Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 79 of 328
Found at i:21654040 original size:22 final size:22
Alignment explanation
Indices: 21653988--21654041 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
21653978 GCCAATTATT
*
21653988 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGCGCCAAC
* *
21654010 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGCGCCAAC
21654032 CTGATTATGG
1 CTGATTATGG
21654042 TTGTGTACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGCGCCAAC
Found at i:21654241 original size:27 final size:26
Alignment explanation
Indices: 21654211--21654318 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
21654201 ATTCTGTTAA
* *
21654211 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
21654238 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
* * * *
21654265 GTGGCTCTGCCATATTATCTATATTTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
21654292 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
21654318 G
1 G
21654319 CAGCCATGCT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 11 0.17
27 48 0.73
28 7 0.11
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:21654269 original size:54 final size:53
Alignment explanation
Indices: 21654211--21654318 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 53
21654201 ATTCTGTTAA
* * *
21654211 GTGGCTTTGCCACATTATCTGT-TTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACATTATCTATATT-TGGTGACTATGCCAC-AATATCTGTTCTG
* * *
21654265 GTGGCTCTGCCATATTATCTATATTTGGTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACATTATCTATATTTGGTGACTATGCCACAATATCTGTTCTG
21654318 G
1 G
21654319 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 14 0.30
54 31 0.66
55 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (53 bp):
GTGGCTCTGCCACATTATCTATATTTGGTGACTATGCCACAATATCTGTTCTG
Found at i:21654467 original size:25 final size:24
Alignment explanation
Indices: 21654438--21654502 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 24
21654428 GCATTCACAT
* *
21654438 TTTGATTCTGATTCTGTTACCTGA
1 TTTGATTCTGATTCTGTCACCTAA
21654462 TATTGATTCTGATTCTGTCACCTAA
1 T-TTGATTCTGATTCTGTCACCTAA
21654487 TTCTGATTCTGATTCT
1 TT-TGATTCTGATTCT
21654503 TATTTTGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 2 0.05
25 35 0.95
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (24 bp):
TTTGATTCTGATTCTGTCACCTAA
Found at i:21659061 original size:13 final size:13
Alignment explanation
Indices: 21659043--21659071 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21659033 GGTTGTTTAT
21659043 TAAACTAATTAAC
1 TAAACTAATTAAC
21659056 TAAACTAATTAAC
1 TAAACTAATTAAC
21659069 TAA
1 TAA
21659072 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:21661833 original size:6 final size:6
Alignment explanation
Indices: 21661819--21661863 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
21661809 AATAAAACTG
* * * *
21661819 AAATGA AAATAA AAATAA AAAGAA AAATTA AAATTA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
21661864 GATAAGAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:21661846 original size:24 final size:24
Alignment explanation
Indices: 21661819--21661865 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
21661809 AATAAAACTG
21661819 AAATGAAAATAAAAATAAAAAGAA
1 AAATGAAAATAAAAATAAAAAGAA
* *
21661843 AAATTAAAATTAAAATAAAAAGA
1 AAATGAAAATAAAAATAAAAAGA
21661866 TAAGAGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (24 bp):
AAATGAAAATAAAAATAAAAAGAA
Found at i:21664488 original size:25 final size:25
Alignment explanation
Indices: 21664459--21664506 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21664449 TTATAATATG
* * *
21664459 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
21664484 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
21664507 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:21664574 original size:20 final size:20
Alignment explanation
Indices: 21664549--21664588 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21664539 ATAAATATGG
21664549 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
21664569 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
21664589 GGTAATCATA
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:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:21664666 original size:24 final size:24
Alignment explanation
Indices: 21664639--21664781 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
21664629 GAGGAAGTGA
21664639 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
21664663 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
21664687 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
