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  • Committer: Bazaar Package Importer
  • Author(s): Charles Plessy
  • Date: 2011-06-17 13:51:18 UTC
  • mfrom: (3.1.6 sid)
  • Revision ID: james.westby@ubuntu.com-20110617135118-hncy38e0134j8oi5
Tags: 1.6.901-1
* New upstream release.
* Point debian/watch to search.cpan.org.
* Build using dh and overrides:
  - Use Debhelper 8 (debian/rules, debian/control).
  - Simplified debian/rules.
* Split into libbio-perl-perl, as discussed with the Debian Perl team.
  (debian/control, debian/bioperl.install, debian libbio-perl-perl.install)
* debian/control:
  - Incremented Standards-Version to reflect conformance with Policy 3.9.2.
    No other changes needed.
  - Vcs-Browser URL made redirectable to viewvc.
  - Removed useless ‘svn’ in the Vcs-Svn URL.

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Lines of Context:
t/data/test.cns.fastq
 
1
@gi|65306796|gb|AY948116.1|
 
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nnnnnnnnnnaacaccaaaaaaggAAAAATTTAAAAatgcaaaaaccaatATCCcgaagt
 
3
gcATAGCTTAGAAGAAAGCCTTGCAATaCttaaaaaaatataaaGATGATGTAAATAAGG
 
4
AaagaTTATGAAGGTATAAAATCTGTTATAAGTAATCATGCGATAGAGAGTATTTACATG
 
5
AATGAATTAGATATTATCGCTATGATAAAACAAAGTGCTTTAAAGTTAAGTGCtgaTGAA
 
6
ATCATTGCTGAATATAAGGAAAAGGGATTTgTAGAATAtgtcaaAAGTTGCCACCGCTCA
 
7
TTGCAATCCtaaAaaacaaccTGCATTAAACCACAATGATAGAACCAACGATAATGCTAA
 
8
GACAATCACTAAAGAACTTACGCATTTAAATGAATACtcttgcactagcgatgaagtgcg
 
9
TAAGAACATAGAAAGGCTTTATAAAAAAGCTTAtgaaaaTTTTTATAAATATTGTGAAAA
 
10
TAAGAATGGTTTAgctaaaaGtggAAagCCTAAAGGACTTCAAAATTTTACTAAAAAAGA
 
11
AAAATGTTATCACGAgtttatatacGAAATCGGCGAAAATACTACAATGGAGCAATGCCA
 
12
AGAGCTTACGCAAAAAATCGCAGAGCTTacaggaTTTACACCTTTACAAGTTGTAATCCA
 
13
TAGAGATGAAGTAAGTGAGaaTGctaaaggggaaaaacaaaccCATtatCACGCCCACGC
 
14
GGTATTTTTTACACTCGataacaatnncttacaacttgctagACGTGAAGCAAGTTTGAA
 
15
TAAAGCCAATCTTAGCAAAATACAAACCCTAACCGCACAAAGTTTAAAAATGGAGCGTGG
 
16
AGCTAATcgctACGAGAATAACGAAAAGCAACCTCAATACATACAAGATTATAAAACATA
 
17
CGCTCAAtttWaagaacaagaaaaagcattacttcaaagaataCAAGAACAAGAGCATAA
 
18
ATTAACGCaaatggccctannnntgaaaaaaAAAGAAAAAGAGATACAAGACAAGGCTAA
 
19
AGAGTTAAAATCGAAAGAAAAcgaattacaagcgaaaatagagcaacatcnnnnncatat
 
20
