Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 182 of 328
Found at i:54236508 original size:37 final size:37
Alignment explanation
Indices: 54236367--54236507 Score: 228
Period size: 37 Copynumber: 3.8 Consensus size: 37
54236357 ATATATTCCA
*
54236367 GGTAAGACCTGATAACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATAACTACGTGTGGAGATTATGTCCG
*
54236404 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATAACTACGTGTGGAGATTATGTCCG
* *
54236441 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATAACTACGTGTGGAGATTATGTCCG
* *
54236478 GGTAAGACCCGATAACTTCGTGTGAAGATT
1 GGTAAGACCCGATAACTACGTGTGGAGATT
54236508 TCATCTGAGC
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
GGTAAGACCCGATAACTACGTGTGGAGATTATGTCCG
Found at i:54239634 original size:12 final size:12
Alignment explanation
Indices: 54239619--54239644 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
54239609 ATCATCTTCT
54239619 TCATCAGATTCA
1 TCATCAGATTCA
54239631 TCATCAGATTCA
1 TCATCAGATTCA
54239643 TC
1 TC
54239645 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:54241641 original size:40 final size:40
Alignment explanation
Indices: 54241545--54241784 Score: 341
Period size: 40 Copynumber: 6.1 Consensus size: 40
54241535 GGATGATAAT
*
54241545 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
54241584 T-TGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
54241622 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
54241663 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
54241703 TCCGGGCTAAGT-CC-AA-GCATTTGTGCGAACT-ACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATA
* *
54241740 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
54241780 TCCGG
1 TCCGG
54241785 TTAAAGCCCG
Statistics
Matches: 185, Mismatches: 8, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
37 29 0.16
38 42 0.23
39 8 0.04
40 105 0.57
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
Found at i:54241758 original size:117 final size:118
Alignment explanation
Indices: 54241545--54241784 Score: 337
Period size: 117 Copynumber: 2.0 Consensus size: 118
54241535 GGATGATAAT
* *
54241545 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTGGGCTAAGTCCCGAAGGCATTTGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATCGGGCTAAGTCCCGAAGGCATTTGT
* * * *
54241610 GCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
66 GCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATA
*
54241663 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CC-AA-GCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AT-CGGGCTAAGTCCCGAAGGCATTT
*
54241725 GTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA
64 GTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATA
54241780 TCCGG
1 TCCGG
54241785 TTAAAGCCCG
Statistics
Matches: 110, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
116 2 0.02
117 55 0.50
118 40 0.36
119 4 0.04
120 9 0.08
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATCGGGCTAAGTCCCGAAGGCATTTGT
GCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATA
Found at i:54241760 original size:77 final size:80
Alignment explanation
Indices: 54241545--54241784 Score: 332
Period size: 77 Copynumber: 3.1 Consensus size: 80
54241535 GGATGATAAT
* * *
54241545 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTA-AT-TGGGCTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATATCCGGGCTAAGTCCCGAAGGCATT
*
54241607 TGTGCTAGTGACTA-A
65 TGTGCGAGTGACTATA
**
54241622 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATT
*
54241687 TGTGCGAGTTACTATA
65 TGTGCGAGTGACTATA
54241703 TCCGGGCTAAGT-CC-AA-GCATTTGTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTT
* *
54241765 GAGCGAGTGGCTATA
66 GTGCGAGTGACTATA
54241780 TCCGG
1 TCCGG
54241785 TTAAAGCCCG
Statistics
Matches: 147, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
77 61 0.41
78 35 0.24
79 5 0.03
80 45 0.31
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTGACTATA
Found at i:54249647 original size:40 final size:40
Alignment explanation
Indices: 54249592--54249833 Score: 375
Period size: 40 Copynumber: 6.1 Consensus size: 40
54249582 CGGATGATAA
*
54249592 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TC
*
54249632 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TC
*
54249672 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATC
*
54249712 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATC
*
54249752 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATATC
*
54249792 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTG-CTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATC
54249831 CGG
1 CGG
54249834 TTAAAGCCCG
Statistics
Matches: 194, Mismatches: 5, Indels: 7
0.94 0.02 0.03
Matches are distributed among these distances:
39 12 0.06
40 179 0.92
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATC
Found at i:54257461 original size:40 final size:39
Alignment explanation
Indices: 54257416--54257545 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
54257406 CGGAATATAA
54257416 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
54257456 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
54257496 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
54257536 CCGGATATAA
1 CCGGATATAA
54257546 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:54257560 original size:40 final size:40
Alignment explanation
Indices: 54257432--54257583 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
54257422 ATAACCATGT
* * *
54257432 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
54257472 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
54257512 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
54257552 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
54257584 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:54257566 original size:80 final size:80
Alignment explanation
Indices: 54257432--54257581 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
54257422 ATAACCATGT
*
54257432 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
54257496 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
54257512 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
54257575 CCCGGAT
64 CCCGGAT
54257582 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:54261431 original size:15 final size:15
Alignment explanation
Indices: 54261409--54261466 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
54261399 AATTCAACAC
54261409 TTAATTTTTCAATAG
1 TTAATTTTTCAATAG
* *
54261424 TTATTTTTTCAAGA-
1 TTAATTTTTCAATAG
*
54261438 TATACTTTTTCAATAG
1 T-TAATTTTTCAATAG
*
54261454 TTAAATTTTCAAT
1 TTAATTTTTCAAT
54261467 TTGTCAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (15 bp):
TTAATTTTTCAATAG
Found at i:54262000 original size:20 final size:22
Alignment explanation
Indices: 54261958--54262000 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
54261948 CCTCTCACAA
*
54261958 TCTCTCTAAATTCTTTCTAAAT
1 TCTCTCTAAATTCTCTCTAAAT
*
54261980 TCTCTC-AAATT-TCTCTCAAT
1 TCTCTCTAAATTCTCTCTAAAT
54262000 T
1 T
54262001 TTTGTCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (22 bp):
TCTCTCTAAATTCTCTCTAAAT
Found at i:54262008 original size:21 final size:22
Alignment explanation
Indices: 54261984--54262030 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
54261974 CTAAATTCTC
54261984 TCAAA-TT-TCTCTCAATTTTTG
1 TCAAAGTTGTCTCT-AATTTTTG
54262005 TCAAAGTTGTCTCTAATTTTTG
1 TCAAAGTTGTCTCTAATTTTTG
54262027 -CAAA
1 TCAAA
54262031 AAAGTTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (22 bp):
TCAAAGTTGTCTCTAATTTTTG
Found at i:54262075 original size:19 final size:19
Alignment explanation
Indices: 54262039--54262076 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
54262029 AAAAAGTTGT
**
54262039 GTTTTATTTTTTTGAATTA
1 GTTTTATTTTTTAAAATTA
54262058 GTTTTATTTTTTAAAATTA
1 GTTTTATTTTTTAAAATTA
54262077 CAAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (19 bp):
GTTTTATTTTTTAAAATTA
Found at i:54264136 original size:21 final size:20
Alignment explanation
Indices: 54264107--54264151 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
54264097 ACAACAGATC
* *
54264107 CCCTGCCGGAGGAACCACAA
1 CCCTACCGGAGCAACCACAA
54264127 TCCCTACCGGAGCAACCACAA
1 -CCCTACCGGAGCAACCACAA
54264148 CCCT
1 CCCT
54264152 GGTCGGAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.29, C:0.44, G:0.18, T:0.09
Consensus pattern (20 bp):
CCCTACCGGAGCAACCACAA
Found at i:54267702 original size:126 final size:125
Alignment explanation
Indices: 54267470--54267903 Score: 690
Period size: 126 Copynumber: 3.5 Consensus size: 125
54267460 AGTCTAAGGC
* * *
54267470 TTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTAAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAC
* *
54267535 AGTGCATCCTTCTTAAAGCGTTTTTGACACTATTTGATCAGAAACATCTTTTCAAAATTA
66 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTTCAAAATTA
*
54267595 TTTTATCAGATACTACTGTAGCAAAAGAGCATCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGA
1 TTTT-TCAGATACTACTGTAGCAAAAGAGCATCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGA
