCCGCAGCCCTTGGGTCG
+GGCATCTTAAAGACAAATTCACGTTTACGTCTCTTTCAT
+>ENSLACT00000014274_latimeriachalumnae
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+---------------------------------------TTTTTTCTTTTTTTCTCCCAG
+GGTAAGTCGTATCCCTTTAGGGGTCCTTTCCCTCCTATGTGGAACCCCATTGCCTATATG
+GATTACAACAACCTGTGGAGAACAATGGACGAAATGGGGAAGGAGATCCCCAAGGAAGCC
+CCGTGGAAGGCCCCACATGCTGAAGAATGGGATAAAATTACCATGAAGGATCTGATTGAC
+AAAATCTGCTGGACAGGTGTTGCCAAGCAGTTTGCCACGCTGTTTGTGAATGTCAACGTT
+ACTTCTGAACCCCATGAGGTCTCTGCTCTCTGGTTCCTGTGGTATGTGAAGCAGTGCGGT
+GGAACGACCAGGATCTTTTCAACAACCAATGGTGGACAGGAGCGTAAGTTTGTTGGCGGT
+TCAAGCCAGATCAGTGAGAAGATGATGGATCTCCTTGGAGATCAGGTGAAACTGCAGAGA
+CCTGTAGTCGGCATTGATCAGTCTGGGGAGGATGTGGTCGTGGAGACTCTAAACCGTGAG
+AAGTATGAGGCCAAATATGTCATTAGTGCCATTCCTCCAACCCTTAGTGTGAAGATTCAC
+TACAACCCACCTTTGCCGCCTTTGAGAAACCAGTTAATCCATCGTGTTCCTTTGGGATCC
+GTTATCAAGTGCATGGTGTATTACAAGGACTCATTTTGGAGAAAGCAGGATTACTGTGGC
+AGCATGATAATTGAAGAAGAGGATGCTCCAATTGGGCTGACACTGGATGACACCAAACCA
+GATGGCAGTGTGCCTGCCATTATGGGATTCATTCTTGCCCGAAAAGCCAGAAGACTAGCA
+CATTTCACCAAAGAAGAGCGA---AAGAAGAAAATCTGTGAACTTTATGCAAGAGTTCTT
+GGATCACAGGAAGCTTTACAGCCTGTACACTATGAAGAGAAGAACTGGTGTGAGGAGGAG
+TACTCGGGCGGGTGTTACACTGCTTACTTCCCACCAGGAATAATGACCCAGTTTGGCAAG
+GTAATCCGTCAGCCAGTTGGCAGAATTTTCTTTGCCGGCACTGAGACGGCTACCGAGTGG
+AGCGGCTACATGGAGGGGGCAGTGCAGGCTGGAGAGAGAGCAGCCAGAGAGATCTTATGT
+---TCAATGAGAAGAATTCCTGAAAGTGAAATCTGGAAGCCTGAGCCAGAGTGTCTGGAT
+GTCCCAGCTTCTCCGATCACCACCGCGTTCTGGGAGAGGAACCTTCCATCTGTCCCTGGG
+TTTCTGAGGCTGCTTGGATTCTCC---GCGTTTCTCACCTCGACAGCGGCAGTAGGGCTC
+TTT------GCCTACAAGAGGGGACTGCTGATTAAGAAC
+>ENSLACT00000009516_latimeriachalumnae
+ATGTCTGTT------------------GAGAAAAGAGATGTGATCATTGTTGGAGGTGGT
+CTATCAGGTCTGTCAGCTGCAAAATTGCTAGCAGAGGCGGGGCTGAACGTCTTGGTTCTG
+GAGGCCAGGAACCGTGTTGGTGGAAGAACGTACACAGTTCAAGGCCCAGAGTTCCAGTAC
+GTAGACCTTGGGGGAGCATATGTTGGACCCACCCAGAATCGCATACTAAGAGTCGCAAAG
+GAGTTTGGGGTTAAGACTTACCTGGTAAATGAAAAGGAGCAACTGATTCATTATGTCAAG
+GGAAAGTCATACCCCTTCCAAGGGCCTTTCCCTCCTGCATGGAACCCAATTGTCTATCTG
