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diff test-data/out1.txt @ 1:d6ef5937ded6 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/tracy commit 8eb3532d394f6a44d1edbcbe5ef05fd0474cdab3
author iuc
date Thu, 20 Mar 2025 07:18:12 +0000
parents 6ec40b104f9d
children
line wrap: on
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--- a/test-data/out1.txt	Tue Oct 12 14:21:06 2021 +0000
+++ b/test-data/out1.txt	Thu Mar 20 07:18:12 2025 +0000
@@ -1,109 +1,116 @@
 >Alt
-TTTTTTTTTGAGCGGGTCGAACCGTCACGAAAAGAAAAGGGGAAGAACCATCAGCAGGAGTAATCCGTATTTTA
-ATTGGATCCACATTCATAGCAAACACCAAAAATCCATATTGGGACCACAATCCCAACAAAGACCACTGGACAGA
-AGCCAACAAGGTAGGAGTGGGAGCATTCGGGCCTGGGTTCACTCCCCCACACGGAGGCCTTTTGGGGTGGAGCC
-CTCAGGCTCAAGGCATGCTGACAACATTACCAGCAAATCCGCCTCCTGCCTCCACCAATCGACAGTCAGGAAGG
-CAGCCTACCCCAATCACTCCACCTTTGAGAGACACTCATCCTCAGGCCATGCAGTGGAATTCCACAACATTCCA
-CCAAGCTCTGCAGGATCCCAGAGTAAATCCTGCTGGTGGCTCCAGTTCCGGAACAGTGAACCCTGTTCCGACTA
-CTGCCTCACTCATCTCGTCAATCTTCTCGAGGATTGGGGACCCTGCACCGAACATGGAAAGCATCACATCAGGA
-TTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAAAATCCTCACAATACCGCAGAGTCT
-AGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAGCTCCCGTGTGTCTTGGCCAAAATTCTCAGTCCCAAA
-CCTCCAGTCACTCACCAACCTCTTGTCCTCCAATTTGTCCTGCCTATCGCTGGATGTGTCTGCGGCGGTTTATC
-ATATTCCTCTTCATCGTGCTGCTATGCCTCATCATCCTGTTGGGTTCGTCTGCACCATCAAAAGAATGTTGCCC
-CGGGTTGTGATTAAAAATTCCAAGGAGCAAGAAAGCCACCCACTACGGGAACCAGGGCCGGAAGCTGAACAAGT
-CATTTTTCAAAGGAAAATGAAAGATTTTCTTTCTTATTTGTGGGGGAAAAGCAAAAAAAGGAAAAAGGAAATTG
-GGGTTACAAACCCCACCCCCAAGGGATTTGGGAAATACCATATTTTAAAGGGGAAAGGGCCGCATAACCCATTA
-AAAATTGCATATTTTAAATTTTTTTTTTTTGAGAAAGAGGGGGGAC
->Ref X75657.1 Human hepatitis virus genotype E Bas preS1 preS2 S C X antigens core antigen X protein and polymerase:1-718 forward
-TTCCACAACATTCCACCAAGCTCTGCAGGATCCCAGAGTAAGAGGCCTGTATTTTCCTGCTGGTGGCTCCAGTT
-CCGGAACAGTGAACCCTGTTCCGACTACTGCCTCACTCATCTCGTCAATCTTCTCGAGGATTGGGGACCCTGCA
-CCGAACATGGAAAGCATCACATCAGGATTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGAC
-AAAAATCCTCACAATACCGCAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAGCTCCCGTGT
-GTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAGTCACTCACCAACCTCTTGTCCTCCAATTTGTCCTGGCTAT
-CGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCT
-TCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCATCAACCACCAGTACGGGACCCTGCC
-GAACCTGCACGACTCTTGCTCAAGGAACCTCTATGTTTCCCTCATGTTGCTGTTCAAAACCTTCGGACGGAAAT
-TGCACTTGTATTCCCATCCCATCATCATGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTC
