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 136 of 328
Found at i:39554133 original size:24 final size:24
Alignment explanation
Indices: 39554053--39554172 Score: 156
Period size: 23 Copynumber: 5.0 Consensus size: 24
39554043 GGAGGAAGTG
39554053 AAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
39554077 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
39554100 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
39554123 AAAAAGGGCTTTTGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* *
39554147 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAG-GGCTTATGCC-CCAGTTAT
39554172 A
1 A
39554173 TGATAAAGCA
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 45 0.52
24 30 0.35
25 11 0.13
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAAGGGCTTATGCCCCAGTTAT
Found at i:39554147 original size:47 final size:48
Alignment explanation
Indices: 39554054--39554172 Score: 172
Period size: 46 Copynumber: 2.5 Consensus size: 48
39554044 GAGGAAGTGA
*
39554054 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
39554101 -AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
39554148 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
39554173 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 22 0.34
47 22 0.34
48 9 0.14
49 12 0.18
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
Found at i:39554400 original size:31 final size:31
Alignment explanation
Indices: 39554365--39554428 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39554355 CGTTTACCGT
*
39554365 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
39554396 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39554427 AA
1 AA
39554429 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39557246 original size:27 final size:28
Alignment explanation
Indices: 39557216--39557315 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
39557206 TTTAGTTTAC
39557216 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
39557243 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
39557270 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
39557297 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
39557316 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:39557315 original size:54 final size:54
Alignment explanation
Indices: 39557216--39557334 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
39557206 TTTAGTTTAC
* * *
39557216 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * * *
39557270 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTA
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTTG
*
39557324 CAAAATTACCG
1 TAAAATTACCG
39557335 TTTTACCCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 8 0.15
54 46 0.85
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:39557341 original size:27 final size:27
Alignment explanation
Indices: 39557311--39557600 Score: 291
Period size: 27 Copynumber: 10.8 Consensus size: 27
39557301 ATTACCAAAG
* *
39557311 TACCCCCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
39557338 TACCCTTAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39557365 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * * *
39557392 TTCCCTCAACTCACA-AATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
39557418 TACCC-CTAATTAACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
39557445 TACCC-CGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
39557471 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39557498 TACCCTCGATTTACTGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
39557525 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39557552 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39557579 TATCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
39557601 TAAAATACCC
Statistics
Matches: 225, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
25 1 0.00
26 42 0.19
27 181 0.80
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:39557428 original size:80 final size:80
Alignment explanation
Indices: 39557326--39557537 Score: 304
Period size: 80 Copynumber: 2.6 Consensus size: 80
39557316 CCGATTTACA
*
39557326 AAATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCGTT
1 AAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCGTT
*
39557391 TTTCCCTCAACTCAC
66 TTACCCTCAACTCAC
*
39557406 AAATTACCGTTTTACCCCTAATTAACATAATTACCGTTTTACCCC-GATTTACATAATTATCGTT
1 AAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCGTT
* *
39557470 TTACCCTCGACTTAC
66 TTACCCTCAACTCAC
* * *
39557485 AGAATTACCGTTTTA-CCCTCGATTTAC-TGAATTACTGTTTTACCCTTGATTTA
1 A-AATTACCGTTTTACCCCT-AATTTACAT-AATTACCGTTTTACCCCTGATTTA
39557538 TAGAATTACT
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
79 37 0.31
80 76 0.64
81 6 0.05
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (80 bp):
AAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCGTT
TTACCCTCAACTCAC
Found at i:39557434 original size:53 final size:54
Alignment explanation
Indices: 39557327--39557504 Score: 200
Period size: 53 Copynumber: 3.3 Consensus size: 54
39557317 CGATTTACAA
* * * * *
39557327 AATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCTGATTTACAT
1 AATTACCGTTTTACCCTCAACTCACATAATTACCGTTTTACCCCTAATTAACAT
* *
39557381 AATTATCGTTTTTCCCTCAACTCACA-AATTACCGTTTTACCCCTAATTAACAT
1 AATTACCGTTTTACCCTCAACTCACATAATTACCGTTTTACCCCTAATTAACAT
* * * * * * *
39557434 AATTACCGTTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGACTT-ACAG
1 AATTACCGTTTTACCCTCAACTCACATAATTACCGTTTTACCC-CTAATTAACAT
39557487 AATTACCGTTTTACCCTC
1 AATTACCGTTTTACCCTC
39557505 GATTTACTGA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
52 6 0.06
53 73 0.70
54 26 0.25
ACGTcount: A:0.28, C:0.27, G:0.06, T:0.39
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCAACTCACATAATTACCGTTTTACCCCTAATTAACAT
Found at i:39557623 original size:27 final size:27
Alignment explanation
Indices: 39557593--39557717 Score: 171
Period size: 27 Copynumber: 4.7 Consensus size: 27
39557583 CTCGATTTAC
*
39557593 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
39557620 AAAATTACCAAAATACCC-TAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
** *
39557646 AAAATTACCAAAATACTATTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * * *
39557673 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
39557700 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
39557718 CTGATTTACA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 24 0.29
27 60 0.71
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:39557626 original size:81 final size:81
Alignment explanation
Indices: 39557468--39557627 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
39557458 ATAATTATCG
** ****
39557468 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACTGAATTACTGTTTTACCCTTG
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
*
39557533 ATTTATAGAATTACTA
66 ATTTATAAAATTACTA
* * * *
39557549 TTTTACCCTTGATTTACAGAATTACTGTTTTATCCTCGATTTACAAAATTACTAAAATACCCTT-
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
*
39557613 AGTTTGTAAAATTAC
66 A-TTTATAAAATTAC
39557628 CAAAATACCC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (81 bp):
TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
ATTTATAAAATTACTA
Found at i:39557659 original size:53 final size:54
Alignment explanation
Indices: 39557593--39557717 Score: 180
Period size: 53 Copynumber: 2.3 Consensus size: 54
39557583 CTCGATTTAC
* *
39557593 AAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTCAATTTGT
** * * *
39557646 AAAATTACCAAAATACTATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTCAATTTGT
39557700 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
39557718 CTGATTTACA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
53 40 0.65
54 22 0.35
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTCAATTTGT
Found at i:39557795 original size:27 final size:27
Alignment explanation
Indices: 39557756--39557807 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
39557746 TGACTTTCTA
39557756 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
39557783 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
39557808 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:39557925 original size:27 final size:27
Alignment explanation
Indices: 39557861--39557925 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
39557851 ACCCCTAAAA
*
39557861 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
39557888 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
39557915 GGTAAAATGAC
1 GGTAAAATGAC
39557926 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:39559112 original size:25 final size:25
Alignment explanation
Indices: 39559083--39559132 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
39559073 CCTTATAATA
* *
39559083 TAAAAATGACCATTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
39559108 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
39559133 GTTTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:39559183 original size:9 final size:9
Alignment explanation
Indices: 39559171--39559227 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
39559161 TTTGATAAAC
39559171 ATGATATGT
1 ATGATATGT
*
39559180 ATGATATGCAC
1 ATGATATG--T
*
39559191 ATGACATGT
1 ATGATATGT
*
39559200 ATGATATGCAC
1 ATGATATG--T
39559211 ATGATATGT
1 ATGATATGT
39559220 ATGATATG
1 ATGATATG
39559228 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:39559194 original size:20 final size:20
Alignment explanation
Indices: 39559169--39559231 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
39559159 ATTTTGATAA
39559169 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39559189 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
39559209 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39559229 ACA
1 ACA
39559232 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39559317 original size:23 final size:23
Alignment explanation
Indices: 39559287--39559382 Score: 165
Period size: 23 Copynumber: 4.1 Consensus size: 23
39559277 AGGAAGTGAA
39559287 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39559310 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