21664710 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
21664734 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
21664758 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
21664782 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:21664732 original size:47 final size:47
Alignment explanation
Indices: 21664639--21664781 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
21664629 GAGGAAGTGA
21664639 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
21664687 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
21664734 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
21664782 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:21664755 original size:71 final size:72
Alignment explanation
Indices: 21664639--21664782 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
21664629 GAGGAAGTGA
*
21664639 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
21664702 CCAGTTAT
65 CCAGTTAT
** * *
21664710 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
21664775 CAGTTAT
66 CAGTTAT
21664782 A
1 A
21664783 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:21665005 original size:28 final size:31
Alignment explanation
Indices: 21664973--21665064 Score: 145
Period size: 31 Copynumber: 3.1 Consensus size: 31
21664963 CGTTTACAGT
21664973 AAAGGCTTCGGCCCAGT-ATA-GAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
21665001 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
21665032 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
21665063 AA
1 AA
21665065 TATGAAAAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
28 17 0.29
29 3 0.05
30 5 0.08
31 34 0.58
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:21671089 original size:25 final size:25
Alignment explanation
Indices: 21671060--21671107 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21671050 TTATAATATG
* * *
21671060 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
21671085 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
21671108 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:21671176 original size:20 final size:20
Alignment explanation
Indices: 21671151--21671209 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
21671141 TAAATATGGT
21671151 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
21671171 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
21671191 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
21671210 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:21671191 original size:11 final size:11
Alignment explanation
Indices: 21671155--21671209 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
21671145 TATGGTATGT
21671155 ATGATATGCAC
1 ATGATATGCAC
* *
21671166 ATGAAATG--T
1 ATGATATGCAC
21671175 ATGATATGCAC
1 ATGATATGCAC
*
21671186 ATGATATG--T
1 ATGATATGCAC
21671195 ATGATATGCAC
1 ATGATATGCAC
21671206 ATGA
1 ATGA
21671210 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:21671287 original size:24 final size:24
Alignment explanation
Indices: 21671260--21671402 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
21671250 GAGGAAGTGA
21671260 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
21671284 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
21671308 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
21671331 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
21671355 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
21671379 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
21671403 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:21671353 original size:47 final size:47
Alignment explanation
Indices: 21671260--21671402 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
21671250 GAGGAAGTGA
21671260 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
21671308 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
21671355 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
21671403 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:21671376 original size:71 final size:72
Alignment explanation
Indices: 21671260--21671403 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
21671250 GAGGAAGTGA
*
21671260 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
21671323 CCAGTTAT
65 CCAGTTAT
** * *
21671331 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
21671396 CAGTTAT
66 CAGTTAT
21671403 A
1 A
21671404 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:21671626 original size:28 final size:31
Alignment explanation
Indices: 21671594--21671685 Score: 145
Period size: 31 Copynumber: 3.1 Consensus size: 31
21671584 CGTTTACAGT
21671594 AAAGGCTTCGGCCCAGT-ATA-GAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