* * * *
54267660 CAATGCATCTTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
65 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTTCAAAATTA
* * * *
54267721 TTTTATCAAATATTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCCATAATTTTGCTGA
1 TTTT-TCAGATACTACTGTAGCAAAAGAGCATCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGA
*
54267786 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTT-AAACTTA
65 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTT-TTCAAAATTA
*
54267847 TTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGAGAGCTTTTTTCCGTAATT
54267904 AATGGTTAAT
Statistics
Matches: 282, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 52 0.18
126 229 0.81
127 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (125 bp):
TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTTCAAAATTA
Found at i:54268214 original size:157 final size:156
Alignment explanation
Indices: 54267931--54268846 Score: 1169
Period size: 157 Copynumber: 6.0 Consensus size: 156
54267921 ATAAACCCTA
*
54267931 AAAAACCCTAAACCCT-ATTTAATTGA-TTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
1 AAAAACCCTAAATCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
** * *
54267994 CAACTCTAATTAAATTAATTTTTTTCTTAAAAAACACTAAAACCTTAAACCACTAAAACCTTGAT
66 CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAA-TACTAAAACCTTGAT
54268059 CCTAAAACAATAAAAAACCTTAACCTT
130 CCTAAAACAATAAAAAACCTTAACCTT
* *
54268086 AAAAACCCTAAATCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCT
1 AAAAACCCTAAATCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
* * *
54268151 CAACTCTAATTAAATTAATTCTTCCCTTAAAAAAAACTAAAACCCTAAACTATTAAAACCTTGAT
66 CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAA-TACTAAAACCTTGAT
54268216 CCTAAAACAATAAAAAACCTTAACCTT
130 CCTAAAACAATAAAAAACCTTAACCTT
* *
54268243 AAAAACCCTAAATCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCT
1 AAAAACCCTAAATCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
* * *
54268308 CAACTCTAATTAAATTAATTCTTCCCTTAAAAAAAACTAAAACCCTAAACTATTAAAACCTTGAT
66 CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAA-TACTAAAACCTTGAT
*
54268373 CCTAAAACAATAAAAAACCCTAACCTT
130 CCTAAAACAATAAAAAACCTTAACCTT
* * * *
54268400 AAAAAACTCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCT
1 -AAAAACCCTAAATCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
*
54268465 TCAACTCTAATTAAATTAATTTTTTCCTTAAAAAACACTAAAA-CC------CT---A-----AT
65 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAATACTAAAACCTTGAT
* *
54268515 CCTAAAACAATCAAAAACCCTAACCTT
130 CCTAAAACAATAAAAAACCTTAACCTT
* *
54268542 AAAAAACCTTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
1 -AAAAACCCTAAATCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
* *
54268607 TCAACTCTAATTAAATTAAATTTTCCCTTAAAGAACACTAAAA-CC------CT---A-----AT
65 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAATACTAAAACCTTGAT
* *
54268657 CCTAAAACAATCAAAAACCCTAACCTT
130 CCTAAAACAATAAAAAACCTTAACCTT
54268684 AAAAAACCCTAAATCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
1 -AAAAACCCTAAATCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
* * * * ** *
54268749 TAAACTCTAATTAAATTAATTTTTACCTTAAAAAATACTAAGACCCTAAATTTTAAAAACCCT-A
65 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAATACT-AAAACCTTGA
* * * *
54268813 ACCTTAAAATAATAAAAAACCCTAACCCT
129 TCC-TAAAACAATAAAAAACCTTAACCTT
54268842 AAAAA
1 AAAAA
54268847 AAAGGACAAA
Statistics
Matches: 702, Mismatches: 40, Indels: 36
0.90 0.05 0.05
Matches are distributed among these distances:
142 263 0.37
143 2 0.00
147 1 0.00
149 1 0.00
150 1 0.00
153 1 0.00
155 15 0.02
156 9 0.01
157 287 0.41
158 122 0.17
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (156 bp):
AAAAACCCTAAATCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAATACTAAAACCTTGATC
CTAAAACAATAAAAAACCTTAACCTT
Found at i:54268520 original size:24 final size:25
Alignment explanation
Indices: 54268489--54268561 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 25
54268479 ATTAATTTTT
54268489 TCCTTAAAAAACACTAAAACCCTAA
1 TCCTTAAAAAACACTAAAACCCTAA
54268514 TCC-TAAAACAATCA--AAAACCCTAA
1 TCCTTAAAA-AA-CACTAAAACCCTAA
*
54268538 -CCTTAAAAAAC-CTTAAACCCTAA
1 TCCTTAAAAAACACTAAAACCCTAA
54268561 T
1 T
54268562 TTAATTGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
22 1 0.02
23 13 0.32
24 20 0.49
25 5 0.12
26 2 0.05
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.21
Consensus pattern (25 bp):
TCCTTAAAAAACACTAAAACCCTAA
Found at i:54268521 original size:23 final size:25
Alignment explanation
Indices: 54268489--54268561 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 25
54268479 ATTAATTTTT
54268489 TCCTTAAAAA-ACACTAAAACCCTAA
1 TCCTTAAAAACAC-CTAAAACCCTAA
* *
54268514 TCC-T-AAAACAATCAAAAACCCTAA
1 TCCTTAAAAAC-ACCTAAAACCCTAA
*
54268538 -CCTTAAAAA-ACCTTAAACCCTAA
1 TCCTTAAAAACACCTAAAACCCTAA
54268561 T
1 T
54268562 TTAATTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
23 17 0.45
24 13 0.34
25 8 0.21
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.21
Consensus pattern (25 bp):
TCCTTAAAAACACCTAAAACCCTAA
Found at i:54268837 original size:142 final size:142
Alignment explanation
Indices: 54268361--54268797 Score: 739
Period size: 142 Copynumber: 3.1 Consensus size: 142
54268351 CCTAAACTAT
* * * *
54268361 TAAAACCTTGATCCTAAAACAATAAAAAACCCTAACCTTAAAAAACTCTAAACCCTAATTTAATT
1 TAAAACCCTAATCCTAAAACAATCAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATT
* * *
54268426 GATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCTTCAACTCTAATTAAATTAATTTTTTC
66 GATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTAC
54268491 CTTAAAAAACAC
131 CTTAAAAAACAC
*
54268503 TAAAACCCTAATCCTAAAACAATCAAAAACCCTAACCTTAAAAAACCTTAAACCCTAATTTAATT
1 TAAAACCCTAATCCTAAAACAATCAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATT
* *
54268568 GATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAAATTTTCC
66 GATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTAC
*
54268633 CTTAAAGAACAC
131 CTTAAAAAACAC
*
54268645 TAAAACCCTAATCCTAAAACAATCAAAAACCCTAACCTTAAAAAACCCTAAATCCTAATTTAATT
1 TAAAACCCTAATCCTAAAACAATCAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATT
*
54268710 GATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTAAACTCTAATTAAATTAATTTTTAC
66 GATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTAC
*
54268775 CTTAAAAAATAC
131 CTTAAAAAACAC
*
54268787 TAAGACCCTAA
1 TAAAACCCTAA
54268798 ATTTTAAAAA
Statistics
Matches: 277, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 277 1.00
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (142 bp):
TAAAACCCTAATCCTAAAACAATCAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATT
GATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTAC
CTTAAAAAACAC
Found at i:54269685 original size:16 final size:16
Alignment explanation
Indices: 54269664--54269696 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54269654 AGTGTTTAAG
54269664 TAATTTGTATAA-TATT
1 TAATTTGT-TAATTATT
54269680 TAATTTGTTAATTATT
1 TAATTTGTTAATTATT
54269696 T
1 T
54269697 TTGAAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TAATTTGTTAATTATT
Found at i:54269723 original size:27 final size:28
Alignment explanation
Indices: 54269694--54269746 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
54269684 TTGTTAATTA
54269694 TTTTTGAAGTAATTAATTTGTTTAAAAT
1 TTTTTGAAGTAATTAATTTGTTTAAAAT
* *
54269722 TTTTTGAATTGA--AATTTGTTTAAAA
1 TTTTTGAAGTAATTAATTTGTTTAAAA
54269747 ATTAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
28 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (28 bp):
TTTTTGAAGTAATTAATTTGTTTAAAAT
Found at i:54275446 original size:46 final size:46
Alignment explanation
Indices: 54275380--54275471 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
54275370 ATATTAATGT
54275380 TGTTTAAATCAAACTTGCATGGTTTATAAAGATTCAATAATAATTA
1 TGTTTAAATCAAACTTGCATGGTTTATAAAGATTCAATAATAATTA
* *
54275426 TGTTTAAATTAAACTTGCATGGTTTATGAAGATTCAATAATAATTA
1 TGTTTAAATCAAACTTGCATGGTTTATAAAGATTCAATAATAATTA
54275472 CAAATCATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (46 bp):
TGTTTAAATCAAACTTGCATGGTTTATAAAGATTCAATAATAATTA
Found at i:54278947 original size:27 final size:27
Alignment explanation
Indices: 54278874--54278950 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
54278864 ATCTGGACAT
* *
54278874 TTTAATGTGTCTAGTTTAGAACATAAT
1 TTTAATGTGTCTAGTTTAGGACATAAA
54278901 TTTAATGTGTCTAGTTTAGGACATAAA
1 TTTAATGTGTCTAGTTTAGGACATAAA
*
54278928 TTTAATGTGTCTAGTGTAGGACA
1 TTTAATGTGTCTAGTTTAGGACA
54278951 AATAGCTGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
TTTAATGTGTCTAGTTTAGGACATAAA
Found at i:54280118 original size:11 final size:11
Alignment explanation
Indices: 54280102--54280133 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
54280092 ATGCAAGTAG
54280102 CAAAAAAAATT
1 CAAAAAAAATT
*
54280113 CAAAAAAGATT
1 CAAAAAAAATT
54280124 CAAAAAAAAT
1 CAAAAAAAAT
54280134 GAAAAGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.72, C:0.09, G:0.03, T:0.16
Consensus pattern (11 bp):
CAAAAAAAATT
