Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 45 of 125
Found at i:13939571 original size:18 final size:18
Alignment explanation
Indices: 13939548--13939594 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
13939538 CCATTCTGGG
* * *
13939548 GAGTTCACCAATCTTTGT
1 GAGTTCGCCAATCATTGA
13939566 GAGTTCGCCAATCATTGA
1 GAGTTCGCCAATCATTGA
13939584 GAGTTCGCCAA
1 GAGTTCGCCAA
13939595 ACTTGAAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (18 bp):
GAGTTCGCCAATCATTGA
Found at i:13939608 original size:18 final size:18
Alignment explanation
Indices: 13939566--13939600 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13939556 CAATCTTTGT
*
13939566 GAGTTCGCCAATCATTGA
1 GAGTTCGCCAAACATTGA
13939584 GAGTTCGCCAAAC-TTGA
1 GAGTTCGCCAAACATTGA
13939601 AGGGTTCGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (18 bp):
GAGTTCGCCAAACATTGA
Found at i:13941362 original size:17 final size:18
Alignment explanation
Indices: 13941342--13941380 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
13941332 CTACTTCTTG
13941342 TTTAGATTAATT-AGAGT
1 TTTAGATTAATTAAGAGT
*
13941359 TTTAGTTTAATTAAGAGT
1 TTTAGATTAATTAAGAGT
13941377 TTTA
1 TTTA
13941381 TTTAGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (18 bp):
TTTAGATTAATTAAGAGT
Found at i:13946315 original size:25 final size:25
Alignment explanation
Indices: 13946282--13946346 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
13946272 ATACTGGTTA
*
13946282 AACTCTATCTGGGCTCGTAAAAGCT
1 AACTTTATCTGGGCTCGTAAAAGCT
* * * *
13946307 AACTTTATCTAGGCCCGTGAGAGCT
1 AACTTTATCTGGGCTCGTAAAAGCT
* *
13946332 AACCTTATTTGGGCT
1 AACTTTATCTGGGCT
13946347 TGTATGAGCT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (25 bp):
AACTTTATCTGGGCTCGTAAAAGCT
Found at i:13953625 original size:25 final size:25
Alignment explanation
Indices: 13953597--13953664 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
13953587 AAACTCTGTT
* *
13953597 TGGGCTCGTAAGAGCTAACTTTATC
1 TGGGCTCGTAAGAGCTAACCTAATC
* *
13953622 TGGGCTCGTAAGAGTTAGCCTAATC
1 TGGGCTCGTAAGAGCTAACCTAATC
* *
13953647 TGGGCTTGTATGAGCTAA
1 TGGGCTCGTAAGAGCTAA
13953665 ATTCTGGAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (25 bp):
TGGGCTCGTAAGAGCTAACCTAATC
Found at i:13955432 original size:20 final size:20
Alignment explanation
Indices: 13955396--13955433 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13955386 TCATTAATCT
*
13955396 TTAATTAACCTTTTTTATCC
1 TTAATTAACCTTATTTATCC
13955416 TTAATTAAACC-TATTTAT
1 TTAATT-AACCTTATTTAT
13955434 ATTTAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTAACCTTATTTATCC
Found at i:13973039 original size:19 final size:19
Alignment explanation
Indices: 13973017--13973081 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
13973007 TAATGCTCTC
13973017 ACGAGCCAGTATTGCTCAA
1 ACGAGCCAGTATTGCTCAA
* * **
13973036 ACGAGCCAGAATTACTCTT
1 ACGAGCCAGTATTGCTCAA
** *
13973055 ACGAGATATTA-TGCTCAA
1 ACGAGCCAGTATTGCTCAA
13973073 ACGAGCCAG
1 ACGAGCCAG
13973082 CATGCTTTTC
Statistics
Matches: 32, Mismatches: 14, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
18 10 0.31
19 22 0.69
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (19 bp):
ACGAGCCAGTATTGCTCAA
Found at i:13979401 original size:20 final size:21
Alignment explanation
Indices: 13979376--13979417 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
13979366 TATGTTTAGA
* *
13979376 ACTATCGATACATCAT-ATTT
1 ACTATCGAAACAACATAATTT
13979396 ACTATCGAAACAACATAATTT
1 ACTATCGAAACAACATAATTT
13979417 A
1 A
13979418 AAAAGTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
ACTATCGAAACAACATAATTT
Found at i:13983363 original size:21 final size:21
Alignment explanation
Indices: 13983339--13983392 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
13983329 TTTGTGATAG
13983339 TTCTACCGATACAAGTGTA-AC
1 TTCTACCGATACAAGT-TATAC
* *
13983360 TTCTACCGAAACAAGTTATGC
1 TTCTACCGATACAAGTTATAC
13983381 TTCTACCGATAC
1 TTCTACCGATAC
13983393 TAAAAACTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTTATAC
Found at i:13984897 original size:20 final size:20
Alignment explanation
Indices: 13984857--13984899 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13984847 ACTTTCATAA
*
13984857 TTAGTTTAATTAATCATTAT
1 TTAGTTTAATTAATCACTAT
13984877 TTAGCTTTAATTAATC-CTAT
1 TTAG-TTTAATTAATCACTAT
13984897 TTA
1 TTA
13984900 TTTCCCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAGTTTAATTAATCACTAT
Found at i:13986110 original size:16 final size:15
Alignment explanation
Indices: 13986089--13986127 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
13986079 GATCATAATA
13986089 TAAATTTACAAAAAAT
1 TAAATTTA-AAAAAAT
13986105 TAAA-TTAAAAAAAT
1 TAAATTTAAAAAAAT
13986119 TAAACTTTA
1 TAAA-TTTA
13986128 GGGAAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.52
15 3 0.14
16 7 0.33
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATTTAAAAAAAT
Found at i:13986574 original size:13 final size:13
Alignment explanation
Indices: 13986556--13986580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13986546 ATCAGTCTTG
13986556 TTTTCGCAACATA
1 TTTTCGCAACATA
13986569 TTTTCGCAACAT
1 TTTTCGCAACAT
13986581 TGATATGTTT
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:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTTCGCAACATA
Found at i:13987283 original size:19 final size:19
Alignment explanation
Indices: 13987253--13987305 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
13987243 TTAAATATAA
*
13987253 ATTTTAGAATTTTTATAACT
1 ATTTT-GAATTTTTAAAACT
* *
13987273 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAACT
13987292 ATTTTGTAATTTTT
1 ATTTTG-AATTTTT
13987306 TTAAGAGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAACT
Found at i:13989450 original size:158 final size:158
Alignment explanation
Indices: 13989157--13989635 Score: 638
Period size: 158 Copynumber: 3.0 Consensus size: 158
13989147 ATTTCGGGAT
* * *
13989157 TTACAGGTTATATGGGTGCT-AGTCTTAGATGTCCTACTGACGGCTGAGATCCGGCATTTGTTAC
1 TTACAGGTTATATGGGTGCTGA-TCTTAGATGTCCTACTGATGGCTGAGATCTGGCATTTGTTGC
* * * **
13989221 AGATTCTCTACAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCAACCCACAGCTTGTGTGA
65 GGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCATGTGA
*
13989286 GGAGGCCCATTTCACAGCTCATGTGAGCA
130 GTAGGCCCATTTCACAGCTCATGTGAGCA
* * *
13989315 TTACAGGTAATATGGGTGCTGATCTTAGATGTCCTACCGATGGTTGAGATCTGGCATTTGTTGCG
1 TTACAGGTTATATGGGTGCTGATCTTAGATGTCCTACTGATGGCTGAGATCTGGCATTTGTTGCG
* * * * *
13989380 GATTCTCCACAGCTCATATGAGCAGCACCGTGTAGCCTAACATCTCGACCCACAGCACATGTGAT
66 GATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCATGTGAG
* *
13989445 TAGGCCCATTTCATAGCTCGTGTGAGCA
131 TAGGCCCATTTCACAGCTCATGTGAGCA
* * * * *
13989473 TTATAGGTTATATGGGTGCTGGTCTTAGATGTCCTACTAATGGCTGAGATCTGACATTTGTAGCG
1 TTACAGGTTATATGGGTGCTGATCTTAGATGTCCTACTGATGGCTGAGATCTGGCATTTGTTGCG
* * * * * *
13989538 GATTTTCCACAGCTCGTGTGAACAGCATCGTGTAGCGTTACATATAGACCCACAGCTCATGTGAG
66 GATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCATGTGAG
* *
13989603 TAGACTCATTTCACAGCT-AGTGTGAGCA
131 TAGGCCCATTTCACAGCTCA-TGTGAGCA
13989631 TTACA
1 TTACA
13989636 TGATACAGAG
Statistics
Matches: 276, Mismatches: 43, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
158 275 1.00
159 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (158 bp):
TTACAGGTTATATGGGTGCTGATCTTAGATGTCCTACTGATGGCTGAGATCTGGCATTTGTTGCG
GATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCATGTGAG
TAGGCCCATTTCACAGCTCATGTGAGCA
Found at i:14004308 original size:16 final size:17
Alignment explanation
Indices: 14004287--14004320 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14004277 AGACCTAAAT
*
14004287 AAATAAATA-CAAAAAA
1 AAATAAAAACCAAAAAA
14004303 AAATAAAAACCAAAAAA
1 AAATAAAAACCAAAAAA
14004320 A
1 A
14004321 CCAAGTCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (17 bp):
AAATAAAAACCAAAAAA
Found at i:14004577 original size:15 final size:15
Alignment explanation
Indices: 14004557--14004604 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
14004547 TTAGATCTGC
14004557 AAGACAAAAGAAAAA
1 AAGACAAAAGAAAAA
* *
14004572 AAGACAAAAGCAACA
1 AAGACAAAAGAAAAA
*
14004587 AA-ACAACTAGAAAAA
1 AAGACAA-AAGAAAAA
14004602 AAG
1 AAG
14004605 TGTATGCATC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.73, C:0.12, G:0.12, T:0.02
Consensus pattern (15 bp):
AAGACAAAAGAAAAA
Found at i:14005614 original size:18 final size:18
Alignment explanation
Indices: 14005587--14005621 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14005577 TTTTTCTGTT
14005587 TTTTAATTTTACTTTAAA
1 TTTTAATTTTACTTTAAA
* *
14005605 TTTTATTTTTATTTTAA
1 TTTTAATTTTACTTTAA
14005622 TTTAACCCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTAATTTTACTTTAAA
Found at i:14005699 original size:22 final size:21
Alignment explanation
Indices: 14005668--14005712 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
14005658 CCCTTATATT
14005668 CTTTTTTTTTAAAATTAAATC
1 CTTTTTTTTTAAAATTAAATC
**
14005689 CTTTTTATTTTTTAATTAAATC
1 CTTTTT-TTTTAAAATTAAATC
14005711 CT
1 CT
14005713 ATTATTCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (21 bp):
CTTTTTTTTTAAAATTAAATC
Found at i:14009620 original size:21 final size:21