39559333 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
39559357 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39559380 AAA
1 AAA
39559383 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
23 48 0.70
24 21 0.30
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:39559365 original size:24 final size:24
Alignment explanation
Indices: 39559285--39559404 Score: 156
Period size: 23 Copynumber: 5.0 Consensus size: 24
39559275 GGAGGAAGTG
39559285 AAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
39559309 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
39559332 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
39559355 AAAAAGGGCTTTTGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* *
39559379 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAG-GGCTTATGCC-CCAGTTAT
39559404 A
1 A
39559405 TGATAAAGCA
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 45 0.52
24 30 0.35
25 11 0.13
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAAGGGCTTATGCCCCAGTTAT
Found at i:39559379 original size:47 final size:48
Alignment explanation
Indices: 39559286--39559404 Score: 172
Period size: 46 Copynumber: 2.5 Consensus size: 48
39559276 GAGGAAGTGA
*
39559286 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
39559333 -AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
39559380 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
39559405 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 22 0.34
47 22 0.34
48 9 0.14
49 12 0.18
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
Found at i:39559632 original size:31 final size:31
Alignment explanation
Indices: 39559597--39559660 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39559587 CGTTTACCGT
*
39559597 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
39559628 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39559659 AA
1 AA
39559661 TATGGAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39570651 original size:27 final size:27
Alignment explanation
Indices: 39570601--39570707 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 27
39570591 TGGCTGTGAT
* * *
39570601 AACAGATAA-TGTGACAGTGTCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
39570627 AACAGATAATTGTGGCAGAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
*
39570654 AACAGAT-ATATGTGGCAGTGCCACCAG
1 AACAGATAAT-TGTGGCAGAGCCACCAG
* *
39570681 ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
39570708 GACACTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.15
27 58 0.82
28 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
AACAGATAATTGTGGCAGAGCCACCAG
Found at i:39570679 original size:54 final size:53
Alignment explanation
Indices: 39570601--39570707 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 53
39570591 TGGCTGTGAT
*
39570601 AACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
* * *
39570654 AACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
39570708 GACACTTCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 8 0.16
54 41 0.84
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (53 bp):
AACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
Found at i:39572176 original size:24 final size:24
Alignment explanation
Indices: 39572141--39572193 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
39572131 CCAACACCGT
*
39572141 TCTCCCTAATCAGCTCTTAAATCC
1 TCTCCCTAATCAGCTCCTAAATCC
* *
39572165 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTAATCAGCTCCTAAATCC
39572189 TCTCC
1 TCTCC
39572194 TGACAACCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.36
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCTAAATCC
Found at i:39573144 original size:30 final size:31
Alignment explanation
Indices: 39573098--39573155 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
39573088 TTCCCGAGCC
39573098 TAGGGGAAAAAGTGTAATTATG-CAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGTCAAAAGTT
*
39573128 TAGGGGCAAAAA-TGTAATTTTGTCAAAA
1 TAGGGG-AAAAAGTGTAATTATGTCAAAA
39573156 TTTGTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.28
Consensus pattern (31 bp):
TAGGGGAAAAAGTGTAATTATGTCAAAAGTT
Found at i:39579470 original size:39 final size:39
Alignment explanation
Indices: 39579416--39579567 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
39579406 GAATGTTCGA
*
39579416 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
39579455 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
39579494 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
39579533 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGC
39579568 AGGTTACCAT
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:39579584 original size:40 final size:39
Alignment explanation
Indices: 39579417--39579598 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
39579407 AATGTTCGAG
* *
39579417 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
39579456 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
39579495 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
39579534 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGC-AGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGA-GTTA
** * *
39579574 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
39579599 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 89 0.70
40 39 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:39584081 original size:210 final size:208
Alignment explanation
Indices: 39583671--39584092 Score: 799
Period size: 210 Copynumber: 2.0 Consensus size: 208
39583661 TACCCATAGG
*
39583671 TGAAATTGGTGTATTTTGGTGTTTTTTGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTG
1 TGAAATTGGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTG
*
39583736 TACTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGCAATCGGTAAAAATGCCTAATAGTCATAAG
66 TACTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGCAATCGGTAAAAATACCTAATAGTCATAAG
39583801 TACATGTTAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAAATGATCAGCATGTCATAAAACA
131 TACATGTTAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAAATGATCAGCATGTCATAAAACA
39583866 TAAGAATAAGGGA
196 TAAGAATAAGGGA
*
39583879 TGAAATTTGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTG
1 TGAAATTGGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTG
39583944 TACTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATA
66 TACTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGC--AATCGGTAAAAATACCTAATAGTCATA
39584009 AGTACATGTTAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAAATGATCAGCATGTCATAAAA
129 AGTACATGTTAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAAATGATCAGCATGTCATAAAA
39584074 CATAAGAATAAGGGA
194 CATAAGAATAAGGGA
39584089 TGAA
1 TGAA
39584093 GTTTAATTCC
Statistics
Matches: 209, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
208 99 0.47
210 110 0.53
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (208 bp):
TGAAATTGGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTG
TACTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGCAATCGGTAAAAATACCTAATAGTCATAAG
TACATGTTAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAAATGATCAGCATGTCATAAAACA
TAAGAATAAGGGA
Found at i:39584145 original size:30 final size:30
Alignment explanation
Indices: 39584109--39584168 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
39584099 TTCCCGATCC
*
39584109 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
39584139 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
39584169 CATATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:39588242 original size:27 final size:28
Alignment explanation
Indices: 39588212--39588283 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
39588202 AATAGTAAAT
* *
39588212 TTACTAAAATACCCCTAAGTATG-ACAA
1 TTACCAAAATACCCCTAAGTATGCAAAA
**
39588239 TTACCATTATACCCCTAAGTATGCAAAA
1 TTACCAAAATACCCCTAAGTATGCAAAA
**
39588267 TTACCATTATACCCCTA
1 TTACCAAAATACCCCTA
39588284 GGGTTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (28 bp):
TTACCAAAATACCCCTAAGTATGCAAAA
Found at i:39588277 original size:28 final size:27
Alignment explanation
Indices: 39588220--39588283 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 27
39588210 ATTTACTAAA
*
39588220 ATACCCCTAAGTATGACAATTACCATT
1 ATACCCCTAAGTATGAAAATTACCATT
39588247 ATACCCCTAAGTATGCAAAATTACCATT
1 ATACCCCTAAGTATG-AAAATTACCATT
39588275 ATACCCCTA
1 ATACCCCTA
39588284 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 15 0.43
28 20 0.57
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (27 bp):
ATACCCCTAAGTATGAAAATTACCATT
Found at i:39588457 original size:27 final size:26
Alignment explanation
Indices: 39588386--39588500 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
39588376 TGGAGGAAGC
*
39588386 GTTCTGGTGGGTATGCCACAATTATCT
1 GTTCTGGTGGCTATGCCACAA-TATCT
39588413 GTTTCTGGTGGCTATGCCACAATTATCT
1 G-TTCTGGTGGCTATGCCACAA-TATCT
*
39588441 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
39588467 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
39588494 GTTCTGG
1 GTTCTGG
39588501 CAGCCATGCT
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
26 12 0.15
27 44 0.54
28 26 0.32
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:39607367 original size:47 final size:46
Alignment explanation
Indices: 39607254--39607428 Score: 148
Period size: 46 Copynumber: 3.8 Consensus size: 46
39607244 ATGGGGTAAG
* * * * *
39607254 GTGCCGATGCCATGTCCCAGACATAGTCTTAAACTGGCACATTTCAT--
1 GTGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCGC-TCTCATAA
*
39607301 G-GCCGATGCATGTCCCAGACATGTCTTACACTAGCGCTCGTC-TCAA
1 GTGCCAATGCATGTCCCAGACATGTCTTACACTAGCGCTC-TCAT-AA
*
39607347 -TGCCAATGACATGTCCCAGACATGGTCTTACGCTA--GCTCTCATAA
1 GTGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCGCTCTCATAA
* *
39607392 TGTGCCCATGCAAGTCCCAGACATGTCTTACACTAGC
1 -GTGCCAATGCATGTCCCAGACATGTCTTACACTAGC
39607429 TCACACAAGT
Statistics
Matches: 107, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
43 2 0.02
44 14 0.13
45 28 0.26
46 31 0.29
47 22 0.21
48 10 0.09