+GATTACAACAATCTCTGGAGGACTTTAGATGAGATGGGACGAGAGATTCCTGCAGAAGCT
+CCTTGGAAGGCACCCTGTGCTGAAGCGTGGGACAACATGACAATGAAGCAGCTGATTGAT
+AAACTCTGCTGGACGAGGGTAGCCAAGGACTTTGCAACGCTATTTGTCAACGTGAATGTA
+ACCTCAGAACCCCATGAAGTCTCTGCTCTCTGGTTTCTCTGGTATGTAAAACAATGTGGA
+GGAACAAAGAGGATATTTTCAACCACCAATGGCGGGCAGGAGCGGAAGTTTGTTGGCGGC
+TCTGGGCAGATTAGCGAGCGCATGGCGGACAGATTGAAAGGCCACGTGAAGTTGAACAAG
+CCAGTGGTGAGAATTCTGCAGAATGACAAATCTGTATGTGTAGAGACCCTGGATGGAGAA
+AAGTATGAAAGTGCTTATGTCATTAGTGCTGTACCCCCAGCTCTCATTCTGAACATGCAT
+TTCAGTCCACCATTACCACCTGTGCGGAACCAGCTGATCCAGAGGGTGCCAATGGGGTCT
+ATTATCAAGTGCATGGTGTATTACAAACGTGCCTTCTGGAGGGAGAATGGCTACTGTGGA
+ACAATGATGATTGAGGATGAGGCCTCCCCCATCTCTTTGACACTCGATGACACCAAACCA
+GATGGGTCCTATCCTGCTATCATGGGGTTTATTCTGGCCAGAAAAGCAAGACAGCTGATA
+AACCTCACTAAAGAGGAGAGAAGGAAAGAGAAAATCTGTCAGATCTATGCCAAAGTACTT
+GGCACTGATGAAGCTCTCCAGGCTGTTCATTATGAGGAGAAGGACTGGTGTGAGGAGCAG
+TACTCCGGGGGCTGCTACACCGCTTACTACTCCCCAGGAACGTTCTACCAGTTCAGCAGG
+TCAGTTCTA---------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------CGT
+>ENSLACT00000014694_latimeriachalumnae
+ATGGGCAGC------------------AGCGAGTTCGATGCGATTGTGATTGGAGGTGGC
+ATCTCAGGTCTGTCGGCCGCCAAGCTGCTGACTGAGTCTGGGCTGAATGTGGTTGTGTTG
+GAGGCCCGTGACAGGGTTGGAGGAAGAACCTTCACCACCAGGAATAAGCATGTTAAGTAT
+GTGGACCTTGGCGGAGCCTATGTGGGGCCGACGCAGAATCGCATTCTACGCCTGTCGAAG
+GAGCTGGGCATTGAGACGTATAAAGTGAATGAAGTGGAGCGCTTCATCCATCACATAAAG
+GGAAAATCATATCCTTTCCAGGGACCATTCCCTCCAATGTGGAATCCACTTGCCTTCCTG
+GATTATAATAACCTCTGGAGAACACTGGATGAAATGGGAAAAGAGATCCCCAGGGAAGCC
+CCGTGGAAGGCCCCACATGCCGAAGAATGGGACAAAATGACCATGAAGGATCTGATTGAC
+AAAATCTGCTGGACAGAAGCTGCCAAGCAGTTTGCCACGCTGTTTGTGAATGTCAACGTT
+ACTTCTGAGCCCTGTGAGGTCTCTGCTCTCTGGTTCCTGTGGTACGTGAAGCAGTGCGGT
+GGAACGACCAGGATCTTTTCAATTGGTAATGGTGGGCAGGAGCGCAAGTTTGTCGGAGGT
+TCAGGTCAGATCAGTGAGAAGATGATGGAGATCCTTGGAGATCGGGTGAAACTACAGGGA
+CCTGTAATCAGCATTGATCAGTCCGGAGACGGTGTGGTCGTGGAAACTCTGAACCATGAG
+AAGTATGAGGCCAAATATGTCATTAGTGCCATTCCCCCATCCCTTAGCATGAAGATTCAT
+TACAAGCCACCTTTGCCACCAATACGAAACCAGTTTATCTATCGAGTTCCGATTGGATCT