Alignment explanation
Indices: 14009595--14009653 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
14009585 TCCACACACT
* *
14009595 CAGATGCATCCATAACAAAGC
1 CAGATGCAACCATAACAAAAC
* *
14009616 CAGATGCAACCATACCAAAAT
1 CAGATGCAACCATAACAAAAC
* *
14009637 CAGATGCAGCCACAACA
1 CAGATGCAACCATAACA
14009654 CTCTTTAATG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.44, C:0.31, G:0.14, T:0.12
Consensus pattern (21 bp):
CAGATGCAACCATAACAAAAC
Found at i:14018831 original size:21 final size:20
Alignment explanation
Indices: 14018805--14018867 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
14018795 TTCCCAATAG
14018805 AAATATATAA-AAATATTTTAA
1 AAATATATAATAAA-A-TTTAA
14018826 AAATATATAATAAAATTTAA
1 AAATATATAATAAAATTTAA
14018846 AATATATATATATAAAAGTTTA
1 AA-ATATATA-ATAAAA-TTTA
14018868 CACTGAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.18
21 18 0.47
22 9 0.24
23 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAATATATAATAAAATTTAA
Found at i:14018867 original size:23 final size:21
Alignment explanation
Indices: 14018807--14018867 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
14018797 CCCAATAGAA
*
14018807 ATATATAAAAATATTTTAAAAAT
1 ATATATATAAA-A-TTTAAAAAT
14018830 ATATA-ATAAAATTTAAAATAT
1 ATATATATAAAATTTAAAA-AT
14018851 ATATATATAAAAGTTTA
1 ATATATATAAAA-TTTA
14018868 CACTGAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 10 0.29
23 9 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATATATATAAAATTTAAAAAT
Found at i:14024476 original size:35 final size:33
Alignment explanation
Indices: 14024425--14024494 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 33
14024415 GGATTGAACG
* *
14024425 AAATTGTGATTCTACGTTATCTTTTATCTTTTTTC
1 AAATTGTGATTCTACGTCATCATTT-T-TTTTTTC
*
14024460 AAATTGTGATTTTACGTCATCATTTTTTTTTTC
1 AAATTGTGATTCTACGTCATCATTTTTTTTTTC
14024493 AA
1 AA
14024495 TAGAAGAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 9 0.28
34 1 0.03
35 22 0.69
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.56
Consensus pattern (33 bp):
AAATTGTGATTCTACGTCATCATTTTTTTTTTC
Found at i:14025445 original size:15 final size:14
Alignment explanation
Indices: 14025420--14025468 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
14025410 TTTTTATGTA
*
14025420 ATTTTAATTTAAAT
1 ATTTAAATTTAAAT
* *
14025434 ATTTAAGCTTTAATT
1 ATTTAA-ATTTAAAT
14025449 ATTTAAATTTAAA-
1 ATTTAAATTTAAAT
14025462 ATTTAAA
1 ATTTAAA
14025469 ATAATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 7 0.24
14 10 0.34
15 12 0.41
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (14 bp):
ATTTAAATTTAAAT
Found at i:14030597 original size:21 final size:22
Alignment explanation
Indices: 14030566--14030607 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14030556 ATTCACATGT
14030566 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
14030588 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGATTCTTTT
14030608 CTTTTTGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:14036197 original size:19 final size:19
Alignment explanation
Indices: 14036175--14036215 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
14036165 TCTCAAAATT
14036175 ATACCTATATAGACATTTC
1 ATACCTATATAGACATTTC
14036194 ATACCTATATAGACATTTC
1 ATACCTATATAGACATTTC
14036213 ATA
1 ATA
14036216 ATGGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.37
Consensus pattern (19 bp):
ATACCTATATAGACATTTC
Found at i:14036649 original size:24 final size:24
Alignment explanation
Indices: 14036614--14036683 Score: 108
Period size: 24 Copynumber: 2.9 Consensus size: 24
14036604 CCAGACAAAA
14036614 TTAGCT-TATACGAGCCCAG-ATAGG
1 TTAGCTCT-TACGAGCCCAGAAT-GG
14036638 TTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
14036662 TTAGCTCTTACGAGCCCAGAAT
1 TTAGCTCTTACGAGCCCAGAAT
14036684 CAGAATAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 41 0.93
25 3 0.07
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:14036761 original size:26 final size:27
Alignment explanation
Indices: 14036665--14036767 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
14036655 AGAATGGTTA
* *
14036665 GCTCTTACGAGCCCAGAATCAGAATAAT
1 GCTCTTTCGAG-CCAGAATCAGAATAAC
* * *
14036693 GTTCTTTCAAGCCAGAATCGGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
*
14036720 GCTCTTTCGAGCCAGAATTAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
*
14036747 ACTC-TTCGAGCCAGAATCAGA
1 GCTCTTTCGAGCCAGAATCAGA
14036768 TTACTCCTCA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 16 0.25
27 40 0.62
28 8 0.12
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAGAATAAC
Found at i:14040996 original size:99 final size:99
Alignment explanation
Indices: 14040825--14041042 Score: 314
Period size: 99 Copynumber: 2.2 Consensus size: 99
14040815 ATCAAAAAAC
* *
14040825 AATCAAGTATGAAAGTATTAACATACCATGTTACGTACTTGTTATTTTGTGTGATCGATAAAGTG
1 AATCAGGTATGAAAGTATTAAAATACCATGTTACGTACTTGTTATTTTGTGTGATCGATAAAGTG
*
14040890 TCTGCACTTATTATGTTGAAAATGAAT-GAGAATG
66 TCTGCACTTATTATATTGAAAATGAATGGA-AATG
** *
14040924 AATCAGGTATGAAAGTATTAAAATACCATGTTGTGTACTTGTTATTTTGTGTGATTGATAAAGTG
1 AATCAGGTATGAAAGTATTAAAATACCATGTTACGTACTTGTTATTTTGTGTGATCGATAAAGTG
* *
14040989 TCTGCACTTATTCTATTGAAAATGGATGGAAATG
66 TCTGCACTTATTATATTGAAAATGAATGGAAATG
* * *
14041023 AATTAGGCATTAAAGT-TTAA
1 AATCAGGTATGAAAGTATTAA
14041043 CATATTGTAA
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
98 4 0.04
99 101 0.94
100 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (99 bp):
AATCAGGTATGAAAGTATTAAAATACCATGTTACGTACTTGTTATTTTGTGTGATCGATAAAGTG
TCTGCACTTATTATATTGAAAATGAATGGAAATG
Found at i:14042288 original size:42 final size:42
Alignment explanation
Indices: 14042164--14042353 Score: 215
Period size: 42 Copynumber: 4.5 Consensus size: 42
14042154 TGATGCATAA
* * * *
14042164 AAAGGAAGACTCATGTCTCGGGTTGAGCATGAGAATTTG-TAT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAT-T
* * * * *
14042206 AAATGGAAGACTCGTGACTCG-GAATCAGCATGAAAATATGATT
1 AAA-GGAAGACTCATGTCTCGAG-ATGAGAATGAGAATATGATT
*
14042249 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGATT
14042291 AAAGGAAGACTCATGTCTC-AGGATGAGAATGAGAATATGATT
1 AAAGGAAGACTCATGTCTCGA-GATGAGAATGAGAATATGATT
* *
14042333 AAAGGAAGACTTATGACTCGA
1 AAAGGAAGACTCATGTCTCGA
14042354 TAGAGCATAA
Statistics
Matches: 127, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 91 0.72
43 34 0.27
44 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.25
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGATT
Found at i:14047171 original size:23 final size:22
Alignment explanation
Indices: 14047126--14047177 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
14047116 CTAAAATAGT
14047126 TAAATTTGTCAATGTAATAAAAG
1 TAAA-TTGTCAATGTAATAAAAG
* * *
14047149 TTAATTGTCAGTGTAACTGAAAG
1 TAAATTGTCAATGTAA-TAAAAG
14047172 TAAATT
1 TAAATT
14047178 AAATTGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (22 bp):
TAAATTGTCAATGTAATAAAAG
Found at i:14047360 original size:26 final size:26
Alignment explanation
Indices: 14047331--14047383 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14047321 CCACAGCCCT
14047331 CTGTTTAATCGAGACTCAAGTACCCA
1 CTGTTTAATCGAGACTCAAGTACCCA
14047357 CTGTTTAATCGAGACTCAAGTACCCA
1 CTGTTTAATCGAGACTCAAGTACCCA
14047383 C
1 C
14047384 AATTACCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
CTGTTTAATCGAGACTCAAGTACCCA
Found at i:14048701 original size:17 final size:18
Alignment explanation
Indices: 14048669--14048709 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
14048659 AATATATTTC
14048669 TCTTCTTTTCTCTTTTGT
1 TCTTCTTTTCTCTTTTGT
14048687 TCTTC-TTTCT-TTTT-T
1 TCTTCTTTTCTCTTTTGT
14048702 T-TTCTTTT
1 TCTTCTTTT
14048710 TATGAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 5 0.23
16 4 0.18
17 5 0.23
18 5 0.23
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (18 bp):
TCTTCTTTTCTCTTTTGT
Found at i:14063739 original size:22 final size:23
Alignment explanation
Indices: 14063712--14063755 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14063702 AAATAGTTAA
14063712 AATTGTCAATGTAA-TAAAAGTT
1 AATTGTCAATGTAACTAAAAGTT
*
14063734 AATTGTCAGTGTAACTAAAAGT
1 AATTGTCAATGTAACTAAAAGT
14063756 AAATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (23 bp):
AATTGTCAATGTAACTAAAAGTT
Found at i:14064959 original size:72 final size:72
Alignment explanation
Indices: 14064869--14065012 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
14064859 CAACAATGAG
14064869 TTAGAAAATATAAATACTAAGTATGAAATGCCTATTATGCATGCTAAATACAATACAAAAGAGAC
1 TTAGAAAATATAAATACTAAGTATGAAATGCCTATTATGCATGCTAAATACAATACAAAAGAGAC
14064934 AATTAAT
66 AATTAAT
*
14064941 TTAGAAAATATAAATACTAAGTATGAAATGCCTATTATGCATGTTAAATACAATACAAAAGAGAC
1 TTAGAAAATATAAATACTAAGTATGAAATGCCTATTATGCATGCTAAATACAATACAAAAGAGAC
14065006 AATTAAT
66 AATTAAT
14065013 ACACAAATTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.28
Consensus pattern (72 bp):
TTAGAAAATATAAATACTAAGTATGAAATGCCTATTATGCATGCTAAATACAATACAAAAGAGAC
AATTAAT
Found at i:14066649 original size:24 final size:24
Alignment explanation
Indices: 14066597--14066649 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
14066587 GTTCGTAAGT
* *