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GTGCCAATGCATGTCCCAGACATGTCTTACACTAGCGCTCTCATAA
Found at i:39614963 original size:46 final size:45
Alignment explanation
Indices: 39614853--39615069 Score: 188
Period size: 46 Copynumber: 4.7 Consensus size: 45
39614843 GGGGTAAGGT
* * * * *
39614853 GCCGATGCCATCTCCCAGACATGGTTTTACACTGAC-ACAT-TTCATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTTGA-G
39614899 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTTGAG
* * * ** *
39614945 GCTGATGCATGTCTCAGACATGTCTTACACTAGCGC-TCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTTCATCTTGAG
* ** *
39614991 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTTGAG
*
39615039 GCCCATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
39615070 AGCTCACACA
Statistics
Matches: 139, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.08
45 13 0.09
46 62 0.45
47 33 0.24
48 20 0.14
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTTGAG
Found at i:39617108 original size:111 final size:111
Alignment explanation
Indices: 39616909--39617131 Score: 401
Period size: 111 Copynumber: 2.0 Consensus size: 111
39616899 AAGCATGCAT
*
39616909 TTTCTACCATTAAACATCAAAACACATATAGATTCATCAATGGCAAAACCCTCGACCTTTAACAG
1 TTTCTACCATTAAACATCAAAACACATATAGATTCATCAATGGCAAAACCCTCAACCTTTAACAG
* * *
39616974 TCTTGTAAAATAGTCCCTGGGCTAGCTAGATTAAGCTGCAACAATC
66 TCTTGCAAAATAGTCCCTAGGCTAGCTAGATTAAGCCGCAACAATC
*
39617020 TTTCTACCATTAAACATCAAAACACATATAGATTCATCAATGGCAAAATCCTCAACCTTTAACAG
1 TTTCTACCATTAAACATCAAAACACATATAGATTCATCAATGGCAAAACCCTCAACCTTTAACAG
39617085 TCTTGCAAAATAGTCCCTAGGCTAGCTAGATTAAGCCGCAACAATC
66 TCTTGCAAAATAGTCCCTAGGCTAGCTAGATTAAGCCGCAACAATC
39617131 T
1 T
39617132 CAAAAATATA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.27
Consensus pattern (111 bp):
TTTCTACCATTAAACATCAAAACACATATAGATTCATCAATGGCAAAACCCTCAACCTTTAACAG
TCTTGCAAAATAGTCCCTAGGCTAGCTAGATTAAGCCGCAACAATC
Found at i:39618923 original size:25 final size:25
Alignment explanation
Indices: 39618871--39618962 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
39618861 CAGGCCTATT
* * * *
39618871 TTCACAGCTCGTGTGAGCATTTTGA
1 TTCACTGCTCATGTGAGCATTCTAA
*
39618896 TTCACTGCTCATATGAGCATTCTAA
1 TTCACTGCTCATGTGAGCATTCTAA
* * *
39618921 TTCA-TATCTCATGTGAGCATACTTA
1 TTCACT-GCTCATGTGAGCATTCTAA
*
39618946 TTCACAGCTCATGTGAG
1 TTCACTGCTCATGTGAG
39618963 TATATATGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (25 bp):
TTCACTGCTCATGTGAGCATTCTAA
Found at i:39619611 original size:20 final size:20
Alignment explanation
Indices: 39619568--39619609 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
39619558 TAAAGAAAGT
39619568 AAATAAAATGGAAAGTAATG
1 AAATAAAATGGAAAGTAATG
39619588 AAATGAAAAT-GAAAGTAA-G
1 AAAT-AAAATGGAAAGTAATG
39619607 AAA
1 AAA
39619610 ATTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (20 bp):
AAATAAAATGGAAAGTAATG
Found at i:39621223 original size:43 final size:42
Alignment explanation
Indices: 39621122--39621234 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
39621112 TGTGTTATCG
* ***
39621122 TGTAAGACCACATCTGGAACATTGGCATCATATTTGATTTTG
1 TGTAAGACCACATCTGGGACATTGGCATCATATTTGATTACA
* * *
39621164 TGCAAGA-CATTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCA-CATCTGGGACATTGGCATC-ATATTTGATTACA
* *
39621207 TGTAAGACCACGTCTGGGGCATTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
39621235 TGTACAAGCT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.04
42 22 0.39
43 30 0.54
44 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATTGGCATCATATTTGATTACA
Found at i:39624215 original size:40 final size:40
Alignment explanation
Indices: 39624107--39624276 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
39624097 CGGGATTTAA
* * * * *
39624107 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
39624147 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39624187 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39624227 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39624267 CCGGATATAT
1 CCGGATATAT
39624277 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:39632309 original size:40 final size:40
Alignment explanation
Indices: 39632201--39632422 Score: 221
Period size: 40 Copynumber: 5.2 Consensus size: 40
39632191 CGGGATTTAA
* * * * *
39632201 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
39632241 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39632281 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAG-C
39632322 CGGATATATCGCACGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 C--------CG---GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39632373 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39632413 CCGGATATAT
1 CCGGATATAT
39632423 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 28
0.78 0.08 0.14
Matches are distributed among these distances:
39 1 0.01
40 108 0.71
41 2 0.01
43 2 0.01
49 2 0.01
51 2 0.01
52 36 0.24
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:39632362 original size:52 final size:52
Alignment explanation
Indices: 39632284--39632383 Score: 200
Period size: 52 Copynumber: 1.9 Consensus size: 52
39632274 TCTTAGCCCG
39632284 GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCGCAC
1 GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCGCAC
39632336 GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATC
1 GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATC
39632384 AACTCGCACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (52 bp):
GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCGCAC
Found at i:39637167 original size:27 final size:27
Alignment explanation
Indices: 39636831--39637165 Score: 441
Period size: 27 Copynumber: 12.6 Consensus size: 27
39636821 AAAGTACTCC
39636831 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39636858 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
39636885 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
39636912 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
39636939 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
39636966 CGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39636992 CAATTTACATAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39637018 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
39637045 CGATTTACA-AATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39637071 -AATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39637097 CGATTTATAGAATTACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39637123 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
39637150 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
39637166 TGAAATACCC
Statistics
Matches: 273, Mismatches: 27, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
25 7 0.03
26 106 0.39
27 158 0.58
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:39638540 original size:9 final size:9
Alignment explanation
Indices: 39638528--39638584 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
39638518 TTTGATAAAC
39638528 ATGATATGT
1 ATGATATGT
*
39638537 ATGATATGCAC
1 ATGATATG--T
*
39638548 ATGACATGT
1 ATGATATGT
*
39638557 ATGATATGCAC
1 ATGATATG--T
39638568 ATGATATGT
1 ATGATATGT
39638577 ATGATATG
1 ATGATATG
39638585 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:39638551 original size:20 final size:20
Alignment explanation
Indices: 39638526--39638588 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
39638516 ATTTTGATAA
39638526 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39638546 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
39638566 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39638586 ACA
1 ACA
39638589 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39638698 original size:24 final size:23
Alignment explanation
Indices: 39638642--39638830 Score: 274
Period size: 24 Copynumber: 8.0 Consensus size: 23
39638632 GAGGAAGTGA
39638642 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
39638665 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
39638688 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
39638712 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
39638736 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
39638760 -AAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
39638782 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
39638806 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
39638830 A
1 A
39638831 TGATAAAGCA
Statistics
Matches: 154, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
22 21 0.14
23 42 0.27
24 81 0.53
25 10 0.06
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:39639056 original size:31 final size:31
Alignment explanation
Indices: 39639021--39639084 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39639011 CGTTTACCGT
*
39639021 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
39639052 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39639083 AA
1 AA
39639085 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39642245 original size:27 final size:27
Alignment explanation
Indices: 39641906--39642243 Score: 434
Period size: 27 Copynumber: 12.6 Consensus size: 27
39641896 AAAGTACTCC
39641906 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39641933 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
39641960 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
39641987 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
39642014 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
39642041 CGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39642067 CTAATTTACATAATTA-CGTTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
39642093 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
39642120 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39642147 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
39642174 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39642201 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
39642228 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
39642244 TGAAATACCC
Statistics
Matches: 273, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
