Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 573 of 770
Found at i:178658168 original size:40 final size:40
Alignment explanation
Indices: 178658007--178658188 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
178657997 CGAGTGATAT
* * *** *
178658007 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
178658046 CCGGGCTAAG-CCCAAAGGCAATTGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
178658085 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
178658124 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
178658164 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
178658189 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 80 0.64
40 45 0.36
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:178666585 original size:77 final size:78
Alignment explanation
Indices: 178666489--178666638 Score: 257
Period size: 77 Copynumber: 1.9 Consensus size: 78
178666479 AATGTTCGAG
178666489 TGATATCCGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
1 TGATATCCGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
178666553 ATTGTGCGAGCTA
66 ATTGTGCGAGCTA
* * *
178666566 TGATATCCGGGTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 TGATATCCGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
*
178666631 TTTGTGCG
66 ATTGTGCG
178666639 GGTTACCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
77 51 0.75
78 17 0.25
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (78 bp):
TGATATCCGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGCTA
Found at i:178666590 original size:38 final size:39
Alignment explanation
Indices: 178666488--178666638 Score: 234
Period size: 38 Copynumber: 3.9 Consensus size: 39
178666478 GAATGTTCGA
*
178666488 GTGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
178666526 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
178666565 ATGATATCCGGG-TAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
178666603 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
178666639 GGTTACCATA
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
38 45 0.43
39 42 0.40
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:178674311 original size:29 final size:30
Alignment explanation
Indices: 178674258--178674315 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
178674248 CGAAAGTTTT
178674258 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
178674288 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
178674316 CGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:178678440 original size:27 final size:27
Alignment explanation
Indices: 178678405--178678626 Score: 198
Period size: 27 Copynumber: 8.2 Consensus size: 27
178678395 TTAGTTTACC
* *
178678405 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
178678432 AAATTACCAAAATACCC-CTAGTTAGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
178678459 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
178678486 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
**
178678513 AAATTACTGAAATACCCTCG-TCTTGTA
1 AAATTACCAAAATACCCTCGAT-TTGTA
*** *
178678540 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
178678567 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** *
178678594 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
178678621 AAATTA
1 AAATTA
178678627 TTGAAATACC
Statistics
Matches: 161, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 157 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:178678599 original size:81 final size:81
Alignment explanation
Indices: 178678405--178678637 Score: 224
Period size: 81 Copynumber: 2.9 Consensus size: 81
178678395 TTAGTTTACC
* * * * **
178678405 AAATTACCAAAATACCCTCGA-TTA-GCAAAATTACCAAAATACCC-CTAGTTAGTAAAATTACC
1 AAATTACCAAAATACCCCCGATTTATG--AAATTACCGAAATACCCTCGATTTA-TAAAATTATT
* * **
178678467 AAAATACCCTTGGTTTGTA
63 GAAATACCCTCGACTTGTA
* * * *
178678486 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCG-TCTTGTAAAATTATTGA
1 AAATTACCAAAATACCCCCGATTTATGAAATTACCGAAATACCCTCGAT-TTATAAAATTATTGA
178678550 AATACCCTCGACTTGTA
65 AATACCCTCGACTTGTA
* ***
178678567 AAATTACCAAAGTACCCCCGATTTAT-AGAATTACCGTTTTACCCTCGATTTATAAAATTATTGA
1 AAATTACCAAAATACCCCCGATTTATGA-AATTACCGAAATACCCTCGATTTATAAAATTATTGA
178678631 AATACCC
65 AATACCC
178678638 CTGTAGGGTA
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
80 1 0.01
81 116 0.94
82 6 0.05
83 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCCGATTTATGAAATTACCGAAATACCCTCGATTTATAAAATTATTGAA
ATACCCTCGACTTGTA
Found at i:178678652 original size:27 final size:27
Alignment explanation
Indices: 178678622--178678735 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
178678612 CGATTTATAA
*
178678622 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
178678649 AATTACTGAAATACCATTGTAGGGTAT
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
178678676 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
178678703 AATTATTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
178678730 AATTAC
1 AATTAC
178678736 CATTTTTCCC
Statistics
Matches: 68, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:178678748 original size:54 final size:54
Alignment explanation
Indices: 178678629--178678732 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
178678619 TAAAATTATT
*
178678629 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCATTGTAGGGTATAAATACC
1 GAAATACCCCTATAGGGTAGAATTACTGAAATACCATTGTAGGGTATAAATACC
* * * *
178678683 GAAATACCCCTATAGGGTAGAATTATTGAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTATAGGGTAGAATTACTGAAATACCATTGTAGGGTATAAAT
178678733 TACCATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (54 bp):
GAAATACCCCTATAGGGTAGAATTACTGAAATACCATTGTAGGGTATAAATACC
Found at i:178679308 original size:22 final size:22
Alignment explanation
Indices: 178679250--178679308 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 22
178679240 GCCAATTATT
178679250 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGCGCCAAC
*
178679272 CT-ACTACATATGGCTTTGTGCCAAC
1 CTGA-T---TATGGCTTTGCGCCAAC
178679297 CTGATTATGGCT
1 CTGATTATGGCT
178679309 GTTTGCAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
21 1 0.03
22 10 0.32
25 19 0.61
26 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGCGCCAAC
Found at i:178679447 original size:27 final size:26
Alignment explanation
Indices: 178679411--178679483 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
178679401 AGTGGCTTTG
* *
178679411 CCACATTATCTGATTCTGGTGGCTCTA
1 CCACAATATCTG-TTCTGGTGACTCTA
* * *
178679438 CCGCAATATCTGTATCTGATGACTCTG
1 CCACAATATCTGT-TCTGGTGACTCTA
*
178679465 TCACAATATCTGTTCTGGT
1 CCACAATATCTGTTCTGGT
178679484 AGCCATGCTG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 6 0.16
27 31 0.84
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTCTA
Found at i:178679635 original size:25 final size:25
Alignment explanation
Indices: 178679599--178679684 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
178679589 TTGCATTCAC
*
178679599 ATTCTGACTCTGTTACCTGATACTG
1 ATTCTGATTCTGTTACCTGATACTG
* *
178679624 ATTCTGATTCTGTCACCTAATACTG
1 ATTCTGATTCTGTTACCTGATACTG
* *
178679649 ATTCTGATTCTGATACATGATACTG
1 ATTCTGATTCTGTTACCTGATACTG
178679674 ATTCTGATTCT
1 ATTCTGATTCT
178679685 CATTATGAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTGATACTG
Found at i:178679669 original size:19 final size:18
Alignment explanation
Indices: 178679643--178679681 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
178679633 CTGTCACCTA
*
178679643 ATACTGATTCTGATTCTG
1 ATACTGATACTGATTCTG
178679661 ATACATGATACTGATTCTG
1 ATAC-TGATACTGATTCTG
178679680 AT
1 AT
178679682 TCTCATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
ATACTGATACTGATTCTG
Found at i:178679682 original size:6 final size:6
Alignment explanation
Indices: 178679615--178679684 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
178679605 ACTCTGTTAC
* * * * *
178679615 CTGATA CTGATT CTGATT CTG-TCAC CTAATA CTGATT CTGATT CTGATA
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
*
178679664 CATGATA CTGATT CTGATT CT
1 C-TGATT CTGATT CTGATT CT
178679685 CATTATGAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
5 1 0.02
6 42 0.81
7 8 0.15
8 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (6 bp):
CTGATT
Found at i:178682325 original size:40 final size:40
Alignment explanation
Indices: 178682260--178682465 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
178682250 TCTTCGGAAT
* ** *
178682260 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
178682299 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
178682338 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
178682377 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
178682417 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
178682457 TTAGCCCGG
1 TTAGCCCGG
178682466 GTATCATTCA
Statistics
Matches: 150, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 28 0.19
39 18 0.12
40 103 0.69
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:178682362 original size:78 final size:78
Alignment explanation
Indices: 178682260--178682469 Score: 305
Period size: 78 Copynumber: 2.7 Consensus size: 78
178682250 TCTTCGGAAT
* * * *
178682260 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
1 TTAGCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTCGCACA
178682325 AATGCCTTC-GGTC
65 AATGCCTTCGGGTC
* *
178682338 TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
1 TTAGCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTCGCACA
178682403 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* *
