Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 55 of 141
Found at i:17957770 original size:18 final size:17
Alignment explanation
Indices: 17957744--17957779 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17957734 TTTGGTTATA
17957744 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
17957762 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
17957779 T
1 T
17957780 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:17961403 original size:21 final size:21
Alignment explanation
Indices: 17961362--17961404 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17961352 AATAAAGTAG
*
17961362 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
17961383 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
17961404 A
1 A
17961405 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:17961452 original size:35 final size:33
Alignment explanation
Indices: 17961387--17961462 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 33
17961377 TATAGTATTA
*
17961387 TATATTATGATTTTAGTAAATTCATATAATAAT
1 TATATTAAGATTTTAGTAAATTCATATAATAAT
*
17961420 TATATTAAGAATTTTATTAAATT-ATATTTAATAAT
1 TATATTAAG-ATTTTAGTAAATTCATA--TAATAAT
*
17961455 TATGTTAA
1 TATATTAA
17961463 AATATGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 11 0.30
34 12 0.32
35 14 0.38
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (33 bp):
TATATTAAGATTTTAGTAAATTCATATAATAAT
Found at i:17961462 original size:23 final size:22
Alignment explanation
Indices: 17961417--17961463 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
17961407 TTCATATAAT
*
17961417 AATTATATTAAGAATTTTATTA
1 AATTATATTAAGAATTATATTA
* *
17961439 AATTATATTTAATAATTATGTTA
1 AATTATA-TTAAGAATTATATTA
17961462 AA
1 AA
17961464 ATATGAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
AATTATATTAAGAATTATATTA
Found at i:17961696 original size:16 final size:16
Alignment explanation
Indices: 17961675--17961713 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
17961665 TAAATTACTT
17961675 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
17961691 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
17961707 ATTACAG
1 ATTACAG
17961714 TGAACCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:17983823 original size:69 final size:69
Alignment explanation
Indices: 17983703--17983870 Score: 187
Period size: 69 Copynumber: 2.4 Consensus size: 69
17983693 TTTACTTGCA
* * * *
17983703 AACCTTGATTTTACAGTTGGGAGCTTCGCTCTTACTAACTGCGTTAAAGGTCACGA-CTCTTCGC
1 AACCTTGATTTTACAGTTGGAAGCTTTGCTCTCACTAACTGCATTAAAGGTCAC-ACCTCTTCGC
17983767 CTGTG
65 CTGTG
* * * ** * * *
17983772 AACCTTGCTTTTATAGTTGGAAGCTTTGCTCTCACTAACTGTATTGGAGGTCGCACCTCTTTGCT
1 AACCTTGATTTTACAGTTGGAAGCTTTGCTCTCACTAACTGCATTAAAGGTCACACCTCTTCGCC
17983837 TGTG
66 TGTG
*
17983841 AACCTTGATTTTACAGCT-GAGAGCTTTGCT
1 AACCTTGATTTTACAGTTGGA-AGCTTTGCT
17983871 TGCGCTAATT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
68 3 0.04
69 79 0.96
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (69 bp):
AACCTTGATTTTACAGTTGGAAGCTTTGCTCTCACTAACTGCATTAAAGGTCACACCTCTTCGCC
TGTG
Found at i:17986033 original size:21 final size:21
Alignment explanation
Indices: 17986009--17986048 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17985999 AGCATTCTAC
17986009 CATGAACTTCATCTATTCCCT
1 CATGAACTTCATCTATTCCCT
*
17986030 CATGAACTTCATCTGTTCC
1 CATGAACTTCATCTATTCC
17986049 TGGAGGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.38
Consensus pattern (21 bp):
CATGAACTTCATCTATTCCCT
Found at i:17986507 original size:40 final size:40
Alignment explanation
Indices: 17986452--17986547 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
17986442 AGCGTTAGCG
* * *
17986452 GCGTTTTTCCTATAAACACCGTAAAAGGTAAAGAAATA-AT
1 GCGTTTTTGC-ATAAACACCGTAAAAGGGAAAGAAACAGAT
* * *
17986492 GACGTTTTTGCATAAACTCCGTAAAAGGGAAAGCAACAGCT
1 G-CGTTTTTGCATAAACACCGTAAAAGGGAAAGAAACAGAT
17986533 GCGTTTTTGCATAAA
1 GCGTTTTTGCATAAA
17986548 TGCCGCAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 38 0.79
41 10 0.21
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (40 bp):
GCGTTTTTGCATAAACACCGTAAAAGGGAAAGAAACAGAT
Found at i:17989760 original size:66 final size:66
Alignment explanation
Indices: 17989649--17989792 Score: 193
Period size: 66 Copynumber: 2.2 Consensus size: 66
17989639 GCAAATCGCT
** * * *
17989649 CAACTTAAAGCGGATGCAGCATCGAGAGAAGCAGTGGCTAAAAGAAAATATGATGAACTCCAGCT
1 CAACTTAAAATGGAGGCAGCATCGAGAGAAGCAGAGGCTAAAAGAAAATATGACGAACTCCAGCT
17989714 A
66 A
*
17989715 CAACTTAAAATGGAGGCAGCAGT-GAGGGAAGCAGAGGC-AACAAGAAAATATGACGAACTCCAG
1 CAACTTAAAATGGAGGCAGCA-TCGAGAGAAGCAGAGGCTAA-AAGAAAATATGACGAACTCCAG
17989778 CTA
64 CTA
17989781 CAACTTCAAAAT
1 CAACTT-AAAAT
17989793 ATGATAGAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
65 2 0.03
66 61 0.88
67 6 0.09
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (66 bp):
CAACTTAAAATGGAGGCAGCATCGAGAGAAGCAGAGGCTAAAAGAAAATATGACGAACTCCAGCT
A
Found at i:17990158 original size:44 final size:44
Alignment explanation
Indices: 17990068--17990164 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
17990058 GCGTTTTCCC
* *
17990068 ACAAACGCCGCTATAGAACATGATCTTTAGCAACACTTTTTACT
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCAACACTTTCTACT
* * * *
17990112 ACAAACGCCGCTAAAGAATATGATCTTTTGCAGCGC-TTCTAGCT
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCAACACTTTCTA-CT
17990156 ACAAACGCC
1 ACAAACGCC
17990165 ACAACATGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 4 0.09
44 42 0.91
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGAACATGATCTTTAGCAACACTTTCTACT
Found at i:17992368 original size:13 final size:13
Alignment explanation
Indices: 17992344--17992382 Score: 62
Period size: 12 Copynumber: 3.0 Consensus size: 13
17992334 CTCTCTCAAC
17992344 AAAAATTACAAAAA
1 AAAAATT-CAAAAA
17992358 AAAAATTC-AAAA
1 AAAAATTCAAAAA
17992370 AAAAATTCAAAAA
1 AAAAATTCAAAAA
17992383 TTCAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.50
13 5 0.21
14 7 0.29
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATTCAAAAA
Found at i:17994404 original size:9 final size:9
Alignment explanation
Indices: 17994387--17994417 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17994377 TCGAGTTGAT
17994387 TCGAATAAC
1 TCGAATAAC
*
17994396 TCGATTAAC
1 TCGAATAAC
17994405 TCGAATAAC
1 TCGAATAAC
17994414 TCGA
1 TCGA
17994418 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:18005291 original size:15 final size:15
Alignment explanation
Indices: 18005273--18005305 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18005263 TTTTATTTTA
*
18005273 TAAATTATTATAAGG
1 TAAACTATTATAAGG
18005288 TAAACTATTATAAGG
1 TAAACTATTATAAGG
18005303 TAA
1 TAA
18005306 TTTTGCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (15 bp):
TAAACTATTATAAGG
Found at i:18011047 original size:14 final size:14
Alignment explanation
Indices: 18011028--18011058 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18011018 CCATGAATTT
*
18011028 CAATAATAGTATTG
1 CAATAATAGCATTG
18011042 CAATAATAGCATTG
1 CAATAATAGCATTG
18011056 CAA
1 CAA
18011059 GAAGCCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (14 bp):
CAATAATAGCATTG
Found at i:18046141 original size:19 final size:19
Alignment explanation
Indices: 18046119--18046155 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18046109 ATAAGAGATG
*
18046119 GGAATCAAAAGTAAATATA
1 GGAATCAAAACTAAATATA
18046138 GGAATCAAAACTAAATAT
1 GGAATCAAAACTAAATAT
18046156 GGACAAGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.22
Consensus pattern (19 bp):
GGAATCAAAACTAAATATA
Found at i:18048907 original size:26 final size:26
Alignment explanation
Indices: 18048871--18048922 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18048861 TTAAATCTTA
18048871 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
18048897 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
18048923 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
GTTGAAATCGGGCATGAGAACCTTTT
Found at i:18058857 original size:3 final size:3
Alignment explanation
Indices: 18058849--18058873 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18058839 TAGGGTTTTT
18058849 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
18058874 AACAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18071030 original size:18 final size:18
Alignment explanation
Indices: 18071007--18071041 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18070997 ACTTAGTCAA
*
18071007 TTTTTTCTTTCTCTTAGT
1 TTTTTTCTTTCCCTTAGT
18071025 TTTTTTCTTTCCCTTAG
1 TTTTTTCTTTCCCTTAG
18071042 AGGATGAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.20, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTTTCTTTCCCTTAGT
Found at i:18071707 original size:17 final size:19
Alignment explanation
Indices: 18071682--18071718 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
18071672 AATTACCATC
*
18071682 TTTTTATTA-AGCAA-ATA
1 TTTTCATTATAGCAACATA
18071699 TTTTCATTATAGCAACATA
1 TTTTCATTATAGCAACATA
18071718 T
1 T
18071719 CAAGAATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTCATTATAGCAACATA
Found at i:18072231 original size:29 final size:30
Alignment explanation
Indices: 18072175--18072258 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
18072165 AATTAAATCG
* * *
18072175 TAAATATGAGAAAATTTTTATGGCTTAAG-TG
1 TAAATATG-GAAAA-TTTGATGGGTTAAGCTA
*
18072206 TAAATACT-TAAAATTTGATGGGTTAAGCTA
1 TAAATA-TGGAAAATTTGATGGGTTAAGCTA
*