21671622 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
21671653 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
21671684 AA
1 AA
21671686 TATGAAAAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
28 17 0.29
29 3 0.05
30 5 0.08
31 34 0.58
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:21677140 original size:25 final size:25
Alignment explanation
Indices: 21677110--21677157 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21677100 CTTATAATAT
* * *
21677110 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
21677135 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
21677158 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:21677245 original size:20 final size:20
Alignment explanation
Indices: 21677200--21677258 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
21677190 ATAAATATGG
21677200 TATGTATGATATGCACA-GA
1 TATGTATGATATGCACATGA
*
21677219 AATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
21677239 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
21677259 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:21677334 original size:24 final size:24
Alignment explanation
Indices: 21677308--21677450 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
21677298 GAGGAAGTGA
21677308 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
21677331 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
21677355 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
21677379 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
21677403 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
21677427 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
21677451 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 13 0.12
24 87 0.78
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:21677677 original size:31 final size:31
Alignment explanation
Indices: 21677642--21677735 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
21677632 CGTTTACAGT
*
21677642 AAAGGCTTCGGCCCAGTAGTAGGAAACT-TGA
1 AAAGGCTTCGGCCCAGTAATAGGAAA-TATGA
*
21677673 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATAGGAAATATGA
** *
21677704 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATAGGAAATATGA
21677735 A
1 A
21677736 TTATGAAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
30 1 0.02
31 57 0.98
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATAGGAAATATGA
Found at i:21689571 original size:123 final size:123
Alignment explanation
Indices: 21689352--21689692 Score: 603
Period size: 123 Copynumber: 2.8 Consensus size: 123
21689342 GAATTATGTG
21689352 AAATGAAACATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAACATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
21689417 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21689475 AAATGAAACATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAACATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
21689540 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * *
21689598 AAATGAAACATGGATGTGTAATGATTATTGATATATGTGTGTGCATGAGCAATTGAATGATATCC
1 AAATGAAACATGGATGTGTAATGATTATTGATTTATGTGTGT--ATGAGTATTTGAATGATACCC
*
21689663 GGGCTAAGTCCCGAAGAC-ATTTATGCTAGT
64 GGGCTAAGTCCCGAAGGCGA-TTATGCTAGT
21689693 AATTATATCC
Statistics
Matches: 210, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
123 164 0.78
124 1 0.00
125 45 0.21
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.34
Consensus pattern (123 bp):
AAATGAAACATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:21689716 original size:40 final size:40
Alignment explanation
Indices: 21689657--21689864 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
21689647 CAATTGAATG
* * * *
21689657 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
21689697 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21689737 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21689777 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * **
21689817 CTATCCGGGCTAAGACCTGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
21689857 ATATCCGG
1 ATATCCGG
21689865 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:21689795 original size:80 final size:80
Alignment explanation
Indices: 21689658--21689864 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
21689648 AATTGAATGA
* * ** * * *
21689658 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
21689723 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
21689736 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
21689801 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* * *
21689818 TATCCGGGCTAAGACCTGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