25 13 0.05
26 24 0.09
27 234 0.86
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:39642280 original size:81 final size:81
Alignment explanation
Indices: 39641970--39642283 Score: 215
Period size: 81 Copynumber: 3.9 Consensus size: 81
39641960 CGATTTGTAA
* * * ** * **
39641970 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTATT
1 AATTACCGTTTTACCCTCAATTTACAAAATTACCATAATACCCTCGA-TTTATAGAATTACCAAA
** *
39642034 TTACCCTCGATTTACAG
65 ACACCCTTGATTTACAG
* * ** * * * ***
39642051 AATTACCGTTTTACCC-CTAATTTACATAATTA-CGTTTTACCC-CGATTTACATAATTATCGTT
1 AATTACCGTTTTACCCTC-AATTTACAAAATTACCATAATACCCTCGATTTATAGAATTACCAAA
** *
39642113 TTACCCTCGATTTACAG
65 ACACCCTTGATTTACAG
* ** *****
39642130 AATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTT
1 AATTACCGTTTTACCCTCAATTTACAAAATTACCATAATACCCTCGATTTATAGAATTACCAAAA
39642195 CACCCTTGATTTACAG
66 CACCCTTGATTTACAG
* * * * * * *
39642211 AATTACTGTTTTACCCTCGATTTACAAAATTACTGA-AATACCCTTGGTTTGTAGATTTACCAAA
1 AATTACCGTTTTACCCTCAATTTACAAAATTAC-CATAATACCCTCGATTTATAGAATTACCAAA
39642275 ACACCCTTG
65 ACACCCTTG
39642284 TAGGATGAAA
Statistics
Matches: 197, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
79 59 0.30
80 22 0.11
81 115 0.58
82 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCAATTTACAAAATTACCATAATACCCTCGATTTATAGAATTACCAAAA
CACCCTTGATTTACAG
Found at i:39643562 original size:25 final size:25
Alignment explanation
Indices: 39643533--39643580 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39643523 TTATAATATG
* * *
39643533 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
39643558 AAAATAACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
39643581 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:39643631 original size:9 final size:9
Alignment explanation
Indices: 39643619--39643675 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
39643609 TTTGATAAAC
39643619 ATGATATGT
1 ATGATATGT
*
39643628 ATGATATGCAC
1 ATGATATG--T
*
39643639 ATGACATGT
1 ATGATATGT
*
39643648 ATGATATGCAC
1 ATGATATG--T
39643659 ATGATATGT
1 ATGATATGT
39643668 ATGATATG
1 ATGATATG
39643676 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:39643642 original size:20 final size:20
Alignment explanation
Indices: 39643617--39643679 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
39643607 ATTTTGATAA
39643617 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39643637 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
39643657 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39643677 ACA
1 ACA
39643680 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39643761 original size:24 final size:24
Alignment explanation
Indices: 39643729--39643902 Score: 271
Period size: 24 Copynumber: 7.2 Consensus size: 24
39643719 GAATGGAGGA
39643729 AGTTATCAAAAGGGCTTATGCCCC
1 AGTTATCAAAAGGGCTTATGCCCC
39643753 AGTTATCAAAAGGGCTTATGCCCC
1 AGTTATCAAAAGGGCTTATGCCCC
39643777 AGTTATCAAAAGGGCTTATGCCCC
1 AGTTATCAAAAGGGCTTATGCCCC
*
39643801 AGTTATCAAAAGGGCTTACGCCCC
1 AGTTATCAAAAGGGCTTATGCCCC
39643825 AGTTATC-AAAGGGCTTATGCCCC
1 AGTTATCAAAAGGGCTTATGCCCC
* *
39643848 AGTTATAAAAAGGGCTTTTGCCCC
1 AGTTATCAAAAGGGCTTATGCCCC
* *
39643872 AGTTATTAAAAGAGGC-TAGGCCTCC
1 AGTTATCAAAAG-GGCTTATGCC-CC
39643897 AGTTAT
1 AGTTAT
39643903 ATGATAAAGC
Statistics
Matches: 140, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 21 0.15
24 108 0.77
25 11 0.08
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
AGTTATCAAAAGGGCTTATGCCCC
Found at i:39643870 original size:71 final size:72
Alignment explanation
Indices: 39643729--39643902 Score: 271
Period size: 71 Copynumber: 2.4 Consensus size: 72
39643719 GAATGGAGGA
* *
39643729 AGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT
1 AGTTATCAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTT
39643794 ATGCCCC
66 ATGCCCC
39643801 AGTTATCAAAAGGGCTTACGCCCCAGTTATC-AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTT
1 AGTTATCAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTT
*
39643865 TTGCCCC
66 ATGCCCC
* *
39643872 AGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AGTTATCAAAAG-GGCTTACGCC-CCAGTTAT
39643903 ATGATAAAGC
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.57
72 41 0.43
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (72 bp):
AGTTATCAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTT
ATGCCCC
Found at i:39644131 original size:31 final size:31
Alignment explanation
Indices: 39644096--39644159 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
39644086 CGTTTACCGT
* *
39644096 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
**
39644127 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
39644158 AA
1 AA
39644160 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:39646452 original size:74 final size:74
Alignment explanation
Indices: 39646322--39646460 Score: 179
Period size: 74 Copynumber: 1.9 Consensus size: 74
39646312 AGCTCAGATG
* * * *
39646322 AAATTTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCACCACACATAGTCATCGGGTCTT
39646387 ACCTGGACA
66 ACCTGGACA
* * * * * * *
39646396 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACATAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCACCACACATAGTCATCGGGTCTT
39646461 TAATCCCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 54 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCACCACACATAGTCATCGGGTCTT
ACCTGGACA
Found at i:39646453 original size:37 final size:37
Alignment explanation
Indices: 39646322--39646432 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
39646312 AGCTCAGATG
* * * *
39646322 AAATTTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
39646359 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
39646396 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
39646433 TAGTCACCAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
Found at i:39646459 original size:37 final size:37
Alignment explanation
Indices: 39646340--39646460 Score: 152
Period size: 37 Copynumber: 3.3 Consensus size: 37
39646330 ACACGAAGTT
* * *
39646340 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTC
1 ATCGGGTCTTACCTGGACAAAATCACCACACATAGTC
* *
39646377 ATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTC
1 ATCGGGTCTTACCTGGACAAAATCACCACACATAGTC
* * * *
39646414 ATCGGGTCTTACCTGGACATAGTCACCACATATGGTC
1 ATCGGGTCTTACCTGGACAAAATCACCACACATAGTC
*
39646451 ATCTGGTCTT
1 ATCGGGTCTT
39646461 TAATCCCAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (37 bp):
ATCGGGTCTTACCTGGACAAAATCACCACACATAGTC
Found at i:39646693 original size:46 final size:46
Alignment explanation
Indices: 39646625--39646758 Score: 187
Period size: 46 Copynumber: 2.9 Consensus size: 46
39646615 TATATATACA
* * * *
39646625 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
39646671 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
39646717 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTATCACA
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACA
39646759 CATACGCATG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:39646795 original size:47 final size:47
Alignment explanation
Indices: 39646735--39646977 Score: 324
Period size: 47 Copynumber: 5.1 Consensus size: 47
39646725 ACACATTTCG
*
39646735 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39646782 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
39646829 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * ** *
39646876 AATTGGCCATTCAGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ACATACGCATGTTCACATTCATCA
* * * * **
39646927 CATTTGCCATTCGGCCTTATCTCATATATGCACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39646974 CATT
1 CATT
39646978 AAAATCCTAA
Statistics
Matches: 176, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 137 0.78
49 2 0.01
51 37 0.21
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:39653053 original size:22 final size:22
Alignment explanation
Indices: 39653027--39653072 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39653017 ATTATGTGTA
39653027 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
39653049 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
39653071 TT
1 TT
39653073 GGTTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:39657616 original size:49 final size:49
Alignment explanation
Indices: 39657543--39657781 Score: 259
Period size: 49 Copynumber: 4.8 Consensus size: 49
39657533 GTGAGGTCAC
* * *
39657543 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATAATTGGTTGCA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTT-CA
* * * * *
39657593 -TGTGTAGTACTAAGTGCAAGCTACTATGTGTACCTGATAACTTCGATCA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTGGTTCA
* **
39657642 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG-TCA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTTCA
* *
39657692 TGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGT-TCA
* * *
39657743 -TGTGTAGTACTAAGTGCATGCTACTATGCGTACCAGATA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
39657782 GCTTCGGTTA
Statistics
Matches: 158, Mismatches: 25, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
49 73 0.46
50 48 0.30
51 37 0.23
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (49 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTCA
Found at i:39657780 original size:99 final size:101
Alignment explanation
Indices: 39657539--39657780 Score: 278
Period size: 100 Copynumber: 2.4 Consensus size: 101
39657529 TATTGTGAGG
* * * * * **
39657539 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATAATT-GGT--TGCATGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATGGTTAGGTCATG--TGTGTAGT
* *
39657601 ACTAAGTGCAAGCTACTATGTGTACCTGATAACTTCGA
64 ACTAAGTGCAAGCTACTACGTGTACCGGATAACTTCGA
* * *
39657639 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATGGTTAGGTCATGTGTGTAGTAC
* *
39657704 TAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GG
66 TAAGTGCAAGCTACTACGTGTACCGGATAACTTCGA
* * *
39657738 TCGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACCAGAT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT
39657781 AGCTTCGGTT
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
99 38 0.30
100 45 0.36
101 40 0.32
103 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATGGTTAGGTCATGTGTGTAGTAC
TAAGTGCAAGCTACTACGTGTACCGGATAACTTCGA
Found at i:39663181 original size:43 final size:42
Alignment explanation
Indices: 39663041--39663185 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 42
39663031 ACCGAGATGA
* *
39663041 GATTACATATAAGA-CTATGTCTGGGACATTGGCATTGTATTGT
1 GATTACATGTAAGACCT-TGTCTGGGACATTGGCATCGTA-TGT
* * * *
39663084 GATTACATGTAAGATCATGTCTAGGACATTGGCATCGT-TAAT
1 GATTACATGTAAGACCTTGTCTGGGACATTGGCATCGTAT-GT
* * *
39663126 CAGTTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGT
1 GA-TTACATGTAAGACCTTGTCTGGGACATTGGCATCG-TATGT
*
39663170 GATAACATGTAAGACC
1 GATTACATGTAAGACC
39663186 AAATCTGGGA
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 74 0.90
44 4 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
GATTACATGTAAGACCTTGTCTGGGACATTGGCATCGTATGT
Found at i:39674298 original size:31 final size:31
Alignment explanation
Indices: 39674247--39674326 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
39674237 TCAAACATGT
* *
39674247 ACTGGGCCATAGCCCTTTTCATATTTCATAAC
1 ACTGGGCCAAAG-CCTTTTCAAATTTCATAAC
**
39674279 ACTGGGCCAAAGCCTTTTCAAATTTCATATT
1 ACTGGGCCAAAGCCTTTTCAAATTTCATAAC
*
39674310 ACTGGGCCGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
39674327 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 32 0.74
32 11 0.26
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCAAATTTCATAAC
Found at i:39674571 original size:24 final size:24
Alignment explanation
Indices: 39674520--39674637 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
39674510 GCTTTATCAT
*
39674520 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
39674545 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39674569 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39674592 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39674615 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39674638 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
23 46 0.52
24 30 0.34
25 12 0.14
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39674733 original size:20 final size:20
Alignment explanation
Indices: 39674687--39674727 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
39674677 TTATGAATAC
39674687 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
39674707 ATCATGTGCATATCATCCAT
1 ATCATGTGCATATCATACAT
39674727 A
1 A
39674728 CAATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:39674802 original size:25 final size:25
Alignment explanation
Indices: 39674770--39674817 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39674760 ATATATAAAC
* *
39674770 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
*
39674795 CCTAGGGGCAAAATGTTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
39674818 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:39676020 original size:27 final size:27
Alignment explanation
Indices: 39675980--39676052 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
39675970 TATTCATCAT
* *
39675980 TTTACCATACAGGGGTATTACGGTCAC
1 TTTACCCTATAGGGGTATTACGGTCAC
**
39676007 TTTACCCTATAGGGGCT-TTACGGTCTT
1 TTTACCCTATAGGGG-TATTACGGTCAC
39676034 TTTA-CCTATTAGGGGTATT
1 TTTACCCTA-TAGGGGTATT
39676053 TTAGTCATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 5 0.13
27 33 0.85
28 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
TTTACCCTATAGGGGTATTACGGTCAC
Found at i:39676123 original size:27 final size:27
Alignment explanation
Indices: 39676093--39676375 Score: 147
Period size: 27 Copynumber: 10.4 Consensus size: 27
39676083 GTAAATCTAC
*
39676093 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
39676120 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
39676148 AAAGTCAAGGGTATTT-TGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* ** *
39676175 AAATCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * * *
39676202 AAATTGAGGGTATTGCTGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
39676229 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
39676256 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
39676283 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** * *
39676310 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *** *
39676337 AAATCAAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
39676364 AAATCGAGGGTA
1 AAACCAAGGGTA
39676376 AAATGGTAAT
Statistics
Matches: 208, Mismatches: 43, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
26 12 0.06
27 175 0.84
28 11 0.05
29 10 0.05
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:39676237 original size:54 final size:54
Alignment explanation
Indices: 39676179--39676321 Score: 191
Period size: 54 Copynumber: 2.6 Consensus size: 54
39676169 CTTTGTAAAT
39676179 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTGCT-GTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATT-CTGGTAATTTCACAAAC
* * *
39676233 CAAGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTCTGGTAATTTCACAAAC
* ** *
39676287 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTA
39676322 AAACAGTAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
53 2 0.03
54 75 0.96
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTCTGGTAATTTCACAAAC
Found at i:39676320 original size:81 final size:79
Alignment explanation
Indices: 39676070--39676321 Score: 206
Period size: 81 Copynumber: 3.1 Consensus size: 79
39676060 TTTCATCCTA
** * * ** ** *
39676070 CAAGGGTGCTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
39676135 CTA-TAATTTTTAGAAAGT
65 -TAGTAATTTTT--AAA-T
* ***
39676153 CAAGGGTATTTT-GTAACTTTGTA-AATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTTTGGTAA-TTT-TACAAACAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
* ** *
39676216 GCT-GTAATTTCACAAAC
64 -TTAGTAATTT-TTAAAT
*
39676233 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
39676298 TAGTAATTTTGTAAAT
65 TAGTAATTTT-TAAAT
*
39676314 CGAGGGTA
1 CAAGGGTA
39676322 AAACAGTAAT
Statistics
Matches: 132, Mismatches: 27, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
79 2 0.02
80 19 0.14
81 56 0.42
82 40 0.30
83 13 0.10
84 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAAACAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTTAAAT
Found at i:39676358 original size:81 final size:81
Alignment explanation
Indices: 39676273--39676422 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
39676263 GGGTATTTTG
* *** * *
39676273 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTGT
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATGT
39676337 AAATCAAGGGTAAAACA
65 AAATCAAGGGTAAAACA
* * * *
39676354 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
39676419 AATC
66 AATC
39676423 GGGGTTAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 57 0.98
82 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
AATCAAGGGTAAAACA
Found at i:39676376 original size:27 final size:27
Alignment explanation
Indices: 39676299--39676483 Score: 212
Period size: 27 Copynumber: 6.9 Consensus size: 27
39676289 AGGGTATTTT
*
39676299 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAAC
* *
39676326 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAAC
* * *
39676353 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTATGTAAATCGAGGGTAAAAC
* *
39676380 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAAC
*
39676407 -GATAATTATGTAAATCG-GGGTTAAAAG
1 AG-TAATTATGTAAATCGAGGG-TAAAAC
* * *
39676434 GGTAATTATGTAAATCGGGGGTAAAAT
1 AGTAATTATGTAAATCGAGGGTAAAAC
* *
39676461 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTATGTAAATCGAGGGTA
39676484 CTTTGGTAAT
Statistics
Matches: 143, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
26 4 0.03
27 135 0.94
28 4 0.03
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
AGTAATTATGTAAATCGAGGGTAAAAC
Found at i:39676432 original size:81 final size:81
Alignment explanation
Indices: 39676300--39676483 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 81
39676290 GGGTATTTTA
* * *
39676300 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTATATA
39676365 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * ** *
39676381 GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATC-GGGGTTAAAAGGGTAATTATG
1 GTAATTATGTAAATCGAGGGTAAAACAG-TAATTATGTAAATCAAGGG-TAAAACAGTAATTATA
*
39676444 TAAATCGGGGGTAAAATG
64 TAAATCGAGGGTAAAATG
*
39676462 GTAATTATGTAAATCGGGGGTA
1 GTAATTATGTAAATCGAGGGTA
39676484 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
80 4 0.04
81 87 0.96
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (81 bp):
GTAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTATATA
AATCGAGGGTAAAATG
Found at i:39676510 original size:27 final size:27
Alignment explanation
Indices: 39676489--39676578 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
39676479 GGGTACTTTG
*
39676489 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
39676516 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
39676543 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
39676570 GTAATTTTA
1 GTAATTTTA
39676579 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:39676530 original size:54 final size:54
Alignment explanation
Indices: 39676472--39676578 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
39676462 GTAATTATGT
* * *
39676472 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAAG-GTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGCGTATTTCAGTAATTTTAC
* * *
39676526 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGCGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGCGTATTTCAGTAATTTTA
39676579 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGCGTATTTCAGTAATTTTAC
Found at i:39676592 original size:27 final size:27
Alignment explanation
Indices: 39676489--39676593 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
39676479 GGGTACTTTG
* *
39676489 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
39676516 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