acaaAATTTAGAACTAGGACacGAAAGAGCTTtaaaggaacttacacaagagtTTGAAAA
 
21
GCGTTTAAGCCTATGGAAAAACATTTTAACCTTTGGAAAATACAACGCCAAAGTAagaGA
 
22
AGACtatcagttaacaaagaatgnnnttttaattagcacagATGAAAGCAGgagagAAGC
 
23
TAACAAagaGCTTGAATATTTAAAATTTGAATATCATAAAGTCAAAGATGAACGAGATAA
 
24
TTTAAAAACTTTGTTTGAGGCACACAAAACAAAAAATGTTAAATTAGAAACTCGACTAAA
 
25
AGAAATAGGCAaatggtgtgannnnnntttaagcgtGGAGCAGTTAAAAGAAATATTTCC
 
26
ATTAAaagccgAAAGAATAgaaaAAGAGCTTAAATATCAAAGAGCTTTTGAAAATTCTTT
 
27
TGAACAAGCAAAaagAAACGATAgagggTTTGGGTTTAGCAGATAGTTTTCTTTTTTGGT
 
28
GCttTAGCAAATCgcacctgttAAGGTGCtatgatttgcgaaaaGGGggTGCGGGGGCTG
 
29
TCTGAGtgCgtagcacggaAGACGGACAAAGCCCACCGCCCTAGAAAAAAAATTACTCAA
 
30
CTTTTTTTGTTTTTTCTCTCGCGCGCGTACGCGTACGCGATTTTTTTTATTTTTTATATA
 
31
TTTTTCTTATTTTTagggggctttctaagcCCtatatgATGGGGGCTAGCGAAATATTAA
 
32
AACGACAaAATTctactattaaaacgacaaaattctactattaaaacgacaaaattctac
 
33
tattaaaacgacAAAATTCTACTATTAAGGGGAGAAAATtctactattaaaacgacaaaa
 
34
tatttgacaaatattgttttaatatactacaataaaaAATCCGCCTTGAGTTTTCACTCT
 
35
TGGCGGAAaTTTAtcaaTCAAGGctaactatgaaacgacatannnngcgtttTGTGAGAT
 
36
TATACCTAAAATTTAGGTTTTTTAAGCTTAaagttgaagtatttnnnnnncaaaaccgca
 
37
ggggCAGAGAAGCCCCTTGCCTTGATTGTCTTACTTTGGATATGCAAATGAGCGAAATAG
 
38
TTAAATATAATAATGATTTTAATCTTTTACCTATGCCTGAACTTAAAGCCATACAAATGG
 
39
ATatgTTTATGGCTATTATCTCACTAACCAAAGACAAAAAAGAAAATACGCCATttttaa
 
40
aaaagttttttaaccctgatagaagaaaaataatTATTCCGCAAAAGAAGTTTATTGAAT
 
41
TATGTcggttaaaCgatagtaaaatggACTATAAAGAAATTTTCTTTGCCATTGATGATT
 
42
GCttgaaAAAACTTTGCAATTTTCTTATTTCATACCAAAAAGATGAAAGAACGATTTATA
 
43
attttgtttgTTTTGAAGAAGCAAATATTATTGCTGATGAagtgcatataactttacaaa
 
44
gtcgtntttacgatatgataaTAAATAAAAAATTTGGTTTCACAGCctttgaattagccg
 
45
AATTTGcAGAACTTAGCGGTAAATATACAAAAACTTTATaCAGACTTTTAAAGCAATTTA
 
46
GAACCACAGGCAAAGCTTATTTTGAGTGGGAAGAATTTTGCaggattatgaaaatacctg
 
47
annnnnnnnnnnaaatagatatagaccaAAGAATTTTAAAACCTGCTATCAAAGAACTTT
 
48
CTAAAGaacgctATCTTTTTGACCAAATCAGAGTGCCTTTTAAAAATCTTGCTTATGAAA
 
49
AAGAAAAAACcgcagggcnnnnncgtggcggtaAAGTTTCAGGTATTAGCTTTACTTTTa
 
50
AACCTGAAAATATCCAAATGCAAAAGCTAGAAAATGAAAGTCAAAAAATAATGAGCGATG
 
51
AGCAAaaaTATTTAAAGATTTTAAAcaatatGAAACTTAATCaagttagatttGATtata
 
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atgacaagctttGGCAATttaaCGATTttgATTTTGATGAATTTAAAATTATTGCAATAG
 