-CTGGCTCAGTTTACTAGTGCCATTTGTTCAGTGGTTCGCCGGGCTTTCCCCC
+TTCCTTGTTTTACGTTGTATGGTTGAACTATAGCTTTAGTTTCCATACAAACAGGCATTAATTTACGTGTTTCC
+TCAGCATGTGCAAGCATTTCTCGCAAATTCCAAGAAACAGTTCCAAGAATTTCTTCTTTCTCATTAGAGACAAT
+GGATGGTAGTATGTAAAAAGCGCTCTTGCACTTTTTAAGCACTGTCTTTGCCTCTTCTAATGTATAACCATTAT
+TACCCTGTCCAGGGTAGGTGGTTATATAATTGTCTACTGGTAACTTCTTTAATGCTTTTGTAAGCATTTCGGTA
+GTACCACCAGCTTTTTTAGTAGGTATAACTACAGCAGTTAAAACACCTTCCTTAATGACATCACCTACTATGTA
+AGGAGCATCTTTCTTTAGAAAGGTGGTGTCAGTGTCTTTAACAAGCATGGCAGAATCTGGATGAAGGTTGCCAT
+TAATGTCTATATAAAGTAACAAATTCTCTGTGAGAAACTTAGTTTCTTCCAAAGTGGTTGTAACTTCTTCAACA
+CAAGCCTTGACTTTCTTTTCTTCAGCCTGTTGCTTTTGTTCAACTGAAGGTTTATTTTCAGTTGTTGGTGGCTC
+AACTTCCATTTTAGGAACTTCAGCAATCTGTTGTTCTACTTGTGCCTCACTCTTCATTTCTAAAAAGCTAGAAA
+CAAGTTTTTCATAGAGATCTTTGTCAAAGACAGTCAAGTAAACATTTGTGCGAACAGTGTCTACACAAACTCTT
+AAGGATTGGACAGGGTCAGCACCAAAGATGCCTGCTGACAATAAAGGTGCTAGTAAAGTATCATACTGATTGAA
+ATTTTCATATGCAGTTTTAAGAAGTTGAATGCTTTCACCCTTGTTGATATTAGGACCAACAACATGAAGACAAT
+TTTTAGCAAGATTATGTCCACTCAGAACACAACTACCACCAACATTCAGAGGTCCGTTTGTGGCTATGTAATTG
+TCTGATTCTACTTGCATAGCGTTGTTTGTAGCTTTGTTTAAAGCTCCAGCAACACCTCCTCCATGTTTAAGTAA
+ACATTAGCTGCATTAACAACTACTGTGGTTTCCCCTGTTAGCTTCTTCCACAATGTCTGCATTTTTAATGAAAA
+CATTTGTTAGGGGAG
+>Ref MT121216.12501-5000 Pangolin coronavirus isolate MP789 complete genome:720-1846 reversecomplement
+CCTTGTATTTACGTTGTATGGTTGAAACTATAGCTTTAGTTTCCATACAAACAGGCATTAATTTACGTGTTTCC
+TCAGCATGTGCAAGCATTTCTCGCAAATTCCAAGAAACAGTTCCAAGAATTTCTTCTTTCTCATTAGAGACAAT
+GGATGGTAGTATGTAAAAAGCGCTCTTGCACTTTTTAAGCACTGTCTTTGCCTCTTCTAATGTATAACCATTAT
+TACCCTGTCCAGGGTAGGTGGTTATATAATTGTCTACTGGTAACTTCTTTAATGCTTTTGTAAGCATTTCGGTA
+GTACCACCAGCTTTTTTAGTAGGTATAACTACAGCAGTTAAAACACCTTCCTTAATGACATCACCTACTATGTA
+AGGAGCATCTTTCTTTAGAAAGGTGGTGTCAGTGTCTTTAACAAGCATGGCAGAATCTGGATGAAGGTTGCCAT
+TAATGTCTATATAAAGTAACAAATTCTCTGTGAGAAACTTAGTTTCTTCCAAAGTGGTTGTAACTTCTTCAACA
+CAAGCCTTGACTTTCTTTTCTTCAGCCTGTTGCTTTTGTTCAACTGAAGGTTTATTTTCAGTTGTTGGTGGCTC
+AACTTCCATTTTAGGAACTTCAGCAATCTGTTGTTCTACTTGTGCCTCACTCTTCATTTCTAAAAAGCTAGAAA
+CAAGTTTTTCATAGAGATCTTTGTCAAAGACAGTCAAGTAAACATTTGTGCGAACAGTGTCTACACAAACTCTT
+AAGGATTGGACAGGGTCAGCACCAAAGATGCCTGCTGACAATAAAGGTGCTAGTAAAGTATCATACTGATTGAA
+ATTTTCATATGCAGTTTTAAGAAGTTGAATGCTTTCACCCTTGTTGATATTAGGACCAACAACATGAAGACAAT
+TTTTAGCAAGATTATGTCCACTCAGAACACAACTACCACCAACATTCAGAGGTCCGTTTGTGGCTATGTAATTG
+TCTGATTCTACTTGCATAGCGTTGTTTGTAGCTTTGTTTAAAGCTCCAGCAACACCTCCTCCATGTTTAAGGTA
+AACATTAGCTGCATTAACAACTACTGTTGGTTTCACCTGTTTAGCTTCTTCCACAATGTCTGCATTTTTAATGA
+AAACATTGTTAGTGAGT
 