18072236 TAAATATGGAAAATTTGAAGGGT
1 TAAATATGGAAAATTTGATGGGT
18072259 CAATAGTGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 13 0.30
30 24 0.55
31 6 0.14
32 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (30 bp):
TAAATATGGAAAATTTGATGGGTTAAGCTA
Found at i:18073204 original size:168 final size:168
Alignment explanation
Indices: 18072926--18073247 Score: 590
Period size: 168 Copynumber: 1.9 Consensus size: 168
18072916 TTTGACATGT
*
18072926 TAATGAAGAGGGAAATTGAGAAAGAGATTCAAGTCGTAGGAGAAGAGAAAAGTAAGAGATTTTGA
1 TAATGAAGAGGGAAATTGAGAAAGAGATTCAAGTCGTAGGAGAAGAGAAAAGCAAGAGATTTTGA
* *
18072991 TAGAAAAGAGGTAAGTACCCGTGGAGTTTTTTAATATTTAAGGATTATAATATAACATGTGAAGT
66 TAGAAAAGAGGTAAGTACCCGTGGACTTTTTTAATATTTAAGGATTATAATATAACATGTGAACT
*
18073056 AGGATATTATAATAAAATTATAATGAAGTAGGATATTA
131 AGGATATTATAATAAAAGTATAATGAAGTAGGATATTA
*
18073094 TAATGAAGAGGGAAATTGAGAAAGAGATTCAAGTGGTAGGAGAAGAGAAAAGCAAGAGATTTTGA
1 TAATGAAGAGGGAAATTGAGAAAGAGATTCAAGTCGTAGGAGAAGAGAAAAGCAAGAGATTTTGA
*
18073159 TAGAAAAGAGGTAAGTACCCGTGGACTTTTTTAATATTTAAGGATTATAATTTAACATGTGAACT
66 TAGAAAAGAGGTAAGTACCCGTGGACTTTTTTAATATTTAAGGATTATAATATAACATGTGAACT
18073224 AGGATATTATAATAAAAGTATAAT
131 AGGATATTATAATAAAAGTATAAT
18073248 AGATGTGTTA
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
168 148 1.00
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.28
Consensus pattern (168 bp):
TAATGAAGAGGGAAATTGAGAAAGAGATTCAAGTCGTAGGAGAAGAGAAAAGCAAGAGATTTTGA
TAGAAAAGAGGTAAGTACCCGTGGACTTTTTTAATATTTAAGGATTATAATATAACATGTGAACT
AGGATATTATAATAAAAGTATAATGAAGTAGGATATTA
Found at i:18077097 original size:59 final size:60
Alignment explanation
Indices: 18077002--18077124 Score: 212
Period size: 59 Copynumber: 2.1 Consensus size: 60
18076992 AGCAAAATTC
*
18077002 ACTAAATTAATTAACAAATAGTCGGGATTATAATTATTTTTAAGTAAAAAGGTGGTAAAA
1 ACTAAATTAATTAACAAATACTCGGGATTATAATTATTTTTAAGTAAAAAGGTGGTAAAA
* *
18077062 ACTAAATTAATTAA-AAATTCTCGGGATTATTATTATTTTTAAGTAAAAAGGTGGTAAAA
1 ACTAAATTAATTAACAAATACTCGGGATTATAATTATTTTTAAGTAAAAAGGTGGTAAAA
18077121 ACTA
1 ACTA
18077125 CTAGAAAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 46 0.77
60 14 0.23
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.35
Consensus pattern (60 bp):
ACTAAATTAATTAACAAATACTCGGGATTATAATTATTTTTAAGTAAAAAGGTGGTAAAA
Found at i:18079474 original size:25 final size:25
Alignment explanation
Indices: 18079385--18079512 Score: 118
Period size: 25 Copynumber: 5.1 Consensus size: 25
18079375 TCATTAGGGT
* *
18079385 TACCGATTTATGGCTCGTGAA-AGCA
1 TACCGATTTATAGCTCG-AAAGAGCA
**
18079410 TACCGATTTATAGCTCGTGAGAGCA
1 TACCGATTTATAGCTCGAAAGAGCA
*
18079435 TACCAATTTATAGCTCGAAAGAGCA
1 TACCGATTTATAGCTCGAAAGAGCA
*
18079460 TACCGATCTT-CAGCTC-AAATGAGCA
1 TACCGAT-TTATAGCTCGAAA-GAGCA
* * * *
18079485 TACCGATTCACAGCTCGTATGAGCA
1 TACCGATTTATAGCTCGAAAGAGCA
18079510 TAC
1 TAC
18079513 ATGTACATGA
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
24 5 0.06
25 79 0.91
26 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (25 bp):
TACCGATTTATAGCTCGAAAGAGCA
Found at i:18081521 original size:11 final size:11
Alignment explanation
Indices: 18081505--18081575 Score: 89
Period size: 11 Copynumber: 6.9 Consensus size: 11
18081495 TAAAAAAATT
18081505 TATTTTAAAAA
1 TATTTTAAAAA
18081516 TATTTT--AAA
1 TATTTTAAAAA
18081525 -A--TTAAAAA
1 TATTTTAAAAA
* *
18081533 AATTTTAAAAG
1 TATTTTAAAAA
18081544 TATTTTAAAAA
1 TATTTTAAAAA
18081555 TATTTTAAAAA
1 TATTTTAAAAA
18081566 TATTTTAAAA
1 TATTTTAAAA
18081576 TTAAAAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
6 2 0.04
8 4 0.08
9 4 0.08
11 42 0.81
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:18081580 original size:39 final size:38
Alignment explanation
Indices: 18081467--18081624 Score: 117
Period size: 39 Copynumber: 4.0 Consensus size: 38
18081457 ATAAATACCA
**
18081467 AAAAATATTTTAAAAATTAAAACAAAAATAAAAAAATTTATTTT
1 AAAAATATTTTAAAAATT--AA-AAAAAT-TTAAAA--TATTTT
18081511 AAAAATATTTT-AAAATTAAAAAAATTTTAAAAGTATTTT
1 AAAAATATTTTAAAAATTAAAAAAA-TTTAAAA-TATTTT
*** * *
18081550 AAAAATATTTTAAAAATATTTTAAAA-TTAAAAAATTTAA
1 AAAAATATTTTAAAAAT-TAAAAAAATTTAAAATATTT-T
*
18081589 AAAAAGTATTTT-AAAATTAAAAAAA-TAAAAATATTT
1 AAAAA-TATTTTAAAAATTAAAAAAATTTAAAATATTT
18081625 ATTATATTCG
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
38 18 0.19
39 33 0.34
40 20 0.21
41 8 0.08
43 6 0.06
44 11 0.11
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (38 bp):
AAAAATATTTTAAAAATTAAAAAAATTTAAAATATTTT
Found at i:18081585 original size:8 final size:9
Alignment explanation
Indices: 18081508--18081592 Score: 50
Period size: 9 Copynumber: 9.0 Consensus size: 9
18081498 AAAAATTTAT
18081508 TTTAAAAATA
1 TTTAAAAA-A
*
18081518 TTT-TAAAA
1 TTTAAAAAA
*
18081526 TTAAAAAAA
1 TTTAAAAAA
*
18081535 TTTTAAAAGTAT
1 -TTTAAAA--AA
18081547 TTTAAAAATA
1 TTTAAAAA-A
18081557 TTTTAAAAATA
1 -TTTAAAAA-A
*
18081568 TTT-TAAAA
1 TTTAAAAAA
18081576 -TTAAAAAA
1 TTTAAAAAA
18081584 TTTAAAAAA
1 TTTAAAAAA
18081593 AGTATTTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
7 2 0.03
8 8 0.14
9 19 0.32
10 12 0.20
11 17 0.29
12 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:18081605 original size:50 final size:50
Alignment explanation
Indices: 18081505--18081604 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
18081495 TAAAAAAATT
*
18081505 TATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAGTATTTTAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATTTTAAAAA
18081555 TATTTTAAAAATATTTTAAAATT-AAAAAATTTAAAAAAAGTATTTTAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAATTT--AAAAAGTATTTTAAAA
18081605 TTAAAAAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
49 9 0.19
50 23 0.49
51 15 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (50 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATTTTAAAAA
Found at i:18081617 original size:28 final size:28
Alignment explanation
Indices: 18081466--18081619 Score: 98
Period size: 29 Copynumber: 5.1 Consensus size: 28
18081456 AATAAATACC
*
18081466 AAAAAATATTTTAAAAATTAAAACAAAAATA
1 AAAAAATATTTT-AAAATT-AAA-AAATATA
**
18081497 AAAAAATTTATTTTAAAAATATTTTAAAAT-TA
1 AAAAAA--TATTTT--AAA-ATTAAAAAATATA
* * *
18081529 AAAAAAT-TTTAAAAGTATTTTAAAAATATTT
1 AAAAAATATTTTAAA--A-TTAAAAAATA-TA
* *
18081560 TAAAAATATTTTAAAATTAAAAAATTTA
1 AAAAAATATTTTAAAATTAAAAAATATA
18081588 AAAAAAGTATTTTAAAATTAAAAAA-ATA
1 AAAAAA-TATTTTAAAATTAAAAAATATA
18081616 AAAA
1 AAAA
18081620 TATTTATTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 23
0.74 0.10 0.17
Matches are distributed among these distances:
27 3 0.03
28 14 0.14
29 37 0.37
30 2 0.02
31 13 0.13
32 14 0.14
33 9 0.09
34 5 0.05
35 3 0.03
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAAAATATTTTAAAATTAAAAAATATA
Found at i:18088531 original size:26 final size:26
Alignment explanation
Indices: 18088502--18088560 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
18088492 TACCCCCAGC
* *
18088502 AAAATTTTGATAATTTTATCCT-TGGT
1 AAAATTTTGACAATTTT-GCCTCTGGT
*
18088528 AAAATTTTGACGATTTTGCCTCTGGT
1 AAAATTTTGACAATTTTGCCTCTGGT
18088554 AAAATTT
1 AAAATTT
18088561 CGAGAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.46
Consensus pattern (26 bp):
AAAATTTTGACAATTTTGCCTCTGGT
Found at i:18098904 original size:12 final size:13
Alignment explanation
Indices: 18098874--18098903 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18098864 AGGGATTCAC
18098874 AAAAATATTAGTG
1 AAAAATATTAGTG
18098887 AAAAATATTAGTG
1 AAAAATATTAGTG
18098900 AAAA
1 AAAA
18098904 TTAACAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (13 bp):
AAAAATATTAGTG
Found at i:18112633 original size:109 final size:109
Alignment explanation
Indices: 18112442--18112659 Score: 436
Period size: 109 Copynumber: 2.0 Consensus size: 109
18112432 ACGGTCTCCA
18112442 TTCATTAAGGAAAAACTAGAGCATCTACTCAAGTTTTTTCCATAACCACAATTTCGGATGAATTC
1 TTCATTAAGGAAAAACTAGAGCATCTACTCAAGTTTTTTCCATAACCACAATTTCGGATGAATTC
18112507 TTCTATTCCTAACTCATCCAATAGTCCTTCTTACTCCTTTGCCC
66 TTCTATTCCTAACTCATCCAATAGTCCTTCTTACTCCTTTGCCC
18112551 TTCATTAAGGAAAAACTAGAGCATCTACTCAAGTTTTTTCCATAACCACAATTTCGGATGAATTC
1 TTCATTAAGGAAAAACTAGAGCATCTACTCAAGTTTTTTCCATAACCACAATTTCGGATGAATTC
18112616 TTCTATTCCTAACTCATCCAATAGTCCTTCTTACTCCTTTGCCC
66 TTCTATTCCTAACTCATCCAATAGTCCTTCTTACTCCTTTGCCC
18112660 AATTAGGTAT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (109 bp):
TTCATTAAGGAAAAACTAGAGCATCTACTCAAGTTTTTTCCATAACCACAATTTCGGATGAATTC
TTCTATTCCTAACTCATCCAATAGTCCTTCTTACTCCTTTGCCC
Found at i:18126027 original size:17 final size:17
Alignment explanation
Indices: 18126007--18126048 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
18125997 TCAAATTAAA
*
18126007 TTAATTCAATAATCAAT
1 TTAATTCAACAATCAAT
*
18126024 TTAATTCAACAATTAAT
1 TTAATTCAACAATCAAT
18126041 TTAATTCA
1 TTAATTCA
18126049 TGTGATAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTCAACAATCAAT
Found at i:18133481 original size:25 final size:25
Alignment explanation
Indices: 18133400--18133483 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
18133390 TATGTTCATT
* *
18133400 CGAGCTGTAAATCGATATGCTCTCA
1 CGAGCTATAAATCGGTATGCTCTCA
* * * *
18133425 CAAGCTATAAATTGGTTTGCTCTTA
1 CGAGCTATAAATCGGTATGCTCTCA
18133450 CGAGCTATAAATCGGTATGCTCTCA
1 CGAGCTATAAATCGGTATGCTCTCA
18133475 CGAGCTATA
1 CGAGCTATA
18133484 GAGTATCCGT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (25 bp):
CGAGCTATAAATCGGTATGCTCTCA
Found at i:18134912 original size:49 final size:49