21689865 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
80 104 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:21700455 original size:41 final size:43
Alignment explanation
Indices: 21700342--21700503 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
21700332 ATAGGATTTC
* * * *
21700342 CGATATGTG-TTCTCATGTAAGACCACGTCTGGGA-TGTTGGCAT
1 CGATATGTGATT-ACATGTAAGACCATGTCTGGGACAG-TAGCAT
** *
21700385 CGATATGTGATTATGTGTAAGACCATGTCTTGGACA-TCAGCAT
1 CGATATGTGATTACATGTAAGACCATGTCTGGGACAGT-AGCAT
* * *
21700428 CG-TATTTGATT-CATGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATGTGATTACATGTAAGACCATGTCTGGGACAGTAGCAT
**
21700469 CGATATGTGATTACATGTAAGACCACATCTGGGAC
1 CGATATGTGATTACATGTAAGACCATGTCTGGGAC
21700504 GTTGGCACTG
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
41 25 0.26
42 18 0.19
43 51 0.53
44 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCATGTCTGGGACAGTAGCAT
Found at i:21701505 original size:2 final size:2
Alignment explanation
Indices: 21701498--21701530 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21701488 AAATTTTGGC
21701498 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21701531 GCATAATCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21703555 original size:21 final size:21
Alignment explanation
Indices: 21703529--21703568 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
21703519 TACTTCTAGT
21703529 AGACATGATTCAAAGTAAAGC
1 AGACATGATTCAAAGTAAAGC
21703550 AGACATGATTCAAAGTAAA
1 AGACATGATTCAAAGTAAA
21703569 TAAATCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (21 bp):
AGACATGATTCAAAGTAAAGC
Found at i:21703874 original size:34 final size:34
Alignment explanation
Indices: 21703831--21703895 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
21703821 AGTGATAGTC
*
21703831 CAGTATCAGT-TAGGGTCATAGCCCATTACAGTAT
1 CAGTATCAGTGT-GGGCCATAGCCCATTACAGTAT
*
21703865 CAGTATCAGTGTGGGCCTTAGCCCATTACAG
1 CAGTATCAGTGTGGGCCATAGCCCATTACAG
21703896 AAATAGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCATAGCCCATTACAGTAT
Found at i:21710595 original size:1 final size:1
Alignment explanation
Indices: 21710589--21710618 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
21710579 GGCTAAAACC
*
21710589 AAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21710619 GATACATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:21717276 original size:43 final size:43
Alignment explanation
Indices: 21717229--21717349 Score: 199
Period size: 43 Copynumber: 2.8 Consensus size: 43
21717219 TCATATAACG
* *
21717229 ATGCCAATATCCCAGACATGGTCTTACACGTAAT-TACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCT-CAATACA
*
21717272 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCTCAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAATACA
21717315 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
21717350 ACATCTCGGT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 72 0.99
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAATACA
Found at i:21720536 original size:43 final size:43
Alignment explanation
Indices: 21720467--21720548 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
21720457 TTACATTACA
* * * *
21720467 TGTAAGACCATTTCTGAGGCATTGGCATCGTTATTTGATTCCG
1 TGTAAGACCATATCTGAGGCAATGGCATCGATATGTGATTCCG
21720510 TGTAAGACCATATCT-AGGCTAATGGCATCGATATGTGAT
1 TGTAAGACCATATCTGAGGC-AATGGCATCGATATGTGAT
21720549 AAAATGTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 4 0.12
43 30 0.88
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATATCTGAGGCAATGGCATCGATATGTGATTCCG
Found at i:21720557 original size:43 final size:43
Alignment explanation
Indices: 21720466--21720566 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
21720456 GTTACATTAC
* * * * ***
21720466 ATGTAAGACCATTTCTGAGGCATTGGCATCGTTATTTGATTCC
1 ATGTAAGACCATATCTGAGGCAATGGCATCGATATGTGATAAA
*
21720509 GTGTAAGACCATATCT-AGGCTAATGGCATCGATATGTGATAAA
1 ATGTAAGACCATATCTGAGGC-AATGGCATCGATATGTGATAAA
*
21720552 ATGTAAGACTATATC
1 ATGTAAGACCATATC
21720567 CGGGATATGG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (43 bp):
ATGTAAGACCATATCTGAGGCAATGGCATCGATATGTGATAAA
Found at i:21724094 original size:32 final size:32
Alignment explanation
Indices: 21724053--21724125 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
21724043 ATGGTTCAAA
21724053 AAATTTACAATGCCAACATATCGCACTAATAC
1 AAATTTACAATGCCAACATATCGCACTAATAC
*
21724085 AAATTTACAATGCCAACATATCGCAGTAATAC
1 AAATTTACAATGCCAACATATCGCACTAATAC
21724117 AAATTTACA
1 AAATTTACA
21724126 GATCACGTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (32 bp):
AAATTTACAATGCCAACATATCGCACTAATAC
Found at i:21751020 original size:46 final size:47