Found at i:54282336 original size:25 final size:24
Alignment explanation
Indices: 54282299--54282345 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
54282289 GTAATTTAAA
54282299 AATGAAAGCGAGAAAAGAAAAAAAG
1 AATGAAAGCGAG-AAAGAAAAAAAG
* * *
54282324 AATGAGAGTGAGAATGAAAAAA
1 AATGAAAGCGAGAAAGAAAAAA
54282346 TGAGTGTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.64, C:0.02, G:0.26, T:0.09
Consensus pattern (24 bp):
AATGAAAGCGAGAAAGAAAAAAAG
Found at i:54284106 original size:48 final size:48
Alignment explanation
Indices: 54283946--54284106 Score: 145
Period size: 44 Copynumber: 3.4 Consensus size: 48
54283936 GGATAAGTTA
* ** * *
54283946 CCGATGCCATGTCCCAGACATGGTCTTACATTGGATATCATCATCGAGG
1 CCGATGCCATGTCCTAGACA-CATCTTACACTGGCTATCATCATCGAGG
** *
54283995 CCGATGCCATGTCCTAGACATGTCTTACACTAGC-A-CAACTC-TC-A-G
1 CCGATGCCATGTCCTAGACACATCTTACACTGGCTATC-A-TCATCGAGG
*
54284040 CCGATG-CATGTCCCAGACACATCTTACACTGGCTATCATCATCGAGG
1 CCGATGCCATGTCCTAGACACATCTTACACTGGCTATCATCATCGAGG
** *
54284087 TTGATGCCATGTCTTAGACA
1 CCGATGCCATGTCCTAGACA
54284107 TGGTCTTATA
Statistics
Matches: 91, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
44 25 0.27
45 11 0.12
46 4 0.04
47 9 0.10
48 23 0.25
49 19 0.21
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCTAGACACATCTTACACTGGCTATCATCATCGAGG
Found at i:54284187 original size:48 final size:48
Alignment explanation
Indices: 54283946--54284217 Score: 183
Period size: 48 Copynumber: 5.8 Consensus size: 48
54283936 GGATAAGTTA
* * *
54283946 CCGATGCCATGTCCCAGACATGGTCTTACATTGG-ATATCATCATCGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCA-CTCATAAT--ATGG
* * * * *
54283995 CCGATGCCATGTCCTAGACAT-GTCTTACACTAGCA--CA-ACTCTCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATAT-GG
** *
54284040 CCGATG-CATGTCCCAGACA-CATCTTACACTGGCTA-TCATCATCGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATAAT--ATGG
** ** * * * * **
54284087 TTGATGCCATGTCTTAGACATGGTCTTATACTAGCACTCAT-CTCTACC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATAT-GG
54284135 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGG
*
54284183 CCGATG-CATATCCCAGACAT-GTCTTACACTGGCAC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
54284218 ATAAGTAATC
Statistics
Matches: 171, Mismatches: 37, Indels: 33
0.71 0.15 0.14
Matches are distributed among these distances:
44 23 0.13
45 9 0.05
46 19 0.11
47 19 0.11
48 64 0.37
49 37 0.22
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGG
Found at i:54285281 original size:89 final size:89
Alignment explanation
Indices: 54285130--54285295 Score: 305
Period size: 89 Copynumber: 1.9 Consensus size: 89
54285120 ACCTTGGCTG
* *
54285130 TTTGTTTAAATTTCATCTCATGGCTGGCCAACACAATTAAAAAGGGTATAATTGCCCTTTAAAAG
1 TTTGTTTAAAATTCATCTCATGGCCGGCCAACACAATTAAAAAGGGTATAATTGCCCTTTAAAAG
54285195 CCCTCAATTTTAATTTATTGACTA
66 CCCTCAATTTTAATTTATTGACTA
*
54285219 TTTGTTTAAAATTCATCTCATGGCCGGCCAACACAATTAAAAATGGTATAATTGCCCTTTAAAAG
1 TTTGTTTAAAATTCATCTCATGGCCGGCCAACACAATTAAAAAGGGTATAATTGCCCTTTAAAAG
54285284 CCCTCAATTTTA
66 CCCTCAATTTTA
54285296 GTTCTCTAGC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (89 bp):
TTTGTTTAAAATTCATCTCATGGCCGGCCAACACAATTAAAAAGGGTATAATTGCCCTTTAAAAG
CCCTCAATTTTAATTTATTGACTA
Found at i:54291375 original size:29 final size:28
Alignment explanation
Indices: 54291341--54291444 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
54291331 TAATCGATCA
*
54291341 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * *
54291370 CGCACACATAGTGCCATATAAATTAAGTT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
** * *
54291399 TTCACACTTAGTGCCACACTTTTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
54291429 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
54291445 ACCTTGTCAC
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
29 40 0.68
30 19 0.32
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:54295048 original size:48 final size:49
Alignment explanation
Indices: 54294819--54295137 Score: 240
Period size: 48 Copynumber: 6.7 Consensus size: 49
54294809 AATAAGTTGT
* * *
54294819 CGATGCCATGTTCCGGACATGGTCTTACACTGGCTA-TCATCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATCATCTAGGC
* ** * *
54294868 TGATGCCATGTCCCAGACATGGTCTTACACTATCTCTTGCAT-ATACT-TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCAC-T-CATCAT-CTAGGC
* * * * *
54294918 TGAT-TCATGTCCCAGACAT-GTCTTACACTAGCA--CAAC-TTTCA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCT-AGGC
* * * *
54294962 CGATG-CATGTCCCAGACA-CGTCTTACAATGGGTA-TCATCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GGCACTCATCATCTAGGC
* * * *
54295009 CGATGCCATGT-CTAGACATGGTCTTATACTAGCACTCATC-TCTACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCTAGGC
* * * *
54295056 TGATGCCATGTCCCAGCCATGGTCTTACACTGGCACTCATAAT-TTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCTAGGC
54295104 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
54295138 ATAAGTAATC
Statistics
Matches: 214, Mismatches: 38, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.00
44 30 0.14
45 2 0.01
46 19 0.09
47 44 0.21
48 61 0.29
49 44 0.21
50 9 0.04
51 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCTAGGC
Found at i:54295129 original size:142 final size:141
Alignment explanation
Indices: 54294819--54295135 Score: 365
Period size: 142 Copynumber: 2.2 Consensus size: 141
54294809 AATAAGTTGT
* * * *
54294819 CGATGCCATGTTCCGGACATGGTCTTACACTGGCTATCATCATCGAGGCTGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACAATGGCTATCATCATCGAGGCCGATGCCATGTCCCAG
* * * *
54294884 ACATGGTCTTACACTATCTCTTGCATATACTTGCTGATTCATGTCCCAGACATGTCTTACACTAG
64 ACATGGTCTTACACTAGCACTTGCATATACTCGCTGATCCATGTCCCAGACATGTCTTACACTAG
*
54294949 CACAACTTTCAGC
129 CACAAATTTCAGC
* * *
54294962 CGATGCATGTCCCAGACACGTCTTACAATGGGTATCATCATCGAGGCCGATGCCATGT-CTAGAC
1 CGATGCATGTCCCAGACATGTCTTACAATGGCTATCATCATCGAGGCCGATGCCATGTCCCAGAC
* * * *
54295026 ATGGTCTTATACTAGCAC-T-CATCT-CTACGCTGATGCCATGTCCCAGCCATGGTCTTACACTG
66 ATGGTCTTACACTAGCACTTGCATATACT-CGCTGAT-CCATGTCCCAGACAT-GTCTTACACTA
*
54295088 GCACTCATAATTT-GGC
128 GCA--CA-AATTTCAGC
*
54295104 CGATGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACAATGGC
54295136 ACATAAGTAA
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
137 2 0.01
138 10 0.07
139 14 0.09
140 33 0.22
141 36 0.24
142 44 0.30
143 9 0.06
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (141 bp):
CGATGCATGTCCCAGACATGTCTTACAATGGCTATCATCATCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACTTGCATATACTCGCTGATCCATGTCCCAGACATGTCTTACACTAGCA
CAAATTTCAGC
Found at i:54296736 original size:17 final size:19
Alignment explanation
Indices: 54296694--54296737 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
54296684 ATGAAATTTT
*
54296694 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
54296713 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
54296731 AA-TATTA
1 AATTATTA
54296738 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:54296850 original size:15 final size:15
Alignment explanation
Indices: 54296832--54296860 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54296822 ATATTTGTAA
54296832 AATTATTATTATTAT
1 AATTATTATTATTAT
54296847 AATTATTATTATTA
1 AATTATTATTATTA
54296861 GATAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:54299607 original size:32 final size:33
Alignment explanation
Indices: 54299549--54299610 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
54299539 CCTATGGCCA
54299549 TACTGTTATCTGAAAAGGGGCTTCGGCCCAGTT
1 TACTGTTATCTGAAAAGGGGCTTCGGCCCAGTT
54299582 TACT-TTATTCTGAAAA-GGGCTTCGGCCCA
1 TACTGTTA-TCTGAAAAGGGGCTTCGGCCCA
54299611 ATACCCGCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGGCTTCGGCCCAGTT
Found at i:54307071 original size:27 final size:27
Alignment explanation
Indices: 54307041--54307100 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
54307031 TTATATTAAT
*
54307041 ATAATTTTAATGTGTCTAGTTTAGAAC
1 ATAATTTTAATGTGTCTAGTGTAGAAC
*
54307068 ATAATTTTAATGTGTCTAGTGTAGGAC
1 ATAATTTTAATGTGTCTAGTGTAGAAC
54307095 A-AATTT
1 ATAATTT
54307101 ATTAGCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (27 bp):
ATAATTTTAATGTGTCTAGTGTAGAAC
Found at i:54309089 original size:14 final size:15
Alignment explanation
Indices: 54309072--54309100 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54309062 ATTCATATTC
54309072 CATCATTCT-CAATT
1 CATCATTCTACAATT
54309086 CATCATTCTACAATT
1 CATCATTCTACAATT
54309101 TAATTACATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (15 bp):
CATCATTCTACAATT
Found at i:54310462 original size:24 final size:24
Alignment explanation
Indices: 54310430--54310477 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
54310420 TATTATGTGA
* *
54310430 GAATATGTTTTGAAAAGGGTTCTT
1 GAATATGTTCTGAAAAAGGTTCTT
54310454 GAATATGTTCTGAAAAAGGTTCTT
1 GAATATGTTCTGAAAAAGGTTCTT
54310478 CTTTCTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (24 bp):
GAATATGTTCTGAAAAAGGTTCTT
Found at i:54316755 original size:17 final size:18
Alignment explanation
Indices: 54316728--54316761 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