Alignment explanation
Indices: 18134825--18134921 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
18134815 ACTTGAACCC
*
18134825 ATGACCGTATAACCACTGCCAACTGGGGGCCCGTGTTATACT-TCAACTA
1 ATGACCGTATAACCACTGCCAACTGGGAGCCCGTGTTATA-TGTCAACTA
* * *
18134874 ATGACCGTATAACCATTGTCAACTGGGAG-CCTTAGTTATATGTCAACT
1 ATGACCGTATAACCACTGCCAACTGGGAGCCCGT-GTTATATGTCAACT
18134922 CGTGACCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 4 0.10
49 38 0.90
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGACCGTATAACCACTGCCAACTGGGAGCCCGTGTTATATGTCAACTA
Found at i:18141630 original size:24 final size:26
Alignment explanation
Indices: 18141498--18141651 Score: 83
Period size: 25 Copynumber: 6.2 Consensus size: 26
18141488 TGAGCTCTCG
*
18141498 TATATGGCTCTTCGTGAGCTTCCCGAT
1 TATATGGCTCTTCGTGAGCTACCC-AT
* * **
18141525 TATA-GGCTCTTTGTGAGCTTCCTGT
1 TATATGGCTCTTCGTGAGCTACCCAT
* * * ** *
18141550 TA-GT-GCT-TTCTTGAACTTTCCGT
1 TATATGGCTCTTCGTGAGCTACCCAT
*
18141573 TATATGGCT-ATC-TGATGCTACCCAT
1 TATATGGCTCTTCGTGA-GCTACCCAT
*
18141598 TA-ATTGCTCTTCG-GAGCTACCCAT
1 TATATGGCTCTTCGTGAGCTACCCAT
* * *
18141622 TATA-GGCTCTTTGTGAGCTTCCCGT
1 TATATGGCTCTTCGTGAGCTACCCAT
18141647 TATAT
1 TATAT
18141652 TGCCTGGATA
Statistics
Matches: 97, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
23 13 0.13
24 30 0.31
25 33 0.34
26 17 0.18
27 4 0.04
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (26 bp):
TATATGGCTCTTCGTGAGCTACCCAT
Found at i:18141649 original size:25 final size:26
Alignment explanation
Indices: 18141498--18141651 Score: 94
Period size: 24 Copynumber: 6.2 Consensus size: 26
18141488 TGAGCTCTCG
*
18141498 TATATGGCTCTTCGTGAGCTTCCCGAT
1 TATATGGCTCTTTGTGAGCTTCCCG-T
*
18141525 TATA-GGCTCTTTGTGAGCTTCCTGT
1 TATATGGCTCTTTGTGAGCTTCCCGT
* * *
18141550 TA-GT-GCT-TTCT-TGAACTTTCCGT
1 TATATGGCTCTT-TGTGAGCTTCCCGT
* * * *
18141573 TATATGG--CTATCTGATGCTACCCAT
1 TATATGGCTCTTTGTGA-GCTTCCCGT
* * * *
18141598 TA-ATTGCTCTTCG-GAGCTACCCAT
1 TATATGGCTCTTTGTGAGCTTCCCGT
18141622 TATA-GGCTCTTTGTGAGCTTCCCGT
1 TATATGGCTCTTTGTGAGCTTCCCGT
18141647 TATAT
1 TATAT
18141652 TGCCTGGATA
Statistics
Matches: 95, Mismatches: 20, Indels: 25
0.68 0.14 0.18
Matches are distributed among these distances:
23 14 0.15
24 30 0.32
25 27 0.28
26 20 0.21
27 4 0.04
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (26 bp):
TATATGGCTCTTTGTGAGCTTCCCGT
Found at i:18145957 original size:25 final size:25
Alignment explanation
Indices: 18145929--18145977 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18145919 TACATTGATC
18145929 CATTCACATTATG-ATAACA-TAATAA
1 CATTCA-ATT-TGAATAACATTAATAA
18145954 CATTCAATTTGAATAACATTAATA
1 CATTCAATTTGAATAACATTAATA
18145978 CAATAACTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.09
24 9 0.41
25 11 0.50
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (25 bp):
CATTCAATTTGAATAACATTAATAA
Found at i:18156150 original size:15 final size:14
Alignment explanation
Indices: 18156102--18156139 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
18156092 ATATATTCAA
18156102 ATATATTTT-AAAT
1 ATATATTTTAAAAT
18156115 A-AT-TTTTAAAAT
1 ATATATTTTAAAAT
18156127 ATATATTTTAAAA
1 ATATATTTTAAAA
18156140 CTGATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.18
12 7 0.32
13 3 0.14
14 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATTTTAAAAT
Found at i:18156275 original size:8 final size:8
Alignment explanation
Indices: 18156262--18156286 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18156252 TTTTCTATAA
18156262 TACATTTT
1 TACATTTT
18156270 TACATTTT
1 TACATTTT
18156278 TACATTTT
1 TACATTTT
18156286 T
1 T
18156287 GATAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TACATTTT
Found at i:18157881 original size:17 final size:18
Alignment explanation
Indices: 18157848--18157881 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18157838 ACAAGATAGA
*
18157848 AAATAAAAAAGGAAAAAC
1 AAATAAAAAAGAAAAAAC
18157866 AAAT-AAAAAGAAAAAA
1 AAATAAAAAAGAAAAAA
18157882 ATGAACAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (18 bp):
AAATAAAAAAGAAAAAAC
Found at i:18158875 original size:100 final size:100
Alignment explanation
Indices: 18158760--18159032 Score: 420
Period size: 100 Copynumber: 2.7 Consensus size: 100
18158750 AAACAAGATT
* * *
18158760 CGCCGCCGTGACTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
1 CGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
18158825 AATCTTTTAAATTACAATGCCGGGGAAACCAGAGC
66 AATCTTTTAAATTACAATGCCGGGGAAACCAGAGC
* * * * * *
18158860 CGCCGTCGTGGCTTCAATCTGCTCTACTACACCACTAGGGAAGTAAAATCTGCCGTTGTGGCTTC
1 CGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
* * * *
18158925 AATCTTTTTAATTGCAATGTCGGGGAAACCAGATC
66 AATCTTTTAAATTACAATGCCGGGGAAACCAGAGC
*
18158960 CGCCGTTGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
1 CGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
18159025 AATCTTTT
66 AATCTTTT
18159033 CCACTGTAAT
Statistics
Matches: 153, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 153 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (100 bp):
CGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
AATCTTTTAAATTACAATGCCGGGGAAACCAGAGC
Found at i:18159035 original size:50 final size:50
Alignment explanation
Indices: 18158771--18159037 Score: 255
Period size: 50 Copynumber: 5.3 Consensus size: 50
18158761 GCCGCCGTGA
*
18158771 CTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
** * ** * *** * *
18158821 CTTCAATCTTTTAAATTACAATGCCGGGGAAACCAGAGCCGCCGTCGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
** * * * * *
18158871 CTTCAATCTGCTCTACTACACCACTAGGGAAGTAAAATCTGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
** * * ** * * ***
18158921 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACCAGATCCGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
*
18158971 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
18159021 CTTCAATCTTTTCCACT
1 CTTCAATCTTTTCCACT
18159038 GTAATGCTAA
Statistics
Matches: 158, Mismatches: 59, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
50 158 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
Found at i:18159380 original size:88 final size:88
Alignment explanation
Indices: 18159231--18159545 Score: 459
Period size: 88 Copynumber: 3.6 Consensus size: 88
18159221 AGGACTGATG
* * * ** * * *
18159231 TCTTCGATCTACTTCGCTGCCAGTACAAAAAGGCAAGATCTGCCATTTTCGACCTACTCCACTGC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTAC
18159296 TGCCCAGAGAGACAAGGCTGGTA
66 TGCCCAGAGAGACAAGGCTGGTA
*
18159319 TCTTCGATCTGCTTCTTTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTAC
* * *
18159384 TGCCTAGGGAGACAAGGCTGTTA
66 TGCCCAGAGAGACAAGGCTGGTA
* **
18159407 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAATATCTGCTATTTTCAACCCGCTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTAC
18159472 TGCCCAGAGAGACAAGGCTGGTA
66 TGCCCAGAGAGACAAGGCTGGTA
* * * *
18159495 TCTTCCATCTGCTTCTCTATCAGTACAGGAAGGCAAGATCTGTTATCTTCA
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCA
18159546 GTCTGCTCTG
Statistics
Matches: 203, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 203 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCCCAGAGAGACAAGGCTGGTA
Found at i:18164354 original size:27 final size:27
Alignment explanation
Indices: 18164298--18164354 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
18164288 AATGATGTAG
* *
18164298 AAAAAGAATAAAAGAATAATTACTCGA
1 AAAAAGAATAAAAGAATAATGACTCAA
* *
18164325 AAAAAGAATAAAAGAATACTGGCTCAA
1 AAAAAGAATAAAAGAATAATGACTCAA
18164352 AAA
1 AAA
18164355 TGCATACGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.63, C:0.09, G:0.12, T:0.16
Consensus pattern (27 bp):
AAAAAGAATAAAAGAATAATGACTCAA
Found at i:18172204 original size:17 final size:16
Alignment explanation
Indices: 18172176--18172213 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
18172166 AACAAGATAG
18172176 AAAATAAAAAAGGAAAA
1 AAAATAAAAAA-GAAAA
18172193 ACAAAT-AAAAAGAAAA
1 A-AAATAAAAAAGAAAA
18172209 AAAAT
1 AAAAT
18172214 GAACAGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 6 0.30
18 4 0.20
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAGAAAA
Found at i:18174692 original size:27 final size:25
Alignment explanation
Indices: 18174648--18174701 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
18174638 TACCTTTTTA
**
18174648 TTAATTTTATATTTTTTAATTTTTATT
1 TTAATTTTATATAATTT-A-TTTTATT
*
18174675 TTAATTTTCTATAATTTATTTTATT
1 TTAATTTTATATAATTTATTTTATT
18174700 TT
1 TT
18174702 TTTTACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 9 0.38
26 1 0.04
27 14 0.58
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (25 bp):
TTAATTTTATATAATTTATTTTATT
Found at i:18174693 original size:36 final size:34
Alignment explanation
Indices: 18174604--18174706 Score: 97
Period size: 35 Copynumber: 3.0 Consensus size: 34
18174594 AGGTCATAGA
* *
18174604 TAATTTTCTAGAATTTTTTATTTTTTATTTTTAT
1 TAATTTTCTATAATTTTATATTTTTTATTTTTAT
*
18174638 TACCTTTT-TATTAATTTTATATTTTTTAATTTTTATTT
1 TA-ATTTTCTA-TAATTTTATATTTTTT-ATTTTTA--T
18174676 TAATTTTCTATAA-TTTAT-TTTATTT-TTTTTA
1 TAATTTTCTATAATTTTATATTT-TTTATTTTTA
18174707 CTTTTCTAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
34 10 0.17
35 21 0.36
36 15 0.26
37 7 0.12
38 5 0.09
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (34 bp):
TAATTTTCTATAATTTTATATTTTTTATTTTTAT
Found at i:18187688 original size:19 final size:20