-Alignment score: -906
+Alignment score: 1806
 #-------------------------------------------------------------------------
 
-Alt         1 TTTTTTTTTGAGCGGGTCGAACCGTCACGAAAAGAAAAGGGGAAGAACCATCAGCAGGAG
-                                                                          
-Ref         1 ------------------------------------------------------------
+Alt         1 TTCCTTGT-TTTACGTTGTATGGTTGAA-CTATAGCTTTAGTTTCCATACAAACAGGCAT
+                |||||| ||||||||||||||||||| |||||||||||||||||||||||||||||||
+Ref      1846 --CCTTGTATTTACGTTGTATGGTTGAAACTATAGCTTTAGTTTCCATACAAACAGGCAT
 
-Alt        61 TAATCCGTATTTTAATTGGATCCACATTCATAGCAAACACCAAAAATCCATATTGGGACC
-                                                                          
-Ref         1 ------------------------------------------------------------
+Alt        59 TAATTTACGTGTTTCCTCAGCATGTGCAAGCATTTCTCGCAAATTCCAAGAAACAGTTCC
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1788 TAATTTACGTGTTTCCTCAGCATGTGCAAGCATTTCTCGCAAATTCCAAGAAACAGTTCC
 
-Alt       121 ACAATCCCAACAAAGACCACTGGACAGAAGCCAACAAGGTAGGAGTGGGAGCATTCGGGC
-                                                                          
-Ref         1 ------------------------------------------------------------
+Alt       119 AAGAATTTCTTCTTTCTCATTAGAGACAATGGATGGTAGTATGTAAAAAGCGCTCTTGCA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1728 AAGAATTTCTTCTTTCTCATTAGAGACAATGGATGGTAGTATGTAAAAAGCGCTCTTGCA
 
-Alt       181 CTGGGTTCACTCCCCCACACGGAGGCCTTTTGGGGTGGAGCCCTCAGGCTCAAGGCATGC
-                                                                          
-Ref         1 ------------------------------------------------------------
+Alt       179 CTTTTTAAGCACTGTCTTTGCCTCTTCTAATGTATAACCATTATTACCCTGTCCAGGGTA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1668 CTTTTTAAGCACTGTCTTTGCCTCTTCTAATGTATAACCATTATTACCCTGTCCAGGGTA
 
-Alt       241 TGACAACATTACCAGCAAATCCGCCTCCTGCCTCCACCAATCGACAGTCAGGAAGGCAGC
-                                                                          
-Ref         1 ------------------------------------------------------------
+Alt       239 GGTGGTTATATAATTGTCTACTGGTAACTTCTTTAATGCTTTTGTAAGCATTTCGGTAGT
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1608 GGTGGTTATATAATTGTCTACTGGTAACTTCTTTAATGCTTTTGTAAGCATTTCGGTAGT
 
-Alt       301 CTACCCCAATCACTCCACCTTTGAGAGACACTCATCCTCAGGCCATGCAGTGGAATTCCA
-                                                                     |||||
-Ref         1 -------------------------------------------------------TTCCA
+Alt       299 ACCACCAGCTTTTTTAGTAGGTATAACTACAGCAGTTAAAACACCTTCCTTAATGACATC
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1548 ACCACCAGCTTTTTTAGTAGGTATAACTACAGCAGTTAAAACACCTTCCTTAATGACATC
 