Alignment explanation
Indices: 21750953--21751122 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 47
21750943 TTGTCTGCCG
21750953 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATGTAAGCTA
*
21750999 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGATGT--G-TCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGTAAGCT-A
* * *
21751043 GTGTAAGACCATGTCTAGGG-CATGGCATTGGCACGAATATGTGAGAGCTA
1 GTGTAAGACCATGTCT-GGGACATGGCATCGGCTCG-AGATGT-A-AGCTA
*
21751093 GTGTAAGACCATGTTTGGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
21751123 ACATTATACC
Statistics
Matches: 105, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
43 1 0.01
44 10 0.10
45 13 0.12
46 51 0.49
49 3 0.03
50 26 0.25
51 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGTAAGCTA
Found at i:21769278 original size:72 final size:72
Alignment explanation
Indices: 21769197--21769339 Score: 286
Period size: 72 Copynumber: 2.0 Consensus size: 72
21769187 AACTTATAAT
21769197 TTCTTATCGATAATATCTCAAAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAAGGA
1 TTCTTATCGATAATATCTCAAAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAAGGA
21769262 CATAAAG
66 CATAAAG
21769269 TTCTTATCGATAATATCTCAAAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAAGGA
1 TTCTTATCGATAATATCTCAAAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAAGGA
21769334 CATAAA
66 CATAAA
21769340 AGTTTCAAAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.29
Consensus pattern (72 bp):
TTCTTATCGATAATATCTCAAAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAAGGA
CATAAAG
Found at i:21772135 original size:27 final size:26
Alignment explanation
Indices: 21772086--21772182 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
21772076 GGATAAGTTG
* *
21772086 TAGAATTACAAAATACCCCTGTAGGA
1 TAGAATTACGAAATACCCTTGTAGGA
*
21772112 TAGAATTACTGAAATACCCTTGTAGGC
1 TAGAATTAC-GAAATACCCTTGTAGGA
*
21772139 TAGAA-TACGAAATACCC-TGTAGGG
1 TAGAATTACGAAATACCCTTGTAGGA
21772163 TAGAATTACG--ATACCCTTGT
1 TAGAATTACGAAATACCCTTGT
21772183 GGGGTAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
23 6 0.09
24 14 0.22
25 13 0.20
26 12 0.19
27 19 0.30
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (26 bp):
TAGAATTACGAAATACCCTTGTAGGA
Found at i:21772160 original size:51 final size:50
Alignment explanation
Indices: 21772086--21772182 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
21772076 GGATAAGTTG
21772086 TAGAATTACAAAATACCCCTGTAGGATAGAATTACTGAAATACCCTTGTAGGC
1 TAGAATTACAAAATACCCCTGTAGGATAGAATTAC-G--ATACCCTTGTAGGC
* *
21772139 TAGAA-TACGAAATA-CCCTGTAGGGTAGAATTACGATACCCTTGT
1 TAGAATTACAAAATACCCCTGTAGGATAGAATTACGATACCCTTGT
21772183 GGGGTAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
48 10 0.24
50 1 0.02
51 18 0.43
52 8 0.19
53 5 0.12
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (50 bp):
TAGAATTACAAAATACCCCTGTAGGATAGAATTACGATACCCTTGTAGGC
Found at i:21772187 original size:24 final size:25
Alignment explanation
Indices: 21772085--21772195 Score: 111
Period size: 24 Copynumber: 4.4 Consensus size: 25
21772075 TGGATAAGTT
* *
21772085 GTAGAATTACAAAATACCCCTGTAGG
1 GTAGAATTAC-GAATACCCTTGTAGG
*
21772111 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTAC-G-AATACCCTTGTAGG
*
21772138 CTAGAA-TACGAAATACCC-TGTAGG
1 GTAGAATTACG-AATACCCTTGTAGG
*
21772162 GTAGAATTACG-ATACCCTTGTGGG
1 GTAGAATTACGAATACCCTTGTAGG
*
21772186 GTAAAATTAC
1 GTAGAATTAC
21772196 CATTTTGCCC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.08
24 25 0.34
25 13 0.18
26 12 0.16
27 18 0.24
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (25 bp):
GTAGAATTACGAATACCCTTGTAGG
Found at i:21772887 original size:27 final size:26
Alignment explanation
Indices: 21772843--21772894 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21772833 CTCGCTGCAA
*
21772843 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
21772870 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
21772895 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:21772932 original size:67 final size:69
Alignment explanation
Indices: 21772824--21772980 Score: 259
Period size: 70 Copynumber: 2.3 Consensus size: 69
21772814 GAGGAAGCGT
21772824 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC-ATATATCTGT-TCTGGTGACTTCGTCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAATATATCTGTATCTGGTGACTTCGTCAC
21772887 AATA
66 AATA
21772891 TCTGGCAGCCTCGCTGCAATCTGGTGG-C-CGCCACATATATATATCTGTATCTGGTGACTTCGT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC--A-ATATATCTGTATCTGGTGACTTCGT
21772954 CACAATA
63 CACAATA
21772961 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
21772981 TTCTGTGGTG