178682417 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 TTAG-CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTAT
178682470 CATTCAAATG
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
77 1 0.01
78 66 0.56
79 8 0.07
80 42 0.36
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
TTAGCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTCGCACAA
ATGCCTTCGGGTC
Found at i:178690551 original size:40 final size:40
Alignment explanation
Indices: 178690437--178690642 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
178690427 TCTTCGGAAT
* ** *
178690437 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
178690476 TTAACCCGGGTATAGCAAC-C-CACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
178690514 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
178690554 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
178690594 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
178690634 TTAGCCCGG
1 TTAGCCCGG
178690643 GTATCATTCA
Statistics
Matches: 151, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 33 0.22
39 4 0.03
40 113 0.75
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:178693030 original size:40 final size:40
Alignment explanation
Indices: 178692974--178693138 Score: 206
Period size: 40 Copynumber: 4.1 Consensus size: 40
178692964 CGGATGATAA
* * *
178692974 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGCCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
178693014 CCGGCCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGCCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
* *
178693054 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATAT
1 CCGGCCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
178693094 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGCCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
178693134 CCGGC
1 CCGGC
178693139 TAAATCCCAA
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 103 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGCCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:178693112 original size:80 final size:80
Alignment explanation
Indices: 178692974--178693141 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
178692964 CGGATGATAA
* * * *
178692974 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGCCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGCCTAAGACCCGAAGGCATTTA
*
178693039 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* * * *
178693054 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGCCTAAGACCCGAAGGCATTTA
178693119 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
178693134 CC-GGCTAA
1 CCGGGCTAA
178693142 ATCCCAAAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 6 0.08
80 70 0.90
81 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGCCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:178696739 original size:11 final size:11
Alignment explanation
Indices: 178696725--178696769 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
178696715 AGATAAATAT
178696725 TATTTTATTAA
1 TATTTTATTAA
*
178696736 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
178696749 TATTTTATTAT
1 TATTTTATTAA
178696760 TATTTTATTA
1 TATTTTATTA
178696770 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:178699015 original size:46 final size:46
Alignment explanation
Indices: 178698940--178699423 Score: 709
Period size: 46 Copynumber: 10.7 Consensus size: 46
178698930 TGGCAACCTG
*
178698940 TGTGTAAGACCATGGTTGAAAAATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
178698986 TGTGTAAGACCATGGTTGAAAGATGCCATGGCAACC-----T---A
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
178699024 TGTGTAAGACCATGGTTGAAA-ATACCATGGCAACCTAATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
178699069 TGTGTAAGATCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
178699115 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
178699161 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
178699207 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
178699253 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * * *
178699299 TATGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
178699345 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
178699391 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
178699424 TCACGTCAAA
Statistics
Matches: 403, Mismatches: 25, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
37 13 0.03
38 22 0.05
41 1 0.00
42 1 0.00
45 22 0.05
46 344 0.85
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:178702369 original size:11 final size:11
Alignment explanation
Indices: 178702355--178702399 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
178702345 AGATAAATAT
178702355 TATTTTATTAA
1 TATTTTATTAA
*
178702366 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
178702379 TATTTTATTAT
1 TATTTTATTAA
178702390 TATTTTATTA
1 TATTTTATTA
178702400 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:178704567 original size:38 final size:39
Alignment explanation
Indices: 178704517--178704638 Score: 174
Period size: 38 Copynumber: 3.0 Consensus size: 39
178704507 CTGATATGAA
178704517 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
178704556 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
178704599 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
178704639 AATTGAAAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 14
0.84 0.00 0.16
Matches are distributed among these distances:
38 36 0.48
41 1 0.01
43 2 0.03
46 36 0.48
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:178704623 original size:46 final size:45
Alignment explanation
Indices: 178704556--178704646 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 45
178704546 TGGCAACCTG
*
178704556 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT-TGAAA
178704602 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAA
178704647 GATACCATGG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 5 0.11
46 39 0.89
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24
Consensus pattern (45 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAA
Found at i:178704672 original size:24 final size:24
Alignment explanation
Indices: 178704617--178704662 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
178704607 AAGACCATGG
178704617 TTGAAAGATACCATGGCAACCTAA
1 TTGAAAGATACCATGGCAACCTAA
178704641 TTGAAAGATACCATGGCAACCT
1 TTGAAAGATACCATGGCAACCT
178704663 GTGTGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (24 bp):
TTGAAAGATACCATGGCAACCTAA
Found at i:178704715 original size:46 final size:46
Alignment explanation
Indices: 178704664--178704926 Score: 420
Period size: 46 Copynumber: 5.7 Consensus size: 46
178704654 TGGCAACCTG
178704664 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
178704710 TGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
178704756 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
178704802 TGTGTAAGACCATGGTTGAAATATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
178704848 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
178704894 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
178704927 TCACGTCAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:178704726 original size:108 final size:108
Alignment explanation
Indices: 178704533--178704746 Score: 419
Period size: 108 Copynumber: 2.0 Consensus size: 108
178704523 AAGACCATGG
178704533 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
178704598 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAA
66 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAA
178704641 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
*
178704706 GAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCT
66 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
178704747 GATATGAGAT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (108 bp):
TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAA
Found at i:178704784 original size:108 final size:105
Alignment explanation
Indices: 178704544--178704926 Score: 415
Period size: 92 Copynumber: 3.9 Consensus size: 105
178704534 TGAAAGATAC
* *
178704544 CATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
178704609 GACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAGAT
66 GACCATGGTTGAAAGATACCATGGCAACCTAATTG-AAGAT
* *
178704650 ACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
1 --CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
*
178704715 AAGACCGTGGTTGAAAGATACCATGGCAACC----T---GAT
64 AAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAGAT
* *
178704750 -AT-GAGA--TGTGT--AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAA
1 CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
*
178704809 GACCATGGTTGAAATATACCATGGCAACC----T---GAT
66 GACCATGGTTGAAAGATACCATGGCAACCTAATTGAAGAT
* * *
178704842 -AT-GAGA--TGTGT--AAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGAGTA
1 CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTA
* * *
178704900 AGACCATAGTTGAAAGACACTATGGCA
65 AGACCATGGTTGAAAGATACCATGGCA
178704927 TCACGTCAAA
Statistics
Matches: 263, Mismatches: 11, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
91 1 0.00
92 156 0.59
94 5 0.02
96 2 0.01
97 2 0.01
100 3 0.01
104 1 0.00
108 93 0.35
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (105 bp):
CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
GACCATGGTTGAAAGATACCATGGCAACCTAATTGAAGAT
Found at i:178704790 original size:154 final size:146
Alignment explanation