Alignment explanation
Indices: 18187665--18187709 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
18187655 TTTTGTTCCA
* *
18187665 ATTTTTT-ATT-TTTAATTT
1 ATTTTTTAATTATTAAATAT
18187683 ATTTTTTAATTATTAAATAT
1 ATTTTTTAATTATTAAATAT
18187703 ATTTTTT
1 ATTTTTT
18187710 GAAGTATCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 3 0.13
20 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTTTAATTATTAAATAT
Found at i:18198026 original size:16 final size:16
Alignment explanation
Indices: 18198005--18198073 Score: 95
Period size: 16 Copynumber: 4.3 Consensus size: 16
18197995 TTGGTTCGCT
18198005 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
*
18198021 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGAC
18198037 GTAATGGAATAGA-AGC
1 GTAATGGAATAGAGA-C
* *
18198053 GTAATTGAATAGAGGC
1 GTAATGGAATAGAGAC
18198069 GTAAT
1 GTAAT
18198074 AGCAATTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.41, C:0.06, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:18198041 original size:32 final size:32
Alignment explanation
Indices: 18198005--18198073 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
18197995 TTGGTTCGCT
18198005 GTAATGGAATAG-AGACGTAATGGAATAGAGGC
1 GTAATGGAATAGAAG-CGTAATGGAATAGAGGC
*
18198037 GTAATGGAATAGAAGCGTAATTGAATAGAGGC
1 GTAATGGAATAGAAGCGTAATGGAATAGAGGC
18198069 GTAAT
1 GTAAT
18198074 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 33 0.94
33 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.32, T:0.22
Consensus pattern (32 bp):
GTAATGGAATAGAAGCGTAATGGAATAGAGGC
Found at i:18198112 original size:45 final size:44
Alignment explanation
Indices: 18198053--18198149 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
18198043 GAATAGAAGC
*
18198053 GTAATTGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* * *
18198098 GTAATGGAATAGAGGTGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
18198142 GGAATGGA
1 GTAATGGA
18198150 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.52
45 21 0.46
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:18199992 original size:4 final size:4
Alignment explanation
Indices: 18199983--18200017 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
18199973 GATGTTTATA
*
18199983 TATG TATG TATG TATG TATG TATG CATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
18200018 TTGGTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:18201057 original size:46 final size:46
Alignment explanation
Indices: 18200990--18201082 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
18200980 CCTCAAAGAA
*
18200990 CAAAGACTTGCAATCAGAAACTATTAGGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
*
18201036 CAAAGACTTGCAATCAGAAACTATGATGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
18201082 C
1 C
18201083 TAGGATACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (46 bp):
CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
Found at i:18202094 original size:17 final size:17
Alignment explanation
Indices: 18202073--18202126 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
18202063 AAAAATAAAT
18202073 TAAAAA-ACAAAATTTA
1 TAAAAATACAAAATTTA
* *
18202089 TAAAAATTTCAAAATATA
1 TAAAAA-TACAAAATTTA
* *
18202107 TAATATTACAAAATTTA
1 TAAAAATACAAAATTTA
18202124 TAA
1 TAA
18202127 TAAGATTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 6 0.20
17 12 0.40
18 12 0.40
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAATACAAAATTTA
Found at i:18202127 original size:17 final size:17
Alignment explanation
Indices: 18202079--18202128 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
18202069 AAATTAAAAA
*
18202079 ACAAAATTTATAAAAATT
1 ACAAAATTTAT-AATATT
* *
18202097 TCAAAATATATAATATT
1 ACAAAATTTATAATATT
18202114 ACAAAATTTATAATA
1 ACAAAATTTATAATA
18202129 AGATTGTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
ACAAAATTTATAATATT
Found at i:18207291 original size:43 final size:43
Alignment explanation
Indices: 18207230--18207499 Score: 416
Period size: 43 Copynumber: 6.3 Consensus size: 43
18207220 TTATGTAAAA
* **
18207230 AAACGTCGCTAAAGAACATGACCTTTAGCGGCATTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* *
18207273 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTCACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
*
18207316 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* *
18207359 AAACGCTGCTAAAGAACATCACCTTTAGCGGCGCTTTACACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTAC-CCAC
*
18207403 AAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* * *
18207446 AAATGCCGCTAAAGAACATGATCTTTAGCGGTGCTTTA-CCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
18207488 AAACGCCGCTAA
1 AAACGCCGCTAA
18207500 TTTTGACAAA
Statistics
Matches: 209, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
42 15 0.07
43 154 0.74
44 40 0.19
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
Found at i:18207438 original size:87 final size:87
Alignment explanation
Indices: 18207230--18207499 Score: 411
Period size: 87 Copynumber: 3.1 Consensus size: 87
18207220 TTATGTAAAA
* **
18207230 AAACGTCGCTAAAGAACATGACCTTTAGCGGCATTTTACCCACAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGAC
* *
18207295 CTTTAGCAGCGCTTCAC-CCAC
66 CTTTAGCGGCGCTTTACACCAC
* * *
18207316 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCACCCACAAACGCTGCTAAAGAACATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGAC
18207381 CTTTAGCGGCGCTTTACACCAC
66 CTTTAGCGGCGCTTTACACCAC
* * *
18207403 AAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTTACCCACAAATGCCGCTAAAGAACATGAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGAC
*
18207468 CTTTAGCGGTGCTTT--ACCAC
66 CTTTAGCGGCGCTTTACACCAC
18207488 AAACGCCGCTAA
1 AAACGCCGCTAA
18207500 TTTTGACAAA
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
85 17 0.10
86 74 0.44
87 77 0.46
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (87 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGAC
CTTTAGCGGCGCTTTACACCAC
Found at i:18207462 original size:130 final size:128
Alignment explanation
Indices: 18207230--18207499 Score: 414
Period size: 130 Copynumber: 2.1 Consensus size: 128
18207220 TTATGTAAAA
* * *
18207230 AAACGTCGCTAAAGAACATGACCTTTAGCGGCATTTTACCCACAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATCACCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGAACATGAC
*
18207295 CTTTAGCAGCGCTTCACCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCACCCAC
66 ATTTAGCAGCGCTTCACCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCA-CCAC
* *
18207359 AAACGCTGCTAAAGAACATCACCTTTAGCGGCGCTTTACACCACAAACGCCGCTAAAGAACATGA
1 AAACGCCGCTAAAGAACATCACCTTTAGCGGCACTTTAC-CCACAAACGCCGCTAAAGAACATGA
* * * * * *
18207424 CATTTAGCGGCGCTTTACCCACAAATGCCGCTAAAGAACATGATCTTTAGCGGTGCTTTACCAC
65 CATTTAGCAGCGCTTCACCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCACCAC
18207488 AAACGCCGCTAA
1 AAACGCCGCTAA
18207500 TTTTGACAAA
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
129 49 0.39
130 78 0.61
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (128 bp):
AAACGCCGCTAAAGAACATCACCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGAACATGAC
ATTTAGCAGCGCTTCACCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCACCAC
Found at i:18217882 original size:10 final size:10
Alignment explanation
Indices: 18217867--18217894 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
18217857 CTTTCATCAG
18217867 TGTACTTCGA
1 TGTACTTCGA
18217877 TGTACTTCGA
1 TGTACTTCGA
18217887 TGTACTTC
1 TGTACTTC
18217895 TGAACTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (10 bp):
TGTACTTCGA
Found at i:18223669 original size:10 final size:10
Alignment explanation
Indices: 18223654--18223683 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
18223644 GAAAGCTTTA
18223654 ATTTAAAATT
1 ATTTAAAATT
18223664 ATTTAAAATT
1 ATTTAAAATT
18223674 ATTTAAAATT
1 ATTTAAAATT
18223684 GTATGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTAAAATT
Found at i:18227943 original size:47 final size:48
Alignment explanation
Indices: 18227885--18227983 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
18227875 CATAGTTTTG
*
18227885 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
18227932 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
18227980 TTTA
1 TTTA
18227984 TTTTTTTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:18229041 original size:7 final size:7
Alignment explanation
Indices: 18229031--18229069 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
18229021 CTCTAACTCT
18229031 TAACCCC
1 TAACCCC
**
18229038 TAACATC
1 TAACCCC
18229045 TAACCCC
1 TAACCCC
18229052 TAAACCCC
1 T-AACCCC
18229060 TAACCCC
1 TAACCCC
18229067 TAA
1 TAA
18229070 ACCTTCAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:18229064 original size:15 final size:15
Alignment explanation
Indices: 18229031--18229072 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
18229021 CTCTAACTCT
**
18229031 TAACCCCT-AACATC
1 TAACCCCTAAACCCC
18229045 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
18229060 TAACCCCTAAACC
1 TAACCCCTAAACC
18229073 TTCAATCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:18229127 original size:15 final size:15
Alignment explanation
Indices: 18229092--18229129 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
18229082 AACCCTTAAT
18229092 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
18229106 T-AATCCATAATCCC
1 TAAATCCATAATCCC
18229120 TAAATCCATA