-Alt       361 CAACATTCCACCAAGCTCTGCAGGATCCCAGAGTAAA------------TCCTGCTGGTG
-              ||||||||||||||||||||||||||||||||||||             |||||||||||
-Ref         6 CAACATTCCACCAAGCTCTGCAGGATCCCAGAGTAAGAGGCCTGTATTTTCCTGCTGGTG
+Alt       359 ACCTACTATGTAAGGAGCATCTTTCTTTAGAAAGGTGGTGTCAGTGTCTTTAACAAGCAT
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1488 ACCTACTATGTAAGGAGCATCTTTCTTTAGAAAGGTGGTGTCAGTGTCTTTAACAAGCAT
 
-Alt       409 GCTCCAGTTCCGGAACAGTGAACCCTGTTCCGACTACTGCCTCACTCATCTCGTCAATCT
+Alt       419 GGCAGAATCTGGATGAAGGTTGCCATTAATGTCTATATAAAGTAACAAATTCTCTGTGAG
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
-Ref        66 GCTCCAGTTCCGGAACAGTGAACCCTGTTCCGACTACTGCCTCACTCATCTCGTCAATCT
+Ref      1428 GGCAGAATCTGGATGAAGGTTGCCATTAATGTCTATATAAAGTAACAAATTCTCTGTGAG
 
-Alt       469 TCTCGAGGATTGGGGACCCTGCACCGAACATGGAAAGCATCACATCAGGATTCCTAGGAC
+Alt       479 AAACTTAGTTTCTTCCAAAGTGGTTGTAACTTCTTCAACACAAGCCTTGACTTTCTTTTC
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
-Ref       126 TCTCGAGGATTGGGGACCCTGCACCGAACATGGAAAGCATCACATCAGGATTCCTAGGAC
+Ref      1368 AAACTTAGTTTCTTCCAAAGTGGTTGTAACTTCTTCAACACAAGCCTTGACTTTCTTTTC
 
-Alt       529 CCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAAAATCCTCACAATACCGCAGA
+Alt       539 TTCAGCCTGTTGCTTTTGTTCAACTGAAGGTTTATTTTCAGTTGTTGGTGGCTCAACTTC
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
-Ref       186 CCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAAAATCCTCACAATACCGCAGA
+Ref      1308 TTCAGCCTGTTGCTTTTGTTCAACTGAAGGTTTATTTTCAGTTGTTGGTGGCTCAACTTC
 
-Alt       589 GTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAGCTCCCGTGTGTCTTGGCC
+Alt       599 CATTTTAGGAACTTCAGCAATCTGTTGTTCTACTTGTGCCTCACTCTTCATTTCTAAAAA
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
-Ref       246 GTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAGCTCCCGTGTGTCTTGGCC
+Ref      1248 CATTTTAGGAACTTCAGCAATCTGTTGTTCTACTTGTGCCTCACTCTTCATTTCTAAAAA
 
-Alt       649 AAAATTCTCAGTCCCAAACCTCCAGTCACTCACCAACCTCTTGTCCTCCAATTTGTCCTG
-              ||||||| ||||||| ||||||||||||||||||||||||||||||||||||||||||||
-Ref       306 AAAATTCGCAGTCCCCAACCTCCAGTCACTCACCAACCTCTTGTCCTCCAATTTGTCCTG
+Alt       659 GCTAGAAACAAGTTTTTCATAGAGATCTTTGTCAAAGACAGTCAAGTAAACATTTGTGCG
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1188 GCTAGAAACAAGTTTTTCATAGAGATCTTTGTCAAAGACAGTCAAGTAAACATTTGTGCG
 
-Alt       709 CCTATCGCTGGATGTGTCTGCGGCGGTTTATCATATTCCTCTTCATCGTGCTGCTATGCC
-               |||||||||||||||||||||||| |||||||| |||||||||||| ||||||||||||
-Ref       366 GCTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCC
+Alt       719 AACAGTGTCTACACAAACTCTTAAGGATTGGACAGGGTCAGCACCAAAGATGCCTGCTGA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1128 AACAGTGTCTACACAAACTCTTAAGGATTGGACAGGGTCAGCACCAAAGATGCCTGCTGA
 