Indices: 178704518--178704790 Score: 456
Period size: 154 Copynumber: 1.8 Consensus size: 146
178704508 TGATATGAAA
178704518 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
178704583 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAG
66 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAG
178704648 ATACCATGGCAACCTG
131 ATACCATGGCAACCTG
*
178704664 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCGTGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---TGTGTAAGACCATGGTTGA
*
178704729 AAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
58 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
178704791 ATGATATGAA
Statistics
Matches: 117, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
146 36 0.31
151 2 0.02
154 79 0.68
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (146 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAG
ATACCATGGCAACCTG
Found at i:178704830 original size:154 final size:143
Alignment explanation
Indices: 178704518--178704926 Score: 423
Period size: 138 Copynumber: 2.8 Consensus size: 143
178704508 TGATATGAAA
*
178704518 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
1 TGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
*
178704583 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAG
66 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAATTGAAAG
178704648 ATACCATGGCAACCTG
131 ATA-CA-GG-AACCTG
* *
178704664 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCGTGGTTGA
1 TGTGAAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---TGTGTAAGACCATGGTTGA
*
178704729 AAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC---
58 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATA
* *
178704791 A-T----GAT--ATGAA-ATG
123 ATTGAAAGATACAGGAACCTG
*
178704804 TGT--AAGACCATGGTTGAAATATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
1 TGTGAAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAGACCATGGTTGA
* * * * *
178704867 AAGATACCATGGCAACATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
58 AAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
178704927 TCACGTCAAA
Statistics
Matches: 240, Mismatches: 12, Indels: 30
0.85 0.04 0.11
Matches are distributed among these distances:
137 1 0.00
138 107 0.45
140 6 0.03
141 2 0.01
142 1 0.00
143 1 0.00
146 39 0.16
150 1 0.00
151 3 0.01
154 79 0.33
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (143 bp):
TGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAATTGAAAG
ATACAGGAACCTG
Found at i:178705666 original size:35 final size:35
Alignment explanation
Indices: 178705620--178705756 Score: 247
Period size: 35 Copynumber: 3.9 Consensus size: 35
178705610 CACTTGCCTC
178705620 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
178705655 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
*
178705690 TTCCCACTCACCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
178705725 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCA
178705757 TCATCACACA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 98 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:178706204 original size:33 final size:34
Alignment explanation
Indices: 178706162--178706225 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
178706152 AGAGGGGAAG
*
178706162 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCAC
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCAC
**
178706195 CAAAAAAAAATTTCCAGAAAAAAATTTCCAG
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAG
178706226 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.59, C:0.20, G:0.06, T:0.14
Consensus pattern (34 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCAC
Found at i:178706215 original size:14 final size:15
Alignment explanation
Indices: 178706198--178706233 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
178706188 CCAGCACCAA
178706198 AAAAAAATTTCCAG-
1 AAAAAAATTTCCAGT
178706212 AAAAAAATTTCCAGT
1 AAAAAAATTTCCAGT
178706227 AAAAAAA
1 AAAAAAA
178706234 AACCAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.64, C:0.11, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAAAATTTCCAGT
Found at i:178706233 original size:33 final size:30
Alignment explanation
Indices: 178706160--178706235 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 30
178706150 AAAGAGGGGA
*
178706160 AGCAAAAAAAAAAATCCAGCAAAAAATTCC
1 AGCAAAAAAAAAAATCCAGAAAAAAATTCC
*
178706190 AGCACCAAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA--AAAAAAAAA-ATCCAGAAAAAAA-TTCC
*
178706224 AGTAAAAAAAAA
1 AGCAAAAAAAAA
178706236 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
30 4 0.10
32 17 0.44
33 11 0.28
34 7 0.18
ACGTcount: A:0.63, C:0.17, G:0.07, T:0.13
Consensus pattern (30 bp):
AGCAAAAAAAAAAATCCAGAAAAAAATTCC
Found at i:178706516 original size:11 final size:11
Alignment explanation
Indices: 178706491--178706539 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
178706481 CGACCGGATT
*
178706491 TCCCTTC-CCC
1 TCCCTTCTCTC
178706501 TCCCTTCTCTC
1 TCCCTTCTCTC
178706512 TCCCTTCTCTC
1 TCCCTTCTCTC
178706523 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
178706534 TTCCTT
1 TCCCTT
178706540 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 10 0.29
11 20 0.59
12 4 0.12
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:178707066 original size:2 final size:2
Alignment explanation
Indices: 178707054--178707185 Score: 57
Period size: 2 Copynumber: 69.0 Consensus size: 2
178707044 ATCATTTCTA
* * *
178707054 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** * * *
178707094 AT AT -T AT GT AT AT AT GCC AT -T AGT -T AT AT AT TT CT -T AT GT
1 AT AT AT AT AT AT AT AT -AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
178707134 AT AT AT -T CT -T AA AT ACT AT -T AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
178707174 AT AT AT GT AT AT
1 AT AT AT AT AT AT
178707186 TTTAAATTCC
Statistics
Matches: 98, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
1 9 0.09
2 86 0.88
3 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.51
Consensus pattern (2 bp):
AT
Found at i:178707089 original size:22 final size:23
Alignment explanation
Indices: 178707057--178707108 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
178707047 ATTTCTAATA
178707057 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
178707080 TGTAT-TATATATATATATTATG
1 TGTATATATATATATATATTATG
*
178707102 TATATAT
1 TGTATAT
178707109 GCCATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
TGTATATATATATATATATTATG
Found at i:178707291 original size:2 final size:2
Alignment explanation
Indices: 178707274--178707308 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
178707264 GTGTATATTT
* *
178707274 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
178707309 TTTGCACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:178719399 original size:70 final size:70
Alignment explanation
Indices: 178719312--178719897 Score: 976
Period size: 70 Copynumber: 8.2 Consensus size: 70
178719302 CAAGTGACAG
*
178719312 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
178719377 GTTTC
66 GTTTC
178719382 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
178719447 GTTTC
66 GTTTC
*
178719452 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
178719517 GTTTC
66 GTTTC
*
178719522 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
178719587 AATTTATGTTTC
59 AATTTATGTTTC
*
178719599 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
178719664 GTTTC
66 GTTTC
178719669 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
178719734 GTTTC
66 GTTTC
178719739 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-ACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
178719803 AATTTATGTTTC
59 AATTTATGTTTC
* *
178719815 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
178719880 GTTTC
66 GTTTC
178719885 AAAAATCAACTCA
1 -AAAATCAACTCA
178719898 ATAGGTGAGT
Statistics
Matches: 491, Mismatches: 9, Indels: 31
0.92 0.02 0.06
Matches are distributed among these distances:
69 11 0.02
70 326 0.66
71 16 0.03
72 2 0.00
74 1 0.00
75 3 0.01
76 56 0.11
77 76 0.15
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:178719680 original size:217 final size:217
Alignment explanation
Indices: 178719312--178719897 Score: 1062
Period size: 217 Copynumber: 2.7 Consensus size: 217
178719302 CAAGTGACAG
* *
178719312 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
178719370 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
178719435 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
178719500 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
178719522 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
178719587 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
*
178719652 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
178719717 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
178719739 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
178719803 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
*
178719868 ATTTCAATTTCTGTTTCAAAAATCAACTCA
131 ATTTCAATTTATGTTTC-AAAATCAACTCA
178719898 ATAGGTGAGT
Statistics
Matches: 363, Mismatches: 5, Indels: 9
0.96 0.01 0.02
Matches are distributed among these distances:
210 49 0.13
215 1 0.00
216 110 0.30
217 203 0.56
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
AGGTAATTTCAATTTATGTTTC
Found at i:178719892 original size:287 final size:282
Alignment explanation
Indices: 178719312--178719897 Score: 989
Period size: 287 Copynumber: 2.0 Consensus size: 282
178719302 CAAGTGACAG
*