14066597 TAAATAAATTATGCTAATAAATGC
1 TAAATAAATTATACTAATAAATAC
* * *
14066621 AAAATATATTATACTAATATATAC
1 TAAATAAATTATACTAATAAATAC
14066645 TAAAT
1 TAAAT
14066650 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (24 bp):
TAAATAAATTATACTAATAAATAC
Found at i:14081762 original size:9 final size:8
Alignment explanation
Indices: 14081725--14081785 Score: 52
Period size: 9 Copynumber: 7.1 Consensus size: 8
14081715 ATATTATTCA
14081725 AAATAA-T
1 AAATAATT
14081732 AAATAATT
1 AAATAATT
14081740 AACATAATT
1 AA-ATAATT
14081749 AAAATATATT
1 -AAATA-ATT
*
14081759 AAATATTT
1 AAATAATT
*
14081767 TAATAATTT
1 AAATAA-TT
14081776 AAATATATT
1 AAATA-ATT
14081785 A
1 A
14081786 CTAATAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 6 0.14
8 9 0.20
9 23 0.52
10 6 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
AAATAATT
Found at i:14081790 original size:17 final size:17
Alignment explanation
Indices: 14081757--14081790 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14081747 TTAAAATATA
*
14081757 TTAAATATTTTAATAAT
1 TTAAATATATTAATAAT
*
14081774 TTAAATATATTACTAAT
1 TTAAATATATTAATAAT
14081791 AATAATTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAATATATTAATAAT
Found at i:14090664 original size:21 final size:21
Alignment explanation
Indices: 14090626--14090665 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14090616 ATCCAGACAA
* * *
14090626 CAAGGTATCAATATCTTGGAT
1 CAAGGTATAAACACCTTGGAT
14090647 CAAGGTATAAACACCTTGG
1 CAAGGTATAAACACCTTGG
14090666 CCTAATACTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (21 bp):
CAAGGTATAAACACCTTGGAT
Found at i:14095050 original size:21 final size:21
Alignment explanation
Indices: 14095020--14095067 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
14095010 ACTGGAGTTT
*
14095020 ATTGTTTCGGTAGAAGTCATG-
1 ATTGTATCGGTAGAAGTCA-GA
14095041 ATTGTATCGGTAGAAGTCAGA
1 ATTGTATCGGTAGAAGTCAGA
14095062 ATTGTA
1 ATTGTA
14095068 CCAGCAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (21 bp):
ATTGTATCGGTAGAAGTCAGA
Found at i:14097894 original size:20 final size:20
Alignment explanation
Indices: 14097869--14097907 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
14097859 ACTATTATCA
14097869 CAATTTATAA-AAATTCACAT
1 CAATTTA-AATAAATTCACAT
14097889 CAATTTAAATAAATTCACA
1 CAATTTAAATAAATTCACA
14097908 ATTTAATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (20 bp):
CAATTTAAATAAATTCACAT
Found at i:14097911 original size:17 final size:16
Alignment explanation
Indices: 14097866--14097913 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 16
14097856 CCTACTATTA
14097866 TCACAATTTATAAAAAT
1 TCACAATTTA-AAAAAT
14097883 TCACATCAATTTAAATAAAT
1 T--CA-CAATTTAAA-AAAT
14097903 TCACAATTTAA
1 TCACAATTTAA
14097914 TCCCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 9 0.33
18 2 0.07
19 4 0.15
20 12 0.44
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (16 bp):
TCACAATTTAAAAAAT
Found at i:14101272 original size:7 final size:7
Alignment explanation
Indices: 14101260--14101286 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14101250 AATCAAAAAC
14101260 TCTCTCA
1 TCTCTCA
14101267 TCTCTCA
1 TCTCTCA
14101274 TCTCTCA
1 TCTCTCA
14101281 TCTCTC
1 TCTCTC
14101287 CCCTCTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.44, G:0.00, T:0.44
Consensus pattern (7 bp):
TCTCTCA
Found at i:14108378 original size:16 final size:17
Alignment explanation
Indices: 14108357--14108391 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14108347 ACCTAATAAA
*
14108357 CCCTTTTG-ACCCACAC
1 CCCTTTTGAACCAACAC
14108373 CCCTTTTGAACCAACAC
1 CCCTTTTGAACCAACAC
14108390 CC
1 CC
14108392 AAACCAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.23, C:0.49, G:0.06, T:0.23
Consensus pattern (17 bp):
CCCTTTTGAACCAACAC
Found at i:14110938 original size:36 final size:36
Alignment explanation
Indices: 14110891--14110963 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
14110881 GATTAAACGG
14110891 TCCGATGACTAAGTGTCATCATGAGTATATGAATCC
1 TCCGATGACTAAGTGTCATCATGAGTATATGAATCC
14110927 TCCGATGACTAAGTGTCATCATGAGTATATGAATCC
1 TCCGATGACTAAGTGTCATCATGAGTATATGAATCC
14110963 T
1 T
14110964 TTACGAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (36 bp):
TCCGATGACTAAGTGTCATCATGAGTATATGAATCC
Found at i:14111017 original size:43 final size:43
Alignment explanation
Indices: 14110953--14111040 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
14110943 CATCATGAGT
* *
14110953 ATATGAATCCTTTACGAATTAA-ACGGTCCGATGACTAAGTGTC
1 ATATGAATCATTTACGAATTAAGA-GGTCCAATGACTAAGTGTC
* * **
14110996 ATATGGATCATTTACGGATTAAGAGGTCCAATGACTCTGTGTC
1 ATATGAATCATTTACGAATTAAGAGGTCCAATGACTAAGTGTC
14111039 AT
1 AT
14111041 CGTGAGTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
ATATGAATCATTTACGAATTAAGAGGTCCAATGACTAAGTGTC
Found at i:14120206 original size:21 final size:19
Alignment explanation
Indices: 14120180--14120227 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 19
14120170 TTTTGATATT
14120180 GGTAGATGCATGACTTGTATC
1 GGTAGAT-CAT-ACTTGTATC
14120201 GGTAGAAATCATACTTGTATC
1 GGTAG--ATCATACTTGTATC
14120222 GGTAGA
1 GGTAGA
14120228 GCTAACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.04
21 19 0.76
22 3 0.12
23 2 0.08
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (19 bp):
GGTAGATCATACTTGTATC
Found at i:14129541 original size:20 final size:20
Alignment explanation
Indices: 14129516--14129569 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
14129506 TTAAAAAAAT
14129516 TATAAAATAATTTTAAATTA
1 TATAAAATAATTTTAAATTA
*
14129536 TATAAAAAAATTTATTTAAATTA
1 TATAAAATAA--T-TTTAAATTA
14129559 T-TAAAATAATT
1 TATAAAATAATT
14129570 ACTGTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 1 0.03
20 10 0.34
22 8 0.28
23 10 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAAAATAATTTTAAATTA
Found at i:14129563 original size:22 final size:23
Alignment explanation
Indices: 14129527--14129569 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
14129517 ATAAAATAAT
14129527 TTTAAATTATATAAAAAAATTTA
1 TTTAAATTATATAAAAAAATTTA
*
14129550 TTTAAATTAT-TAAAATAATT
1 TTTAAATTATATAAAAAAATT
14129570 ACTGTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAAATTATATAAAAAAATTTA
Found at i:14130732 original size:32 final size:31
Alignment explanation
Indices: 14130674--14130740 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
14130664 CATTTGGCTC
14130674 TTTTGCATTTTTAAGGTGTTTCAATTTAGTTCT
1 TTTTGCATTTTTAA-GTGTTTCAATTTAG-TCT
* *
14130707 TTTTGCATTTTTATA-TTTTTTAATTTAGTCT
1 TTTTGCATTTTTA-AGTGTTTCAATTTAGTCT
14130738 TTT
1 TTT
14130741 AATTTGTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 6 0.19
32 11 0.35
33 13 0.42
34 1 0.03
ACGTcount: A:0.18, C:0.07, G:0.10, T:0.64
Consensus pattern (31 bp):
TTTTGCATTTTTAAGTGTTTCAATTTAGTCT
Found at i:14130922 original size:17 final size:17
Alignment explanation
Indices: 14130894--14130944 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
14130884 TTTGTTTTAT
14130894 TCATTATTTATTTGTTAC
1 TCATT-TTTATTTGTTAC
14130912 TCATTTTTATTAT-TTAC
1 TCATTTTTATT-TGTTAC
* *
14130929 TATATTTTTATATGTT
1 T-CATTTTTATTTGTT
14130945 GTATTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (17 bp):
TCATTTTTATTTGTTAC
Found at i:14142835 original size:22 final size:23
Alignment explanation
Indices: 14142810--14142853 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
14142800 AATACTTAAA
*
14142810 TACTGTGA-ATAAAAATATTGTG
1 TACTATGAGATAAAAATATTGTG
* *
14142832 TACTATGAGATACATATATTGT
1 TACTATGAGATAAAAATATTGT
14142854 ATCATGAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (23 bp):
TACTATGAGATAAAAATATTGTG
Found at i:14145172 original size:20 final size:20
Alignment explanation
Indices: 14145149--14145297 Score: 178
Period size: 20 Copynumber: 7.5 Consensus size: 20
14145139 ACCTAAGTAT
14145149 TCAGGCTTTATGCCGGTG-A
1 TCAGGCTTTATGCCGGTGTA
14145168 TTCAGGCTTTATGCCGGTG-A
1 -TCAGGCTTTATGCCGGTGTA
* *
14145188 TTCAGGCTTTGTGCTGGTGTA
1 -TCAGGCTTTATGCCGGTGTA
14145209 TCAGGCTTTATGCCGGTGTA
1 TCAGGCTTTATGCCGGTGTA
*
14145229 TCAGGCTTTATGCCAGTGTA
1 TCAGGCTTTATGCCGGTGTA
* *
14145249 TCAGGTTTTGTGCCGGTGTA
1 TCAGGCTTTATGCCGGTGTA
* * *
14145269 ACAGGCTTTGTGCTGGTGTAA
1 TCAGGCTTTATGCCGGTGT-A
14145290 T-AGGCTTT
1 TCAGGCTTT
14145298 GTGCAGGATA
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
20 113 0.98
21 2 0.02
ACGTcount: A:0.15, C:0.17, G:0.31, T:0.37
Consensus pattern (20 bp):
TCAGGCTTTATGCCGGTGTA
Found at i:14145222 original size:60 final size:60
Alignment explanation
Indices: 14145149--14145297 Score: 196
Period size: 60 Copynumber: 2.5 Consensus size: 60
14145139 ACCTAAGTAT
* *
14145149 TCAGGCTTTATGCCGGTG-ATTCAGGCTTTATGCCGGTG-ATTCAGGCTTTGTGCTGGTGTA
1 TCAGGCTTTATGCCGGTGTA-TCAGGCTTTATGCCAGTGTA-TCAGGCTTTGTGCCGGTGTA
*
14145209 TCAGGCTTTATGCCGGTGTATCAGGCTTTATGCCAGTGTATCAGGTTTTGTGCCGGTGTA
1 TCAGGCTTTATGCCGGTGTATCAGGCTTTATGCCAGTGTATCAGGCTTTGTGCCGGTGTA
* * *
14145269 ACAGGCTTTGTGCTGGTGTAAT-AGGCTTT
1 TCAGGCTTTATGCCGGTGT-ATCAGGCTTT
14145298 GTGCAGGATA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
60 76 0.95
61 4 0.05
ACGTcount: A:0.15, C:0.17, G:0.31, T:0.37
Consensus pattern (60 bp):
TCAGGCTTTATGCCGGTGTATCAGGCTTTATGCCAGTGTATCAGGCTTTGTGCCGGTGTA