54316718 AATTAAATAT
54316728 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
54316746 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
54316762 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:54325211 original size:26 final size:26
Alignment explanation
Indices: 54325182--54325244 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
54325172 TTCAAGATGT
*
54325182 TCTAGTTAAGTAACTTCCCACGAAGC
1 TCTACTTAAGTAACTTCCCACGAAGC
54325208 TCTACTTAAGTAACTTCCCACGAAGC
1 TCTACTTAAGTAACTTCCCACGAAGC
54325234 TCTACTTAAGT
1 TCTACTTAAGT
54325245 TAGAATGATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (26 bp):
TCTACTTAAGTAACTTCCCACGAAGC
Found at i:54332495 original size:46 final size:45
Alignment explanation
Indices: 54332441--54332565 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 45
54332431 CTCGTAGCCA
* * **
54332441 ATGCATGTCCCATACATGTCTTACACTAGCTTACGTCTCGAGGGCG
1 ATGCATGTCCCAAACATGTCTTACACTAGCTT-CGTCTCAAGACCG
* * * *
54332487 ATGCATGTCCCAGACATGCCTTACACTAGCACTCGTCTCAATACCG
1 ATGCATGTCCCAAACATGTCTTACACTAGC-TTCGTCTCAAGACCG
*
54332533 ATGCCATGTCTCAAACATGGTCTTACACTAGCT
1 ATG-CATGTCCCAAACAT-GTCTTACACTAGCT
54332566 CTCATAATGT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 40 0.62
47 13 0.20
48 12 0.18
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCTTCGTCTCAAGACCG
Found at i:54340594 original size:40 final size:39
Alignment explanation
Indices: 54340549--54340678 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
54340539 CGGAATACAA
54340549 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* **
54340589 CCGGATAGAATGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
54340629 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
54340669 CCGGATATAA
1 CCGGATATAA
54340679 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:54348521 original size:40 final size:39
Alignment explanation
Indices: 54348476--54348605 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
54348466 CGGAATACAA
54348476 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
54348516 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
54348556 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
54348596 CCGGATATAA
1 CCGGATATAA
54348606 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:54350502 original size:40 final size:40
Alignment explanation
Indices: 54350443--54350650 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
54350433 CAATTGAATG
* * * *
54350443 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
54350483 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
54350523 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
54350563 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
54350603 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
54350643 ATATCCGG
1 ATATCCGG
54350651 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:54350581 original size:80 final size:80
Alignment explanation
Indices: 54350444--54350650 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
54350434 AATTGAATGA
* * ** * * *
54350444 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
54350509 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
54350522 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
54350587 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
54350604 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
54350651 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:54358574 original size:40 final size:40
Alignment explanation
Indices: 54358449--54358655 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
54358439 CAATTGAATG
* * ** * **
54358449 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
54358489 ATATCCGGGTTAAGA-CCGAAGGCAATT-GTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
*
54358528 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * *
54358568 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
54358608 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
54358648 ATATCCGG
1 ATATCCGG
54358656 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 30 0.21
40 108 0.77
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
Found at i:54373894 original size:44 final size:44
Alignment explanation
Indices: 54373844--54373931 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
54373834 CTCTAGCAGT
*
54373844 AGTATTACTCGATCTTGCATTTTGAAAATTATCTTTTTCAACAA
1 AGTATTACTCGATCTTGCAATTTGAAAATTATCTTTTTCAACAA
54373888 AGTATTACTCGATCTTGCAATTTGAAAATTATCTTTTTCAACAA
1 AGTATTACTCGATCTTGCAATTTGAAAATTATCTTTTTCAACAA
54373932 TTTCAGGGCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (44 bp):
AGTATTACTCGATCTTGCAATTTGAAAATTATCTTTTTCAACAA
Found at i:54384861 original size:27 final size:27
Alignment explanation
Indices: 54384822--54384889 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
54384812 TGAATCAGAA
* *
54384822 TGCTCACATGAGCTATGAAAATGGGTC
1 TGCTCACACGAGCTATGAAAATGGGCC
54384849 TGCTCACACGAGCTATGAAAATGGGCC
1 TGCTCACACGAGCTATGAAAATGGGCC
*
54384876 TGTTCACACGAGCT
1 TGCTCACACGAGCT
54384890 GTGGGTCGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (27 bp):
TGCTCACACGAGCTATGAAAATGGGCC
Found at i:54387299 original size:48 final size:48
Alignment explanation
Indices: 54387237--54387469 Score: 421
Period size: 48 Copynumber: 4.9 Consensus size: 48
54387227 TATATATGTG
*
54387237 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
54387285 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
54387333 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
54387381 TGTGGTAAAACCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
54387429 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
54387470 GTGTGTATAT
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:54389551 original size:29 final size:28
Alignment explanation
Indices: 54389513--54389615 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
54389503 GTGATGAGAT
* *
54389513 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
54389542 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
54389571 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
54389600 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54389616 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:54392390 original size:40 final size:40
Alignment explanation
Indices: 54392336--54392532 Score: 299
Period size: 40 Copynumber: 5.0 Consensus size: 40
54392326 ATTGAGAGTT
*
54392336 ATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* **
54392376 TTATGCCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* *
54392416 TTATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
*
54392456 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
*
54392496 ATATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCTGG
1 ATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTGG
54392533 AATTATGAGG
Statistics
Matches: 147, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.10
40 133 0.90
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
Found at i:54392623 original size:29 final size:27
Alignment explanation
Indices: 54392542--54392641 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
54392532 GAATTATGAG
* *
54392542 GCACTGTGTGTGCAAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
** *
54392570 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
54392598 GGCACTATGTGTGCGAGTTCTATAATCGA
1 -GCACTATGTGTGCGAGTTCT-TAATCGA
*
54392627 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
54392642 AATCAGTCAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 35 0.58
29 25 0.42
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:54396233 original size:48 final size:48
Alignment explanation
Indices: 54396178--54396458 Score: 481
Period size: 48 Copynumber: 5.9 Consensus size: 48
54396168 TATATATGTG
* *
54396178 TGTGGTAAAGCTGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
54396226 TGTGGTAAAGCCGAATGTCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
54396274 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
54396322 TGTGGTAAAGACGAATTGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
54396370 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
54396418 TGTGGTAAAGCCGAATGACTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
54396459 GTGTGTATAT
Statistics
Matches: 220, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 220 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:54407540 original size:12 final size:13
Alignment explanation
Indices: 54407523--54407560 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
54407513 ATCTTAGAAT
54407523 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
54407535 ATTAAGAACACATA
1 ATTAAGAACA-AGA
54407549 ATTAAGAACAAG
1 ATTAAGAACAAG
54407561 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:54412701 original size:24 final size:24
Alignment explanation
Indices: 54412659--54412836 Score: 266
Period size: 24 Copynumber: 7.4 Consensus size: 24
54412649 CTGGAGGCCT
* *
54412659 AGCCTCTTTTAAAAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCAGA
* *
54412684 AGCCCTTTTAATAGCTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCAGA
*
54412708 AGCCCTTTTGATAACTGGGGCAGA
1 AGCCCTTTTAATAACTGGGGCAGA
*
54412732 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCAGA
*
54412756 AGCCCTTTTGATAACTGGGGCAGA
1 AGCCCTTTTAATAACTGGGGCAGA
54412780 AGCCCTTTTAATAACTGGGGCAGA
1 AGCCCTTTTAATAACTGGGGCAGA
* *
54412804 AGCCCTTTTAATAACTGAGGCATA
1 AGCCCTTTTAATAACTGGGGCAGA
54412828 AGCCCTTTT
1 AGCCCTTTT
54412837 GCACTTCCTC
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 136 0.97
25 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCAGA
Found at i:54412915 original size:20 final size:20
Alignment explanation
Indices: 54412887--54412952 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
54412877 TATGAATACC
*
54412887 TCATCTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54412907 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
54412927 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54412947 CCATGT
1 TCATGT
54412953 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:54415300 original size:29 final size:29
Alignment explanation
Indices: 54415241--54415314 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
54415231 GTTGTGAGAT
* * *
54415241 TGGCACTAAGTGTGTGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATACA
*
54415270 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TACA
*
54415299 TGGCACTCAGTGTGCG
1 TGGCACTAAGTGTGCG
54415315 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATACA
Found at i:54417689 original size:40 final size:40
Alignment explanation
Indices: 54417531--54417695 Score: 160
Period size: 40 Copynumber: 4.1 Consensus size: 40
54417521 CGGAGTTTAA
** *
54417531 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGA-CATAG-
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGATCTTAGT
*
54417570 CCTGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
* * *
54417611 CCAGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
* * *
54417651 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGT
54417691 CCGGA
1 CCGGA
54417696 CATAATTCGA
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
39 6 0.06
40 88 0.83
41 12 0.11
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
Found at i:54428737 original size:40 final size:40
Alignment explanation
Indices: 54428635--54428818 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
54428625 AAATTGAATG
* * * * * *
54428635 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54428675 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
54428715 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
54428755 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54428795 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54428819 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:54428843 original size:80 final size:80
Alignment explanation
Indices: 54428675--54428863 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
54428665 GCTGGAAATT
* * *
54428675 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
54428740 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
54428755 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
54428818 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
54428835 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54428864 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:54435728 original size:29 final size:29
Alignment explanation
Indices: 54435666--54435768 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
54435656 GTGACGAGAT
* * *
54435666 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
54435695 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
54435724 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
54435753 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54435769 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:54442705 original size:29 final size:29
Alignment explanation
Indices: 54442643--54442745 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
54442633 GTGACGAGAT
* * *
54442643 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
54442672 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
54442701 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
54442730 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54442746 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:54449526 original size:29 final size:29
Alignment explanation
Indices: 54449498--54449599 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
54449488 CCTCCGAGCT
** * * *
54449498 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
54449527 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
54449556 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
54449585 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
54449600 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:54462282 original size:27 final size:28
Alignment explanation
Indices: 54462226--54462295 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
54462216 AAATTTGTAC
54462226 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
54462254 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
54462281 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54462296 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:54468161 original size:21 final size:21
Alignment explanation
Indices: 54468134--54468194 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
54468124 TATAATGAGT
54468134 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
54468155 ATCTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
54468176 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
54468195 ATAACAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:54468193 original size:10 final size:10
Alignment explanation
Indices: 54468134--54468194 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
54468124 TATAATGAGT
54468134 ATATCATAG-C
1 ATATCAT-GTC
54468144 ATATCATGTGC
1 ATATCATGT-C
* **
54468155 ATCTCATAAC
1 ATATCATGTC
54468165 ATATCATGTGC
1 ATATCATGT-C
54468176 ATATCATGTC
1 ATATCATGTC
54468186 ATATCATGT
1 ATATCATGT
54468195 ATAACAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:54468259 original size:25 final size:25
Alignment explanation
Indices: 54468231--54468279 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
54468221 ATAATTAAAC
* * *
54468231 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
54468256 CCTAGGGGCAAAATAGTCATTTTT
1 CCTAGGGGCAAAATAGTCATTTTT
54468280 TATTTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:54473526 original size:40 final size:40
Alignment explanation
Indices: 54473481--54473648 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
54473471 CGGAATATAA
54473481 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
54473521 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
54473561 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
54473601 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
54473641 CCGGATAT
1 CCGGATAT
54473649 CATTCAATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54473631 original size:80 final size:80
Alignment explanation
Indices: 54473481--54473648 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
54473471 CGGAATATAA
*
54473481 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
*
54473546 CCTTCGGGTCTTAGC
66 CCTTCGGGGCTTAGC
* * * ** *
54473561 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
54473623 TTGTCTTCGGGGCTTAGC
64 -TGCCTTCGGGGCTTAGC
54473641 CCGGATAT
1 CCGGATAT
54473649 CATTCAATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
79 4 0.05
80 72 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGGCTTAGC
Found at i:54492362 original size:40 final size:40
Alignment explanation
Indices: 54492301--54492516 Score: 256
Period size: 40 Copynumber: 5.4 Consensus size: 40
54492291 GATTGTCTTT
* * *
54492301 GGGACATAGCCCGG-TTATAGTAATTCGCACAATTGCCTTC
1 GGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC
*
54492341 GGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
* * * *
54492381 GGGACTTAACTCGGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
* * *
54492421 GGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
* * * *
54492461 GGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTC
1 GGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGCCTTC
54492502 GGGACTTAGCCCGGA
1 GGGACTTAGCCCGGA
54492517 CATCATTCGA
Statistics
Matches: 154, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 125 0.81
41 28 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
GGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
Found at i:54493229 original size:2 final size:2
Alignment explanation
Indices: 54493222--54493253 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
54493212 ATGTGCAAAC
54493222 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
54493254 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54499162 original size:29 final size:29
Alignment explanation