178719312 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCACATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
178719377 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
178719442 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
*
178719507 TTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAG
196 TTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAG
178719572 GTAATTTCAATTTTCAATTTATGTTTC
261 GTAATTTCAATTTTC-----ATGTTTC
*
178719599 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCACATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
178719664 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
178719729 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-ACACGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG----
*
178719793 TTCAATTTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACA
192 -T-AA-TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACA
178719858 CGTTGAGGTAATTTCAA-TTTC-TGTTTC
254 CGTTGAGGTAATTTCAATTTTCATGTTTC
178719885 AAAAATCAACTCA
1 -AAAATCAACTCA
178719898 ATAGGTGAGT
Statistics
Matches: 286, Mismatches: 5, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
286 17 0.06
287 188 0.66
291 1 0.00
292 6 0.02
293 74 0.26
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (282 bp):
AAAATCAACTCACATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
TTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAG
GTAATTTCAATTTTCATGTTTC
Found at i:178720745 original size:35 final size:35
Alignment explanation
Indices: 178720699--178720804 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
178720689 CACTTGCCTC
178720699 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
178720734 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
178720769 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
178720804 T
1 T
178720805 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:178721223 original size:14 final size:14
Alignment explanation
Indices: 178721206--178721271 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 14
178721196 GGGGAAGCAA
178721206 AAAAAAAATCCAGC
1 AAAAAAAATCCAGC
*
178721220 -AAAAAATTCCAGC
1 AAAAAAAATCCAGC
178721233 AAAAAAAAATTTCCAG-
1 -AAAAAAAA--TCCAGC
*
178721249 AAAAAAATTTCCAGC
1 AAAAAAA-ATCCAGC
178721264 AAAAAAAA
1 AAAAAAAA
178721272 AACCAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 12 0.29
14 5 0.12
15 20 0.48
17 5 0.12
ACGTcount: A:0.64, C:0.17, G:0.06, T:0.14
Consensus pattern (14 bp):
AAAAAAAATCCAGC
Found at i:178721225 original size:13 final size:14
Alignment explanation
Indices: 178721206--178721270 Score: 71
Period size: 14 Copynumber: 4.5 Consensus size: 14
178721196 GGGGAAGCAA
*
178721206 AAAAAAAATCCAGC
1 AAAAAAATTCCAGC
178721220 -AAAAAATTCCAGC
1 AAAAAAATTCCAGC
178721233 AAAAAAAAATTTCCAG-
1 --AAAAAAA-TTCCAGC
178721249 AAAAAAATTTCCAGC
1 AAAAAAA-TTCCAGC
178721264 AAAAAAA
1 AAAAAAA
178721271 AAACCAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
13 12 0.27
14 14 0.31
15 7 0.16
16 6 0.13
17 6 0.13
ACGTcount: A:0.63, C:0.17, G:0.06, T:0.14
Consensus pattern (14 bp):
AAAAAAATTCCAGC
Found at i:178721255 original size:31 final size:29
Alignment explanation
Indices: 178721201--178721284 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
178721191 AAAGAGGGGA
*
178721201 AGCAAAAAAAAAATCCAGCAAAAAATTCC
1 AGCAAAAAAAAAATCCAGAAAAAAATTCC
*
178721230 AGCAAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCAAAAAAAAA-ATCCAGAAAAAAA-TTCC
*
178721261 AGCAAAAAAAAAA-CCAAAAAAAAA
1 AGCAAAAAAAAAATCCAGAAAAAAA
178721285 CAATAGAACG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.45
30 11 0.22
31 16 0.33
ACGTcount: A:0.67, C:0.17, G:0.06, T:0.11
Consensus pattern (29 bp):
AGCAAAAAAAAAATCCAGAAAAAAATTCC
Found at i:178721426 original size:16 final size:14
Alignment explanation
Indices: 178721400--178721446 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 14
178721390 TATATATATT
*
178721400 AAAACATAAAATATA
1 AAAAAATAAAATA-A
178721415 AATAAAATAAAATAA
1 AA-AAAATAAAATAA
178721430 AAAAAA-AAAA-AA
1 AAAAAATAAAATAA
178721442 AAAAA
1 AAAAA
178721447 GATTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.23
13 4 0.13
14 4 0.13
15 5 0.17
16 10 0.33
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAATAA
Found at i:178722117 original size:23 final size:23
Alignment explanation
Indices: 178722090--178722142 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
178722080 ATTTCTAATA
178722090 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
178722113 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
*
178722136 TATATAT
1 TGTATAT
178722143 GCCATTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (23 bp):
TGTATATATATATATATATTATG
Found at i:178722158 original size:2 final size:2
Alignment explanation
Indices: 178722087--178722142 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
178722077 ATCATTTCTA
* * *
178722087 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
178722128 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
178722143 GCCATTAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:178723653 original size:26 final size:26
Alignment explanation
Indices: 178723624--178723731 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
178723614 TGATACAAAT
*
178723624 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
178723650 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
178723676 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
178723702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
178723728 TGAT
1 TGAT
178723732 GAGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:178725364 original size:27 final size:27
Alignment explanation
Indices: 178725324--178725464 Score: 121
Period size: 27 Copynumber: 5.2 Consensus size: 27
178725314 AGGAAGCGTC
*
178725324 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCTAAT
*
178725351 CTGGTGGCTCTGCCAC-ATATATCT-GT
1 CTGGTGGCTCTGCCACAAT-TATCTAAT
** * *
178725377 CCTAATGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTAAT
* **
178725405 CTGGTGGCTCTGCCAC-ATAAATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTAAT
178725432 CTGGTCGG-TCTGCCACAA-TATCTATAT
1 CTGGT-GGCTCTGCCACAATTATCTA-AT
178725459 CTGGTG
1 CTGGTG
178725465 ACTTCGTCAC
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
26 10 0.11
27 76 0.83
28 6 0.07
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTAAT
Found at i:178725407 original size:54 final size:54
Alignment explanation
Indices: 178725328--178725464 Score: 188
Period size: 54 Copynumber: 2.5 Consensus size: 54
178725318 AGCGTCCTGG
*
178725328 TGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTAA
1 TGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATAAATCTGTCCTAA
* * **
178725382 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAAATCTGTTCTGG
1 TGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATAAATCTGTCCTAA
*
178725436 TCGG-TCTGCCACAA-TATCTATATCTGGTG
1 T-GGCTATGCCACAATTATCTA-ATCTGGTG
178725465 ACTTCGTCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 5 0.07
54 67 0.91
55 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (54 bp):
TGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATAAATCTGTCCTAA
Found at i:178731600 original size:25 final size:26
Alignment explanation
Indices: 178731506--178731612 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
178731496 TGATACAAAT
178731506 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
178731532 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
178731558 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
178731584 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
178731609 TGAT
1 TGAT
178731613 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 22 0.28
26 57 0.72
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:178732794 original size:8 final size:8
Alignment explanation
Indices: 178732781--178732810 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
178732771 AGATCGGCAC
178732781 AAGCCGAA
1 AAGCCGAA
178732789 AAGCCGAA
1 AAGCCGAA
*
178732797 ATGCCGAA
1 AAGCCGAA
178732805 AAGCCG
1 AAGCCG
178732811 GTTTTTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:178733238 original size:27 final size:27
Alignment explanation
Indices: 178733198--178733337 Score: 189
Period size: 27 Copynumber: 5.2 Consensus size: 27
178733188 AGGAAGCGTC
*
178733198 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
178733225 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
178733251 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
178733279 CTGGTGGCTCTGCCAC-ATAATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
178733305 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
178733332 CTGGTG
1 CTGGTG
178733338 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
26 32 0.32
27 65 0.65
28 3 0.03
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:178733277 original size:54 final size:53
Alignment explanation
Indices: 178733195--178733337 Score: 243
Period size: 54 Copynumber: 2.7 Consensus size: 53
178733185 TGGAGGAAGC
178733195 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATA-ATCT
178733249 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAATCT
* *
178733302 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
178733338 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
52 6 0.07
53 31 0.36
54 49 0.57
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAATCT
Found at i:178733355 original size:53 final size:53
Alignment explanation