Statistics
Matches: 85, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
65 6 0.07
66 1 0.01
67 27 0.32
69 10 0.12
70 41 0.48
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.29
Consensus pattern (69 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAATATATCTGTATCTGGTGACTTCGTCAC
AATA
Found at i:21779495 original size:27 final size:27
Alignment explanation
Indices: 21779457--21779597 Score: 131
Period size: 27 Copynumber: 5.2 Consensus size: 27
21779447 GCCCAAGTGG
*
21779457 ATTACCGAAATACCCCTATAAGG-TAGA
1 ATTACCGAAATACCCCTGT-AGGATAGA
21779484 ATTACCGAAATACCCCTGTAGGATAGA
1 ATTACCGAAATACCCCTGTAGGATAGA
** * ** *
21779511 ATTATTGAAATACCCTTGTAGGCCAAA
1 ATTACCGAAATACCCCTGTAGGATAGA
* * *
21779538 AATACTGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGATAGA
* * * * *
21779565 ATTACCGAGATACCCTTGTGGGGTAAA
1 ATTACCGAAATACCCCTGTAGGATAGA
21779592 ATTACC
1 ATTACC
21779598 ATTTTGCCCC
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
26 3 0.03
27 91 0.97
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGATAGA
Found at i:21784361 original size:40 final size:40
Alignment explanation
Indices: 21784317--21784504 Score: 274
Period size: 40 Copynumber: 4.7 Consensus size: 40
21784307 GCTACTTGCT
21784317 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
21784357 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
21784397 CAAATGCCCTAGGGACTTAGCTCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21784437 CAAATGCCTTTGGG-CTTAGCCCGG-AATTAGTCAA-TAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGT-AACTCGCA
21784476 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
21784505 CATCCGAATA
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 29 0.22
40 101 0.77
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21802546 original size:32 final size:32
Alignment explanation
Indices: 21802505--21802569 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
21802495 AAAACTTAGT
21802505 AAGTTTGTACGAGAATGTGAAATAATCACAAC
1 AAGTTTGTACGAGAATGTGAAATAATCACAAC
*
21802537 AAGTTTGTACGTGAATGTGAAATAATCACAAC
1 AAGTTTGTACGAGAATGTGAAATAATCACAAC
21802569 A
1 A
21802570 TTCATTAGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.26
Consensus pattern (32 bp):
AAGTTTGTACGAGAATGTGAAATAATCACAAC
Found at i:21805433 original size:27 final size:27
Alignment explanation
Indices: 21805410--21805597 Score: 223
Period size: 27 Copynumber: 7.0 Consensus size: 27
21805400 CAAAATTATT
*
21805410 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21805437 GAAATACCCCTATAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21805464 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
21805491 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
21805518 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
21805545 GAAATACCCTTATAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
21805572 TAGATACCCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
21805598 TATTTTGCCC
Statistics
Matches: 137, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:21805461 original size:54 final size:54
Alignment explanation
Indices: 21805403--21805594 Score: 260
Period size: 54 Copynumber: 3.6 Consensus size: 54
21805393 CAATTTACAA
* * * *
21805403 AATTATTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAAGGTAG
* * *
21805457 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAAGGTAG
* *
21805511 AATTATCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAAGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAAGGTAG
* * * *
21805565 AATTACCTAGATACCCTTGTGGGGTA-AAAT
1 AATTATCGAAATACCCTTGTAGGGTAGAAAT
21805595 TACTATTTTG
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
53 4 0.03
54 118 0.97
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAAGGTAG
Found at i:21805555 original size:81 final size:81
Alignment explanation
Indices: 21805410--21805599 Score: 247
Period size: 81 Copynumber: 2.3 Consensus size: 81
21805400 CAAAATTATT
* *
21805410 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAAATACCGAAATACCCTT
* *
21805475 GTAGGGTAGAAATACC
66 ATAAGGTAGAAATACC
* * *
21805491 GAAATACCCCTGTAGGGTAGAATTA-TCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCT
1 GAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCCTATAAGGTAGAAATACCGAAATACCCT
*
21805555 TATAAGGTAGAATTACC
65 TATAAGGTAGAAATACC
* * * * *
21805572 TAGATACCCTTGTGGGGTAAAATTACTA
1 GAAATACCCCTGTAGGGTAGAATTACTA
21805600 TTTTGCCCCT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 92 0.98
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAAATACCGAAATACCCTT
ATAAGGTAGAAATACC
Found at i:21806239 original size:27 final size:26
Alignment explanation