39676543 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
39676570 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
39676594 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:39680902 original size:13 final size:13
Alignment explanation
Indices: 39680884--39680908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39680874 TATGATAAAT
39680884 CGACATGGCCGTA
1 CGACATGGCCGTA
39680897 CGACATGGCCGT
1 CGACATGGCCGT
39680909 GGGCGAACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
CGACATGGCCGTA
Found at i:39685111 original size:19 final size:19
Alignment explanation
Indices: 39685077--39685115 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
39685067 GATTTTGTAC
*
39685077 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
39685097 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
39685115 T
1 T
39685116 CTTTCGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:39691771 original size:28 final size:28
Alignment explanation
Indices: 39691711--39691780 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
39691701 AATGAGATTG
39691711 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
* *
39691739 TCACTAAGTGTGCGAGTTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
39691767 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39691781 GACTTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:39694040 original size:40 final size:39
Alignment explanation
Indices: 39693995--39694202 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
39693985 CGGAATACAA
*
39693995 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
39694035 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
39694075 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
39694115 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
39694155 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
*
39694195 CCAGATAT
1 CCGGATAT
39694203 CATTTAATTG
Statistics
Matches: 141, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 140 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:39694142 original size:80 final size:80
Alignment explanation
Indices: 39693995--39694201 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
39693985 CGGAATACAA
* * * *
39693995 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
39694060 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
39694075 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA--TAGAACGACTAGCACAAA
*
39694138 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
* * ** * * *
39694155 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCAGATA
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
39694202 TCATTTAATT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
80 103 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:39702081 original size:40 final size:38
Alignment explanation
Indices: 39702036--39702241 Score: 180
Period size: 40 Copynumber: 5.2 Consensus size: 38
39702026 CGGAATACAA
*
39702036 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCA-AAATGCCTTCGGGTCTTAGC
* * *
39702076 CCGGATAGAACGACTTGCAAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCAAAATGCCTTCGGGTCTTAGC
* * *
39702115 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCA-AAATGCCTTCGGGTCTTAGC
* ** * *
39702155 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCA-AAATGCCTTCGGGTCTTAGC
* * * *
39702195 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCA-AAATGCCTTCGGGTCTTAGC
39702235 CC-GATAT
1 CCGGATAT
39702242 CATTTAATTG
Statistics
Matches: 139, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 39 0.28
40 100 0.72
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (38 bp):
CCGGATATAACCACTGCAAAATGCCTTCGGGTCTTAGC
Found at i:39711494 original size:24 final size:25
Alignment explanation
Indices: 39711445--39711494 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
39711435 ACCTTTCTTA
*
39711445 TCTCTTCAATTCTCTCTCATTTTTC
1 TCTCTTCAATTCTCTCTCATTATTC
*
39711470 TCTCTTCATTTC-CT-TCCATTATTC
1 TCTCTTCAATTCTCTCT-CATTATTC
39711494 T
1 T
39711495 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 10 0.45
25 11 0.50
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (25 bp):
TCTCTTCAATTCTCTCTCATTATTC
Found at i:39718532 original size:18 final size:18
Alignment explanation
Indices: 39718502--39718537 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
39718492 AGGTGCCATT
39718502 TTCCATTTCTGAAACTAA
1 TTCCATTTCTGAAACTAA
39718520 TTCCAGTTT-TGAAACTAA
1 TTCCA-TTTCTGAAACTAA
39718538 GTATTCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (18 bp):
TTCCATTTCTGAAACTAA
Found at i:39721205 original size:68 final size:68
Alignment explanation
Indices: 39721058--39721213 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
39721048 AGCCGATTTG
* * * * *
39721058 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
39721123 TATC
65 TATA
* *
39721127 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
39721189 ATATAGTA
62 ATATA-TA
39721197 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
39721214 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:39728700 original size:68 final size:68
Alignment explanation
Indices: 39728553--39728708 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
39728543 AGCCGATTTG
* * * * *
39728553 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
39728618 TATC
65 TATA
* *
39728622 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
39728684 ATATAGTA
62 ATATA-TA
39728692 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
39728709 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:39734188 original size:39 final size:40
Alignment explanation
Indices: 39734074--39734228 Score: 190
Period size: 40 Copynumber: 3.9 Consensus size: 40
39734064 GAGTTATTGG
* * * * *
39734074 AGTATAAACAGGGGCACATATGTGCAATCAGGGGTACTGA
1 AGTACAAAAAGGGGCACGTATATGCAATCAGGGGTACCGA
*
39734114 AGTACAAATAA-GGGCAAGTATATGCAATCAGGGGTACCGA
1 AGTACAAA-AAGGGGCACGTATATGCAATCAGGGGTACCGA
*
39734154 AGTACAAAAAGGGGCACGTATATGCAATCA-GGGTACCAA
1 AGTACAAAAAGGGGCACGTATATGCAATCAGGGGTACCGA
* *
39734193 AGTATAAACAGGGGCACGTA-AGTGCAATCAGGGGTA
1 AGTACAAAAAGGGGCACGTATA-TGCAATCAGGGGTA
39734229 TCAAAGTTGT
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 36 0.36
40 63 0.62
41 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.17
Consensus pattern (40 bp):
AGTACAAAAAGGGGCACGTATATGCAATCAGGGGTACCGA
Found at i:39734224 original size:20 final size:20
Alignment explanation
Indices: 39734082--39734226 Score: 59
Period size: 20 Copynumber: 7.3 Consensus size: 20
39734072 GGAGTATAAA
* *
39734082 CAGGGGCACATATGTGCAAT
1 CAGGGGCACGTAAGTGCAAT
* *
39734102 CAGGGGTAC-TGAAGTACAAAT
1 CAGGGGCACGT-AAGTGC-AAT
* *
39734123 -AAGGGCAAGTATA-TGCAAT
1 CAGGGGCACGTA-AGTGCAAT
* * *
39734142 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTAAGTGCAAT
*
39734162 AAGGGGCACGTATA-TGCAAT
1 CAGGGGCACGTA-AGTGCAAT
* ** ** *
39734182 CA-GGGTACCAAAGTATAAA
1 CAGGGGCACGTAAGTGCAAT
39734201 CAGGGGCACGTAAGTGCAAT
1 CAGGGGCACGTAAGTGCAAT
39734221 CAGGGG
1 CAGGGG
39734227 TATCAAAGTT
Statistics
Matches: 85, Mismatches: 29, Indels: 22
0.62 0.21 0.16
Matches are distributed among these distances:
18 1 0.01
19 18 0.21
20 59 0.69
21 7 0.08
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.17
Consensus pattern (20 bp):
CAGGGGCACGTAAGTGCAAT
Found at i:39735414 original size:15 final size:16
Alignment explanation
Indices: 39735385--39735415 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39735375 CAAACATGCT
39735385 TTAACACATTATCAAA
1 TTAACACATTATCAAA
39735401 TTAACACA-TATCAAA
1 TTAACACATTATCAAA
39735416 AAGGCACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:39737286 original size:40 final size:39
Alignment explanation
Indices: 39737242--39737460 Score: 199
Period size: 40 Copynumber: 5.5 Consensus size: 39
39737232 GCTCGATTGT
* * *
39737242 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
*
39737282 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
39737322 CTTCGGGACTTAACCTGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
39737362 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
39737402 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
39737443 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
39737461 ACACCATTCG
Statistics
Matches: 150, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 2 0.01
40 122 0.81
41 24 0.16
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:39737354 original size:80 final size:81
Alignment explanation
Indices: 39737269--39737461 Score: 244
Period size: 80 Copynumber: 2.4 Consensus size: 81
39737259 GTTATAGTGA
* * * * *
39737269 TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATGCCTTCGGGAATTA
* * *
39737334 ACCTGGTTTTGGTAAC
66 ACCCGGATTTAGTAAC
* * * *
39737350 -TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGAATTG
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATGCCTTCGGGAATTA
*
39737414 ACCCGGATTTAGTCAC
66 ACCCGGATTTAGTAAC
* *
39737430 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGA
39737462 CACCATTCGG
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 67 0.71
81 27 0.29
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATGCCTTCGGGAATTA
ACCCGGATTTAGTAAC
Found at i:39744555 original size:40 final size:40
Alignment explanation
Indices: 39744506--39744728 Score: 136
Period size: 40 Copynumber: 5.5 Consensus size: 40
39744496 GACTTGCTCG
* * *
39744506 ATTGTCTTCGGGACATAGCCCGATTATAGTGATTCGCAC-A
1 ATTGCCTTCGGGACATAGCCCGATT-TAGTAACTCGCACGA
39744546 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGA
1 ATTGCCTTCGGGACA-TAGCCC-GATTTAGTAACTCGCACGA
* * * * *
39744587 A-TGCCTTCGAGACTTAACCCGATTTTGGTAACCCGCAC-A
1 ATTGCCTTCGGGACATAGCCCGA-TTTAGTAACTCGCACGA
* * * * * *
39744626 AATGCCTTTGGGACTTAACCCAGTTTTGGTAACTCGCAC-A
1 ATTGCCTTCGGGACATAGCCC-GATTTAGTAACTCGCACGA
* * * *
39744666 AATGCCTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCAC-A
1 ATTGCCTTCGGGACATAG-CCC-GATTTAGTAAC-TCGCACGA
** *
39744707 AAAGCCTTCGGGACTTAGCCCG
1 ATTGCCTTCGGGACATAGCCCG
39744729 GACACCATTC
Statistics
Matches: 149, Mismatches: 24, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