Indices: 178733195--178733355 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 53
178733185 TGGAGGAAGC
178733195 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACA-ATATCT
178733249 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCAC-ATAATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAAT-ATCT
* * * *
178733302 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACT-TCGTCACAATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCT-GCCACAATATCT
178733355 G
1 G
178733356 GCAGCCTCAC
Statistics
Matches: 99, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
52 9 0.09
53 42 0.42
54 48 0.48
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATCT
Found at i:178734343 original size:38 final size:38
Alignment explanation
Indices: 178734262--178734340 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
178734252 GGGTGTTACA
* *
178734262 TTTCCAGCATGTAGCCTGTGACCTCAGGTCCGGATATG
1 TTTCCAGCACGTAGCCTGTGACCTCAAGTCCGGATATG
178734300 TTTCCAGCACGTAGCCTACG-GACCTCAAGTCCGGATATG
1 TTTCCAGCACGTAGCCT--GTGACCTCAAGTCCGGATATG
178734339 TT
1 TT
178734341 CCAAATATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 16 0.43
39 20 0.54
40 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (38 bp):
TTTCCAGCACGTAGCCTGTGACCTCAAGTCCGGATATG
Found at i:178740733 original size:79 final size:80
Alignment explanation
Indices: 178740573--178740739 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 80
178740563 CATTTGAATG
* * * **
178740573 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCA
*
178740638 TTCGTGCGAGTTGTT
66 TTCGTGCGAGTGGTT
* * *
178740653 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCA-ATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGC-
**
178740717 ATT-GTGCTTGTGGTT
65 ATTCGTGCGAGTGGTT
178740732 ATATCCGG
1 ATATCCGG
178740740 TTAAATCCGA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
79 38 0.51
80 37 0.49
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTGGTT
Found at i:178740743 original size:39 final size:40
Alignment explanation
Indices: 178740573--178740739 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
178740563 CATTTGAATG
* * *
178740573 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
178740613 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
178740653 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
178740693 A-ATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
178740732 ATATCCGG
1 ATATCCGG
178740740 TTAAATCCGA
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.33
40 67 0.63
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:178742259 original size:40 final size:39
Alignment explanation
Indices: 178742215--178742290 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
178742205 CATTAGCGGT
* *
178742215 GTTTTCTAAAAAGCGTCGCTAATACTTGATCTTTAGCGAC
1 GTTTT-TAAAAAGCGCCGCTAATACTCGATCTTTAGCGAC
* * * *
178742255 GTTTTTGAAAAGTGCCGCTAATGCTCGTTCTTTAGC
1 GTTTTTAAAAAGCGCCGCTAATACTCGATCTTTAGC
178742291 ATCATTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
39 25 0.83
40 5 0.17
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (39 bp):
GTTTTTAAAAAGCGCCGCTAATACTCGATCTTTAGCGAC
Found at i:178744168 original size:13 final size:13
Alignment explanation
Indices: 178744150--178744176 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
178744140 TACATAATAA
178744150 AACATGTGATGTG
1 AACATGTGATGTG
178744163 AACATGTGATGTG
1 AACATGTGATGTG
178744176 A
1 A
178744177 TGAAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (13 bp):
AACATGTGATGTG
Found at i:178746882 original size:23 final size:23
Alignment explanation
Indices: 178746856--178746911 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
178746846 GTGAATTGAG
178746856 TTACTAAGTACTTAAATTAAATT
1 TTACTAAGTACTTAAATTAAATT
178746879 TTACTAAGTACTTAAATTAAATT
1 TTACTAAGTACTTAAATTAAATT
*
178746902 TAACTAAGTA
1 TTACTAAGTA
178746912 TACGAAACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (23 bp):
TTACTAAGTACTTAAATTAAATT
Found at i:178751058 original size:40 final size:40
Alignment explanation
Indices: 178751012--178751131 Score: 154
Period size: 40 Copynumber: 3.0 Consensus size: 40
178751002 ATAGCCTAAT
*
178751012 TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* * *
178751052 TTTAGTAACTCGCACAAATGCCTT-TGGATCTTAGTCCGGA
1 TATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA
* *
178751092 TATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
178751132 CATCATTCGA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.04
40 54 0.79
41 11 0.16
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
Found at i:178751967 original size:2 final size:2
Alignment explanation
Indices: 178751960--178751987 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
178751950 ATGTGCAAAC
178751960 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178751988 GTGCAAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:178755514 original size:12 final size:12
Alignment explanation
Indices: 178755497--178755530 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
178755487 AAAACCTTAG
178755497 TTTTTCCTTTTC
1 TTTTTCCTTTTC
178755509 TTTTT-CTTTTC
1 TTTTTCCTTTTC
178755520 TTCTTTCCTTT
1 TT-TTTCCTTT
178755531 CTCCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:178755603 original size:2 final size:2
Alignment explanation
Indices: 178755596--178755629 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
178755586 ACTTTATTTC
178755596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178755630 TAGTTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:178755649 original size:3 final size:3
Alignment explanation
Indices: 178755634--178755679 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
178755624 ATATATTAGT
* *
178755634 TAA TAA TAT TAA TAA TAA TACA TTA TAA TAA T-A TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
178755678 TA
1 TA
178755680 TTTAATTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:178755680 original size:13 final size:13
Alignment explanation
Indices: 178755634--178755680 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
178755624 ATATATTAGT
*
178755634 TAATAATATTA-A
1 TAATAATATAATA
* *
178755646 TAATAATACATTA
1 TAATAATATAATA
178755659 TAATAATATAATA
1 TAATAATATAATA
178755672 TAATAATAT
1 TAATAATAT
178755681 TTAATTCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:178755813 original size:3 final size:3
Alignment explanation
Indices: 178755805--178755888 Score: 104
Period size: 3 Copynumber: 29.0 Consensus size: 3
178755795 TAATTTATTT
178755805 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
178755853 T-T TAA TAA T-T TAA TAA -AA CT-A TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
178755889 ATATCTATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
2 5 0.07
3 65 0.93
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:178756203 original size:13 final size:12
Alignment explanation
Indices: 178756145--178756224 Score: 67
Period size: 12 Copynumber: 6.6 Consensus size: 12
178756135 AATTTATTTC
178756145 ATAA-TATAATA
1 ATAATTATAATA
178756156 AT-ATTAATAATA
1 ATAATT-ATAATA
*
178756168 ATATTTA-AATA
1 ATAATTATAATA
* **
178756179 GAAAACCATAATA
1 -ATAATTATAATA
178756192 ATAATTATTAATA
1 ATAATTA-TAATA
178756205 ATAATTATAATA
1 ATAATTATAATA
178756217 ATAGATTA
1 ATA-ATTA
178756225 ATAACAAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
10 1 0.02
11 7 0.13
12 24 0.44
13 22 0.41
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:178761874 original size:94 final size:93
Alignment explanation
Indices: 178761705--178762064 Score: 324
Period size: 94 Copynumber: 3.9 Consensus size: 93
178761695 TTTGTGCGCC
* * * * ** *
178761705 AGTGTAAGACGTGTTTGGGACATGCTTCGGCCATATTATGAGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACCATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
178761770 GAGATAGCATCGGCATCTAGACGAGGGCT
66 GACATGGCATCGGCATCAAGA-GAGTGCT
* * *
178761799 AGTGAAAGACATGTCTGGGACATGCATCAGCCATACCATGATAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACCATGAGAGCCAGTGTAAGACCATGTCTGG
*
178761864 GACATGGCATCGGCA-CAGAGATGAGTGCC
66 GACATGGCATCGGCATCA-AGA-GAGTGCT
* ** *
178761893 AGTGTAAGACATGTCTAGGACATGCATTGGCC-T-CGACA-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAC--CATGAG--AGCCAGTGTAAGACCATGT
* * **
178761954 CTGGGGCA-CGCATCGGC-T-AAGAGTTTGCT
62 CTGGGACATGGCATCGGCATCAAGAGAGTGCT
* * * *
178761983 AGTGTAAGACATGTTTGGGACATGCAACAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACCATGAGAGCCAGTGTAAGACCATGTC
178762047 TGGGACATGGCATCGGCA
63 TGGGACATGGCATCGGCA
178762065 ATATATCCCA
Statistics
Matches: 214, Mismatches: 37, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
90 29 0.14
91 16 0.07
92 15 0.07
93 24 0.11
94 118 0.55
95 12 0.06
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACCATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAAGAGAGTGCT
Found at i:178761901 original size:48 final size:46
Alignment explanation
Indices: 178761702--178762064 Score: 226
Period size: 47 Copynumber: 7.8 Consensus size: 46
178761692 TGATTTGTGC
* * * * * *
178761702 GCCAGTGTAAGACGTGTTTGGGACATGCTTCGGC-CATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGA-GATGAGT
* * * * *
178761748 GCCAGTGTAAGACCATGTTTGGGAGATAGCATCGGCATC-TAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CAGAGATGAGT
* * * * *
178761796 GCTAGTGAAAGACATGTCTGGGACATGCATCAGC-CATACCATGA-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGA-GATGAGT
*
178761841 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT
1 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGT
* *
178761890 GCCAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGACAGAGAT-A--
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG---C-ACAGAGATGAGT
* * * *
178761937 GCCAGTGTAAGACGTGTCTGGGGCACGCATCGGCTA-AGAG-T--TT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGT
* * * * * * *
178761980 GCTAGTGTAAGACATGTTTGGGACATGCAACAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-AG-AGATGAGT
178762028 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
178762065 ATATATCCCA
Statistics
Matches: 250, Mismatches: 42, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.01
43 31 0.12
44 4 0.02
45 3 0.01
46 40 0.16
47 79 0.32
48 54 0.22
49 21 0.08
50 16 0.06
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGT
Found at i:178764167 original size:30 final size:30
Alignment explanation
Indices: 178764112--178764271 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
178764102 ATAGTGAATC
178764112 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
178764141 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
178764171 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
178764200 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
178764228 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
178764258 CGCACACTTAGTGC
1 CGCACACTTAGTGC
178764272 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:178764204 original size:59 final size:57
Alignment explanation
Indices: 178764112--178764271 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
178764102 ATAGTGAATC
*
178764112 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
178764171 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
178764228 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
178764272 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:178772125 original size:30 final size:30
Alignment explanation
Indices: 178772070--178772229 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
178772060 ATAGTGAATC
178772070 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
178772099 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
178772129 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
178772158 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
178772186 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
178772216 CGCACACTTAGTGC
1 CGCACACTTAGTGC
178772230 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:178772162 original size:59 final size:57
Alignment explanation
Indices: 178772070--178772229 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
178772060 ATAGTGAATC
*
178772070 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
178772129 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
178772186 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
178772230 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:178776860 original size:21 final size:21
Alignment explanation
Indices: 178776831--178776883 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
178776821 GATCTATATA
* *
178776831 AATTAATTTAATCA-TCAATTT
1 AATTCATTTAAT-ATTCAATTG
*
178776852 AATTCATTTCATATTCAATTG
1 AATTCATTTAATATTCAATTG
178776873 AATTCAATTTA
1 AATTC-ATTTA
178776884 CACCCTAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.81
22 4 0.15
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (21 bp):
AATTCATTTAATATTCAATTG
Found at i:178781513 original size:40 final size:39
Alignment explanation
Indices: 178781468--178781597 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
178781458 CGGAATATAA
178781468 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
178781508 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
178781548 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
178781588 CCGGATATAA
1 CCGGATATAA
178781598 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:178781612 original size:40 final size:40
Alignment explanation
Indices: 178781484--178781635 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
178781474 ATAACCATGT
* * *
178781484 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
178781524 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
178781564 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
178781604 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
178781636 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:178781618 original size:80 final size:80
Alignment explanation
Indices: 178781484--178781633 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
178781474 ATAACCATGT
*
178781484 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
178781548 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
178781564 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
178781627 CCCGGAT
64 CCCGGAT
178781634 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:178789615 original size:68 final size:68
Alignment explanation
Indices: 178789503--178789634 Score: 185
Period size: 68 Copynumber: 1.9 Consensus size: 68
178789493 TGTGCACAAA
*** * *
178789503 TGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAG
1 TGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACGAATGCCTTCGGGTCTTAACCCGGATAG
178789568 ATG
66 ATG
* *
178789571 TGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 TGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACGAA-TGCCTTCGGGTCTTAACCCGGATA
178789635 TAATTTCCAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 2 0.04
68 54 0.96
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (68 bp):
TGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACGAATGCCTTCGGGTCTTAACCCGGATAG
ATG
Found at i:178789652 original size:40 final size:40
Alignment explanation
Indices: 178789571--178789675 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
178789561 CGGATAGATG
* *
178789571 TGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAACCACCAGCACAAT
* *** *
178789611 TGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAACCACCAGCACAAT
*
178789651 TGTCTTCGGGAT-TTAGCCCGGATAT
1 TGCCTTCGGG-TCTTAGCCCGGATAT
178789676 CATTCAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACCACCAGCACAAT
Found at i:178799988 original size:44 final size:43
Alignment explanation
Indices: 178799940--178800024 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 43
178799930 ATTAGTGATT
*
178799940 AACAGAAGCTATAC-CGATCTCACACACTTAGTGCCATCATATTA
1 AACAGAAGCTAT-CTCGATATCACACACTTAGTGCC-TCATATTA
* *
178799984 AACAGAAGCTATCTCGGTATCACATACTTAGTGCCTCATAT
1 AACAGAAGCTATCTCGATATCACACACTTAGTGCCTCATAT
178800025 AGGCGAAACT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 7 0.19
44 30 0.81
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
AACAGAAGCTATCTCGATATCACACACTTAGTGCCTCATATTA
Found at i:178802262 original size:20 final size:21
Alignment explanation
Indices: 178802227--178802265 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
178802217 TCGTCTATTA
*
178802227 TGGAGTCGAAGTCAACTTGTT
1 TGGAGTCGAAGGCAACTTGTT
178802248 TGGAG-CGAAGGCAACTTG
1 TGGAGTCGAAGGCAACTTG
178802266 GTCATAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (21 bp):
TGGAGTCGAAGGCAACTTGTT
Found at i:178811906 original size:39 final size:39
Alignment explanation
Indices: 178811852--178812014 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
178811842 ATGTGATGAA
178811852 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
178811891 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
178811930 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
178811969 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
178812009 TGTGCG
1 TGTGCG
178812015 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:178812030 original size:40 final size:39
Alignment explanation
Indices: 178811852--178812043 Score: 249
Period size: 39 Copynumber: 4.9 Consensus size: 39
178811842 ATGTGATGAA
* *
178811852 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
178811891 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
178811930 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
178811969 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * * *
178812009 TGTGCGGGTTACCATAACCGGGCTATGTCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGG
178812044 TGTTTTGAAC
Statistics
Matches: 137, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 106 0.77
40 31 0.23
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:178821888 original size:61 final size:61
Alignment explanation
Indices: 178821785--178821930 Score: 156
Period size: 61 Copynumber: 2.4 Consensus size: 61
178821775 TTGGTCTAAT
* * * *
178821785 AATAAATTTAGCTCTCTAATATTTACATATTGTATCAATTTAATCCTAAA-TGTAAAAAACTC
1 AATAAATTTAACCCTC-AATATTTAAAAATTGTATCAATTTAAT-CTAAATTGTAAAAAACTC
* * * **
178821847 AATAAATTTAACCCTCAATATTTATAAAATTG-ATCATTTTAATTTAAATTTTAAAAAGTTC
1 AATAAATTTAACCCTCAATATTTA-AAAATTGTATCAATTTAATCTAAATTGTAAAAAACTC
178821908 AATAAATTTAACCCT-AAT-TTTAA
1 AATAAATTTAACCCTCAATATTTAA
178821931 TTTTTAAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
58 1 0.01
59 4 0.05
60 7 0.10
61 42 0.58
62 19 0.26
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.40
Consensus pattern (61 bp):
AATAAATTTAACCCTCAATATTTAAAAATTGTATCAATTTAATCTAAATTGTAAAAAACTC
Found at i:178829200 original size:2 final size:2
Alignment explanation
Indices: 178829193--178829226 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
178829183 ATCCTTATTT
*
178829193 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
178829227 TGCTAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:178836228 original size:6 final size:5