Found at i:14147481 original size:21 final size:21
Alignment explanation
Indices: 14147457--14147496 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14147447 AACAATGAAA
* *
14147457 ATGATGATGATGAAGATGGGG
1 ATGATGAAGATAAAGATGGGG
14147478 ATGATGAAGATAAAGATGG
1 ATGATGAAGATAAAGATGG
14147497 TAATGAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.23
Consensus pattern (21 bp):
ATGATGAAGATAAAGATGGGG
Found at i:14147502 original size:21 final size:21
Alignment explanation
Indices: 14147456--14147502 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14147446 TAACAATGAA
* *
14147456 AATGATGATGATGAAGATGGG
1 AATGATGAAGATAAAGATGGG
* *
14147477 GATGATGAAGATAAAGATGGT
1 AATGATGAAGATAAAGATGGG
14147498 AATGA
1 AATGA
14147503 ACTAAAAGCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (21 bp):
AATGATGAAGATAAAGATGGG
Found at i:14148850 original size:2 final size:2
Alignment explanation
Indices: 14148843--14148921 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
14148833 GTTTTTGTTG
14148843 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14148885 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
14148922 CTAATATTTC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:14156277 original size:45 final size:45
Alignment explanation
Indices: 14156213--14156303 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
14156203 AACATGGTAA
14156213 GCTGCTACCAATTTGGAAAGGGTTAGAAGGAGGATCTTTGATGTT
1 GCTGCTACCAATTTGGAAAGGGTTAGAAGGAGGATCTTTGATGTT
14156258 GCTGCTACCAATTTGGAAAGGGTTAGAAGGAGGATCTTTGATGTT
1 GCTGCTACCAATTTGGAAAGGGTTAGAAGGAGGATCTTTGATGTT
14156303 G
1 G
14156304 TTGGTTGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.31
Consensus pattern (45 bp):
GCTGCTACCAATTTGGAAAGGGTTAGAAGGAGGATCTTTGATGTT
Found at i:14157249 original size:18 final size:18
Alignment explanation
Indices: 14157223--14157260 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14157213 AATAATACTG
* *
14157223 ATTTTAAATGATGTTCAC
1 ATTTCAAATGATATTCAC
14157241 ATTTCAAATGATATTCAC
1 ATTTCAAATGATATTCAC
14157259 AT
1 AT
14157261 CGATGGAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTTCAAATGATATTCAC
Found at i:14159588 original size:34 final size:34
Alignment explanation
Indices: 14159546--14159614 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
14159536 CAAAAATTTT
*
14159546 AAAAATTCTAATTGA-ACTCTCT-ATTTTTTTAAAA
1 AAAAATTCTAATT-ACACTCT-TAAATTTTTTAAAA
*
14159580 AAAAATTCTCATTACACTCTTAAATTTTTTAAAA
1 AAAAATTCTAATTACACTCTTAAATTTTTTAAAA
14159614 A
1 A
14159615 TTTTACTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.42
Consensus pattern (34 bp):
AAAAATTCTAATTACACTCTTAAATTTTTTAAAA
Found at i:14161009 original size:22 final size:21
Alignment explanation
Indices: 14160979--14161020 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
14160969 AAATTTAAAA
* *
14160979 AATATTTTTTATTATATTTTTT
1 AATAATTTTAATTA-ATTTTTT
14161001 AATAATTTTAATTAATTTTT
1 AATAATTTTAATTAATTTTT
14161021 AAAAATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
AATAATTTTAATTAATTTTTT
Found at i:14161056 original size:21 final size:21
Alignment explanation
Indices: 14161014--14161056 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14161004 AATTTTAATT
* *
14161014 AATTTTTAAAAATGTTTTTTG
1 AATTTTTAAAAATGTATGTTG
14161035 AATTTTTAAAAAT-TAATGTTG
1 AATTTTTAAAAATGT-ATGTTG
14161056 A
1 A
14161057 TATGTCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (21 bp):
AATTTTTAAAAATGTATGTTG
Found at i:14163736 original size:10 final size:11
Alignment explanation
Indices: 14163691--14163739 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
14163681 TTTTAAAAAA
14163691 TTTAATAATAT
1 TTTAATAATAT
*
14163702 TTTAAAAATACT
1 TTTAATAATA-T
*
14163714 TTTTAT-ATAT
1 TTTAATAATAT
14163724 TTTAATAAT-T
1 TTTAATAATAT
14163734 TTTAAT
1 TTTAAT
14163740 TTAAAAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 13 0.41
11 14 0.44
12 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:14163760 original size:19 final size:19
Alignment explanation
Indices: 14163702--14163760 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
14163692 TTAATAATAT
14163702 TTTAAAAATACTTTTTATA
1 TTTAAAAATACTTTTTATA
** *
14163721 TATT-TTAATAATTTTTA-A
1 T-TTAAAAATACTTTTTATA
14163739 TTTAAAAATACTTTTTATA
1 TTTAAAAATACTTTTTATA
14163758 TTT
1 TTT
14163761 TTATATCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
17 2 0.06
18 12 0.39
19 15 0.48
20 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTAAAAATACTTTTTATA
Found at i:14164369 original size:25 final size:25
Alignment explanation
Indices: 14164341--14164389 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14164331 CTATTTTAAG
* *
14164341 TTTACATATTACATTTATAAATAAT
1 TTTACATATTAAATATATAAATAAT
**
14164366 TTTATTTATTAAATATATAAATAA
1 TTTACATATTAAATATATAAATAA
14164390 ATTAATCTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTACATATTAAATATATAAATAAT
Found at i:14164400 original size:25 final size:25
Alignment explanation
Indices: 14164347--14164400 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
14164337 TAAGTTTACA
* * * * *
14164347 TATTACATTTATAAATAATTTTATT
1 TATTAAATATATAAATAAATTAATC
14164372 TATTAAATATATAAATAAATTAATC
1 TATTAAATATATAAATAAATTAATC
14164397 TATT
1 TATT
14164401 TTTAAATCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAAATATATAAATAAATTAATC
Found at i:14164939 original size:28 final size:29
Alignment explanation
Indices: 14164906--14164970 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
14164896 TACATAAATA
* *
14164906 TATAATTTTTA-TTTAAATTTTGATTTTG
1 TATAATTTTTACATTAAATTTTGATTTGG
14164934 TATAA-TTTTACATTAAATTTTGATTTGG
1 TATAATTTTTACATTAAATTTTGATTTGG
*
14164962 TTTAATTTT
1 TATAATTTT
14164971 CATAAATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.16
28 24 0.75
29 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.62
Consensus pattern (29 bp):
TATAATTTTTACATTAAATTTTGATTTGG
Found at i:14165180 original size:29 final size:30
Alignment explanation
Indices: 14165138--14165208 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 30
14165128 TATTCAAAGT
* *
14165138 TTTATGTGTAAAATT-ATACTAAATTAAAA
1 TTTATGTATAAAATTAATACTAAATCAAAA
*
14165167 TTTATGTATCAAATTACATACTAAATCAAAA
1 TTTATGTATAAAATTA-ATACTAAATCAAAA
14165198 TTTATGTATAA
1 TTTATGTATAA
14165209 TTTTGAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 13 0.36
31 23 0.64
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (30 bp):
TTTATGTATAAAATTAATACTAAATCAAAA
Found at i:14165522 original size:29 final size:29
Alignment explanation
Indices: 14165499--14165556 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
14165489 TTAATTATAT
*
14165499 AATTCGAATTTTATAGACTTTAATAATTA
1 AATTCGAATTCTATAGACTTTAATAATTA
* *
14165528 AATTGGAATTCTATAGACTTTTATAATTA
1 AATTCGAATTCTATAGACTTTAATAATTA
14165557 TATAAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.45
Consensus pattern (29 bp):
AATTCGAATTCTATAGACTTTAATAATTA
Found at i:14178223 original size:14 final size:14
Alignment explanation
Indices: 14178204--14178233 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14178194 CAGACATCAA
*
14178204 TTGATTTAATTGAT
1 TTGATTTAATTAAT
14178218 TTGATTTAATTAAT
1 TTGATTTAATTAAT
14178232 TT
1 TT
14178234 AATGACTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (14 bp):
TTGATTTAATTAAT
Found at i:14179219 original size:29 final size:31
Alignment explanation
Indices: 14179187--14179245 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
14179177 CTTTTTTCCT
* *
14179187 AAAACTTTTAC-TCCTTCCTA-CTTTCCCCC
1 AAAACTTTTACTTCCCTCCTATCTTACCCCC
14179216 AAAACTTTTACTTCCCTCCTATCTTACCCC
1 AAAACTTTTACTTCCCTCCTATCTTACCCC
14179246 TGTCTACCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 8 0.31
31 7 0.27
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (31 bp):
AAAACTTTTACTTCCCTCCTATCTTACCCCC
Found at i:14180529 original size:263 final size:263
Alignment explanation
Indices: 14179824--14180874 Score: 1524
Period size: 263 Copynumber: 4.0 Consensus size: 263
14179814 GGGAGAGCAA
* *
14179824 ATAGGAAAAGATGGAAGAGAAGGAAGGATGAATAGGGAGTGAATGAATGATGATATGAAAGGGAA
1 ATAGGAAAAGATGGAAGAGAAGGAAGGATGAATAGTGAGTGAATGAATGATGATATGAAAAGGAA
* * * * *
14179889 TAAAGGTGGCTATTTACAATAATTTGAGGAGGCTAAAAATACCATGAGAGAGCCTTGATTCTCTC
66 TAAAGATGGCTATTTACACTATTTTGAGGAGGCTAAAAATAGCATGGGAGAGCCTTGATTCTCTC
* * * * *
14179954 CTCTCATGATCGGCCCTTGATAGTAAGAAGAGCATTGGGATGACTTTGCTTAATGTGGCTTGGTG
131 CTCCCATGGTCGGCCCTTGATAGTAGGAAGAGCATTGGGATGACTTTGCTAAATATGGCTTGGTG
*
14180019 CCATAAATGGAAGGCTTAAAAAGTGGAGGAGTTGGAACAACTTTGTGAAAGCGTTAAGGGACTAT
196 CCATAAATGGAAGGCTTAAAAAGTGGAGG-GTTGGAACGACTTTGTGAAAGCGTTAAGGGACTAT
14180084 TTTG
260 TTTG
* * *
14180088 TTAGGAAAAGATGGAAGAGAAAGAAGGATGAATAGTGAGTGAATGAATGATG---TGAAAGGGAA
1 ATAGGAAAAGATGGAAGAGAAGGAAGGATGAATAGTGAGTGAATGAATGATGATATGAAAAGGAA
* * * *
14180150 TAAAGGTGGCTATTTACACTATTTTGAGAAGGCTGAAAATAGCATGGGAGAGCCTTGATTCGCTC
66 TAAAGATGGCTATTTACACTATTTTGAGGAGGCTAAAAATAGCATGGGAGAGCCTTGATTCTCTC
*** *
14180215 CTCCCATGGTCGGCCCTTGATAGTAGGAAGAGTGGCTGGGATGATTTTGCTAAATATGGCTTGGT
131 CTCCCATGGTCGGCCCTTGATAGTAGGAAGAG-CATTGGGATGACTTTGCTAAATATGGCTTGGT
* *