Indices: 54499100--54499202 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
54499090 GTGACGAGAT
* * *
54499100 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
54499129 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
54499158 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
54499187 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54499203 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:54506131 original size:29 final size:29
Alignment explanation
Indices: 54506069--54506171 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
54506059 GTGACGAGAT
* * *
54506069 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
54506098 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
*
54506127 TGGCACTATGTGTGC-AGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGA-GCTTGGAAT-ATA
54506156 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54506172 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
28 4 0.07
29 56 0.93
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:54509427 original size:40 final size:40
Alignment explanation
Indices: 54509325--54509508 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
54509315 AAATTGAATG
* * * * * *
54509325 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54509365 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
54509405 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
54509445 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54509485 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54509509 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:54509533 original size:80 final size:80
Alignment explanation
Indices: 54509365--54509553 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
54509355 GCTGGAAATT
* * *
54509365 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
54509430 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
54509445 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
54509508 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
54509525 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54509554 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:54511365 original size:24 final size:24
Alignment explanation
Indices: 54511332--54511461 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
54511322 TTGGAGGCCT
* *
54511332 AGCCTCTTTTAAAAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
54511357 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
54511381 AGCCCTTTTGATAACTGGGGCAGA
1 AGCCCTTTTAATAACTGGGGCATA
*
54511405 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
54511429 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
54511453 AGCCCTTTT
1 AGCCCTTTT
54511462 GCACTTCATC
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 95 0.96
25 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:54511540 original size:20 final size:20
Alignment explanation
Indices: 54511512--54511597 Score: 136
Period size: 20 Copynumber: 4.3 Consensus size: 20
54511502 TATGAATGCC
*
54511512 TCATATGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54511532 TCATGTGCATATCATATATA
1 TCATGTGCATATCATACATA
*
54511552 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
54511572 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54511592 CCATGT
1 TCATGT
54511598 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:54511542 original size:11 final size:11
Alignment explanation
Indices: 54511528--54511586 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
54511518 GCATATCATA
54511528 CATATCATGTG
1 CATATCATGTG
*
54511539 CATATCATAT-
1 CATATCATGTG
54511549 -ATATCATGTG
1 CATATCATGTG
*
54511559 CATATCA--TA
1 CATATCATGTG
*
54511568 CATGTCATGTG
1 CATATCATGTG
54511579 CATATCAT
1 CATATCAT
54511587 ACATACCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 15 0.39
11 23 0.61
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (11 bp):
CATATCATGTG
Found at i:54517791 original size:20 final size:21
Alignment explanation
Indices: 54517766--54517809 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
54517756 GTTTCCCATG
*
54517766 TTGGCCCGTTT-TCTCTGTTT
1 TTGGCCCGTTTCTCCCTGTTT
*
54517786 TTGGCCTGTTTCTCCCTGTTT
1 TTGGCCCGTTTCTCCCTGTTT
54517807 TTG
1 TTG
54517810 CCCTCCTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.00, C:0.25, G:0.20, T:0.55
Consensus pattern (21 bp):
TTGGCCCGTTTCTCCCTGTTT
Found at i:54520669 original size:31 final size:31
Alignment explanation
Indices: 54520645--54520718 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 31
54520635 ATATTGAGTC
54520645 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATTCAGCT
*
54520676 CGCACACTTAGTGC--TATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATATTC-AGCT
54520704 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54520719 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 6 0.15
31 14 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATTCAGCT
Found at i:54520714 original size:28 final size:29
Alignment explanation
Indices: 54520645--54520718 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
54520635 ATATTGAGTC
*
54520645 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATA-T-AACT
54520676 CGCACACTTAGTGCTATATA-ATCA-AACT
1 CGCACACTTAGTGCTATATATAT-ATAACT
54520704 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54520719 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 18 0.44
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATATAACT
Found at i:54544242 original size:47 final size:47
Alignment explanation
Indices: 54544120--54544231 Score: 197
Period size: 47 Copynumber: 2.4 Consensus size: 47
54544110 AACAGCTCGT
*
54544120 AGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54544167 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
54544214 AGTGTTTATATGTCATAA
1 AGTGTATATATGTGATAA
54544232 AGCTGAATGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:54544273 original size:48 final size:48
Alignment explanation
Indices: 54544220--54544731 Score: 765
Period size: 48 Copynumber: 10.7 Consensus size: 48
54544210 TGAAAGTGTT
** * *
54544220 TATATGTCATAAAGCTGAATGGCTAACGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
54544268 TATATGTGGTGAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * *
54544316 TATATGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * *
54544364 TATATGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* *
54544412 TATATGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
54544460 TATATGTGGTGAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
54544508 TATATGTGGTCAAA-TCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGT-AAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
54544556 TATATGTGGTAAAGCCAAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
54544604 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * ** * *
54544652 TATATGTCGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
54544700 AATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
54544732 TGTTGTAACA
Statistics
Matches: 437, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 3 0.01
48 432 0.99
49 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:54544830 original size:15 final size:15
Alignment explanation
Indices: 54544810--54544839 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
54544800 TGTGGAGATT
54544810 ATGTCCGGGTAAGAC
1 ATGTCCGGGTAAGAC
54544825 ATGTCCGGGTAAGAC
1 ATGTCCGGGTAAGAC
54544840 CCGATGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (15 bp):
ATGTCCGGGTAAGAC
Found at i:54544856 original size:52 final size:52
Alignment explanation
Indices: 54544778--54544876 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
54544768 AAATATATTA
*
54544778 CGGGTGAGACACGATGACTACGTGTGGAGATTATGTCCGGGTAAGACATGTC
1 CGGGTAAGACACGATGACTACGTGTGGAGATTATGTCCGGGTAAGACATGTC
* *
54544830 CGGGTAAGACCCGATGACTAGGTGTGGAGATTATGTCCGGGTAAGAC
1 CGGGTAAGACACGATGACTACGTGTGGAGATTATGTCCGGGTAAGAC
54544877 TTCGTAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.22
Consensus pattern (52 bp):
CGGGTAAGACACGATGACTACGTGTGGAGATTATGTCCGGGTAAGACATGTC
Found at i:54551286 original size:25 final size:26
Alignment explanation
Indices: 54551245--54551297 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
54551235 TCTCTTGAAA
*
54551245 TTCAATTTTATTTAATTACTTAAT-TT
1 TTCAATTTTATTGAATTA-TTAATATT
54551271 TTCAA-TTTATTGAATTATTAATATT
1 TTCAATTTTATTGAATTATTAATATT
54551296 TT
1 TT
54551298 ATACTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 5 0.20
25 15 0.60
26 5 0.20
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
TTCAATTTTATTGAATTATTAATATT
Found at i:54554795 original size:24 final size:23
Alignment explanation
Indices: 54554751--54554795 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
54554741 TATATTAGTG
54554751 AAAGATTTATTGATTAGAAGCGT
1 AAAGATTTATTGATTAGAAGCGT
*
54554774 AAAGAGTTTCTTGAATTA-AAGC
1 AAAGA-TTTATTG-ATTAGAAGC
54554796 AGGGGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 10 0.53
25 4 0.21
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (23 bp):
AAAGATTTATTGATTAGAAGCGT