39 6 0.04
40 113 0.76
41 28 0.19
42 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAGCCCGATTTAGTAACTCGCACGA
Found at i:39744687 original size:80 final size:81
Alignment explanation
Indices: 39744540--39744692 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 81
39744530 TATAGTGATT
* * * * *
39744540 CGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGAGACTTAAC
1 CGCACAAATGCCTTCGGGAATTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGAGAATTAAC
39744605 CC-GATTTTGGTAACC
66 CCGGATTTTGGTAACC
* * * * * *
39744620 CGCACAAATGCCTTTGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGAC
1 CGCACAAATGCCTTCGGGAATTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGAGAATTAAC
39744685 CCGGATTT
66 CCGGATTT
39744693 AGTCACTTAG
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 56 0.92
81 5 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (81 bp):
CGCACAAATGCCTTCGGGAATTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGAGAATTAAC
CCGGATTTTGGTAACC
Found at i:39747776 original size:27 final size:26
Alignment explanation
Indices: 39747727--39747785 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
39747717 GCTGCCAGAA
*
39747727 ACAGTAAATGTGGCAAAGCCACCAGT
1 ACAGTAAATGTGACAAAGCCACCAGT
* * *
39747753 ATCAGTGAATGTGACATAGTCACCAGT
1 A-CAGTAAATGTGACAAAGCCACCAGT
39747780 ACAGTA
1 ACAGTA
39747786 CTTCCTCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
ACAGTAAATGTGACAAAGCCACCAGT
Found at i:39747942 original size:27 final size:27
Alignment explanation
Indices: 39747911--39748144 Score: 217
Period size: 27 Copynumber: 8.7 Consensus size: 27
39747901 CGAAACATAA
* * * *
39747911 GGGCATAATCGTCATTTTAGCATACAT
1 GGGCATTATCGTCATTTTACCCTACAG
*
39747938 GGGCATTA-CTGTCATTTTACCCTATAG
1 GGGCATTATC-GTCATTTTACCCTACAG
* * * *
39747965 GGGTATTATGGTCATTTTATCTTACAG
1 GGGCATTATCGTCATTTTACCCTACAG
* *
39747992 GGGCATTATGGTCATTTTACCCTACAA
1 GGGCATTATCGTCATTTTACCCTACAG
* *
39748019 GGGCATTA-CAATTATTTTACCCTACAG
1 GGGCATTATC-GTCATTTTACCCTACAG
* *
39748046 GGGTATTATGGTCATTTTACCCTACAG
1 GGGCATTATCGTCATTTTACCCTACAG
* * *
39748073 GGGTATTA-CGACCATTTTACCCTATAG
1 GGGCATTATCG-TCATTTTACCCTACAG
*
39748100 AGGCATTA-CGGTCATTTTACCCTACAG
1 GGGCATTATC-GTCATTTTACCCTACAG
39748127 GGGCATTA-CGGTCATTTT
1 GGGCATTATC-GTCATTTT
39748145 GCCTATTTTG
Statistics
Matches: 171, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 168 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGCATTATCGTCATTTTACCCTACAG
Found at i:39747996 original size:54 final size:54
Alignment explanation
Indices: 39747921--39748144 Score: 261
Period size: 54 Copynumber: 4.1 Consensus size: 54
39747911 GGGCATAATC
* * * * * *
39747921 GTCATTTTAGCATACATGGGCATTACT-GTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTA-TGGTCATTTTACCCTACAGGGGCATTACG
* * * *
39747975 GTCATTTTATCTTACAGGGGCATTATGGTCATTTTACCCTACAAGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACG
* * * *
39748029 ATTATTTTACCCTACAGGGGTATTATGGTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACG
** * * *
39748083 ACCATTTTACCCTATAGAGGCATTACGGTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACG
39748137 GTCATTTT
1 GTCATTTT
39748145 GCCTATTTTG
Statistics
Matches: 144, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 1 0.01
54 143 0.99
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACG
Found at i:39748048 original size:81 final size:81
Alignment explanation
Indices: 39747911--39748144 Score: 281
Period size: 81 Copynumber: 2.9 Consensus size: 81
39747901 CGAAACATAA
* * * * * * *
39747911 GGGCATAATCGTCATTTTAGCATACATGGGCATTACTGTCATTTTACCCTATAGGGGTATTATGG
1 GGGCATTATGGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGTATTATGG
* *
39747976 TCATTTTATCTTACAG
66 TCATTTTACCCTACAG
* *
39747992 GGGCATTATGGTCATTTTACCCTACAAGGGCATTACAATTATTTTACCCTACAGGGGTATTATGG
1 GGGCATTATGGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGTATTATGG
39748057 TCATTTTACCCTACAG
66 TCATTTTACCCTACAG
* * ** * * * *
39748073 GGGTATTACGACCATTTTACCCTA-TAGAGGCATTACGGTCATTTTACCCTACAGGGGCATTACG
1 GGGCATTATGGTCATTTTACCCTACAAG-GGCATTACAGTCATTTTACCCTACAGGGGTATTATG
39748137 GTCATTTT
65 GTCATTTT
39748145 GCCTATTTTG
Statistics
Matches: 131, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 2 0.02
81 129 0.98
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (81 bp):
GGGCATTATGGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGTATTATGG
TCATTTTACCCTACAG
Found at i:39752062 original size:29 final size:29
Alignment explanation
Indices: 39752008--39752063 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
39751998 GAACCAGCAC
*
39752008 AACAATAACGCAGCAAAGCTGGCAGTAAT
1 AACAATAACGCAGCAAAGCTGCCAGTAAT
* * *
39752037 AACAATGACGCAGCATAGCTTCCAGTA
1 AACAATAACGCAGCAAAGCTGCCAGTA
39752064 CAGTAAGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (29 bp):
AACAATAACGCAGCAAAGCTGCCAGTAAT
Found at i:39759871 original size:40 final size:39
Alignment explanation
Indices: 39759821--39759931 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
39759811 ATAACCACGT
*
39759821 GCACAAATGCCTTCGGGTCTTAGCCCAGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCAGATAGAA-GCACTA
* *
39759861 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCAGATAGAAG-CACTA
*
39759901 GCACAATTGCCTTCGGGTCTTAACCCAGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCAGATA
39759932 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCAGATAGAAGCACTA
Found at i:39759955 original size:80 final size:80
Alignment explanation
Indices: 39759821--39759970 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
39759811 ATAACCACGT
* * *
39759821 GCACAAATGCCTTCGGGTCTTAGCCCAGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
39759886 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
39759901 GCACAATTGCCTTCGGGTCTTAACCCAGATATAATTTC-CAGCATTAACGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGACTC-GCACGAACGCCTTCGGGGCTTAGC
39759965 CCGGAT
65 CCGGAT
39759971 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:39767084 original size:28 final size:28
Alignment explanation
Indices: 39766986--39767084 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
39766976 ATTGGTTTCG
* * * *
39766986 GCACTAAGTGTGCGGGTTCAAATGGTATA
1 GCACTAAGTGTGCGAGTTCGACT-ATATA
* * * *
39767015 GGACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGACTATATA
39767043 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGACTATAT-A
39767071 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39767085 GGCTTATTAC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.69
29 17 0.29
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGACTATATA
Found at i:39774696 original size:28 final size:28
Alignment explanation
Indices: 39774629--39774696 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
39774619 TTGGTATGGG
* * *
39774629 ACTAAGTGTGCAAGTTTGATTATATAGC
1 ACTAAGTGTGCGAGTTCGACTATATAGC
39774657 ACTAAGTGTGCGAGTTCGACTAT-TAAGC
1 ACTAAGTGTGCGAGTTCGACTATAT-AGC
39774685 ACTAAGTGTGCG
1 ACTAAGTGTGCG
39774697 GGCTTTTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTCGACTATATAGC
Found at i:39779319 original size:42 final size:41
Alignment explanation
Indices: 39779245--39779375 Score: 198
Period size: 42 Copynumber: 3.2 Consensus size: 41
39779235 TGATATGGAA
39779245 CCGAAGGCAT-TGTGCG-AGTTGATATATCCGGGCTAAGTC
1 CCGAAGGCATCTGTGCGTAGTTGATATATCCGGGCTAAGTC
39779284 CCGAAGGCATTCTGTGCGTAGTT-ACTATATCCGGGCTAAGATC
1 CCGAAGGCA-TCTGTGCGTAGTTGA-TATATCCGGGCTAAG-TC
39779327 CCGAAGGCATC-GTGCGTAGTTGATACTATCCGGGCTAAGTC
1 CCGAAGGCATCTGTGCGTAGTTGATA-TATCCGGGCTAAGTC
39779368 CCGAAGGC
1 CCGAAGGC
39779376 TGTCAAGTCC
Statistics
Matches: 85, Mismatches: 0, Indels: 12
0.88 0.00 0.12
Matches are distributed among these distances:
39 9 0.11
40 1 0.01
41 29 0.34
42 35 0.41
43 11 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (41 bp):
CCGAAGGCATCTGTGCGTAGTTGATATATCCGGGCTAAGTC
Found at i:39782483 original size:40 final size:40
Alignment explanation
Indices: 39782375--39782504 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
39782365 CGGGATTTAA
* * * *
39782375 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
39782415 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCGACTCGCACGAATGCCTTCGGGTCTTAGC
*
39782455 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
39782495 CCGGATATAT
1 CCGGATATAT
39782505 TCGCAATGTT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:39790538 original size:40 final size:40
Alignment explanation
Indices: 39790430--39790559 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
39790420 CGGGATTTAA
* * * *
39790430 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
39790470 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCGACTCGCACGAATGCCTTCGGGTCTTAGC
*
39790510 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
39790550 CCGGATATAT
1 CCGGATATAT
39790560 TTCCAATGTT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:39798735 original size:22 final size:22
Alignment explanation
Indices: 39798700--39798742 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39798690 CTCACATTTT
39798700 ACATTTATTCACACTTTACAAC
1 ACATTTATTCACACTTTACAAC
39798722 ACATTT-TTCAACACTTTACAA
1 ACATTTATTC-ACACTTTACAA
39798743 ATAAGTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (22 bp):
ACATTTATTCACACTTTACAAC
Found at i:39803351 original size:30 final size:30
Alignment explanation
Indices: 39803268--39803352 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
39803258 GTAACCTTGT
* * * * *
39803268 TATAATTTCATCTTGTGTGAGTAACCTTGA
1 TATAATGTCAGCTTGTGTGAGCAACCCTAA
* *
39803298 TATAATGTCAGCTTCTGTAAGCAACCCTAA
1 TATAATGTCAGCTTGTGTGAGCAACCCTAA
*
39803328 TATAATGT-TGACTTGTGTGAGCAAC
1 TATAATGTCAG-CTTGTGTGAGCAAC
39803353 TTAGTCACCC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
29 1 0.02
30 43 0.98
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (30 bp):
TATAATGTCAGCTTGTGTGAGCAACCCTAA
Found at i:39806275 original size:22 final size:22
Alignment explanation
Indices: 39806221--39806275 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