14180280 GCCATAAATGGAAGGCTT-AAAAGTGGAGGGTTTGAATGACTTTGTGAAAGCGTTAAGGGACTAT
195 GCCATAAATGGAAGGCTTAAAAAGTGGAGGGTTGGAACGACTTTGTGAAAGCGTTAAGGGACTAT
14180344 TTTG
260 TTTG
* * *
14180348 ATACGAAAAGATAGAAGAGAAGGAAGGATGAATAGTGAGTGAATGAATGATGATATGAAAAAGAA
1 ATAGGAAAAGATGGAAGAGAAGGAAGGATGAATAGTGAGTGAATGAATGATGATATGAAAAGGAA
* *
14180413 CAAAGATGGCTATTTACACTATTTTGAGGAGGCTAAATATAGCATGGGAGAGCCTTGATTCTCTC
66 TAAAGATGGCTATTTACACTATTTTGAGGAGGCTAAAAATAGCATGGGAGAGCCTTGATTCTCTC
* * * *
14180478 TTCCCATGGTCGGCCCTTGGTAGTAGGAAGAGCGATTGAGATGACTTTGCTAAATATGGCTTGAT
131 CTCCCATGGTCGGCCCTTGATAGTAGGAAGAGC-ATTGGGATGACTTTGCTAAATATGGCTTGGT
*
14180543 GCCATAAATGGAAGGCTTAAAAAGTGGAGAGGTTGGAACGACTCTGTGAAAGCGTTAAGGGACTA
195 GCCATAAATGGAAGGCTTAAAAAGTGGAG-GGTTGGAACGACTTTGTGAAAGCGTTAAGGGACTA
*
14180608 TTTTA
259 TTTTG
* *
14180613 ATAGGAAAATATGGAAGAGAAGGAAGGATGAATGGTGAGTGAATGAATG-TGATAT-AAAAGGGA
1 ATAGGAAAAGATGGAAGAGAAGGAAGGATGAATAGTGAGTGAATGAATGATGATATGAAAA-GGA
* * *
14180676 ATAAA-AGTGGTTATTTAAACTATTTTGAGGA-GCTAAAAATAACATGGGAGAGCCTTGATTCTC
65 ATAAAGA-TGGCTATTTACACTATTTTGAGGAGGCTAAAAATAGCATGGGAGAGCCTTGATTCTC
* * * *
14180739 TCCTCCCAAGGTCAGCCCTTGATAATAGGAAGAGCAGTTGGGATGACTTTGCTAAATATGACTTG
129 TCCTCCCATGGTCGGCCCTTGATAGTAGGAAGAGCA-TTGGGATGACTTTGCTAAATATGGCTTG
* * * *
14180804 TTGCCATAAATTGAAGGCTTAAAAAGTGGAGGGGTTGGAATGACTTTGTGAAAGCGTTAAGAGAC
193 GTGCCATAAATGGAAGGCTTAAAAAGTGGA-GGGTTGGAACGACTTTGTGAAAGCGTTAAGGGAC
14180869 TATTTT
257 TATTTT
14180875 AAAATTATTT
Statistics
Matches: 708, Mismatches: 68, Indels: 23
0.89 0.09 0.03
Matches are distributed among these distances:
260 84 0.12
261 108 0.15
262 45 0.06
263 296 0.42
264 94 0.13
265 81 0.11
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (263 bp):
ATAGGAAAAGATGGAAGAGAAGGAAGGATGAATAGTGAGTGAATGAATGATGATATGAAAAGGAA
TAAAGATGGCTATTTACACTATTTTGAGGAGGCTAAAAATAGCATGGGAGAGCCTTGATTCTCTC
CTCCCATGGTCGGCCCTTGATAGTAGGAAGAGCATTGGGATGACTTTGCTAAATATGGCTTGGTG
CCATAAATGGAAGGCTTAAAAAGTGGAGGGTTGGAACGACTTTGTGAAAGCGTTAAGGGACTATT
TTG
Found at i:14184083 original size:36 final size:37
Alignment explanation
Indices: 14184035--14184113 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 37
14184025 TACATTTTAT
*
14184035 GGTCAT-AGTGCTCCTTTTACTCCCTACTGACCCGAA
1 GGTCATGAGTGCTCATTTTACTCCCTACTGACCCGAA
* **
14184071 GGTCATGA-TGCTCATTTTACTCCTTGTTGACCCGAA
1 GGTCATGAGTGCTCATTTTACTCCCTACTGACCCGAA
14184107 GGTCATG
1 GGTCATG
14184114 CCTGTTCCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.33
Consensus pattern (37 bp):
GGTCATGAGTGCTCATTTTACTCCCTACTGACCCGAA
Found at i:14193426 original size:9 final size:9
Alignment explanation
Indices: 14193356--14193581 Score: 77
Period size: 9 Copynumber: 23.8 Consensus size: 9
14193346 TATTTTTCCC
14193356 ATAAAATATT
1 ATAAAA-ATT
14193366 A-AAAAATT
1 ATAAAAATT
*
14193374 AGAAAAAATT
1 A-TAAAAATT
*
14193384 ATTAAAAAAT
1 A-TAAAAATT
*
14193394 ATGAAAATT
1 ATAAAAATT
* *
14193403 GATATCAACTT
1 -ATA-AAAATT
14193414 ATAAAAATT
1 ATAAAAATT
**
14193423 ATAAATCTT
1 ATAAAAATT
14193432 ATAAAGAA-T
1 ATAAA-AATT
14193441 ATAAAAATT
1 ATAAAAATT
* *
14193450 CTAATAAAAT
1 ATAA-AAATT
*
14193460 ATAAAATTT
1 ATAAAAATT
14193469 AT-AAAATT
1 ATAAAAATT
14193477 AATACAAACATAT
1 -ATA-AAA-AT-T
*
14193490 TTAAAATATT
1 ATAAAA-ATT
**
14193500 -TGAAATTTT
1 AT-AAAAATT
14193509 ATAAAATATT
1 ATAAAA-ATT
* *
14193519 GTTAAAATTTT
1 -ATAAAA-ATT
14193530 ATAAAAA-T
1 ATAAAAATT
*
14193538 AAAAAAATT
1 ATAAAAATT
14193547 -TAAAAATTT
1 ATAAAAA-TT
*
14193556 ATATAAACTT
1 ATA-AAAATT
*
14193566 ATGAAAATT
1 ATAAAAATT
*
14193575 CTAAAAA
1 ATAAAAA
14193582 AATCATAAAA
Statistics
Matches: 159, Mismatches: 37, Indels: 41
0.67 0.16 0.17
Matches are distributed among these distances:
8 23 0.14
9 62 0.39
10 46 0.29
11 23 0.14
12 4 0.03
13 1 0.01
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:14194082 original size:28 final size:27
Alignment explanation
Indices: 14194030--14194093 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
14194020 AATTTATATC
*
14194030 AATTTTAATATTTTTATTATTTTTTAA
1 AATTTTAATATTTTTATTATATTTTAA
14194057 GAATTTTAATACGTTTTT-TTA-ATTTTAA
1 -AATTTTAATA--TTTTTATTATATTTTAA
14194085 ATATTTTAA
1 A-ATTTTAA
14194094 ATAAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.03
28 23 0.72
29 3 0.09
30 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (27 bp):
AATTTTAATATTTTTATTATATTTTAA
Found at i:14194178 original size:37 final size:36
Alignment explanation
Indices: 14194118--14194199 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 36
14194108 TTTGTATAGT
* *
14194118 TTTTTTTATAATTTATTATATTTATAAT-AATTATAA
1 TTTTTTTATAATTTAGTAAATTTAT-ATCAATTATAA
*
14194154 TTTTTTTATAATTTTAGTAAATTTATATCAATTTTAA
1 TTTTTTTATAA-TTTAGTAAATTTATATCAATTATAA
*
14194191 TATTTTTAT
1 TTTTTTTAT
14194200 TTATTTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 13 0.32
37 27 0.68
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (36 bp):
TTTTTTTATAATTTAGTAAATTTATATCAATTATAA
Found at i:14194198 original size:20 final size:19
Alignment explanation
Indices: 14194118--14194216 Score: 64
Period size: 18 Copynumber: 5.3 Consensus size: 19
14194108 TTTGTATAGT
* *
14194118 TTTTTTTATAA-TTTATTA
1 TTTTTATATAATTTTAATA
* *
14194136 TATTTATAATAATTATAAT-
1 TTTTTAT-ATAATTTTAATA
*
14194155 TTTTT-TATAATTTTAGTA
1 TTTTTATATAATTTTAATA
**
14194173 AATTTATATCAATTTTAATA
1 TTTTTATAT-AATTTTAATA
*
14194193 TTTTTAT-TTATTTATAAT-
1 TTTTTATATAATTT-TAATA
14194211 TTTTTA
1 TTTTTA
14194217 AATTTTTCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
17 9 0.15
18 19 0.31
19 16 0.26
20 18 0.29
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTTATATAATTTTAATA
Found at i:14194920 original size:39 final size:39
Alignment explanation
Indices: 14194885--14194972 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
14194875 TCACCGTTGA
14194885 TTCAGTATTGCTTTACGGTATTTACAGTGTTACCGTCAG
1 TTCAGTATTGCTTTACGGTATTTACAGTGTTACCGTCAG
* * * *
14194924 TTCAGTATTGCATTATGGTATTTACAGTGTTACTGTCAA
1 TTCAGTATTGCTTTACGGTATTTACAGTGTTACCGTCAG
14194963 TTCAGT-TTGC
1 TTCAGTATTGC
14194973 ATCGCAGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 4 0.09
39 41 0.91
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (39 bp):
TTCAGTATTGCTTTACGGTATTTACAGTGTTACCGTCAG
Found at i:14194986 original size:38 final size:39
Alignment explanation
Indices: 14194884--14194996 Score: 111
Period size: 39 Copynumber: 2.9 Consensus size: 39
14194874 ATCACCGTTG
* * * *
14194884 ATTCAGTATTGCTTTACGGTATTTACAGTGTTACCGTCA
1 ATTCAGTATTGCATCACAGTATTTACAGTGTTACTGTCA
* * **
14194923 GTTCAGTATTGCATTATGGTATTTACAGTGTTACTGTCA
1 ATTCAGTATTGCATCACAGTATTTACAGTGTTACTGTCA
* * * *
14194962 ATTCAGT-TTGCATCGCAGTGTTTACAATGTCACTG
1 ATTCAGTATTGCATCACAGTATTTACAGTGTTACTG
14194997 CTAGTTCAGT
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
38 21 0.34
39 41 0.66
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (39 bp):
ATTCAGTATTGCATCACAGTATTTACAGTGTTACTGTCA
Found at i:14201733 original size:39 final size:39
Alignment explanation
Indices: 14201685--14201769 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
14201675 GTCACTGTTG
* * * *
14201685 ATTCGGTATTACTTTACGGTATTTATAGTGTTATCGTCA
1 ATTCAGTATTACATTACGATATTTACAGTGTTATCGTCA
* * *
14201724 GTTCAGTATTGCATTACGATATTTACAGTGTTTTCGTCA
1 ATTCAGTATTACATTACGATATTTACAGTGTTATCGTCA
14201763 ATTCAGT
1 ATTCAGT
14201770 TTGCATTGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.45
Consensus pattern (39 bp):
ATTCAGTATTACATTACGATATTTACAGTGTTATCGTCA
Found at i:14201792 original size:38 final size:39
Alignment explanation
Indices: 14201698--14201776 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
14201688 CGGTATTACT
* * *
14201698 TTACGGTATTTATAGTGTTATCGTCAGTTCAGTATTGCA
1 TTACGATATTTACAGTGTTATCGTCAATTCAGTATTGCA
*
14201737 TTACGATATTTACAGTGTTTTCGTCAATTCAGT-TTGCA
1 TTACGATATTTACAGTGTTATCGTCAATTCAGTATTGCA
14201775 TT
1 TT
14201777 GCAGTGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 7 0.19
39 29 0.81
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (39 bp):
TTACGATATTTACAGTGTTATCGTCAATTCAGTATTGCA
Found at i:14203415 original size:18 final size:19
Alignment explanation
Indices: 14203380--14203416 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
14203370 TAAAACTATA
14203380 TATACATATATATAATTAT
1 TATACATATATATAATTAT
14203399 TATA-ATAT-TATAGATTAT
1 TATACATATATATA-ATTAT
14203417 CATTAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TATACATATATATAATTAT
Found at i:14207422 original size:15 final size:15
Alignment explanation
Indices: 14207402--14207430 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14207392 ATAATGTATC
14207402 TATGGATTTACATTA
1 TATGGATTTACATTA
14207417 TATGGATTTACATT
1 TATGGATTTACATT
14207431 TATTCTAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
TATGGATTTACATTA
Found at i:14210750 original size:117 final size:117
Alignment explanation
Indices: 14210602--14210888 Score: 378
Period size: 117 Copynumber: 2.5 Consensus size: 117
14210592 TCACCGTCAG
* * * **
14210602 TTCAGTATTATATTGCAGTATTTATAGTGTTACTGCCAGTT-GAGTATTGTATTGTAGTATTTAC
1 TTCAGTCTTGTATTGCAGTATTTATAGTGTTACTGCCAATTCG-GTATTGTATTACAGTATTTAC