Found at i:54557360 original size:40 final size:41
Alignment explanation
Indices: 54557307--54557418 Score: 126
Period size: 40 Copynumber: 2.8 Consensus size: 41
54557297 CTGGAAATTA
* * *
54557307 TATCCAGGTTAAGACCCGAAGGCAATT-GTGCTAG-CGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTC-G-TAC
*
54557348 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTCGTAC
*
54557387 TATTCGGGCTAAGACCCGAAGGC-ATTCGTGCA
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCA
54557419 CGTGGTTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
39 5 0.08
40 57 0.90
41 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTCGTAC
Found at i:54564956 original size:22 final size:23
Alignment explanation
Indices: 54564931--54564974 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
54564921 TAACATGTTG
54564931 AATTTTAATTAATTTT-ATAATA
1 AATTTTAATTAATTTTGATAATA
*
54564953 AATTTTGATTAATTTTGATAAT
1 AATTTTAATTAATTTTGATAAT
54564975 TTTTGATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
AATTTTAATTAATTTTGATAATA
Found at i:54564987 original size:20 final size:20
Alignment explanation
Indices: 54564931--54564981 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
54564921 TAACATGTTG
* *
54564931 AATTTTAATTAATTTTATAATA
1 AATTTTGATTAA-TTT-TGATA
54564953 AATTTTGATTAATTTTGATA
1 AATTTTGATTAATTTTGATA
*
54564973 ATTTTTGAT
1 AATTTTGAT
54564982 AGATTTGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 12 0.46
21 3 0.12
22 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
AATTTTGATTAATTTTGATA
Found at i:54567191 original size:41 final size:41
Alignment explanation
Indices: 54567146--54567263 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54567136 TGAAAGATAA
54567146 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54567187 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54567217 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54567258 ATGTAG
1 ATGTAG
54567264 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54567202 original size:71 final size:71
Alignment explanation
Indices: 54567114--54567277 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54567104 GAGATGTATC
54567114 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54567179 AGGACA
66 AGGACA
54567185 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54567250 AGGACA
66 AGGACA
54567256 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54567278 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54574769 original size:41 final size:41
Alignment explanation
Indices: 54574724--54574841 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54574714 TGAAAGATAA
54574724 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54574765 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54574795 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54574836 ATGTAG
1 ATGTAG
54574842 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54574780 original size:71 final size:71
Alignment explanation
Indices: 54574692--54574855 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54574682 GAGATGTATC
54574692 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54574757 AGGACA
66 AGGACA
54574763 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54574828 AGGACA
66 AGGACA
54574834 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54574856 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54582339 original size:41 final size:41
Alignment explanation
Indices: 54582294--54582411 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54582284 TGAAAGATAA
54582294 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54582335 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54582365 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54582406 ATGTAG
1 ATGTAG
54582412 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54582350 original size:71 final size:71
Alignment explanation
Indices: 54582262--54582425 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54582252 GAGATGTATC
54582262 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54582327 AGGACA
66 AGGACA
54582333 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54582398 AGGACA
66 AGGACA
54582404 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54582426 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54589913 original size:41 final size:41
Alignment explanation
Indices: 54589868--54589985 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54589858 TGAAAGATAA
54589868 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54589909 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54589939 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54589980 ATGTAG
1 ATGTAG
54589986 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54589924 original size:71 final size:71
Alignment explanation
Indices: 54589836--54589999 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54589826 GAGATGTATC
54589836 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54589901 AGGACA
66 AGGACA
54589907 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54589972 AGGACA
66 AGGACA
54589978 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54590000 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54595619 original size:40 final size:40
Alignment explanation
Indices: 54595564--54595645 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
54595554 ACCACGAATG
*
54595564 TTGAGATTACTGGAGTTTCATATTTTTCGATTATGATTAT
1 TTGAGATTACTGGAGTTTCATATTTTTCGATTATGACTAT
54595604 TTGAGATTACTGGAGTTTCATATTTTTCGATTATGACTAT
1 TTGAGATTACTGGAGTTTCATATTTTTCGATTATGACTAT
54595644 TT
1 TT
54595646 ACTATGAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (40 bp):
TTGAGATTACTGGAGTTTCATATTTTTCGATTATGACTAT
Found at i:54599445 original size:21 final size:22
Alignment explanation
Indices: 54599406--54599446 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
54599396 TCGGCCTCGC
*
54599406 ATGGTCTCGTTTCGAGTCATGG
1 ATGGTCTCGTTTCCAGTCATGG
*
54599428 ATGG-CTCGTTTCCTGTCAT
1 ATGGTCTCGTTTCCAGTCAT
54599447 AATCATGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.22, G:0.27, T:0.39
Consensus pattern (22 bp):
ATGGTCTCGTTTCCAGTCATGG
Found at i:54601131 original size:57 final size:58
Alignment explanation
Indices: 54601067--54601183 Score: 164
Period size: 57 Copynumber: 2.0 Consensus size: 58
54601057 TTCATTATTA
** *
54601067 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATG-ATTCAATTTCTCCATTTTC
1 ATTTTCATTTTGGAGAAAACCACAACCATTTCCAAAAGTATTCAATTTCTCCATTTTC
* * * *
54601124 ATTTTCATTTTGGAGAAAACCATAACCATTTCCAAAAGTTTTCCATTTCTCTATTTTC
1 ATTTTCATTTTGGAGAAAACCACAACCATTTCCAAAAGTATTCAATTTCTCCATTTTC
54601182 AT
1 AT
54601184 CATTTTATTC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 34 0.65
58 18 0.35
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.43
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACCACAACCATTTCCAAAAGTATTCAATTTCTCCATTTTC
Found at i:54606241 original size:29 final size:27
Alignment explanation
Indices: 54606207--54606309 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
54606197 TACTCGATCA
*
54606207 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
54606236 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
54606265 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
54606294 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
54606310 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:54607494 original size:35 final size:35
Alignment explanation
Indices: 54607454--54607523 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
54607444 GCCAAAAGGG
54607454 ATGAACAAGGATGAACAATTTTTTTTCTTTGTTTT
1 ATGAACAAGGATGAACAATTTTTTTTCTTTGTTTT
54607489 ATGAACAAGGATGAACAATTTTTTTTCTTTGTTTT
1 ATGAACAAGGATGAACAATTTTTTTTCTTTGTTTT
54607524 CCTTTCACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (35 bp):
ATGAACAAGGATGAACAATTTTTTTTCTTTGTTTT
Found at i:54623289 original size:25 final size:23
Alignment explanation
Indices: 54623261--54623317 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 23
54623251 TATCGATCAG
54623261 GATGCTCGCAG-GAACTATATAACAA
1 GATGCTCG-AGAG-ACT-TATAACAA
*
54623286 GATGCTCGAGAGGCTTATAACAA
1 GATGCTCGAGAGACTTATAACAA
54623309 GATTGCTCG
1 GA-TGCTCG
54623318 TCTGAGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 10 0.34
24 10 0.34
25 9 0.31
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
GATGCTCGAGAGACTTATAACAA
Found at i:54628342 original size:40 final size:40
Alignment explanation
Indices: 54628298--54628374 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
54628288 CGACTATTTG
* *
54628298 TGGCACTCAATGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTCAATGTACGATTCGACATAGCTTCAGCTATATA
* * * *
54628338 TGGCACTTAGTGTACGATTTGAGATAGCTTCAGCTAT
1 TGGCACTCAATGTACGATTCGACATAGCTTCAGCTAT
54628375 GTACGCCACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (40 bp):
TGGCACTCAATGTACGATTCGACATAGCTTCAGCTATATA
Found at i:54628385 original size:40 final size:40
Alignment explanation
Indices: 54628312--54628388 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