1 TAAATCCATA
18229130 TATATATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:18229182 original size:318 final size:315
Alignment explanation
Indices: 18228283--18229210 Score: 1309
Period size: 319 Copynumber: 2.9 Consensus size: 315
18228273 TAAATTATAC
*
18228283 ATCTTTTACAATTAC--ATAAGAACATATTTAAAATATAAATAAAAAATTAATCTAAACCCAAAA
1 ATCTTTTACAATTACTAATAATAACATATTTAAAATATAAATAAAAAA-TAATCTAAACCCAAAA
* * *
18228346 CCCTAACCCGACCCTTGAAACCCTAAATCCTAAATCCCTAACTCTTAACCACTAACGTCTAACCC
65 CCCTAACCCGACCCTTGAAACCATAAACCCTAAATCCCTAACTCTTAACCACTAACATCTAACCC
* *
18228411 CTAAACCCCTAACCCTTAAACCTTAAATCTCGACCAACCCTTAATTAAACCGTAATCCCTAATCT
130 CTAAACCCCTAACCCTTAAACCTTAAA--TCG-CCAACCCTTAATTAAACCATAATCCCTAATCC
*
18228476 ATAATCCCTAAATCCATATATATATAGTACTCCCTAAACCTTTAAATATGAACTCCTAAACC-AG
192 ATAATCCCTAAATCC--ATATATATA-TACTCCCTAAACCTTAAAATATGAACTCCTAAACCGA-
18228540 CATTAAATCTT-AA-TTATCATATACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATT
253 CATTAAATCTTAAATTTATCATATACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATT
*
18228601 ATCTTTTACAACTAC--ATAATAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAA
1 ATCTTTTACAATTACTAATAATAACATATTTAAAATATAAAT-AAAAAA-TAATCTAAACCCAAA
* * * *
18228664 ACCCTATCCCGACCCTTGAAACCTTAAACCCTAAATCCCTAACCCTTAACCACTAACATCTAACT
64 ACCCTAACCCGACCCTTGAAACCATAAACCCTAAATCCCTAACTCTTAACCACTAACATCTAACC
18228729 CCTAAACCCCTAACCCTTAAACCTTAAATCCAGGCCAACCCTTAATTAAACCATAATCCCTAATC
129 CCTAAACCCCTAACCCTTAAACCTTAAAT-C--GCCAACCCTTAATTAAACCATAATCCCTAATC
** ** ** * * *
18228794 CATAATCCCTAGCTAAATCCATATATACTACCTAAACCTTAAAATATGAACTCCTAGACCGGCAT
191 CATAATCCCTAAATCCATATATATATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGACAT
18228859 TAAATCTTAAATTTATCATATACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATT
256 TAAATCTTAAATTTATCATATACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATT
18228919 ATCTCTTTTACAATTACATATATAATAACATATTTAAAATATAAATAAAAAA-AATCTAAACCCA
1 A--TCTTTTACAATTAC-TA-ATAATAACATATTTAAAATATAAATAAAAAATAATCTAAACCCA
* * * * * *
18228983 AAACCCTAACTCGACCCCT-AAATTCATAAACCCCAAATCTCTAACTCTTAACCCCTAACATCTA
62 AAACCCTAACCCGACCCTTGAAA-CCATAAACCCTAAATCCCTAACTCTTAACCACTAACATCTA
* *
18229047 ACCCCTAAACCCCTAACCCCTAAACCTTCAATC-CCAACCCTTAATTAAACCATAATCCCTAATC
126 ACCCCTAAACCCCTAACCCTTAAACCTTAAATCGCCAACCCTTAATTAAACCATAATCCCTAATC
* *
18229111 CATAATCCCTAAATCCATATATATATACTCCCTAAAACCTTAAAATATGAACTCTTAAACCGACC
191 CATAATCCCTAAATCCATATATATATACTCCCT-AAACCTTAAAATATGAACTCCTAAACCGACA
**
18229176 TTAAATCTTAAATAAAATCATATACCCTAAACTAA
255 TTAAATCTTAAAT-TTATCATATACCCTAAACTAA
18229211 AAACCATAAA
Statistics
Matches: 548, Mismatches: 46, Indels: 31
0.88 0.07 0.05
Matches are distributed among these distances:
316 43 0.08
317 67 0.12
318 128 0.23
319 169 0.31
320 18 0.03
321 92 0.17
323 6 0.01
324 25 0.05
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (315 bp):
ATCTTTTACAATTACTAATAATAACATATTTAAAATATAAATAAAAAATAATCTAAACCCAAAAC
CCTAACCCGACCCTTGAAACCATAAACCCTAAATCCCTAACTCTTAACCACTAACATCTAACCCC
TAAACCCCTAACCCTTAAACCTTAAATCGCCAACCCTTAATTAAACCATAATCCCTAATCCATAA
TCCCTAAATCCATATATATATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGACATTAAAT
CTTAAATTTATCATATACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATT
Found at i:18230159 original size:31 final size:29
Alignment explanation
Indices: 18230124--18230201 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
18230114 CTAACGGCTC
* *
18230124 AGTGACTAAAATGTTACGACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
18230155 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
18230184 AGTGACTAAAATGTAACA
1 AGTGACTAAAATGTAACA
18230202 TGAACCAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 23 0.56
30 3 0.07
31 15 0.37
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:18230218 original size:31 final size:29
Alignment explanation
Indices: 18230149--18230222 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
18230139 ACGACATGAT
**
18230149 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATACCA
*
18230178 AACATAAGTGACTAAAATGTAACATGAACCA
1 AACATAAGTGACTAAAACGTAACAT--ACCA
*
18230209 AACAAAAGTGACTA
1 AACATAAGTGACTA
18230223 TTTTAGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATACCA
Found at i:18230328 original size:41 final size:41
Alignment explanation
Indices: 18230283--18230765 Score: 553
Period size: 41 Copynumber: 11.8 Consensus size: 41
18230273 GTGTTTTAAC
* *
18230283 AAAAACGACGCTAAAACCCCGAGCATTAGCGGCGCTTCTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
* * * *
18230324 AAAAACGCTGCTAAAACCCCGAGCATTAGCAGTGCTT-TTCA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTT-A
* * *
18230365 GAAAATGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
* * * *
18230406 GAAAACGCTGCTAAAACCCAGAGCATTAGTGGCGCTTTTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
* *
18230447 GAAAACGCCGCTAAAACCTAGAGCATTAGCGGCGCTTCTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
* * * *
18230488 GAAAATGCCGCTAAAACCCCAGAGC-TTAGTGGCGCTTTTTA
1 AAAAACGCCGCTAAAA-CCCAGAGCATTAGCGGCGCTTCTTA
*
18230529 GAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
* *
18230570 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTT-TCA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
* * * * *
18230610 CAAAAACACCGCTAAAACCAAGAGCATTAGTGACACTTCTTA
1 -AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
* * *
18230652 AAAAACGCTGCTAAAACCCCGAGCATTAGCGGCGCTT-TCA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
* * * * * *
18230692 CAAAAATGTCGGTAAAACCCAAAGAATTAGCGGTGCTTTCTT-
1 -AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGC-TTCTTA
*
18230734 AAAAACGCCGCTAAAACCCTGAGCATTAGCGG
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGG
18230766 TAATTTCTCA
Statistics
Matches: 375, Mismatches: 58, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
40 14 0.04
41 347 0.93
42 13 0.03
43 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTCTTA
Found at i:18234248 original size:25 final size:25
Alignment explanation
Indices: 18234178--18234246 Score: 106
Period size: 23 Copynumber: 2.8 Consensus size: 25
18234168 AAAACTCTTC
*
18234178 TAAAAGAAAACTCAAGAGAAATTCT
1 TAAAAAAAAACTCAAGAGAAATTCT
18234203 T-AAAAAAAA-TCAAGAGAAATTCT
1 TAAAAAAAAACTCAAGAGAAATTCT
18234226 TAAAAAAAAACTCAAAGAGAA
1 TAAAAAAAAACTC-AAGAGAA
18234247 TTTTACTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 15 0.38
24 15 0.38
25 3 0.08
26 7 0.17
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (25 bp):
TAAAAAAAAACTCAAGAGAAATTCT
Found at i:18234465 original size:8 final size:8
Alignment explanation
Indices: 18234452--18234485 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
18234442 CAAAATTCAG
18234452 AATAATAA
1 AATAATAA
18234460 AATAATAA
1 AATAATAA
18234468 AATAATAA
1 AATAATAA
18234476 AATAATAA
1 AATAATAA
18234484 AA
1 AA
18234486 CTTAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:18237972 original size:20 final size:20
Alignment explanation
Indices: 18237947--18237987 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18237937 CACTATTGTC
18237947 ACTTCATTTCATACTTATTG
1 ACTTCATTTCATACTTATTG
18237967 ACTTCATTTCATACTTATTG
1 ACTTCATTTCATACTTATTG
18237987 A
1 A
18237988 ACTCAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.49
Consensus pattern (20 bp):
ACTTCATTTCATACTTATTG
Found at i:18238676 original size:29 final size:29
Alignment explanation
Indices: 18238611--18238679 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
18238601 TACAGAGATG
* *
18238611 CATTGAAGTGCAATAAGAAAACAAAGTGA
1 CATTGAAGTGCAATAACAAAACAAAATGA
** * *
18238640 TGTCGAAGTGCAATACCAAAACAAAATGA
1 CATTGAAGTGCAATAACAAAACAAAATGA
18238669 CATTGAAGTGC
1 CATTGAAGTGC
18238680 TTTAGCAGAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.19
Consensus pattern (29 bp):
CATTGAAGTGCAATAACAAAACAAAATGA
Found at i:18240124 original size:42 final size:42
Alignment explanation
Indices: 18240000--18240355 Score: 461
Period size: 42 Copynumber: 8.4 Consensus size: 42
18239990 ACGTCGCTAA
* *
18240000 CTTTTGCGGCGCTTATAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAT-G-AAAAAACGCCGCTAAAGATCATGTT
* * *
18240044 CTTTAGCGGCACTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAA-AAACGCCGCTAAAGATCATGTT
18240087 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
18240129 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
*
18240171 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
*
18240213 CTTTAGCGGCACTT-TGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAT-GAAAAAACGCCGCTAAAGATCATGTT
* * *
18240255 CTTTAGCGACGCTT-TGGAAGAAAACGCCACTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAT-GAA-AAAACGCCGCTAAAGA-TCATGTT
* * ** *
18240298 CTATAGCGGCGCTTGTTCAAAAACGCCGTTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAA-AGATCA-TGTT
18240340 CTTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
18240356 TTCACAAACG
Statistics
Matches: 281, Mismatches: 23, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
41 1 0.00
42 195 0.69
43 72 0.26
44 13 0.05
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
Found at i:18240205 original size:169 final size:169
Alignment explanation
Indices: 18240000--18240354 Score: 495
Period size: 169 Copynumber: 2.1 Consensus size: 169
18239990 ACGTCGCTAA
* *
18240000 CTTTTGCGGCGCTTATAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAAAT
1 CTTTAGCGGCGC-T-TAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAAA-