+GTTATCAAGTGTATGGTCTATTACAAGGAAGCCTTTTGGAAAAAGAAGGATTTCTGTGGC
+TGTATGATGATTGAAGATGAAGAAGCTCCTATCGGTGTGACTCTGGATGACACCAAGCCC
+GATGGCACTGTTCCTGCTATTATGGGTTTCATCCTTGCCCGAAAAGCTAGGAGGCTGGCA
+CATATCACAAAAGAAGAAAGG---AAAACGAAAATCTGTGAACTTTATGCAAGGGTTCTT
+GGATCAGAGGAAGCTTTACATCCAGTACACTATGAAGAGAAGAACTGGTGCGAGGAGGAG
+TACTCGGGCGGGTGTTACGCTGCTTACTTCCCACCAGGAATAATGACCCAGTTTGGCAAG
+GTAATCCGTCAGCCAGTTGGCAGAATTTTCTTTGCTGGCACTGAGACGGCTACCGAGTGG
+AGCGGCTACATGGAGGGGGCAGTGCAGGCTGGAGAGAGAGCAGCCAGAGAGGTACGGTGC
+---AGAAATGTGATC---------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------ATAACATACCTACTG
+>ENSLACT00000014695_latimeriachalumnae
+---------------------------------AATTTTCTACTTCTCCAAAGAAACTTT
+CTTTTAGGTCTGTCGGCCGCCAAGCTGCTGACTGAGTCTGGGCTGAATGTGGTTGTGTTG
+GAGGCCCGTGACAGGGTTGGAGGAAGAACCTTCACCACCAGGAATAAGCATGTTAAGTAT
+GTGGACCTTGGCGGAGCCTATGTGGGGCCGACGCAGAATCGCATTCTACGCCTGTCGAAG
+GAGCTGGGCATTGAGACGTATAAAGTGAATGAAGTGGAGCGCTTCATCCATCACATAAAG
+GGAAAATCATATCCTTTCCAGGGACCATTCCCTCCAATGTGGAATCCACTTGCCTTCCTG
+GATTATAATAACCTCTGGAGAACACTGGATGAAATGGGAAAAGAGATCCCCAGGGAAGCC
+CCGTGGAAGGCCCCACATGCCGAAGAATGGGACAAAATGACCATGAAGGATCTGATTGAC
+AAAATCTGCTGGACAGAAGCTGCCAAGCAGTTTGCCACGCTGTTTGTGAATGTCAACGTT
+ACTTCTGAGCCCTGTGAGGTCTCTGCTCTCTGGTTCCTGTGGTACGTGAAGCAGTGCGGT
+GGAACGACCAGGATCTTTTCAATTGGTAATGGTGGGCAGGAGCGCAAGTTTGTCGGAGGT
+TCAGGTCAGATCAGTGAGAAGATGATGGAGATCCTTGGAGATCGGGTGAAACTACAGGGA
+CCTGTAATCAGCATTGATCAGTCCGGAGACGGTGTGGTCGTGGAAACTCTGAACCATGAG
+AAGTATGAGGCCAAATATGTCATTAGTGCCATTCCCCCATCCCTTAGCATGAAGATTCAT
+TACAAGCCACCTTTGCCACCAATACGAAACCAGTTTATCTATCGAGTTCCGATTGGATCT
+GTTATCAAGTGTATGGTCTATTACAAGGAAGCCTTTTGGAAAAAGAAGGATTTCTGTGGC
+TGTATGATGATTGAAGATGAAGAAGCTCCTATCGGTGTGACTCTGGATGACACCAAGCCC
+GATGGCACTGTTCCTGCTATTATGGGTTTCATCCTTGCCCGAAAAGCTAGGAGGCTGGCA
+CATATCACAAAAGAAGAAAGG---AAAACGAAAATCTGTGAACTTTATGCAAGGGTTCTT
+GGATCAGAGGAAGCTTTACATCCAGTACACTATGAAGAGAAGAACTGGTGCGAGGAGGAG
+TACTCGGGCGGGTGTTACGCTGCTTACTTCCCACCAGGAATAATGACCCAGTTTGGCAAG
+GTAATCCGTCAGCCAGTTGGCAGAATTTTCTTTGCTGGCACTGAGACGGCTACCGAGTGG
