/usr/share/doc/t-coffee-examples/sample_rnaseq2.tcoffee.stk is in t-coffee-examples 11.00.8cbe486-6.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 | # STOCKHOLM 1.0
OTTHUMT00000006707 uacGGAAGCU.UUAGGGAGGUGCUCUGAGACCCGAAACUAGACUCGACUU
OTTHUMT00000043281 .aucccagcuacucgggagg....cugaggcaggagaau.cacuugaacc
OTTHUMT00000007987 ................GAGGUGCUCUGAGACCCGAAACUAGACUCGACUU
#=GC SS_cons ................((((.....((((.............)))).)))
OTTHUMT00000006707 UAACAGACACAGACGACCCUGAA.....G.....................
OTTHUMT00000043281 cgggaggcagagguugcaguga.gccgag.....................
OTTHUMT00000007987 UAACAGACACAGACGACCCUGAAGGCGAGACugucugcuggugggaugcu
#=GC SS_cons )..(((.....((((((((((.......(.....................
OTTHUMT00000006707 ..AUGGAAAUGUUUUCUUCCAAAUUGUGC.....UGCACGUUUU.....U
OTTHUMT00000043281 ..aucgcaccccugcacuccagccugggugacagagcaagacuccaucuc
OTTHUMT00000007987 ggAUGGAAACGUUUUCUUCCAAAUUGUGC.....UGCACGUUUU.....U
#=GC SS_cons ..(.((((....)))).))))...(((((.....(((......(.....(
OTTHUMT00000006707 GGCGAG.AGCAUGGGGCUGUGCGGCGUCCC...CUCCCUGGCGC.....C
OTTHUMT00000043281 aaaaaaaauaaaggaaaUAUGCGUCGUUGGAUGCUGUAUGACAAUCAAGC
OTTHUMT00000007987 GGCGAG.AGCAUGGGGCUGUGCGGCGUCCC...CUCCCUGGCGC.....C
#=GC SS_cons ((.((.......(((((((.((((((((...........))))).....)
OTTHUMT00000006707 CACCUGUGCCCUGCACACU.G.GCCUGCACUGUGGUGAU.....CUC.GC
OTTHUMT00000043281 UACUUAUAACAAACAAAAUUGAGAAUGAAGgauuaugauccaaacucAGC
OTTHUMT00000007987 CACCUGUGCCCUGCACACU.G.GCCUGCACUGUGGUGAU.....CUC.GC
#=GC SS_cons ((((.((((...((........))..))))...))))...........))
OTTHUMT00000006707 UUGGCCC....CCACCUGA.......UUCC....UGACA....UACAGCA
OTTHUMT00000043281 UGGGCCUCCCCUC.CCUGCCCCAGGAUUGUGGAGUGAGAACGUUGCAGCA
OTTHUMT00000007987 UUGGCCC....CCACCUGA.......UUCC....CGACA....UACAGCA
#=GC SS_cons .))))))....)..............)).)....)))..........)))
OTTHUMT00000006707 GA..GGAAG....C..UUAGGCUCAGGUGG..AACA.....GCCUCAACU
OTTHUMT00000043281 GGAGAGAACAACGCAGCAAAGCACAGCAGGGGAACCGgaaaugcucaccu
OTTHUMT00000007987 GA..GGAAC....C..UUAGGCUCAGGUGG..AACA.....GCCUCAACU
#=GC SS_cons )...(((((.......(((((..(.(((.............)))((....
OTTHUMT00000006707 ...GAUUCAGUCCCUGAACUUCCGUACA..CAGCCCUGGAGUCGUCU...
OTTHUMT00000043281 uuugacaggguacuuuuaguucuggggccuuaucuuaaggauauuccaac
OTTHUMT00000007987 ...GAUUCUGUCCCUGAACUUCCGUACA..CAGCCCUGGAGUCGUCU...
#=GC SS_cons ...))....)..))))).)))))...))..)).....)).))))))....
OTTHUMT00000006707 .UAGAgc.caugauuuauuua......acuguucuuucauuuuacagaac
OTTHUMT00000043281 auauacaaaaagauucaugcacagagauauguacuuuaguauuauuuacc
OTTHUMT00000007987 .UAGAGc.caugauuuauuua......acuguucuuucauuuuacagaac
#=GC SS_cons ............((((((((........((((...........))))...
OTTHUMT00000006707 aua..aaauguauuguuuccaa..cuuu.uuuccuaugguaa.....aua
OTTHUMT00000043281 auaggaaaaaaguuggaaacaauacauuuuauguucuguaaaaugaaaga
OTTHUMT00000007987 aua..aaauguauuguuuccaa..cuuu.uuuccuaugguaa.....aua
#=GC SS_cons .........((((((((((((...............))).)).....)))
OTTHUMT00000006707 auacuaaaguaaau.aucucugug.caugaaucuu....uuuguau..au
OTTHUMT00000043281 acaguuaaauaaaucauggCUCUAAGACGACUCCAGGGCUGUGUACGGAA
OTTHUMT00000007987 auacuaaaguaaau.aucucug............................
#=GC SS_cons ))))..)))))))).....)))............................
OTTHUMT00000006707 guu..ggaauauccuuaagauaagg......ccccagaacuaaaaguacc
OTTHUMT00000043281 GUUCAGGGACAGAAUC.AGUUGAGGCUGUUCCACCUGAGCCUAAGCUUCC
OTTHUMT00000007987 ..................................................
#=GC SS_cons ..................................................
OTTHUMT00000006707 .cugucaaa.g...ggug.......a..gcauuuCCG.............
OTTHUMT00000043281 UCUGCUGUAUGUCGGGAAUCAGGUGGGGGCCAAGCGAGAUCACCACAGUG
OTTHUMT00000007987 ..................................................
#=GC SS_cons ..................................................
OTTHUMT00000006707 ...GUUC.CCCUGCUGUGCUUUGCUGCGUUGUUCUCCC............
OTTHUMT00000043281 CAGGC.CAGUGUGC.....AGGGCACAGGUGGGCACCAGGGAGGGGACGC
OTTHUMT00000007987 ..................................................
#=GC SS_cons ..................................................
OTTHUMT00000006707 .CUGCUGCAACGUUCUCACUCCACAAUCCUGGGGCAGG.UAGGGG.A...
OTTHUMT00000043281 CGCACAGCCCCAUGCUCUCGCCAAAAACGUGCAGCACAAUUU.GGAAGAA
OTTHUMT00000007987 ..................................................
#=GC SS_cons ..................................................
OTTHUMT00000006707 ....GGCCCAGCug..aguuuggaucauaauccu...gaaagacaca
OTTHUMT00000043281 AACAUUUCCAUCUGUUAAUAAAGAGCAAGGGCCUCUGGUCAUAAGUG
OTTHUMT00000007987 .....................................ugcau..gaa
#=GC SS_cons ...............................................
//
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