** * *
14210666 AGTGTTACTGCCAATTTAGTCTTGTATTGTGGAATTTACAGAGTTACTGTCGA
65 AGTGTTACTGCCAATTTAGTCTTGTATTGCAGAATTTACAGAGTTACTGCCAA
** *
14210719 TTCAGTCTTGTATTGCAGTATTTACGGTGTTACTGCCAATTCGGTATTGTATTACGGTATTTACA
1 TTCAGTCTTGTATTGCAGTATTTATAGTGTTACTGCCAATTCGGTATTGTATTACAGTATTTACA
* * * *
14210784 GTGTTATTGCCAATTTAGTCTTGTATTGCAGTATTTATAGTGTTACTGCCAA
66 GTGTTACTGCCAATTTAGTCTTGTATTGCAGAATTTACAGAGTTACTGCCAA
* * * *
14210836 TTCAGTCTTGTATTGTAGTATTTATAGTGTTACAGCTAATTCGCTATTGTATT
1 TTCAGTCTTGTATTGCAGTATTTATAGTGTTACTGCCAATTCGGTATTGTATT
14210889 GTCCTTCCGT
Statistics
Matches: 147, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
117 146 0.99
118 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.45
Consensus pattern (117 bp):
TTCAGTCTTGTATTGCAGTATTTATAGTGTTACTGCCAATTCGGTATTGTATTACAGTATTTACA
GTGTTACTGCCAATTTAGTCTTGTATTGCAGAATTTACAGAGTTACTGCCAA
Found at i:14210866 original size:39 final size:39
Alignment explanation
Indices: 14210583--14210889 Score: 319
Period size: 39 Copynumber: 7.9 Consensus size: 39
14210573 CATTACGATG
* * * * *
14210583 TTTACAGTGTCACCGTCAGTTCAGTATTATATTGCAGTA
1 TTTACAGTGTTACTGCCAATTCAGTATTGTATTGCAGTA
* * * *
14210622 TTTATAGTGTTACTGCCAGTTGAGTATTGTATTGTAGTA
1 TTTACAGTGTTACTGCCAATTCAGTATTGTATTGCAGTA
* * ** *
14210661 TTTACAGTGTTACTGCCAATTTAGTCTTGTATTGTGGAA
1 TTTACAGTGTTACTGCCAATTCAGTATTGTATTGCAGTA
* * * *
14210700 TTTACAGAGTTACTGTCGATTCAGTCTTGTATTGCAGTA
1 TTTACAGTGTTACTGCCAATTCAGTATTGTATTGCAGTA
* * * *
14210739 TTTACGGTGTTACTGCCAATTCGGTATTGTATTACGGTA
1 TTTACAGTGTTACTGCCAATTCAGTATTGTATTGCAGTA
* * *
14210778 TTTACAGTGTTATTGCCAATTTAGTCTTGTATTGCAGTA
1 TTTACAGTGTTACTGCCAATTCAGTATTGTATTGCAGTA
* * *
14210817 TTTATAGTGTTACTGCCAATTCAGTCTTGTATTGTAGTA
1 TTTACAGTGTTACTGCCAATTCAGTATTGTATTGCAGTA
* * *
14210856 TTTATAGTGTTACAGCTAATTC-GCTATTGTATTG
1 TTTACAGTGTTACTGCCAATTCAG-TATTGTATTG
14210890 TCCTTCCGTA
Statistics
Matches: 225, Mismatches: 42, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
38 1 0.00
39 224 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (39 bp):
TTTACAGTGTTACTGCCAATTCAGTATTGTATTGCAGTA
Found at i:14217690 original size:39 final size:39
Alignment explanation
Indices: 14217642--14217729 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
14217632 TATTATGGTG
*
14217642 TTTATAGTGTCACCG-TCAGTTGAGTATTGTACTGCAGTA
1 TTTACAGTGTCACCGCT-AGTTGAGTATTGTACTGCAGTA
* * * *
14217681 TTTACAGTGTTACTGCTAGTTTAGTATTGTATTGCAGTA
1 TTTACAGTGTCACCGCTAGTTGAGTATTGTACTGCAGTA
14217720 TTTACAGTGT
1 TTTACAGTGT
14217730 TACTGCCAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 42 0.98
40 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (39 bp):
TTTACAGTGTCACCGCTAGTTGAGTATTGTACTGCAGTA
Found at i:14217696 original size:20 final size:20
Alignment explanation
Indices: 14217671--14217735 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
14217661 TTGAGTATTG
14217671 TACTGCAGTATTTACAGTGT
1 TACTGCAGTATTTACAGTGT
* *
14217691 TACTGC--TAGTTTAGTATTG-
1 TACTGCAGTA-TTTA-CAGTGT
*
14217710 TATTGCAGTATTTACAGTGT
1 TACTGCAGTATTTACAGTGT
14217730 TACTGC
1 TACTGC
14217736 CAACTCGGTC
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.35
20 18 0.53
21 2 0.06
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (20 bp):
TACTGCAGTATTTACAGTGT
Found at i:14217906 original size:39 final size:39
Alignment explanation
Indices: 14217664--14217908 Score: 265
Period size: 39 Copynumber: 6.3 Consensus size: 39
14217654 CCGTCAGTTG
* * * *
14217664 AGTATTGTACTGCAGTATTTACAGTGTTACTGCTAGTTT
1 AGTATTGTATTGCAGTATTTACAGTGTTACTACTAATTC
* * *
14217703 AGTATTGTATTGCAGTATTTACAGTGTTACTGCCAACTC
1 AGTATTGTATTGCAGTATTTACAGTGTTACTACTAATTC
* ** * *
14217742 GGTCGTGTATTGCGGTATTTACAGTGTTACTACTGATTC
1 AGTATTGTATTGCAGTATTTACAGTGTTACTACTAATTC
* *
14217781 AGTCTTGTATTGCAGTATTTACAGTGTTACTGCTAATTC
1 AGTATTGTATTGCAGTATTTACAGTGTTACTACTAATTC
* ** * * *
14217820 GGTATTGTATTGTGGTATTTATAGTGTTACTATTGATTC
1 AGTATTGTATTGCAGTATTTACAGTGTTACTACTAATTC
* * * *
14217859 AGTCTTGTATTGCAGTATTTACAGTATTAATACCAATTC
1 AGTATTGTATTGCAGTATTTACAGTGTTACTACTAATTC
*
14217898 GGTATTGTATT
1 AGTATTGTATT
14217909 ACCCTTCTGT
Statistics
Matches: 168, Mismatches: 38, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 168 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (39 bp):
AGTATTGTATTGCAGTATTTACAGTGTTACTACTAATTC
Found at i:14217906 original size:117 final size:117
Alignment explanation
Indices: 14217664--14217908 Score: 301
Period size: 117 Copynumber: 2.1 Consensus size: 117
14217654 CCGTCAGTTG
* * *
14217664 AGTATTGTACTGCAGTATTTACAGTGTTACTGCTAGTTTAGTATTGTATTGCAGTATTTACAGTG
1 AGTATTGTATTGCAGTATTTACAGTGTTACTGCTAATTCAGTATTGTATTGCAGTATTTACAGTG
* * * * * **
14217729 TTACTGCCAACTCGGTCGTGTATTGCGGTATTTACAGTGTTACTACTGATTC
66 TTACTACCAACTCAGTCGTGTATTGCAGTATTTACAGTATTAATACCAATTC
* * ** *
14217781 AGTCTTGTATTGCAGTATTTACAGTGTTACTGCTAATTCGGTATTGTATTGTGGTATTTATAGTG
1 AGTATTGTATTGCAGTATTTACAGTGTTACTGCTAATTCAGTATTGTATTGCAGTATTTACAGTG
*** * *
14217846 TTACTATTGATTCAGTCTTGTATTGCAGTATTTACAGTATTAATACCAATTC
66 TTACTACCAACTCAGTCGTGTATTGCAGTATTTACAGTATTAATACCAATTC
*
14217898 GGTATTGTATT
1 AGTATTGTATT
14217909 ACCCTTCTGT
Statistics
Matches: 106, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
117 106 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (117 bp):
AGTATTGTATTGCAGTATTTACAGTGTTACTGCTAATTCAGTATTGTATTGCAGTATTTACAGTG
TTACTACCAACTCAGTCGTGTATTGCAGTATTTACAGTATTAATACCAATTC
Found at i:14221116 original size:18 final size:18
Alignment explanation
Indices: 14221095--14221135 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14221085 AGAGAGCAAG
14221095 AAAGAAAAAAATG-ATGAA
1 AAAGAAAAAAA-GAATGAA
*
14221113 AAAGAAAAAGAGAATGAA
1 AAAGAAAAAAAGAATGAA
14221131 AAAGA
1 AAAGA
14221136 GTGTGAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAGAAAAAAAGAATGAA
Found at i:14224730 original size:30 final size:30
Alignment explanation
Indices: 14224691--14224765 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
14224681 CATTTAACAC
14224691 AACAATCACTCAACTT-T-GAAAATGTGACAA
1 AACAATCACT-AACTTATCGAAAA-GTGACAA
*
14224721 AACAGTCACTAACGTTATCGAAAAGTGACAA
1 AACAATCACTAAC-TTATCGAAAAGTGACAA
14224752 AACAATCACTAACT
1 AACAATCACTAACT
14224766 CAACACCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
29 3 0.08
30 12 0.30
31 20 0.50
32 5 0.12
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (30 bp):
AACAATCACTAACTTATCGAAAAGTGACAA
Found at i:14225853 original size:30 final size:30
Alignment explanation
Indices: 14225782--14225853 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
14225772 GAGGGGGTTG
*
14225782 AGTTAGTGACTATTTTCTCACTTTTCGATA
1 AGTTAGTGACTATTTTCTCACTTTACGATA
*
14225812 ACGTTAGTGACTATTTTTTCACATTTAC-A-A
1 A-GTTAGTGACTATTTTCTCAC-TTTACGATA
14225842 AGTTGAGTGACT
1 AGTT-AGTGACT
14225854 GTTGTGTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 3 0.08
30 10 0.27
31 20 0.54
32 4 0.11
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (30 bp):
AGTTAGTGACTATTTTCTCACTTTACGATA
Found at i:14230172 original size:43 final size:43
Alignment explanation
Indices: 14230106--14230241 Score: 166
Period size: 43 Copynumber: 3.2 Consensus size: 43
14230096 GCGGAAAAAT
*
14230106 GCCGCTATAGAACATGATATTTAGCGGTGCTTTTCCTACAAAC
1 GCCGCTATAGAACATGATATTTAGCGGCGCTTTTCCTACAAAC
* * * *
14230149 GCTGCTATAGTACATGATTTTTAGCGGCGCTTTTTCTACAAAC
1 GCCGCTATAGAACATGATATTTAGCGGCGCTTTTCCTACAAAC
* * * * *
14230192 GCCGCTATAGAACATGGTCTTTAGCGGC-ATTTTCCCCACAAAT
1 GCCGCTATAGAACATGATATTTAGCGGCGCTTTT-CCTACAAAC
14230235 GCCGCTA
1 GCCGCTA
14230242 ACATTAATAG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.05
43 75 0.95
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
GCCGCTATAGAACATGATATTTAGCGGCGCTTTTCCTACAAAC
Found at i:14235868 original size:21 final size:20
Alignment explanation
Indices: 14235840--14235878 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14235830 ATAAAAATTC
*
14235840 AAAATTCAAAAAATATTATA
1 AAAATTCAAAAAAAATTATA
14235860 AAAAGTTCAAAAAAAATTA
1 AAAA-TTCAAAAAAAATTA
14235879 GCATGGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATTCAAAAAAAATTATA
Found at i:14236568 original size:41 final size:41
Alignment explanation
Indices: 14236523--14236679 Score: 219
Period size: 41 Copynumber: 3.8 Consensus size: 41
14236513 GCGTTTTTCC
14236523 CATAAACGTCGCTAATGCTCTTACCTTTTGCGGCGTTTTGT
1 CATAAACGTCGCTAATGCTCTTACCTTTTGCGGCGTTTTGT
* * *
14236564 CATAAACCTCGCTAATGCTATTATCTTTTGCGGCGTTTTGT
1 CATAAACGTCGCTAATGCTCTTACCTTTTGCGGCGTTTTGT
* *
14236605 CATAAACGCCGCTAATGCTCTTACCTTTTGCGACGTTTT-T
1 CATAAACGTCGCTAATGCTCTTACCTTTTGCGGCGTTTTGT
* *
14236645 CCCATAAATGTCGCTATTGCT-TTACCTTTTGCGGC
1 --CATAAACGTCGCTAATGCTCTTACCTTTTGCGGC
14236680 ATTTATGGGA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 85 0.83
42 16 0.16
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (41 bp):
CATAAACGTCGCTAATGCTCTTACCTTTTGCGGCGTTTTGT
Found at i:14236628 original size:82 final size:82
Alignment explanation
Indices: 14236523--14236716 Score: 234
Period size: 82 Copynumber: 2.4 Consensus size: 82
14236513 GCGTTTTTCC
* *
14236523 CATAAACGTCGCTAATGCTCTTACCTTTTGCGGCGTTTTGT-CATAAACCTCGCTAATGCTATTA
1 CATAAACGCCGCTAATGCTCTTACCTTTTGCGACGTTTT-TCCATAAACCTCGCTAATGCT-TTA