+AGCGGCTACATGGAGGGGGCAGTGCAGGCTGGAGAGAGAGCAGCCAGAGAGAGTAGACGC
+CATGCAGCATCATCAAAGACCAGGGAGAAGCCGGGGGGAACAAAGCCTGACAAACACGAT
+GTCCCAGCTTCTCCGATCACCACCGCGTTCTGGGAGAGGAACCTTCCATCTGTCCCTGGG
+TTTCTGAGGCTGCTTGGATTCTCC---GCGTTTCTCACCTCGACAGCGGCAGTAGGGCTC
+TTT------GCCTACAAGAGGGGACTGCTGATTAAGAAC
+>ENSLACT00000026689_latimeriachalumnae
+ATGACCAGC------------------AATAAATATGATGTAATTGTCATTGGAGCAGGC
+ATCTCAGGTCTGTCGGCTGCCAAGCTGCTGACTGAGTCTGGGCTGAATGTGGTTGTGTTG
+GAGGCCCGTGACAGGGTTGGAGGAAGAACCTTCACCACCAGGAATAAGCATGTTAAGTAT
+GTGGACCTTGGCGGAGCCTATGTGGGGCCAACGCAGAATCGCATTCTACGCCTGTCGAAG
+GAGCTGGGCATTGAGACGTATAAAGTGAATGAAGTGGAACGCCTCATCCATCATGTCAAG
+GGTAAGTCGTATCCCTTTAGGGGTCCTTTCCCTCCTATGTGGAACCCCATTGCCTATATG
+GATTACAACAACCTGTGGAGAACAATGGACGAAATGGGGAAGGAGATCCCCAAGGAAGCC
+CCGTGGAAGGCCCCACATGCTGAAGAATGGGATAAAATTACCATGAAGGATCTGATTGAC
+AAAATCTGCTGGACAGGTGTTGCCAAGCAGTTTGCCACGCTGTTTGTGAATGTCAACGTT
+ACTTCTGAACCCCATGAGGTCTCTGCTCTCTGGTTCCTGTGGTATGTGAAGCAGTGCGGT
+GGAACGACCAGGATCTTTTCAACAACCAATGGTGGACAGGAGCGTAAGTTTGTTGGCGGT
+TCAAGCCAGATCAGTGAGAAGATGATGGATCTCCTTGGAGATCAGGTGAAACTGCAGAGA
+CCTGTAGTCGGCATTGATCAGTCTGGGGAGGATGTGGTCGTGGAGACTCTAAACCGTGAG
+AAGTATGAGGCCAAATATGTCATTAGTGCCATTCCTCCAACCCTTAGTGTGAAGATTCAC
+TACAACCCACCTTTGCCGCCTTTGAGAAACCAGTTAATCCATCGTGTTCCTTTGGGATCC
+GTTATCAAGTGCATGGTGTATTACAAGGACTCATTTTGGAGAAAGCAGGATTACTGTGGC
+AGCATGATAATTGAAGAAGAGGATGCTCCAATTGGGCTGACACTGGATGACACCAAACCA
+GATGGCAGTGTGCCTGCCATTATGGGATTCATTCTTGCCCGAAAAGCCAGAAGACTAGCA
+CATTTCACCAAAGAAGAGCGA---AAGAAGAAAATCTGTGAACTTTATGCAAGAGTTCTT
+GGATCACAGGAAGCTTTACAGCCTGTACACTATGAAGAGAAGAACTGGTGTGAGGAGGAG
+TACTCGGGCGGGTGTTACACTGCTTACTTCCCACCAGGAATAATGACCCAGTTTGGCAAG
+GTAATCCGTCAGCCAGTTGGCAGAATTTTCTTTGCCGGCACTGAGACGGCTACCGAGTGG
+AGCGGCTACATGGAGGGGGCAGTGCAGGCTGGAGAGAGAGCAGCCAGAGAGATCTTATGT
+---TCAATGAGAAGAATTCCTGAAAGTGAAATCTGGAAGCCTGAGCCAGAGTGTCTGGAT
+GTCCCAGCTTCTCCGATCACCACCGCGTTCTGGGAGAGGAACCTTCCATCTGTCCCTGGG
+TTTCTGAGGCTGCTTGGATTCTCC---GCGTTTCTCACCTCGACAGCGGCAGTAGGGCTC
+TTT------GCCTACAAGAGGGGACTGCTGATTAAGAAC