* * *
18240065 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAT-GAA-AAAACGCCGCT-AAAGATCATG
63 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTT-TGGAAGAAAACGCCACTAAAAG-TAATG
*
18240127 TTCTTTAGCGGCGCTTATGAAAAAACGCCGCTAA-AGATCA-TGTT
126 TTCTATAGCGGCGCTTATGAAAAAACGCCGCTAACAG-T-AGTGTT
* **
18240171 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAAAAAA
18240236 CGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTGGAAGAAAACGCCACTAAAAGTAATGTTCTA
66 CGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTGGAAGAAAACGCCACTAAAAGTAATGTTCTA
* ** *
18240301 TAGCGGCGCTTGTTCAAAAACGCCGTTAACAGTAGTGTT
131 TAGCGGCGCTTATGAAAAAACGCCGCTAACAGTAGTGTT
18240340 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
18240355 TTTCACAAAC
Statistics
Matches: 166, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
167 1 0.01
168 39 0.23
169 108 0.65
170 7 0.04
171 11 0.07
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (169 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAAAAAA
CGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTGGAAGAAAACGCCACTAAAAGTAATGTTCTA
TAGCGGCGCTTATGAAAAAACGCCGCTAACAGTAGTGTT
Found at i:18240860 original size:33 final size:33
Alignment explanation
Indices: 18240788--18240869 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
18240778 TCTTTTGAAC
* * *
18240788 CTCTGCTTCTATCGCTGCTTCTCTCACTGCTAT
1 CTCTGCTTCTCTCGCTACTTCTCTCACTGCTAG
*
18240821 CGCTGCTTCTCTCGCTACTTCTCTCACTGC-AGG
1 CTCTGCTTCTCTCGCTACTTCTCTCACTGCTA-G
18240854 CTCTGCTTCTCTCGCT
1 CTCTGCTTCTCTCGCT
18240870 GTAGCCTCTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 1 0.02
33 42 0.98
ACGTcount: A:0.07, C:0.39, G:0.15, T:0.39
Consensus pattern (33 bp):
CTCTGCTTCTCTCGCTACTTCTCTCACTGCTAG
Found at i:18240862 original size:21 final size:21
Alignment explanation
Indices: 18240838--18240903 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
18240828 TCTCTCGCTA
* *
18240838 CTTCTCTCACTGCAGGCTCTG
1 CTTCTCTCGCTGCAGCCTCTG
*
18240859 CTTCTCTCGCTGTAGCCTCTG
1 CTTCTCTCGCTGCAGCCTCTG
* *
18240880 CTTCCCTCGCTGCCGCCTCTG
1 CTTCTCTCGCTGCAGCCTCTG
18240901 CTT
1 CTT
18240904 TAAGTTGTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.05, C:0.42, G:0.18, T:0.35
Consensus pattern (21 bp):
CTTCTCTCGCTGCAGCCTCTG
Found at i:18249661 original size:14 final size:15
Alignment explanation
Indices: 18249639--18249672 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18249629 TAGCCCCAAC
18249639 CCCTAAACCCA-AAT
1 CCCTAAACCCATAAT
*
18249653 CCCTGAACCCATAAT
1 CCCTAAACCCATAAT
18249668 CCCTA
1 CCCTA
18249673 GTCCACAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.35, C:0.44, G:0.03, T:0.18
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:18249921 original size:15 final size:15
Alignment explanation
Indices: 18249901--18249929 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18249891 CCATAATCTT
18249901 TAAACCCTAAACCTA
1 TAAACCCTAAACCTA
18249916 TAAACCCTAAACCT
1 TAAACCCTAAACCT
18249930 TGACTCATAA
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:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCTAAACCTA
Found at i:18249977 original size:21 final size:21
Alignment explanation
Indices: 18249953--18250022 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
18249943 ATAAACTATA
*
18249953 AACCCTAAACCCCTAACCCTT
1 AACCATAAACCCCTAACCCTT
* *
18249974 AACCATTAACCCATAACACC-T
1 AACCATAAACCCCTAAC-CCTT
18249995 ATA-CATTAAA-CCCTAACCCTT
1 A-ACCA-TAAACCCCTAACCCTT
18250016 AAACCAT
1 -AACCAT
18250023 GGCCCATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 2 0.05
21 27 0.71
22 9 0.24
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (21 bp):
AACCATAAACCCCTAACCCTT
Found at i:18249989 original size:50 final size:50
Alignment explanation
Indices: 18249892--18250020 Score: 120
Period size: 50 Copynumber: 2.6 Consensus size: 50
18249882 GTACACAAAC
* * * * *
18249892 CATAATCTTTAAACCCTAAACCTATAAACCCTAAACCTTGACTCATAAAA
1 CATAAACTATAAACCCTAAACCCATAAACCCTAAACCTTAACCCATAAAA
* * *
18249942 CATAAACTATAAACCCTAAACCCCT-AACCCTTAACCATTAACCCATAACA
1 CATAAACTATAAACCCTAAACCCATAAACCCTAAACC-TTAACCCATAAAA
* * *
18249992 CCTATAC-ATTAAACCCT-AACCCTTAAACC
1 CATAAACTA-TAAACCCTAAACCCATAAACC
18250021 ATGGCCCATA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
49 17 0.26
50 48 0.74
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (50 bp):
CATAAACTATAAACCCTAAACCCATAAACCCTAAACCTTAACCCATAAAA
Found at i:18251327 original size:114 final size:114
Alignment explanation
Indices: 18250433--18251299 Score: 1380
Period size: 114 Copynumber: 7.6 Consensus size: 114
18250423 GTTTTGGTTT
* * * *
18250433 AAAACGATGCATTTTGGTTAAGATTTGTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTAC
1 AAAACGATGCATTTCGGTTAAGATTT-TTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGC
* * * * *
18250498 TTTAGCGGCGTTT-TAC-TATAGCGCCACTAATTCTAAAAATACCTCAACCA
65 TTTAACGGCATTTATCCATA-AGCGCCACTAATTCT-AATATACCTCAACCC
* * * * *
18250548 AAAACGATGCGTTTTGGTTATGATTTTTTGCGGCGCTTTGTATAATGCGCCACTAATGGTGTGCT
1 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
* * * *
18250613 TTAGCGGCATTTATCCTTAAGCGCCACTAAATCTAAAATACCTCAACCC
66 TTAACGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
*
18250662 AAAACGATGCATTTTGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
*
18250727 TTAATGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAACGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
18250776 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
*
18250841 TTAATGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAACGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
18250890 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
*
18250955 TTAATGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAACGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
18251004 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
*
18251069 TTAATGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAACGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
18251118 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
* * *
18251183 TTAGCGGCATTTAT-CTTAAAGCGCCACTAATTCTAAAATACCTCAACCC
66 TTAACGGCATTTATCCAT-AAGCGCCACTAATTCTAATATACCTCAACCC
** * * ** *
18251232 AAAACGATGTGTTTTGGTTAAGATTTTTTGCAGCGCTTTGTGTAATGCGCCGCTAATGGTGTGAT
1 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
18251297 TTA
66 TTA
18251300 GCGGTGTTTT
Statistics
Matches: 719, Mismatches: 30, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
113 2 0.00
114 675 0.94
115 40 0.06
116 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (114 bp):
AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
TTAACGGCATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
Found at i:18251714 original size:126 final size:126
Alignment explanation
Indices: 18251559--18251793 Score: 373
Period size: 126 Copynumber: 1.9 Consensus size: 126
18251549 ATAAAAATAT
* * *
18251559 TCATAATGTTTCATGATAATTATTCTAATTGAGAAATAACTTTTTTA-TCTTTCAATATTCTCTA
1 TCATAATGTTTAATCATAATTATTCTAATTGAGAAATAACTATTTTACT-TTTCAATATTCTCTA
* *
18251623 TAATTCCTTCCTTTAATTATCACTTAATTTGATAAAATTAAGATTAACAATATTCATAATTA
65 CAATTCCCTCCTTTAATTATCACTTAATTTGATAAAATTAAGATTAACAATATTCATAATTA
* * *
18251685 TCATAATTTTTAATCATAATTATTTTAATTGAGAAATGACTATTTTACTTTTCAATATTCTCTAC
1 TCATAATGTTTAATCATAATTATTCTAATTGAGAAATAACTATTTTACTTTTCAATATTCTCTAC
*
18251750 AATTCCCTCCTTTAATTATCACTTAATTTGATAAAATTATGATT
66 AATTCCCTCCTTTAATTATCACTTAATTTGATAAAATTAAGATT
18251794 TAATCCCATA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
126 98 0.99
127 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (126 bp):
TCATAATGTTTAATCATAATTATTCTAATTGAGAAATAACTATTTTACTTTTCAATATTCTCTAC
AATTCCCTCCTTTAATTATCACTTAATTTGATAAAATTAAGATTAACAATATTCATAATTA
Found at i:18257120 original size:3 final size:3
Alignment explanation
Indices: 18257112--18257147 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18257102 TTTTTTGTGC
18257112 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18257148 TTAGATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18259865 original size:124 final size:124
Alignment explanation
Indices: 18259637--18259884 Score: 451
Period size: 124 Copynumber: 2.0 Consensus size: 124
18259627 AACTTAAAAC
18259637 GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
1 GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
*
18259702 AATTTTTTTGTCCAAGCTCATTTTTCGAGCCTAACATTTTTGCTCAAACCCTCTCAAAT
66 AATTTTTTTGTCCAAGCTCATTTTTCGAGCCTAACATTTTTACTCAAACCCTCTCAAAT
*
18259761 GGGTCGGGTCAAGCTTGAGCCTTGAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
1 GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
* * *
18259826 AATTTTTTTGTCCAAGCTCATTTTTCGAGGCTAATATTTTTACTCAAACCTTCTCAAAT
66 AATTTTTTTGTCCAAGCTCATTTTTCGAGCCTAACATTTTTACTCAAACCCTCTCAAAT
18259885 TTTGAATAAG
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (124 bp):
GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
AATTTTTTTGTCCAAGCTCATTTTTCGAGCCTAACATTTTTACTCAAACCCTCTCAAAT
Found at i:18266261 original size:21 final size:20
Alignment explanation
Indices: 18266231--18266281 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18266221 CAGGGGTCAA
*
18266231 GTATCGATACTTAAACAAAAG
1 GTATCAATACTT-AACAAAAG
* *
18266252 GTATCAATACTTTATAAAAG
1 GTATCAATACTTAACAAAAG
*
18266272 GTATCTATAC
1 GTATCAATAC
18266282 CTTTGCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (20 bp):