39806211 AATTTAAAAC
* * *
39806221 AATATTTTATATATGAAATAAT
1 AATATTTTATAAATAAAAGAAT
* **
39806243 AATGTACTATAAATAAAAGAAT
1 AATATTTTATAAATAAAAGAAT
39806265 AATATTTTATA
1 AATATTTTATA
39806276 TATTTATTAT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (22 bp):
AATATTTTATAAATAAAAGAAT
Found at i:39815215 original size:20 final size:21
Alignment explanation
Indices: 39815172--39815217 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
39815162 ACTGTTTTGT
39815172 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
39815192 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
39815211 TATGGGC
1 TATGGGC
39815218 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:39816560 original size:8 final size:8
Alignment explanation
Indices: 39816526--39816585 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
39816516 CAATGATGTG
*
39816526 AATAATAA
1 AATATTAA
39816534 AATATATAA
1 AATAT-TAA
39816543 AATA-TAA
1 AATATTAA
39816550 AATATTAA
1 AATATTAA
*
39816558 AATATCAA
1 AATATTAA
*
39816566 AATATCAA
1 AATATTAA
*
39816574 AATATTAG
1 AATATTAA
39816582 AATA
1 AATA
39816586 ATAATAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 32 0.70
9 7 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:39816863 original size:22 final size:24
Alignment explanation
Indices: 39816825--39816878 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
39816815 GAAAAAAAAA
* *
39816825 ATATAAATAATATAATATTAAAGAT
1 ATATAAATAAAATAGTA-TAAAGAT
*
39816850 ATATAAATAAAATAGTATAAATAT
1 ATATAAATAAAATAGTATAAAGAT
39816874 ATATA
1 ATATA
39816879 TACGTAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATAAATAAAATAGTATAAAGAT
Found at i:39817479 original size:30 final size:30
Alignment explanation
Indices: 39817443--39817557 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
39817433 TAGGTACAAG
* * *
39817443 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
39817473 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
39817503 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
39817533 TGGTGGTGGAAAAAGAGTGGCTAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGT
39817558 TGAGAAAAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:39817536 original size:60 final size:60
Alignment explanation
Indices: 39817443--39817557 Score: 221
Period size: 60 Copynumber: 1.9 Consensus size: 60
39817433 TAGGTACAAG
*
39817443 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
39817503 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
39817558 TGAGAAAAGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:39818359 original size:14 final size:14
Alignment explanation
Indices: 39818342--39818370 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39818332 GATTTTGACG
39818342 AACAGAAATTGAAA
1 AACAGAAATTGAAA
39818356 AACAGAAATTGAAA
1 AACAGAAATTGAAA
39818370 A
1 A
39818371 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:39818393 original size:88 final size:89
Alignment explanation
Indices: 39818126--39818444 Score: 358
Period size: 89 Copynumber: 3.6 Consensus size: 89
39818116 GTGATCCTGA
** * * * *
39818126 GCTCAACTCATTTCTCGCAATATGAATTGACTTTT-AAAAACTAGACATT-AAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAC-AGAAATTGAAAAACAGAAATTG
* * **
39818189 AAAAATAGCTCAGCACGTGAGCAAAG
65 -AAAATACCTCAGCATGTGAGCCGAG
* * ** **
39818215 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAATTTGCCAAACAGATTTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAATTGAAAAACAGAAATTG
** *
39818279 AAAATACCTTGGCATGTGACCCGAG
65 AAAATACCTCAGCATGTGAGCCGAG
* *
39818304 GCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAACAGAAATTGA
* *
39818368 AAAGACCTCAGCATGTAAGCCGAG
66 AAATACCTCAGCATGTGAGCCGAG
* *
39818392 GCTCAACTCACCTCTCGCGATATGAGTTGATCTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
39818445 TTACTTCAGC
Statistics
Matches: 192, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
87 6 0.03
88 68 0.35
89 99 0.52
90 18 0.09
91 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (89 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAACAGAAATTGA
AAATACCTCAGCATGTGAGCCGAG
Found at i:39818529 original size:13 final size:14
Alignment explanation
Indices: 39818500--39818533 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
39818490 GTTGATTTTT
39818500 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
39818514 TTGAAAAGCA-AAA
1 TTGAAAAGCAGAAA
39818527 TTGAAAA
1 TTGAAAA
39818534 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:39818585 original size:88 final size:89
Alignment explanation
Indices: 39818425--39818770 Score: 473
Period size: 88 Copynumber: 3.8 Consensus size: 89
39818415 GAGTTGATCT
* * *
39818425 TTGACAAACAGAAATTGAAATTACTTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
39818490 GTTGATTTTTTTGAAAAGCAGAAA
66 GTTGATTTTTTTGAAAAGCAGAAA
* *
39818514 TTGAAAAGCA-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCATCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
39818578 GCTGATTTTTTTGAAAAACATAAA
66 GTTGATTTTTTTGAAAAGCAGAAA
* * *
39818602 TTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTG-A-AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
39818667 GAGTTGATTTTTTTTG-AAAGACAGAAA
64 GAGTTGA-TTTTTTTGAAAAG-CAGAAA
* * * *
39818694 TTGAAAAACAGAAATTGAAAAGACCTCAACATGTGAGCC-GAGGCTCAACTCACCTCTCGCTATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATA
39818758 TGAGTTGATTTTT
63 TGAGTTGATTTTT
39818771 GACAAACAAA
Statistics
Matches: 227, Mismatches: 22, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
88 75 0.33
89 9 0.04
90 28 0.12
91 63 0.28
92 50 0.22
93 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (89 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAAGCAGAAA
Found at i:39818613 original size:16 final size:16
Alignment explanation
Indices: 39818592--39818622 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39818582 ATTTTTTTGA
*
39818592 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
39818608 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
39818623 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:39818699 original size:14 final size:14
Alignment explanation
Indices: 39818680--39818714 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
39818670 TTGATTTTTT
*
39818680 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
39818694 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
39818708 TTGAAAA
1 TTGAAAA
39818715 GACCTCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:39818748 original size:344 final size:337
Alignment explanation
Indices: 39818121--39819175 Score: 1207
Period size: 344 Copynumber: 3.2 Consensus size: 337
39818111 GGTGTGTGAT
** * * * * *
39818121 CCTGA-GCTCAACTCATTTCTCGCAATATGAATTGA--CTTTT-AAAAACTAGACATTAAAAACA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGC-AGAAATTGAAAACA
* * ** ** *
39818182 GAAATTGAAAAATAGCTCAGCACGTGAGCAAAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
65 GAAATCG-AAAATACCTCAG--CGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * ** * ** *
39818247 TTTTGAAAACAGAATTTGCCAAACAGATTTTGAAAATACCTTGGCATGTGACCCGAGGCTCAACT
127 TTTTGAAAACATAA-TTGACAAACAGAAATTGAAATTACCTCAGCATGT--CCTGAGGCTCAACT
*
39818312 CACCTCTCGTAATATGAGTTGA---TTTTG-ACGAACAGAAATTGAAAAACAGAAATTGAAAAGA
189 CACCTCTCGTAATATGAGTTGATTTTTTTGAAAG-ACAGAAATTGAAAAACAGAAATTGAAAAGA
* *
39818373 CCTCAGCATGTAAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATCTTTGACAAACAGAA
253 CCTCAGCATGT-AGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAA
*
39818438 ATTGAAATTACTTCAGCGTGC
317 ATTGAAATTACCTCAGCGTGC
39818459 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGCA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAA-CA
* * *
39818524 -AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCATCTCACCTCTCGCAATATGAGCTGATTTTT
65 GAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*
39818588 TTGAAAAACATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTC
129 TTG-AAAACAT-AATTG-A-CAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTC
*
39818653 ACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAAGAC
190 ACCTCTCGTAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAAGAC
* * *
39818718 CTCAACATGTGAGCCGAGGCTCAACTCACCTCTCGCTATATGAGTTGATTTTTGACAAACAAAAA
254 CTCAGCATGT-AGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
* *
39818783 CTGAAATTACCTCAGCGTGT
318 TTGAAATTACCTCAGCGTGC
* *
39818803 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAATAG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAACAG
* * *
39818868 AAATCGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCACAATATGAGTTGA-TTTTT
66 AAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
39818932 -------T--TTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
131 GAAAACATAATTGACAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
39818988 CGTAATATGAGTTGATTTTTTTGAAA-AGCAGAAATT--------GAAATT------ACCTCAGC
196 CGTAATATGAGTTGATTTTTTTGAAAGA-CAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGC
39819038 ATGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA-AAAGCAGAAATT
260 ATGTAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGACAAA-CAGAAATT
*
39819100 GAAAATACCTCAGCGTGC
320 GAAATTACCTCAGCGTGC
* * *
39819118 CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTGAAAAACATAAATTGAA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAA
39819176 GAAAATAGAA
Statistics
Matches: 639, Mismatches: 56, Indels: 69
0.84 0.07 0.09
Matches are distributed among these distances:
311 2 0.00
312 32 0.05
313 19 0.03
314 14 0.02
315 64 0.10
320 6 0.01
327 1 0.00
328 19 0.03
329 62 0.10
330 1 0.00
331 3 0.00
334 1 0.00
338 39 0.06
339 34 0.05
340 54 0.08
341 22 0.03
342 36 0.06
343 1 0.00
344 227 0.36
345 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (337 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAACAG
AAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACATAATTGACAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
CGTAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCA
TGTAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATT
ACCTCAGCGTGC
Done.