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AGCTTGTAAGAGATGAATACGAGAATTTAAACTTTGGAAATCATATGCACTTTAATGCta
 
54
aAAATCAagagcaGTTTTTTAAAATGATTGAAACCTTTAGAAAaggtattaggtaaaaat
 
55
ttgctataattaTatctttaaaggatacaagctatcCgCCACTTGTGCCAAGTGTCGAGC
 
56
TTGTAAGGGGTGCAACcccttaaccccactaataaaaatcaactAAAATCAATAAATGAT
 
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TTttttgatttttnnn
 
58
+
 
59
!!!!!!!!!!?BBBBBBBBBBBBBEEEEEHHHHHHEBBBBBBBBBBBBB?EEEEBBBBBB
 
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BBEEHHHHHKKKKKKEEEEEEEEEEEEBEBBBBB??BBBBBBBBEHHHHHHHHEEEEEEE
 
61
EBBBBEEEEEEEEEEEEHHHHHHKKKKKKNKKQTQNNNNNNQNNNQQTQQTTTTQQQKHH
 
62
HHHHHHHKNQNNKKKHHHKKNNNQQQQQTTTQNKHHHHHHHHHEEEHHEEEEEBBBEEEK
 
63
NNNNQWWWWWTQQTTTTWWWWTTTNKKKKHBEEEEEEEBBBBBBHHHHNNNNNNNNKKKK
 
64
KKKKKKKHHBBBE??????BBEEEHHKKKKKKKKKKKHKKKKKKHKKKKHHHHHHHKKKK
 
65
KKKHHHHKKKHEHHHHEEEHHEEHHHHHHHHHEEEEEBBBBBBB??????????????BB
 
66
EEEEEEEEKKKKKHHHHKKKKKKHHEHHHHHHHBBBBBBEEEEEEEHHKKKHHHHHKKKK
 
67
KNNNKKKHHHHEEBBBBBBBEBBBEEBBEHHKKKNNNNNNNNNNNKNNNNQQQNKKHHHE
 
68
EEEEEEHHKKKHHHEBBBBBBBBBBEEEHHHEHHHKKKKKKKKKKKKKKKHHHEHHHEHH
 
69
EEEHHHHHHHHHHHHHHHNKKKKEEEEEBBBBBBEEKKKKKKKHHHHNNTWZZZ]]]]`]
 
70
]WWWWZZZWWWWQQKHEEEBBEEBBBBBBB????????????BEEEBBBEEHKKKKKKNN
 
71
QQQQQQQNKKKKKKHHEBBBBBB??!!BBBBBBBBBBBBBBBEHHKNNNNNNKNNNNNNN
 
72
QQQQQQQNKNKKKKKKKHEEEEHHHHHHHKKKKNKKHHHHHHKKKKKHKKHKKKHHHHEE
 
73
EEEEEEEBBBBEHEHHHHHHHHHHHKKKKKKNNQQQNKKHHEEEEEEKNNKKKKKKHHEE
 
74
EEEEEEHHHK-KEBBBBBBBBBBBBBBBBBBBBB?????BBBBEEEHHHHHHHHKKHHHH
 
75
HHHHEEEEBBB????????!!!!??BBBBBBHHKKKKKKKNQQQQQQQQQNNQQQQNNKK
 
76
NNNNNNKKKKKKKHHHHEEEEBBBBBBBBB????????????????????!!!!!BBBBB
 
77
BBBBEEEHHHHHHHHHHHHHBBEEHHHHHEEEBBBBBBBBBBBBBBB??BBBBEEENNNN
 
78
NNNNNNNQQTTTWWQQQQNNNEEHHHHHHKNNKKHHHEEHHHHHHHHHEEHHHHEBBBEE
 
79
EEEEBBBBBBBBBBB????????!!!BBBBBBBBBBBBBBBEEEEEEEEEE????BEEEE
 
80
EEEEEEBBBEHHKKKKKKKKHKQQQTTWWZZZZZZWWTWWWZZ]``]WWWTTQQNNNNNQ
 
81
QQQNNQNNKHHEEEEEEEEEHHHHHHHHHHEEEEEEHHHHKKKKKHKKKEEEEEEHKKKK
 
82
KHHHHEEEEEEBBBBBBBBB?!!!!!!?BBBBBBBBEEEHKKKKKKKKKKKKHEHHHHHH
 
83