GTATCAATACTTAACAAAAG
Found at i:18266291 original size:21 final size:20
Alignment explanation
Indices: 18266231--18266291 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
18266221 CAGGGGTCAA
* *
18266231 GTATCGATACTTAAACAAAAG
1 GTATCAATACTT-TACAAAAG
*
18266252 GTATCAATACTTTATAAAAG
1 GTATCAATACTTTACAAAAG
* *
18266272 GTATCTATACCTTTGCAAAA
1 GTATCAATA-CTTTACAAAA
18266292 AATTGATACC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (20 bp):
GTATCAATACTTTACAAAAG
Found at i:18268153 original size:19 final size:19
Alignment explanation
Indices: 18268125--18268161 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18268115 ATGACTACTT
18268125 TTCATATTTTTCTCCACTC
1 TTCATATTTTTCTCCACTC
*
18268144 TTCATCTTTTTCTCCACT
1 TTCATATTTTTCTCCACT
18268162 TTTCTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.32, G:0.00, T:0.54
Consensus pattern (19 bp):
TTCATATTTTTCTCCACTC
Found at i:18272883 original size:55 final size:55
Alignment explanation
Indices: 18272799--18272908 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
18272789 TCAAACCTCT
18272799 TATACCACTGTCGTGGTGACTATTTCAAACCGTAAAGGGACTTTTTCAACAAGCA
1 TATACCACTGTCGTGGTGACTATTTCAAACCGTAAAGGGACTTTTTCAACAAGCA
* * *
18272854 TATACCACTGTCGTGGTGACTGTTTCAAACCGTAAAGGGACTTTTTTAGCAAGCA
1 TATACCACTGTCGTGGTGACTATTTCAAACCGTAAAGGGACTTTTTCAACAAGCA
18272909 AACATAGTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (55 bp):
TATACCACTGTCGTGGTGACTATTTCAAACCGTAAAGGGACTTTTTCAACAAGCA
Found at i:18282664 original size:28 final size:28
Alignment explanation
Indices: 18282605--18282671 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
18282595 GTATCATGTT
* * *
18282605 TTAACATAAATATAAATTTAGTAATTAT
1 TTAACATAAATATAAATTTAGCAACTAA
*
18282633 TTAACATAAATATAATTTTA-CAACTACA
1 TTAACATAAATATAAATTTAGCAACTA-A
18282661 TTAAC-TAAATA
1 TTAACATAAATA
18282672 GTTTAATCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.29
28 24 0.71
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (28 bp):
TTAACATAAATATAAATTTAGCAACTAA
Found at i:18285375 original size:47 final size:47
Alignment explanation
Indices: 18285324--18285417 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
18285314 AAAAGTATAG
*
18285324 GGACTAGTTTTGACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
1 GGACTAGTTTTAACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
*
18285371 GGACTTGTTTTAACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
1 GGACTAGTTTTAACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
18285418 AATGGAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.24
Consensus pattern (47 bp):
GGACTAGTTTTAACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
Found at i:18287123 original size:24 final size:24
Alignment explanation
Indices: 18287095--18287147 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
18287085 CCCTTAAATC
* *
18287095 ATTTTCCCCAAATT-CCTAATTTA
1 ATTTTTCCCAAATTCCCTAACTTA
*
18287118 ATTTTTCCCTAATTCCCTAACTTA
1 ATTTTTCCCAAATTCCCTAACTTA
18287142 ATTTTT
1 ATTTTT
18287148 TCTTTCCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.26, C:0.25, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTTTCCCAAATTCCCTAACTTA
Found at i:18291022 original size:18 final size:18
Alignment explanation
Indices: 18290999--18291034 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18290989 TTAATATGCA
18290999 TAGTCATGATTTGCAATC
1 TAGTCATGATTTGCAATC
*
18291017 TAGTCATGGTTTGCAATC
1 TAGTCATGATTTGCAATC
18291035 ATTTTCACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (18 bp):
TAGTCATGATTTGCAATC
Found at i:18295199 original size:14 final size:14
Alignment explanation
Indices: 18295177--18295212 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18295167 CATAGGTATC
18295177 TAAAAAAATGGAAA
1 TAAAAAAATGGAAA
* *
18295191 TAAATAAATGTAAA
1 TAAAAAAATGGAAA
18295205 TAAAAAAA
1 TAAAAAAA
18295213 AAGTAAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (14 bp):
TAAAAAAATGGAAA
Found at i:18295370 original size:23 final size:23
Alignment explanation
Indices: 18295342--18295386 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18295332 ATATATTTGG
18295342 ACTATA-AAATATACATAAAACAA
1 ACTATACAAATAT-CATAAAACAA
*
18295365 ACTATACAAATATTATAAAACA
1 ACTATACAAATATCATAAAACA
18295387 GAAATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
ACTATACAAATATCATAAAACAA
Found at i:18295785 original size:17 final size:17
Alignment explanation
Indices: 18295763--18295807 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
18295753 ATACAGATAC
18295763 AATAATAATAACATAG-T
1 AATAATAATAA-ATAGAT
18295780 AATAATTAA-AAATAGAT
1 AATAA-TAATAAATAGAT
18295797 AATAATAATAA
1 AATAATAATAA
18295808 TAACATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.28
17 15 0.60
18 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (17 bp):
AATAATAATAAATAGAT
Found at i:18304174 original size:29 final size:29
Alignment explanation
Indices: 18304127--18304196 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 29
18304117 TACAATAATG
* *
18304127 TAAATGACTAAAACGTAACATT-TCAAACA
1 TAAATAACTAAAACATAAC-TTATCAAACA
*
18304156 TAAATAACTAAAATATAACTTGAATCAAACA
1 TAAATAACTAAAACATAACTT--ATCAAACA
*
18304187 AAAATAACTA
1 TAAATAACTA
18304197 TTTTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 16 0.47
31 16 0.47
ACGTcount: A:0.57, C:0.14, G:0.04, T:0.24
Consensus pattern (29 bp):
TAAATAACTAAAACATAACTTATCAAACA
Found at i:18304408 original size:18 final size:20
Alignment explanation
Indices: 18304387--18304425 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
18304377 AAATAAAAAC
*
18304387 ATAAAAA-AGAAA-TTCATA
1 ATAAAAACAAAAAGTTCATA
18304405 ATAAAAACAAAAAGTTCATA
1 ATAAAAACAAAAAGTTCATA
18304425 A
1 A
18304426 AAATGTGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (20 bp):
ATAAAAACAAAAAGTTCATA
Found at i:18304626 original size:84 final size:85
Alignment explanation
Indices: 18304495--18304652 Score: 300
Period size: 84 Copynumber: 1.9 Consensus size: 85
18304485 AAACAAAACG
18304495 TAAAAAATAGAAACTAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
1 TAAAAAATAGAAACTAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
18304560 AAAAATGAAGTCGTTTTGTT
66 AAAAATGAAGTCGTTTTGTT
*
18304580 TAAAAAATAGAAACTAAAAAT-AAATAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
1 TAAAAAATAGAAACTAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
18304644 AAAAATGAA
66 AAAAATGAA
18304653 TTCAACGAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
84 51 0.71
85 21 0.29
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (85 bp):
TAAAAAATAGAAACTAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
AAAAATGAAGTCGTTTTGTT
Found at i:18305827 original size:40 final size:39
Alignment explanation
Indices: 18305783--18305866 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 39
18305773 AAGAAGATGA
* *
18305783 ATAAAATTATAAAAATGTAAAAAGATATATATA-TATGTAT
1 ATAAAATTAT-AAAATATAAAAAAATATATA-AGTATGTAT
18305823 ATAAAAATTATAAAATATAAAAAAATATATAAGTATGTAT
1 AT-AAAATTATAAAATATAAAAAAATATATAAGTATGTAT
18305863 ATAA
1 ATAA
18305867 TAGTAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
39 3 0.08
40 29 0.73
41 8 0.20
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (39 bp):
ATAAAATTATAAAATATAAAAAAATATATAAGTATGTAT
Found at i:18306644 original size:20 final size:22
Alignment explanation
Indices: 18306619--18306677 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 22
18306609 ATGCGAAAAC
18306619 AAAAAGAAAAGAAAAA-GAA-A
1 AAAAAGAAAAGAAAAAGGAACA
*
18306639 AAAAAGAAAACAAAAAGGAATCA
1 AAAAAGAAAAGAAAAAGGAA-CA
18306662 AACAAAG-AAAGAAAAA
1 AA-AAAGAAAAGAAAAA
18306678 AATAGAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 15 0.45
21 3 0.09
23 11 0.33
24 4 0.12
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAGAAAAAGGAACA
Found at i:18306663 original size:11 final size:11
Alignment explanation
Indices: 18306613--18306655 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
18306603 TTTAGTATGC
18306613 GAAAACAAAAA
1 GAAAACAAAAA
*
18306624 GAAAAGAAAAA
1 GAAAACAAAAA
18306635 G-AAA-AAAAA
1 GAAAACAAAAA
18306644 GAAAACAAAAA
1 GAAAACAAAAA
18306655 G
1 G
18306656 GAATCAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 6 0.21
10 6 0.21
11 17 0.59
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (11 bp):
GAAAACAAAAA
Found at i:18306818 original size:6 final size:6
Alignment explanation
Indices: 18306809--18306838 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
18306799 GTTATTTTAG
18306809 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
18306839 CTGTTTGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:18306824 original size:18 final size:18
Alignment explanation
Indices: 18306803--18306838 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18306793 TTACTTGTTA
18306803 TTTTAGTTTTCTTTTTCT
1 TTTTAGTTTTCTTTTTCT
**
18306821 TTTTCTTTTTCTTTTTCT
1 TTTTAGTTTTCTTTTTCT
18306839 CTGTTTGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTAGTTTTCTTTTTCT
Found at i:18314863 original size:28 final size:28
Alignment explanation
Indices: 18314820--18314876 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
18314810 TCTTTCTCTG
* *
18314820 GTTAGCACTTACTGATCTGTTAGTATTT
1 GTTAGCACTTAATGATCTATTAGTATTT
18314848 GTTAGCACTTAATGATCTATTAGTATTT
1 GTTAGCACTTAATGATCTATTAGTATTT
18314876 G
1 G
18314877 ATGCTAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.46