* * *
14236587 TCTTTTGCGGCGTTT-TGT
64 CCTTTTGCGGCATTTATGG
** *
14236605 CATAAACGCCGCTAATGCTCTTACCTTTTGCGACGTTTTTCCCATAAATGTCGCTATTGCTTTAC
1 CATAAACGCCGCTAATGCTCTTACCTTTTGCGACGTTTTT-CCATAAACCTCGCTAATGCTTTAC
14236670 CTTTTGCGGCATTTATGG
65 CTTTTGCGGCATTTATGG
* * *
14236688 GA-AAACCCCGCTATTGCT-TTACCTTTTGC
1 CATAAACGCCGCTAATGCTCTTACCTTTTGC
14236717 AAAGTTTATG
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
81 12 0.12
82 67 0.68
83 19 0.19
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (82 bp):
CATAAACGCCGCTAATGCTCTTACCTTTTGCGACGTTTTTCCATAAACCTCGCTAATGCTTTACC
TTTTGCGGCATTTATGG
Found at i:14236707 original size:40 final size:39
Alignment explanation
Indices: 14236526--14236799 Score: 169
Period size: 41 Copynumber: 6.8 Consensus size: 39
14236516 TTTTTCCCAT
* * * *
14236526 AAACGTCGCTAATGCTCTTACCTTTTGCGGCGTTT-TGTCAT
1 AAACGCCGCTATTGCT-TTACCTTTTGCGGCATTTATG--AA
* * * *
14236567 AAAC-CTCGCTAATGCTATTATCTTTTGCGGCGTTT-TGTCAT
1 AAACGC-CGCTATTGCT-TTACCTTTTGCGGCATTTATG--AA
* * * * * *
14236608 AAACGCCGCTAATGCTCTTACCTTTTGCGACGTTTTTCCCAT
1 AAACGCCGCTATTGCT-TTACCTTTTGCGGCATTTAT--GAA
* * *
14236650 AAATGTCGCTATTGCTTTACCTTTTGCGGCATTTATGGGA
1 AAACGCCGCTATTGCTTTACCTTTTGCGGCATTTAT-GAA
* **
14236690 AAACCCCGCTATTGCTTTACCTTTTGC-AAAGTTTATGAA
1 AAACGCCGCTATTGCTTTACCTTTTGCGGCA-TTTATGAA
* ** *
14236729 ACAACGCCGCTATTGCTTTATCTTTTGCGGTGTTTATAAAA
1 A-AACGCCGCTATTGCTTTACCTTTTGCGGCATTTAT-GAA
*
14236770 AAACGCCGCTATTGCTTTACTTTTTGCGGC
1 AAACGCCGCTATTGCTTTACCTTTTGCGGC
14236800 GTTTTCGTTC
Statistics
Matches: 192, Mismatches: 32, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
39 4 0.02
40 84 0.44
41 87 0.45
42 17 0.09
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (39 bp):
AAACGCCGCTATTGCTTTACCTTTTGCGGCATTTATGAA
Found at i:14244611 original size:25 final size:25
Alignment explanation
Indices: 14244583--14244644 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
14244573 GAACATAACT
** *
14244583 TATCATATCATAATGTATCGGATCA
1 TATCATATCATAACATATCAGATCA
* *
14244608 TATCATATAATAACATATTAGATCA
1 TATCATATCATAACATATCAGATCA
*
14244633 TATCATGTCATA
1 TATCATATCATA
14244645 TTAGATCATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
TATCATATCATAACATATCAGATCA
Found at i:14244612 original size:5 final size:5
Alignment explanation
Indices: 14244604--14244660 Score: 51
Period size: 5 Copynumber: 11.4 Consensus size: 5
14244594 AATGTATCGG
* * * * * * *
14244604 ATCAT ATCAT ATAAT AACAT ATTAG ATCAT ATCAT GTCAT ATTAG ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT
14244654 ATCAT AT
1 ATCAT AT
14244661 AATGCCCTAC
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (5 bp):
ATCAT
Found at i:14244632 original size:20 final size:20
Alignment explanation
Indices: 14244609--14244655 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14244599 ATCGGATCAT
14244609 ATCATATAATAACATATTAG
1 ATCATATAATAACATATTAG
* **
14244629 ATCATATCATGTCATATTAG
1 ATCATATAATAACATATTAG
14244649 ATCATAT
1 ATCATAT
14244656 CATATAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (20 bp):
ATCATATAATAACATATTAG
Found at i:14244656 original size:20 final size:20
Alignment explanation
Indices: 14244621--14244658 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14244611 CATATAATAA
14244621 CATATTAGATCATATCATGT
1 CATATTAGATCATATCATGT
14244641 CATATTAGATCATATCAT
1 CATATTAGATCATATCAT
14244659 ATAATGCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (20 bp):
CATATTAGATCATATCATGT
Found at i:14245386 original size:36 final size:36
Alignment explanation
Indices: 14245320--14245388 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
14245310 CTGTGTGGTC
* *
14245320 CACACGGGCTATAAGATCACACACGATCGTGTGCCT
1 CACACGGGCTATAAAATCACAAACGATCGTGTGCCT
* *
14245356 CACACGGGCTATAAAATCACAAATGGTCGTGTG
1 CACACGGGCTATAAAATCACAAACGATCGTGTG
14245389 GTGCACACGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (36 bp):
CACACGGGCTATAAAATCACAAACGATCGTGTGCCT
Found at i:14245396 original size:36 final size:35
Alignment explanation
Indices: 14245312--14245397 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 35
14245302 AAGCTAGTCT
* *
14245312 GTGTGGTCCACACGGGCTATAAGATCACACACGATC
1 GTGTGGT-CACACGGGCTATAAAATCACAAACGATC
* * *
14245348 GTGTGCCTCACACGGGCTATAAAATCACAAATGGTC
1 GTGTG-GTCACACGGGCTATAAAATCACAAACGATC
14245384 GTGTGGTGCACACG
1 GTGTGGT-CACACG
14245398 ATCTACCACA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 1 0.02
36 40 0.95
37 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.21
Consensus pattern (35 bp):
GTGTGGTCACACGGGCTATAAAATCACAAACGATC
Found at i:14257162 original size:21 final size:21
Alignment explanation
Indices: 14257138--14257182 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14257128 ACATGTTTTC
14257138 TTACTCATGATTCTTTTATTT
1 TTACTCATGATTCTTTTATTT
** *
14257159 TTACTCATTTTTCTTTTCTTT
1 TTACTCATGATTCTTTTATTT
14257180 TTA
1 TTA
14257183 ATTTATCTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.67
Consensus pattern (21 bp):
TTACTCATGATTCTTTTATTT
Found at i:14270091 original size:44 final size:44
Alignment explanation
Indices: 14269942--14270290 Score: 410
Period size: 42 Copynumber: 8.1 Consensus size: 44
14269932 TAGAATGGAG
** *
14269942 TGAAGTTACACCATCCAATCTTTTAAACCATCAAGAGGGCAGAT
1 TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
* * * *
14269986 TGAAGCT--ACCATCCAAACTTTTACCCCATCCAAAGGGCAAAT
1 TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
* * * * *
14270028 TGAAG--CCGCCATCCAATCTTTTACCCTATCCGGAGGACAGAT
1 TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
* *
14270070 TTAAGTTACACCATCCGATCTTTTACCCCATCCAGAGGGCAGAT
1 TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
* * * *
14270114 TGAAG--CCACCATCCAATCTTTTACCCCGTCTAGATGGCAGAT
1 TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
14270156 TGAAGTTACACCATCCAATCTTTTACCCCA-CCTAGAGGGCAGAT
1 TGAAGTTACACCATCCAATCTTTTACCCCATCC-AGAGGGCAGAT
14270200 TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
1 TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
* * * * **
14270244 GGAAG--CCACCATCCAATTTTTTACCCCATCTAGATAGCAGAT
1 TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
14270286 TGAAG
1 TGAAG
14270291 CCACACACAA
Statistics
Matches: 259, Mismatches: 38, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
42 139 0.54
43 1 0.00
44 117 0.45
45 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (44 bp):
TGAAGTTACACCATCCAATCTTTTACCCCATCCAGAGGGCAGAT
Found at i:14270097 original size:86 final size:85
Alignment explanation
Indices: 14269950--14270294 Score: 403
Period size: 86 Copynumber: 4.0 Consensus size: 85
14269940 AGTGAAGTTA
** * * *
14269950 CACCATCCAATCTTTTAAACCATCAAGAGGGCAGATTGAAGCT--ACCATCCAAACTTTTACCCC
1 CACCATCCAATCTTTTACCCCATCCAGA-GGCAGATTGAAGTTACACCATCCAATCTTTTACCCC
* *
14270013 ATCCAAAGGGCAAATTGAAGC
65 ATCCAGAGGGCAGATTGAAGC
* * * * *
14270034 CGCCATCCAATCTTTTACCCTATCCGGAGGACAGATTTAAGTTACACCATCCGATCTTTTACCCC
1 CACCATCCAATCTTTTACCCCATCCAGAGG-CAGATTGAAGTTACACCATCCAATCTTTTACCCC
14270099 ATCCAGAGGGCAGATTGAAGC
65 ATCCAGAGGGCAGATTGAAGC
* *
14270120 CACCATCCAATCTTTTACCCCGTCTAGATGGCAGATTGAAGTTACACCATCCAATCTTTTACCCC
1 CACCATCCAATCTTTTACCCCATCCAGA-GGCAGATTGAAGTTACACCATCCAATCTTTTACCCC
*
14270185 A-CCTAGAGGGCAGATTGAAGTTA
65 ATCC-AGAGGGCAGATTGAAG--C
* * *
14270208 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATGGAAG--CCACCATCCAATTTTTTACCCC
1 CACCATCCAATCTTTTACCCCATCCAGA-GGCAGATTGAAGTTACACCATCCAATCTTTTACCCC
* **
14270271 ATCTAGATAGCAGATTGAAGC
65 ATCCAGAGGGCAGATTGAAGC
14270292 CAC
1 CAC
14270295 ACACAAATCT
Statistics
Matches: 223, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
83 2 0.01
84 35 0.16
85 2 0.01
86 144 0.65
87 3 0.01
88 37 0.17
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (85 bp):
CACCATCCAATCTTTTACCCCATCCAGAGGCAGATTGAAGTTACACCATCCAATCTTTTACCCCA
TCCAGAGGGCAGATTGAAGC
Found at i:14278529 original size:16 final size:17
Alignment explanation
Indices: 14278495--14278537 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
14278485 TTGGATTAAG
* *
14278495 AAAA-TAATTTAATTGA
1 AAAATTAATTTAACTAA
14278511 AAAATTAATTTAACTAA
1 AAAATTAATTTAACTAA
14278528 AAAATTAATT
1 AAAATTAATT
14278538 AATATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
AAAATTAATTTAACTAA
Found at i:14280037 original size:15 final size:15
Alignment explanation
Indices: 14280017--14280051 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14280007 AAAAATATAA
14280017 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
* *
14280032 AAAAATTATAATATT
1 AAAAATTAAAAAATT
14280047 AAAAA
1 AAAAA
14280052 ATAACAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:14280060 original size:16 final size:15
Alignment explanation
Indices: 14280008--14280060 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
14279998 AAATATCATA
*
14280008 AAAATATAAAAAAATT
1 AAAATATTAAAAAA-T
* *
14280024 AAAAAATTAAAAATT
1 AAAATATTAAAAAAT
*
14280039 ATAATATTAAAAAAT
1 AAAATATTAAAAAAT
14280054 AACAATA
1 AA-AATA
14280061 CCAACATATT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 14 0.48
16 15 0.52
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATATTAAAAAAT
Found at i:14280612 original size:30 final size:31
Alignment explanation
Indices: 14280543--14280618 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
14280533 ATTTTACTAA
* *
14280543 TTTAATTTTATCATTTCAAACTTGGCACTTTT
1 TTTAATTTAAT-ATTTCAAACTTGACACTTTT
* * *
14280575 TTCTAATTTGATATTT-GAACTTGACTCTTTT
1 TT-TAATTTAATATTTCAAACTTGACACTTTT
14280606 TTTAATTTAATAT
1 TTTAATTTAATAT
14280619 CTAATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 10 0.26
31 14 0.37
32 6 0.16
33 8 0.21
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.55
Consensus pattern (31 bp):
TTTAATTTAATATTTCAAACTTGACACTTTT
Found at i:14280829 original size:30 final size:30
Alignment explanation
Indices: 14280795--14280896 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 30
14280785 AAAAAAGCTT
14280795 AGATACCAAATTAGGAAAAATGTCAAGTTC
1 AGATACCAAATTAGGAAAAATGTCAAGTTC
* ** *
14280825 AGATATCAAATTA-GATACAAA--AAAAGTTT
1 AGATACCAAATTAGGA-A-AAATGTCAAGTTC
*
14280854 AGGTACCCAAATTAGGAAAAAGTGTCAAGTTC
1 AGATA-CCAAATTAGGAAAAA-TGTCAAGTTC
14280886 A-AGTACCAAAT
1 AGA-TACCAAAT
14280897 CAGGTCAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
29 14 0.26
30 21 0.39
31 11 0.20
32 8 0.15
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.24
Consensus pattern (30 bp):
AGATACCAAATTAGGAAAAATGTCAAGTTC
Found at i:14280906 original size:60 final size:59
Alignment explanation
Indices: 14280784--14280925 Score: 175
Period size: 60 Copynumber: 2.4 Consensus size: 59
14280774 ATTGAATCTA
* * * *
14280784 AAAAAAAGCTTAGATACCAAATTAGGAAAAATGTCAAGTTCAGATATCAAATTAGATAC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAATGTCAAGTTCAGATACCAAATCAGATAC
*
14280843 AAAAAAAGTTTAGGTACCCAAATTAGGAAAAAGTGTCAAGTTCA-AGTACCAAATCAGGT-C
1 AAAAAAAGTTTAGGTA-CCAAATTAGGAAAAA-TGTCAAGTTCAGA-TACCAAATCAGATAC
14280903 AAAAAAA-TTT-GGATACCAAATTA
1 AAAAAAAGTTTAGG-TACCAAATTA
14280926 AAAAAAAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
58 10 0.14
59 19 0.26
60 24 0.32
61 21 0.28
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (59 bp):
AAAAAAAGTTTAGGTACCAAATTAGGAAAAATGTCAAGTTCAGATACCAAATCAGATAC
Found at i:14285221 original size:23 final size:23
Alignment explanation
Indices: 14285188--14285252 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
14285178 ACAAAGTACT
* *
14285188 GAGCACACAAAGTGCTAATTAGA
1 GAGCACACAAAGTGCTAATCACA
14285211 GAGCA-AGCAAAGTGCTAATCACA
1 GAGCACA-CAAAGTGCTAATCACA
14285234 GAGCACACAAAGTGCTAAT
1 GAGCACACAAAGTGCTAAT
14285253 AATGGAGAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.03
23 36 0.95
24 1 0.03
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (23 bp):
GAGCACACAAAGTGCTAATCACA
Found at i:14285222 original size:39 final size:39
Alignment explanation
Indices: 14285149--14285223 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
14285139 GGGCAACGGA
* *
14285149 GAGCACACACAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
**
14285188 GAGCACACAAAGTGCTAATTAGAGAGCA-AGCAAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACA-CAAAGT
14285224 GCTAATCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 30 0.97
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:14285297 original size:23 final size:23
Alignment explanation
Indices: 14285189--14285300 Score: 72
Period size: 23 Copynumber: 4.8 Consensus size: 23
14285179 CAAAGTACTG
* * *
14285189 AGCACACAAAGTGCTAATTAGAG
1 AGCACACAAAGTGCTAAATGGAA
*
14285212 AGCA-AGCAAAGTGCT-AAT-CACA
1 AGCACA-CAAAGTGCTAAATGGA-A
*
14285234 GAGCACACAAAGTGCTAATAATGGAG
1 -AGCACACAAAGTGCT-A-AATGGAA
14285260 AGCACA-AGACA-TGCTAAATGGAA
1 AGCACACA-A-AGTGCTAAATGGAA
*
14285283 AGCACACATAGTGCTAAA
1 AGCACACAAAGTGCTAAA
14285301 CAGAGAGCGT
Statistics
Matches: 70, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
21 1 0.01
22 4 0.06
23 45 0.64
24 4 0.06
25 11 0.16
26 4 0.06
27 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (23 bp):
AGCACACAAAGTGCTAAATGGAA
Found at i:14290674 original size:13 final size:13
Alignment explanation
Indices: 14290656--14290680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14290646 ATAAACTATA
14290656 ATATACATACATG
1 ATATACATACATG
14290669 ATATACATACAT
1 ATATACATACAT
14290681 ATTTTAGTAT
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:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:14290783 original size:9 final size:9
Alignment explanation
Indices: 14290742--14290928 Score: 129
Period size: 9 Copynumber: 20.9 Consensus size: 9
14290732 ATAGTCATAC
14290742 ACATAACAAT
1 ACATAAC-AT
*
14290752 AACATAACAA
1 -ACATAACAT
14290762 ACAT-ACAT
1 ACATAACAT
* *
14290770 TCATAATAT
1 ACATAACAT
*
14290779 ACATAATAGT
1 ACATAACA-T
14290789 ACATAACATT
1 ACATAACA-T
14290799 ACAT-ACAT
1 ACATAACAT
*
14290807 ACA-AATAT
1 ACATAACAT
14290815 ACA-AACAT
1 ACATAACAT
*
14290823 AACGGT-A-A-
1 -AC-ATAACAT
*
14290831 ACATAGCAT
1 ACATAACAT
*
14290840 ACATAATAT
1 ACATAACAT
*
14290849 GCATAACAT
1 ACATAACAT
14290858 ACATAACAT
1 ACATAACAT
** *
14290867 A-ATAGTAA
1 ACATAACAT
14290875 ACATAACAT
1 ACATAACAT
*
14290884 ACATAATAT
1 ACATAACAT
14290893 ACATAACAGT
1 ACATAACA-T
14290903 ACATAACAT
1 ACATAACAT
*
14290912 ACATAATAT
1 ACATAACAT
14290921 ACATAACA
1 ACATAACA
14290929 ATTTAAAAAC
Statistics
Matches: 138, Mismatches: 27, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
6 1 0.01
7 2 0.01
8 26 0.19
9 78 0.57
10 24 0.17
11 7 0.05
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.24
Consensus pattern (9 bp):
ACATAACAT
Found at i:14290783 original size:37 final size:37
Alignment explanation
Indices: 14290742--14290930 Score: 148
Period size: 37 Copynumber: 5.3 Consensus size: 37
14290732 ATAGTCATAC
*
14290742 ACATAACAATAACATAACA-AACATACATTCATAATAT
1 ACATAACAAT-ACATAACATAACATACATACATAATAT
* * *
14290779 ACATAATAGTACATAACATTACATACATACA-AATAT
1 ACATAACAATACATAACATAACATACATACATAATAT
****
14290815 ACA-AAC-ATA-ACGGTA-AACATAGCATACATAATAT
1 ACATAACAATACATAACATAACATA-CATACATAATAT
* * *
14290849 GCATAAC-ATACATAACATAATAGTA-A-ACATAACAT
1 ACATAACAATACATAACATAACA-TACATACATAATAT
*
14290884 ACATAA-TATACATAACAGT-ACATAACATACATAATAT
1 ACATAACAATACATAACA-TAACAT-ACATACATAATAT
14290921 ACATAACAAT
1 ACATAACAAT
14290931 TTAAAAACTT
Statistics
Matches: 117, Mismatches: 22, Indels: 25
0.71 0.13 0.15
Matches are distributed among these distances:
32 5 0.04
33 8 0.07
34 10 0.09
35 34 0.29
36 21 0.18
37 35 0.30
38 4 0.03
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.24
Consensus pattern (37 bp):
ACATAACAATACATAACATAACATACATACATAATAT
Found at i:14290793 original size:10 final size:9
Alignment explanation
Indices: 14290691--14290926 Score: 99
Period size: 9 Copynumber: 26.0 Consensus size: 9
14290681 ATTTTAGTAT
14290691 TATACATAA
1 TATACATAA
* *
14290700 CATACAAAA
1 TATACATAA
14290709 TATACATACA
1 TATACATA-A
*
14290719 TAAACATTAA
1 TATACA-TAA
* * *
14290729 TAAATAGTCA
1 TATACA-TAA
*
14290739 TACACATAA
1 TATACATAA
*
14290748 CAATAACATAA
1 -TAT-ACATAA
* *
14290759 CAAACATACA
1 TATACATA-A
14290769 T-T-CATAA
1 TATACATAA
14290776 TATACATAA
1 TATACATAA
14290785 TAGTACATAA
1 TA-TACATAA
*
14290795 CATTACAT-A
1 TA-TACATAA
*
14290804 CATACA-AA
1 TATACATAA
14290812 TATACA-AA
1 TATACATAA
* ***
14290820 CATA-ACGG
1 TATACATAA
* *
14290828 TAAACATAG
1 TATACATAA
*
14290837 CATACATAA
1 TATACATAA
*
14290846 TATGCATAA
1 TATACATAA
*
14290855 CATACATAA
1 TATACATAA
* *
14290864 CATA-ATAG
1 TATACATAA
*
14290872 TAAACATAA
1 TATACATAA
*
14290881 CATACATAA
1 TATACATAA
14290890 TATACATAA
1 TATACATAA
*
14290899 CAGTACATAA
1 TA-TACATAA
*
14290909 CATACATAA
1 TATACATAA
14290918 TATACATAA
1 TATACATAA
14290927 CAATTTAAAA
Statistics
Matches: 171, Mismatches: 43, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
7 3 0.02
8 27 0.16
9 90 0.53
10 43 0.25
11 8 0.05
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.25
Consensus pattern (9 bp):
TATACATAA
Found at i:14290867 original size:44 final size:44
Alignment explanation
Indices: 14290789--14290912 Score: 155
Period size: 44 Copynumber: 2.8 Consensus size: 44
14290779 ACATAATAGT
* * *
14290789 ACATAACATTACAT-ACATACA-AATATACA-AACATAACGGTAA
1 ACATAACA-TACATAATATACATAACATACATAACATAACAGTAA
* * *
14290831 ACATAGCATACATAATATGCATAACATACATAACATAATAGTAA
1 ACATAACATACATAATATACATAACATACATAACATAACAGTAA
14290875 ACATAACATACATAATATACATAACAGTACATAACATA
1 ACATAACATACATAATATACATAACA-TACATAACATA
14290913 CATAATATAC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 5 0.07
42 12 0.17
43 7 0.10
44 35 0.50
45 11 0.16
ACGTcount: A:0.54, C:0.18, G:0.05, T:0.23
Consensus pattern (44 bp):
ACATAACATACATAATATACATAACATACATAACATAACAGTAA
Found at i:14292716 original size:30 final size:31
Alignment explanation
Indices: 14292682--14292752 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
14292672 CATTTAACAC
14292682 AACAGTCACTCAA-CTT-T-GAAAATGTGACAA
1 AACAGTCACT-AATCTTATCGAAAA-GTGACAA
* *
14292712 AACAGTCACTAATGTTATCGAAAAGTGGCAA
1 AACAGTCACTAATCTTATCGAAAAGTGACAA
14292743 AACAGTCACT
1 AACAGTCACT
14292753 GGAATCAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 2 0.06
30 12 0.33
31 17 0.47
32 5 0.14
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (31 bp):
AACAGTCACTAATCTTATCGAAAAGTGACAA
Done.