-Alt       769 TCATCATCCTGTTGGGTTCGTCTGCACCATCAAAAGAATGTTGCCCCGGGTTGTGATTAA
-              ||||| || |||| ||||| |||| || |||| | | |||||||||  | ||||  |   
-Ref       426 TCATCTTCTTGTT-GGTTCTTCTGGACTATCA-AGGTATGTTGCCC--GTTTGTCCT--C
+Alt       779 CAATAAAGGTGCTAGTAAAGTATCATACTGATTGAAATTTTCATATGCAGTTTTAAGAAG
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1068 CAATAAAGGTGCTAGTAAAGTATCATACTGATTGAAATTTTCATATGCAGTTTTAAGAAG
 
-Alt       829 AAATTCCAAGGAGCAAGAAAGCCACCCACTACGGGAACCAGGGCCGGAAGCTGAACAAGT
-               ||||||| ||| ||  ||  ||| ||| ||||||| ||   |||| || ||| || | |
-Ref       480 TAATTCCA-GGATCATCAA--CCA-CCAGTACGGGACCC--TGCCG-AACCTGCACGACT
+Alt       839 TTGAATGCTTTCACCCTTGTTGATATTAGGACCAACAACATGAAGACAATTTTTAGCAAG
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref      1008 TTGAATGCTTTCACCCTTGTTGATATTAGGACCAACAACATGAAGACAATTTTTAGCAAG
 
-Alt       889 CATTTTTCAAAGGAAAATGAAAGATTTTCTTTCTTATTTGTGGGGGAAAAGCAAAAAAAG
-              | ||  |||| ||||  |  | |  ||||  || |  |||  |   |||| |     | |
-Ref       533 C-TTGCTCAA-GGAACCTCTATG--TTTCCCTCAT-GTTGCTGTTCAAAACCTTCGGACG
+Alt       899 ATTATGTCCACTCAGAACACAACTACCACCAACATTCAGAGGTCCGTTTGTGGCTATGTA
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref       948 ATTATGTCCACTCAGAACACAACTACCACCAACATTCAGAGGTCCGTTTGTGGCTATGTA
 
-Alt       949 GAAAAAGGAAATTGGGGTTACAAACCCCACCCCCAAGGGATTTGGGAAATACCATATTTT
-              ||||  | |  |||    | |  | |||| |  || ||| ||| |||||   | |||   
-Ref       588 GAAATTGCAC-TTGTA--TTCCCATCCCATCATCATGGGCTTTCGGAAAATTCCTATGGG
+Alt       959 ATTGTCTGATTCTACTTGCATAGCGTTGTTTGTAGCTTTGTTTAAAGCTCCAGCAACACC
+              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+Ref       888 ATTGTCTGATTCTACTTGCATAGCGTTGTTTGTAGCTTTGTTTAAAGCTCCAGCAACACC
 
-Alt      1009 AAAGGGGAAAGGGCCGCATAACCCATTAAAAATTGCATATTTTA-AATTTTTTTTTTTTG
-              |  |||     | |||  |  ||         | ||  | ||||  | |    ||| || 
-Ref       645 AGTGGGCCTCAGCCCGTTTCTCC---------TGGCTCAGTTTACTAGTGCCATTTGTTC
+Alt      1019 TCCTCCATGTTTAAG-TAAACATTAGCTGCATTAACAACTACTGT-GGTTTCCCCTGTT-
+              ||||||||||||||| ||||||||||||||||||||||||||||| |||||| |||||| 
+Ref       828 TCCTCCATGTTTAAGGTAAACATTAGCTGCATTAACAACTACTGTTGGTTTCACCTGTTT
 
-Alt      1068 AGAAAGAGGGGGGAC--------
-              ||      |  || |        
-Ref       696 AGTGGTTCGCCGGGCTTTCCCCC
+Alt      1076 AGCTTCTTCCACAATGTCTGCATTTTTAATGAAAACATTTGTTAGGGGAG
+              ||||||||||||||||||||||||||||||||||||| ||||||| |   
+Ref       768 AGCTTCTTCCACAATGTCTGCATTTTTAATGAAAACA-TTGTTAGTGAGT
 
 #-------------------------------------------------------------------------
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