Consensus pattern (28 bp):
GTTAGCACTTAATGATCTATTAGTATTT
Found at i:18325609 original size:17 final size:17
Alignment explanation
Indices: 18325587--18325623 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
18325577 CATGATCGAT
18325587 AAGTTCATTCCGAGTTG
1 AAGTTCATTCCGAGTTG
18325604 AAGTTCATTCCGAGTTG
1 AAGTTCATTCCGAGTTG
18325621 AAG
1 AAG
18325624 AACGGTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (17 bp):
AAGTTCATTCCGAGTTG
Found at i:18332338 original size:26 final size:24
Alignment explanation
Indices: 18332309--18332370 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 24
18332299 AAGCCATGAT
18332309 CGGTAAGCTCAT-TCCGAGCTGAAAAA
1 CGGTAAGCTCATAT-CGAGCTG--AAA
*
18332335 CGGTAAGCTC-TATCGAGTTGAAA
1 CGGTAAGCTCATATCGAGCTGAAA
18332358 CGGTAAGCTCATA
1 CGGTAAGCTCATA
18332371 AGAGCGGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 13 0.39
24 2 0.06
25 7 0.21
26 11 0.33
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (24 bp):
CGGTAAGCTCATATCGAGCTGAAA
Found at i:18333463 original size:19 final size:18
Alignment explanation
Indices: 18333441--18333480 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
18333431 TGAATAAAAC
18333441 TTATCTA-TCTAAATAAGAT
1 TTATCTACT-TAAATAA-AT
18333460 TTATCTACTTAAATAAAT
1 TTATCTACTTAAATAAAT
18333478 TTA
1 TTA
18333481 AAAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 14 0.70
20 1 0.05
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (18 bp):
TTATCTACTTAAATAAAT
Found at i:18337785 original size:42 final size:42
Alignment explanation
Indices: 18337726--18337806 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
18337716 AAGAGTCCTA
18337726 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGG
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGG
* *
18337768 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
18337807 AATAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGG
Found at i:18337814 original size:42 final size:41
Alignment explanation
Indices: 18337726--18337819 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 41
18337716 AAGAGTCCTA
**
18337726 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGG
1 AAAAT-ATTCCCTTATTCTAATAAACTACTAAAACATAAAAG
* *
18337768 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAT
1 AAAATA-TTCCCTTATTCTAATAAACTACTAAAACATAAAAG
18337810 AAAATATTCC
1 AAAATATTCC
18337820 TAGAATATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
41 5 0.11
42 42 0.89
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (41 bp):
AAAATATTCCCTTATTCTAATAAACTACTAAAACATAAAAG
Found at i:18337859 original size:19 final size:18
Alignment explanation
Indices: 18337837--18337876 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
18337827 TGAATAAAAC
18337837 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
18337856 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
18337874 TTA
1 TTA
18337877 AAACATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:18342816 original size:3 final size:3
Alignment explanation
Indices: 18342810--18342836 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18342800 TATTATTATT
18342810 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
18342837 TCTGCGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:18343253 original size:20 final size:20
Alignment explanation
Indices: 18343228--18343267 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
18343218 ATATAAATTC
18343228 GTATGT-ATGAATGCTTGCAT
1 GTATGTAAT-AATGCTTGCAT
18343248 GTATGTACATAATGCTTGCA
1 GTATGTA-ATAATGCTTGCA
18343268 CGTACATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 10 0.56
22 2 0.11
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (20 bp):
GTATGTAATAATGCTTGCAT
Found at i:18354361 original size:22 final size:23
Alignment explanation
Indices: 18354323--18354386 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
18354313 GGTGGTGGTG
*
18354323 TGGTGGTG-CTAATGTGGTTGA-A
1 TGGTGGTGATTAA-GTGGTTGATA
*
18354345 TGGTGGTGATTAAGTGG-TCATA
1 TGGTGGTGATTAAGTGGTTGATA
**
18354367 TGGTGGTGATTTGGTGGTTG
1 TGGTGGTGATTAAGTGGTTG
18354387 TTGGCTGGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 2 0.06
22 28 0.82
23 4 0.12
ACGTcount: A:0.16, C:0.03, G:0.42, T:0.39
Consensus pattern (23 bp):
TGGTGGTGATTAAGTGGTTGATA
Found at i:18371857 original size:17 final size:16
Alignment explanation
Indices: 18371826--18371872 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
18371816 AGGGAAATTG
*
18371826 AAACTAAGTAAAAACT
1 AAACTAAATAAAAACT
18371842 AAACTAAATGAAAAACT
1 AAACTAAAT-AAAAACT
* *
18371859 GAACTGAATAAAAA
1 AAACTAAATAAAAA
18371873 ATTGCCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.17
Consensus pattern (16 bp):
AAACTAAATAAAAACT
Found at i:18376822 original size:13 final size:13
Alignment explanation
Indices: 18376804--18376829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18376794 GAGTTTACTG
18376804 AAATTATTATAAT
1 AAATTATTATAAT
18376817 AAATTATTATAAT
1 AAATTATTATAAT
18376830 TATGATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:18380090 original size:20 final size:20
Alignment explanation
Indices: 18380065--18380104 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18380055 AATACTTAGT
18380065 TTTAATTTTTAGACTTTATA
1 TTTAATTTTTAGACTTTATA
18380085 TTTAATTTTTAGACTTTATA
1 TTTAATTTTTAGACTTTATA
18380105 AATAAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTAATTTTTAGACTTTATA
Found at i:18384569 original size:389 final size:388
Alignment explanation
Indices: 18383833--18384614 Score: 1085
Period size: 389 Copynumber: 2.0 Consensus size: 388
18383823 AATTGATTAT
* *
18383833 GTTTAATCATAGTTGAATTCTCTAAGCTCTCACTATATAAAGAGAGCCTTAGGTCATTATTTTGA
1 GTTTAATCATAGTTGAACTCTCTAAACTCTCACTATATAAAGAGAGCCTTAGGTCATTATTTTGA
** * * *
18383898 CACACTTGAATTCAAGAAAAAGTTGTAGGGAGAATTTTTTCTAAAGAGATTATTCCAGAAAATTT
66 CACACTTGAATTCAAGAAAAAGTTGTAAAGAGAAATTCTTCTAAAGAAATTATTCCAGAAAATTT
* * *
18383963 TTAGAGATATTTTTCTGATTTACAAATTGACCCAAAATTTTAGAGAACTTGCAAAATTACCCCAC
131 CTAGAGATATTTTTCTAATTTACAAATTGACCCAAAATTTTAGAGAACATG-AAAATTACCCCAC
* * * * *
18384028 TGGTAATTTTGTGGAAAATTTTTTGATTCAAAAAAACCCACACTCGGCAGATGTGAGCTTGAGGA
195 TGGTAATTTTGTGGAAAATTTTCTAATTCAAAAAAACCCACACTCGGCAGACGTAAGCTTAAGGA
** * * * * *
18384093 TAATGGAGAAGATTACTCAGTCGAAGCGCTCATCCTAGACGAATCGAAAAGGTACAAATTTGATT
260 TAACAGAGAAGACTACTCAGACAAAGCGATCATCCTACACGAATCGAAAAGGTACAAATTTGATT
18384158 AAGTGTTTATTACTTCAGATATCACAACCAAGATCTTG-TTTTGGAAAA-TTTTTAAAACTCTAG
325 AAGTGTTTATTACTTCAGATATCACAACCAAGATCTTGTTTTTGGAAAATTTTTTAAAACTCT-G
* *
18384221 GTTTAATCATAGTTGAACTCTCTAAACTCTTCA-TATATAAAGTGAGCCTTGGGTCATTATTTT-
1 GTTTAATCATAGTTGAACTCTCTAAACTC-TCACTATATAAAGAGAGCCTTAGGTCATTATTTTG
* * *
18384284 ACACACTTGAATTCAAGAGAAAGTTGTAAAGAGAAAATTCTTC-GAAGAAATTATTTCAGAAAAT
65 ACACACTTGAATTCAAGAAAAAGTTGTAAAGAG-AAATTCTTCTAAAGAAATTATTCCAGAAAAT
*
18384348 TTCTAGAGATATTTTTCTAATTTACAACTTGA-CCAAAATTTTAGAGAAATCATG-AAATTACCC
129 TTCTAGAGATATTTTTCTAATTTACAAATTGACCCAAAATTTTAGAG-AA-CATGAAAATTACCC
* * * *
18384411 CACTGGTAATTTT-TGTTAAAATTTTCTAATTTTCAAAGCAAGCCCACACTTGGCAGACGTAAGC
192 CACTGGTAATTTTGTG-GAAAATTTTCTAA--TTCAAA-AAAACCCACACTCGGCAGACGTAAGC
* * * *
18384475 TTAAGGATAGCAGAGAAGACTACTCGGACAAAGCGATCCTCCTACACGAATCGAAAAGGTACAAT
253 TTAAGGATAACAGAGAAGACTACTCAGACAAAGCGATCATCCTACACGAATCGAAAAGGTACAAA
*
18384540 TTTGATTAAGTGTTTATTACTTTAGATATCACAACCAAGATCTTGTTTTTGGAAAATTTTTTAAA
318 TTTGATTAAGTGTTTATTACTTCAGATATCACAACCAAGATCTTGTTTTTGGAAAATTTTTTAAA
18384605 ACTCTG
383 ACTCTG
18384611 GTTT
1 GTTT
18384615 CCCTAAATTT
Statistics
Matches: 347, Mismatches: 37, Indels: 18
0.86 0.09 0.04
Matches are distributed among these distances:
385 2 0.01
386 46 0.13
387 79 0.23
388 71 0.20
389 121 0.35
390 15 0.04
391 13 0.04
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (388 bp):
GTTTAATCATAGTTGAACTCTCTAAACTCTCACTATATAAAGAGAGCCTTAGGTCATTATTTTGA
CACACTTGAATTCAAGAAAAAGTTGTAAAGAGAAATTCTTCTAAAGAAATTATTCCAGAAAATTT
CTAGAGATATTTTTCTAATTTACAAATTGACCCAAAATTTTAGAGAACATGAAAATTACCCCACT
GGTAATTTTGTGGAAAATTTTCTAATTCAAAAAAACCCACACTCGGCAGACGTAAGCTTAAGGAT
AACAGAGAAGACTACTCAGACAAAGCGATCATCCTACACGAATCGAAAAGGTACAAATTTGATTA
AGTGTTTATTACTTCAGATATCACAACCAAGATCTTGTTTTTGGAAAATTTTTTAAAACTCTG
Found at i:18391853 original size:27 final size:27
Alignment explanation
Indices: 18391810--18391861 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18391800 ATAGTAAACA
*
18391810 CGGGGTAGTTCAATGGGACAGTAAATG
1 CGGGGTAGTTCAATGGGACAATAAATG
**
18391837 CGGGGTAGTTCGCTGGGACAATAAA
1 CGGGGTAGTTCAATGGGACAATAAA
18391862 AAACAAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.13, G:0.37, T:0.21
Consensus pattern (27 bp):
CGGGGTAGTTCAATGGGACAATAAATG
Found at i:18394140 original size:13 final size:14
Alignment explanation
Indices: 18394122--18394150 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18394112 AAAATTGCTT
18394122 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
18394135 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
18394149 AA
1 AA
18394151 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:18406324 original size:18 final size:20
Alignment explanation
Indices: 18406289--18406326 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18406279 ACATATTTTT
*
18406289 TATATTATGTTATTTTTATA
1 TATATTATGTTATATTTATA
18406309 TATATTATG-TA-ATTTATA
1 TATATTATGTTATATTTATA
18406327 ACACATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATTATGTTATATTTATA
Done.