HEEEEBBBBBBEEEEEEEEBBBBEEEEEEEHHKKKKHHKKKNNNNNNQNNQQQQNKKHKK
 
84
KKKHHHEEEEEEBBBEEEEEEEEBBBBBEEEEEHHKKNNNHHKKKKKKNNNNNKKKKKHH
 
85
EEBBEHHEEEEEEBBBBBBBBBEEEEEEEB???????????BBBEEEBBEEEEEEEEEEE
 
86
EEEEEEBBEBBBBB??BBBEEEEEHHHHHHHHHHHHKNNNNKKKHKKKKHKKKKKKKKHH
 
87
HEHHHKKKNNNNNNNNNNNNNNNQQQTNNNKNNNQNNNNNKKKKKKQQNQQNNNNNKKHE
 
88
HHHHHHHKKKKEEEBBBBBBBBBBB???BBEEBBBBBBEEEEHHHHHHHHKKKHHEEHHH
 
89
HHHEEEEBEEHKKKK///////,,/////111111/,,,,,,,,,,///+++++((((%(
 
90
(((((((((EHEEHKKKNNNNNNNKKKKKKNNNNKHHHEBBB??????????BBB?????
 
91
??????????????BBB???????????BBBBBBBBBHNKKKKNNNNNQQQQQNNNNNQQ
 
92
QQKEEEEEBEEEEBBBBEEEEEEBBBBBBBBBBB????????!!!!??????EEEEHHHH
 
93
HHHHHKKKKKNKKKKKKEEHHEEEEEEEEEBBBBB?????????!!!!!!??????BBBB
 
94
BBBBEHKKKKNNNQQNNNNNNKKKKKKQTQNKKKNKKKHHHHHKKKNNNNNNHEEEHHHE
 
95
EEEEEEHKHHHEEEEEHHHHHHHHHHHHKKKHEEEEHNNNNKKKKKHHHHHHHEHHHHHH
 
96
HHBBBEEEEEEHHHHNNNNKKNNNNNNQQWTWWWWWTTTTNNNNNNKKKKKKHHBB????
 
97
?????????????BBB????????????????BBEHHHHHKKKKKKKKKNNNNNNQQNNK
 
98
HHHEEBBBBBBBBEBBBBBB????BBBEEEEHHKKKNQNQQQQQQQQQQNNNKKKKHKHH
 
99
HEBB???HHHHHHHHHHHHHHHEEEEEEEHHKEEEHHHHHKKKKKKKKKKKKKKKKHEEE
 
100
BBBBB???BBEEHKKQQQQNNNNNNNNNQQQQQNNKKHEEBBBBBBBBBBBBB???????
 
101
?????!????????????BBBEHHHHHHHHHEEEEEEEEEEHHEEEB?????????BBBB
 
102
EEEEEEBEHKKKKKQQQQQQQNNNNKKKKKKKHEEHHHHBEHNNNNNQQQQQQQQQQQTQ
 
103
NNQQTQQKKKKKHHKKNNNNNNNKKKKHHEHEEEEEHHHEEBBBBBBBBBBBBBB?????
 
104
?!!!!!!!!!!!???????????????BEEEEEHHHHHHHHNQQQQQQQQQQQNNNNNKK
 
105
KKHHHHB????BEHHHHEEEEEEEEHHHKKKKNQQQNKHHHHHNNQQQTTQQQQQQQNKK
 
106
KKKKKKKKEEBBB?????!!!!!???BBBBBBBEHHHHHHHHHHKKKKHHHEEEEEEHEB
 
107
EEEEEHHHKKKKKKKKKKKKKKHNNKKKKKKKNKKNNNNQWWWWWWWWQQQQQQQNNNNK
 
108
KKKKHBBBEEEEEEEEEHHHHHEEEBBBBBBEHEEEEEEEEEBBBBBBBBBBBEEEB???
 
109
??BBBBBBBBBBEEEEEEBBBBEEEEEBBBEEHHHHHEEEEHHHKKKKKKKKKKKHHEEE
 
110
EEHKKKHKKHKKKKKKNTTTWWWWWWWTQQQQQTTQQNNNNKHHHEEEEEEEEEEHHEBB
 
111
BEEEEEEBBBBBBEEEEEHHEEEHHHHHHHHHHHHHHHEEEEEBBBBBBBB?????????
 
112
????????????EBBBBBBBBBBBBBBBBBBBBBBBEBEEEEEEEEEEEHHKKKNNNNNN
 
113
NKHEEEEEEHHHHHEEBBB??????BBBBBBBBB???BBBBBBBEEEEHHEEEEEEEEEE
 
114
EEBBBBBBB????!!!