Alignment explanation
Indices: 178836203--178836236 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
178836193 CTGTGTGTTC
178836203 TTTAT TTTAT TTTAT TTTATT TTTAT TTT-T TTTA
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTA
178836237 CAAATTGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:178841358 original size:109 final size:102
Alignment explanation
Indices: 178841224--178841435 Score: 316
Period size: 109 Copynumber: 2.0 Consensus size: 102
178841214 AGCCAAGTAA
* *
178841224 AAAGTGTGAGTCTTTTAGAAATCTTGTAGTTCTTCTTGCATAACTTATTACTAACAAGAATCAAT
1 AAAGTGTAAGTCTTTTAAAAATCTTGTAGTTCTTCTTGCATAACTTATTACTAACAAGAATCAAT
*
178841289 AAATGCCTCTATATAAGTTTGAATCTCATGTAAGTTAAACAAGT
66 AAATGCCTC-------GTTTGAATCCCATGTAAGTTAAACAAGT
* *
178841333 AAAGTGTAAGTCTTTTAAAAATCTTGTAGTTCTTCTTGCATAAGTTATTGCTAACAAGAATCAAT
1 AAAGTGTAAGTCTTTTAAAAATCTTGTAGTTCTTCTTGCATAACTTATTACTAACAAGAATCAAT
178841398 AAATGCCTCGTTTGAATCCCATGTAAGTTAAACAAGT
66 AAATGCCTCGTTTGAATCCCATGTAAGTTAAACAAGT
178841435 A
1 A
178841436 GAAATGATGG
Statistics
Matches: 98, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
102 28 0.29
109 70 0.71
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (102 bp):
AAAGTGTAAGTCTTTTAAAAATCTTGTAGTTCTTCTTGCATAACTTATTACTAACAAGAATCAAT
AAATGCCTCGTTTGAATCCCATGTAAGTTAAACAAGT
Found at i:178843641 original size:2 final size:2
Alignment explanation
Indices: 178843623--178843666 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
178843613 ACTTACATAC
*
178843623 AT AT AC AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178843664 AT A
1 AT A
178843667 GTTAACTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:178851710 original size:2 final size:2
Alignment explanation
Indices: 178851670--178851699 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
178851660 TTTTAATACC
*
178851670 AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178851700 CTTTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:178852281 original size:20 final size:22
Alignment explanation
Indices: 178852258--178852299 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
178852248 CATGTATATA
178852258 TATAT-AC-TATATATTTTTAT
1 TATATCACGTATATATTTTTAT
*
178852278 TATATCACGTATATGTTTTTAT
1 TATATCACGTATATATTTTTAT
178852300 ATGTACGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TATATCACGTATATATTTTTAT
Found at i:178861098 original size:29 final size:29
Alignment explanation
Indices: 178861065--178861147 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
178861055 GTGTCGAGAT
178861065 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
178861094 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
178861123 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
178861148 AAATACGGCA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:178869174 original size:29 final size:29
Alignment explanation
Indices: 178869141--178869223 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
178869131 GTGTCGAGAT
178869141 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
178869170 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
178869199 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
178869224 AAAATACGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:178881968 original size:40 final size:40
Alignment explanation
Indices: 178881923--178882052 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
178881913 CGGAATATAA
178881923 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
178881963 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
178882003 CCGGATGTAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
178882043 CCGGATATAA
1 CCGGATATAA
178882053 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:178882067 original size:40 final size:40
Alignment explanation
Indices: 178881939--178882075 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
178881929 ATAACCACGT
* * *
178881939 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* * * *
178881979 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAACCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
178882019 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
178882059 GCATAATTGTCTTCGGG
1 GCACAATTGCCTTCGGG
178882076 ATACGAATCG
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 76 0.95
41 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:178889285 original size:40 final size:40
Alignment explanation
Indices: 178889230--178889399 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
178889220 AACATTGGAA
178889230 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
178889270 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
178889310 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
178889349 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
178889390 CTATATCCGG
1 ATATATCCGG
178889400 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:178898382 original size:16 final size:18
Alignment explanation
Indices: 178898347--178898383 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
178898337 ACTCAAAAAG
178898347 GTTTACGATGTCTTCCAC
1 GTTTACGATGTCTTCCAC
*
178898365 GTTT-CGATG-CTTCGAC
1 GTTTACGATGTCTTCCAC
178898381 GTT
1 GTT
178898384 ATAGATCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 5 0.28
18 4 0.22
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.41
Consensus pattern (18 bp):
GTTTACGATGTCTTCCAC
Found at i:178900489 original size:40 final size:40
Alignment explanation
Indices: 178900327--178900491 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
178900317 AAATTGAATG
* * * **
178900327 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * **
178900366 ATATCCGGGTTAAGACCCGAAGGCA-AT-TGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * *
178900404 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
178900444 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
178900484 ATATCCGG
1 ATATCCGG
178900492 TTATATTCCG
Statistics
Matches: 100, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
38 29 0.29
39 15 0.15
40 56 0.56
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:178903538 original size:13 final size:15
Alignment explanation
Indices: 178903520--178903551 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
178903510 TTTATTCATC
178903520 AATCTCTT-CCT-TG
1 AATCTCTTGCCTCTG
178903533 AATCTCTTGCCTCTG
1 AATCTCTTGCCTCTG
178903548 AATC
1 AATC
178903552 AACTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (15 bp):
AATCTCTTGCCTCTG
Found at i:178905251 original size:30 final size:30
Alignment explanation
Indices: 178905217--178905277 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
178905207 TTCCCGAGCC
*
178905217 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
178905247 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
178905277 T
1 T
178905278 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:178913744 original size:48 final size:48
Alignment explanation
Indices: 178913619--178913717 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
178913609 ACCACGATTA
* *
178913619 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAT
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
178913667 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
178913715 ATG
1 ATG
178913718 TGTTTTAGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (48 bp):
ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
Found at i:178918908 original size:40 final size:40
Alignment explanation
Indices: 178918871--178919056 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
178918861 GCTACTCGTT
*
178918871 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
178918911 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
178918951 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
178918991 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
178919032 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
178919057 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:178925575 original size:29 final size:29
Alignment explanation
Indices: 178925541--178925672 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
178925531 TAATCGATCA
*
178925541 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
178925570 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
178925599 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
178925628 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
178925657 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
178925673 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:178934109 original size:40 final size:39
Alignment explanation
Indices: 178934018--178934168 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
178934008 GATATAACGT
* *
178934018 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
178934058 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
178934098 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
178934138 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
178934169 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:178934152 original size:80 final size:80
Alignment explanation
Indices: 178934018--178934167 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
178934008 GATATAACGT
*
178934018 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
178934082 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
178934098 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
178934161 CCCGGAT
64 CCCGGAT
178934168 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:178942041 original size:40 final size:39