54628302 ACTCAATGTG
* * *
54628312 CGATTCGACATAGCTTCGGCTATATATGGCACTTAGTGTA
1 CGATTCGACATAGCTTCAGCTATATACGCCACTTAGTGTA
* * *
54628352 CGATTTGAGATAGCTTCAGCTATGTACGCCACTTAGT
1 CGATTCGACATAGCTTCAGCTATATACGCCACTTAGT
54628389 ACGTGAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
CGATTCGACATAGCTTCAGCTATATACGCCACTTAGTGTA
Found at i:54628422 original size:28 final size:28
Alignment explanation
Indices: 54628381--54628444 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
54628371 CTATGTACGC
**
54628381 CACTTAGTACGTGAAATATCGAGTGTGG
1 CACTTAGTACGTGAAATATCGAGTGTAA
** * *
54628409 CACTTAGTGTGTGAGATATTGAGTGTAA
1 CACTTAGTACGTGAAATATCGAGTGTAA
54628437 CACTTAGT
1 CACTTAGT
54628445 TTGCGAGGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
CACTTAGTACGTGAAATATCGAGTGTAA
Found at i:54632957 original size:29 final size:29
Alignment explanation
Indices: 54632922--54633027 Score: 158
Period size: 29 Copynumber: 3.7 Consensus size: 29
54632912 ATAAACGATC
***
54632922 TCGCACACTTAGTGCCATGCGATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
54632951 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
54632980 TCGTACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
54633009 TTGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
54633028 CCTTCCAAGC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:54633046 original size:58 final size:58
Alignment explanation
Indices: 54632923--54633054 Score: 149
Period size: 58 Copynumber: 2.3 Consensus size: 58
54632913 TAAACGATCT
* * * **
54632923 CGCACACTTAGTGCCATGCGATTTAAGTTCGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATACAATTTAAGTTCGCACACATAGTGCCATATAATTCAAGCC
* * * * **
54632981 CGTACACTTAGTGCCATATAATTTAAGTTTGCACACTTAGTGCCATA-CCTTCCAAGCC
1 CGCACACTTAGTGCCATACAATTTAAGTTCGCACACATAGTGCCATATAATT-CAAGCC
54633039 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
54633055 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 2 0.03
58 59 0.97
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACAATTTAAGTTCGCACACATAGTGCCATATAATTCAAGCC
Found at i:54640944 original size:29 final size:29
Alignment explanation
Indices: 54640909--54641014 Score: 167
Period size: 29 Copynumber: 3.7 Consensus size: 29
54640899 ATAAACGATC
***
54640909 TCGCACACTTAGTGCCATGCGATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
54640938 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
54640967 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
54640996 TTGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
54641015 CCTTCCAAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:54641030 original size:58 final size:58
Alignment explanation
Indices: 54640910--54641041 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
54640900 TAAACGATCT
* * * **
54640910 CGCACACTTAGTGCCATGCGATTTAAGTTCGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATACAATTTAAGTTCGCACACATAGTGCCATATAATTCAAGCC
* * * **
54640968 CGCACACTTAGTGCCATATAATTTAAGTTTGCACACTTAGTGCCATA-CCTTCCAAGCC
1 CGCACACTTAGTGCCATACAATTTAAGTTCGCACACATAGTGCCATATAATT-CAAGCC
54641026 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
54641042 ATCTTGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 2 0.03
58 61 0.97
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACAATTTAAGTTCGCACACATAGTGCCATATAATTCAAGCC
Found at i:54647913 original size:27 final size:27
Alignment explanation
Indices: 54647811--54647914 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 27
54647801 AATACTTTAG
* *
54647811 TTTACCAAATTA-CTGAAATACCCTCGA
1 TTTACAAAATTATC-GAAATACCCTTGA
* ** * *
54647838 CTTGTAAAATTA-CCAAAGTACCCCTGA
1 TTTACAAAATTATCGAAA-TACCCTTGA
***
54647865 TTTACAAAATTATCGTTTTACCCTTGA
1 TTTACAAAATTATCGAAATACCCTTGA
*
54647892 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTATCGAAATACCC
54647915 CTGTAGGGTA
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.93
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTATCGAAATACCCTTGA
Found at i:54647929 original size:27 final size:27
Alignment explanation
Indices: 54647899--54648038 Score: 181
Period size: 27 Copynumber: 5.2 Consensus size: 27
54647889 TGATTTACAA
54647899 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
*
54647926 AATTATTGAATTACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* *
54647953 AATTATTGAAATACCCTTGTAGGGTAA
1 AATTATTGAAATACCCCTGTAGGGTAG
* **
54647980 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* * * * *
54648007 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTATTGAAATACCCCTGTAGGGTAG
54648034 AATTA
1 AATTA
54648039 CCATTTTGCC
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTATTGAAATACCCCTGTAGGGTAG
Found at i:54647957 original size:54 final size:54
Alignment explanation
Indices: 54647899--54648040 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
54647889 TGATTTACAA
* * ** *
54647899 AATTATTGAAATACCCCTGTAGGGTAGAATTATTGAATTACCCCTGTAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
*
54647953 AATTATTGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
* * *
54648007 AATTACTGAGATACCCTTGTGGGGTAAAATTACC
1 AATTATTGAAATACCCTTGTAGGGTAAAATTACC
54648041 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (54 bp):
AATTATTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
Found at i:54648606 original size:22 final size:22
Alignment explanation
Indices: 54648554--54648609 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
54648544 GCCAATTATT
* *
54648554 CTGATTATGGCTTTGCGCTAAC
1 CTGATTATGGCTTTGCACCAAC
* *
54648576 CT-ACATATGGCTTTGTACCAAC
1 CTGA-TTATGGCTTTGCACCAAC
54648598 CTGATTATGGCT
1 CTGATTATGGCT
54648610 GTGTGCCGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTTTGCACCAAC
Found at i:54648863 original size:6 final size:6
Alignment explanation
Indices: 54648853--54648968 Score: 85
Period size: 6 Copynumber: 18.8 Consensus size: 6
54648843 TTGCATTCAC
* * * * *
54648853 ATTCTG GTTCTG ATTCTG -TTACCTG ATACTG ATTCTG TTTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
54648903 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
54648952 ATTCTC ATTATG ATTCT
1 ATTCTG ATTCTG ATTCT
54648969 AGTTTTGATA
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
5 4 0.05
6 71 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:54648888 original size:25 final size:25
Alignment explanation
Indices: 54648860--54648920 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
54648850 CACATTCTGG
* *
54648860 TTCTGATTCTGTTACCTGATACTGA
1 TTCTGATTCTGTCACCTAATACTGA
* *
54648885 TTCTGTTTCTGTCACCTAATTCTGA
1 TTCTGATTCTGTCACCTAATACTGA
54648910 TTCTGATTCTG
1 TTCTGATTCTG
54648921 ATTCTGATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (25 bp):
TTCTGATTCTGTCACCTAATACTGA
Found at i:54648895 original size:31 final size:31
Alignment explanation
Indices: 54648853--54648956 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
54648843 TTGCATTCAC
* *
54648853 ATTCTGGTTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* * *
54648884 ATTCTGTTTCTG-TCACCTAATT--CTGATTCTG
1 ATTCTGATTCTGAT--TCT-GTTACCTGATTCTG
*
54648915 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
54648946 ATTCTGATTCT
1 ATTCTGATTCT
54648957 CATTATGATT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
29 1 0.02
30 3 0.05
31 50 0.85
32 3 0.05
33 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:54648916 original size:37 final size:37
Alignment explanation
Indices: 54648875--54648968 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
54648865 ATTCTGTTAC
*
54648875 CTGATACTGATTCTGTTTCTGTCACCTAATTCTGATT
1 CTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
* *
54648912 CTGATTCTGATTCTGATTCTGTCACCTGATTCTGATT
1 CTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
* * *
54648949 CTGATTCTCATTATGATTCT
1 CTGATACTGATTCTGATTCT
54648969 AGTTTTGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (37 bp):
CTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:54650115 original size:62 final size:62
Alignment explanation
Indices: 54650045--54650172 Score: 238
Period size: 62 Copynumber: 2.1 Consensus size: 62
54650035 GGTATTTTGG
*
54650045 TTGTGATTATAGCCATGAGTTTGTATATATTTAGCCATGCGTGGTGGCCTATTTTGGTATGT
1 TTGTGATTATAGCCATGAGTTTGTATATATTTAGCCATGAGTGGTGGCCTATTTTGGTATGT
*
54650107 TTGTGATTATAGCCATGAGTTTGTATATATTTAGCCATGAGTGGTGGCTTATTTTGGTATGT
1 TTGTGATTATAGCCATGAGTTTGTATATATTTAGCCATGAGTGGTGGCCTATTTTGGTATGT
54650169 TTGT
1 TTGT
54650173 TATGAATGTG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.45
Consensus pattern (62 bp):
TTGTGATTATAGCCATGAGTTTGTATATATTTAGCCATGAGTGGTGGCCTATTTTGGTATGT
Found at i:54651833 original size:21 final size:22
Alignment explanation
Indices: 54651808--54651857 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
54651798 TGTGTAGGGT
*
54651808 CCACATGCCCATGTGA-AGGAG
1 CCACATACCCATGTGAGAGGAG
* * *
54651829 GCACACACCTATGTGAGAGGAG
1 CCACATACCCATGTGAGAGGAG
54651851 CCACATA
1 CCACATA
54651858 GCCGTTTGGC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.32, C:0.28, G:0.26, T:0.14
Consensus pattern (22 bp):
CCACATACCCATGTGAGAGGAG
Done.