Alignment explanation
Indices: 178941996--178942122 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
178941986 CGGAACATAA
178941996 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
178942036 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
178942076 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
178942116 CCGGATA
1 CCGGATA
178942123 AATTTCCAGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:178946806 original size:48 final size:48
Alignment explanation
Indices: 178946750--178947173 Score: 438
Period size: 48 Copynumber: 8.8 Consensus size: 48
178946740 ATGCTAGGGT
* *
178946750 TATGTGAGCTAGTGTAAGACCACGTTTGGAACATGGCATTGGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* * * * ***
178946798 TATGTGAGCCAGTGTAAGGCCATGTTTGGAACATGGCATCGACATTTT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* *
178946846 TATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCCTCAA
* * * * *
178946894 TATGTGTGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* ** * *
178946942 TATGAGAGCTAGTGTAAGATTATGTCTGGGACATGGCATCGGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* ***
178946990 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* * * *
178947038 TATGAGAGCTAGTGTAAGACCATGTCTGCG-AGATGGCATCAGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTG-GAACATGGCATCGGCCTCAA
* * * * * * ***
178947086 TATGTGAACCAGGGTAAGACCATGTTTGGAGCATGGCATCAGCTTTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* * * *
178947134 TACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC
178947174 AGGTATCCAT
Statistics
Matches: 301, Mismatches: 71, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
47 4 0.01
48 293 0.97
49 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
Found at i:178947175 original size:96 final size:96
Alignment explanation
Indices: 178946748--178947173 Score: 645
Period size: 96 Copynumber: 4.4 Consensus size: 96
178946738 TGATGCTAGG
* * * * *
178946748 GTTATGTGAGCTAGTGTAAGACCACGTTTGGAACATGGCATTGGCCTCAATATGTGAGCCAGTGT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
* *
178946813 AAGGCCATGTTTGGAACATGGCATCGACATT
66 AAGACCATGTTTGGAACATGGCATCGGCATT
* * *
178946844 TTTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGTGTGCCAGTGT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
178946909 AAGACCATGTTTGGAACATGGCATCGGCATT
66 AAGACCATGTTTGGAACATGGCATCGGCATT
* ** *
178946940 ATTATGAGAGCTAGTGTAAGATTATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCTAGTGT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
178947005 AAGACCATGTTTGGAACATGGCATCGGCATT
66 AAGACCATGTTTGGAACATGGCATCGGCATT
* * * * *
178947036 GTTATGAGAGCTAGTGTAAGACCATGTCTGCGAGATGGCATCAGCCTCAATATGTGAACCAGGGT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
* * *
178947101 AAGACCATGTTTGGAGCATGGCATCAGCTTT
66 AAGACCATGTTTGGAACATGGCATCGGCATT
*
178947132 GTTACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
178947174 AGGTATCCAT
Statistics
Matches: 299, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 299 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (96 bp):
GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
AAGACCATGTTTGGAACATGGCATCGGCATT
Found at i:178949182 original size:45 final size:46
Alignment explanation
Indices: 178949118--178949292 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
178949108 TGTAACCCGC
178949118 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
178949163 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * *
178949213 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
178949256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
178949293 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 37 0.33
46 29 0.26
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:178949283 original size:93 final size:92
Alignment explanation
Indices: 178949125--178949295 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
178949115 CGCCCATAAG
*
178949125 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
178949190 CGAGCTCGGATGCCTAGTTACATCTCA
66 CGAGCTCGGATGCCTAGTTACATCTCA
*
178949217 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
178949282 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
178949296 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 28 0.37
93 47 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:178956780 original size:93 final size:93
Alignment explanation
Indices: 178956668--178956839 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
178956658 CGCCCATAAG
*
178956668 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
178956732 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
*
178956761 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
178956826 ATGAGTTCGGATGC
66 ACGAGCTCGGATGC
178956840 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:178956832 original size:46 final size:46
Alignment explanation
Indices: 178956661--178956836 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
178956651 TGTAACCCGC
*
178956661 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* *
178956707 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
178956757 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
178956800 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
178956837 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:178956855 original size:46 final size:44
Alignment explanation
Indices: 178956669--178956855 Score: 130
Period size: 46 Copynumber: 4.0 Consensus size: 44
178956659 GCCCATAAGC
* * * * *
178956669 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CAACCATCTAGT
* *
178956715 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
178956762 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
*
178956808 GAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
178956854 GA
1 GA
178956856 CATGTCACTT
Statistics
Matches: 113, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 3 0.03
46 61 0.54
47 30 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:178965286 original size:40 final size:40
Alignment explanation
Indices: 178965241--178965408 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
178965231 CGGAATATAA
178965241 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
178965281 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
178965321 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
178965361 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
178965401 CCGGATAT
1 CCGGATAT
178965409 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:178965391 original size:80 final size:80
Alignment explanation
Indices: 178965257--178965406 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
178965247 ATAATCACGT
*
178965257 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
178965321 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
178965337 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
178965400 CCCGGAT
64 CCCGGAT
178965407 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:178973470 original size:40 final size:40
Alignment explanation
Indices: 178973373--178973484 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
178973363 TCGAATGATG
* *
178973373 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* *
178973413 TCCGGACTAAGGT-CCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTGACCAAA
* * *
178973453 TTCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
178973485 CTATTATAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.03
40 50 0.82
41 9 0.15
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:178983818 original size:46 final size:45
Alignment explanation
Indices: 178983764--178983936 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
178983754 GTTGAGCATC
178983764 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTT
* * *
178983810 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TT
* ****
178983857 CGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACACC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTT
*
178983903 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
178983937 GGCGGGTTAC
Statistics
Matches: 105, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.54
47 28 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTT
Found at i:178983923 original size:93 final size:93
Alignment explanation
Indices: 178983759--178983929 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
178983749 GGATGGTTGA
* ****
178983759 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCGTTGAGT
178983824 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
178983852 GCATTCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCGTTGAGT
178983917 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
178983930 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:178991359 original size:46 final size:46
Alignment explanation
Indices: 178991309--178991479 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
178991299 GTTGAGCATC
178991309 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
* * * *
178991355 CGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATATAAC-TA-G-GCAT-TT
1 CGAACTCGTTGAGTTGAGTCCGAGTTC---A-CT-T-ACGGATGCGAATGTT
* * **
178991403 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
* *
178991448 CGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
178991480 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 2 0.02
44 3 0.03
46 55 0.55
47 25 0.25
48 2 0.02
49 4 0.04
50 2 0.02
51 2 0.02
52 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
Done.