Indices: 21806209--21806316 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
21806199 ATTCTGTTAA
* *
21806209 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
* *
21806236 GTGGCTATGCCACAAATATCTGTTCTA
1 GTGGCTCTGCCAC-AATATCTGTTCTG
21806263 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
21806290 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
21806316 G
1 G
21806317 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 51 0.71
28 7 0.10
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:21806266 original size:54 final size:53
Alignment explanation
Indices: 21806208--21806314 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 53
21806198 TATTCTGTTA
* * * *
21806208 AGTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTCT
* *
21806262 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTGTTCT
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCT
21806315 GGCAGCCATG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 12 0.26
54 35 0.74
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (53 bp):
AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCT
Found at i:21806443 original size:6 final size:6
Alignment explanation
Indices: 21806434--21806527 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
21806424 TTGCATTCAC
**
21806434 ATTCTG ATTCTG ATTCTG -TTACCTG ACACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
21806483 -TCACCTA ATTCTG ATTCTG ATTCTT ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
21806528 AATGTCTCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 57 0.84
7 6 0.09
8 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:21806465 original size:25 final size:25
Alignment explanation
Indices: 21806437--21806506 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
21806427 CATTCACATT
21806437 CTGATTCTGATTCTG-TTACCTGACA-
1 CTGATTCTGATTCTGATT--CTGACAC
*
21806462 CTGATTCTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGACAC
*
21806487 CTAATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
21806507 TATTTTGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 5 0.12
25 34 0.83
26 2 0.05
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGACAC
Found at i:21806469 original size:31 final size:31
Alignment explanation
Indices: 21806434--21806506 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
21806424 TTGCATTCAC
* *
21806434 ATTCTGATTCTGATTCTGTTACCTGACACTG
1 ATTCTGATTCTGATTCTGTCACCTAACACTG
**
21806465 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAACACTG
21806496 ATTCTGATTCT
1 ATTCTGATTCT
21806507 TATTTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAACACTG
Found at i:21808845 original size:41 final size:41
Alignment explanation
Indices: 21808800--21808917 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
21808790 TGAAAGATAA
21808800 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
21808841 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21808871 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21808912 ATGTAG
1 ATGTAG
21808918 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:21808856 original size:71 final size:71
Alignment explanation
Indices: 21808768--21808931 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21808758 GAGATGTATC
21808768 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21808833 AGGACA
66 AGGACA
21808839 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21808904 AGGACA
66 AGGACA
21808910 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
21808932 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:21813829 original size:13 final size:13
Alignment explanation
Indices: 21813811--21813839 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21813801 GGTTGTTTAT
21813811 TAAACTAATTAAC
1 TAAACTAATTAAC
21813824 TAAACTAATTAAC
1 TAAACTAATTAAC
21813837 TAA
1 TAA
21813840 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:21816781 original size:17 final size:18
Alignment explanation
Indices: 21816749--21816809 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
21816739 TATGTCTTTC
*
21816749 AAAAGAAAATAATAAAATTA
1 AAAAG-AAA-AATAAAAATA
* *
21816769 AAATG-AAAATAAAAAGA
1 AAAAGAAAAATAAAAATA
21816786 AAAAGAAAAATAAAAATA
1 AAAAGAAAAATAAAAATA
21816804 AAAAGA
1 AAAAGA
21816810 TAAGAGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 12 0.34
18 19 0.54
20 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAGAAAAATAAAAATA
Found at i:21816783 original size:6 final size:6
Alignment explanation
Indices: 21816762--21816807 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
21816752 AGAAAATAAT
* * * *
21816762 AAAATT AAAATG AAAATA AAAAGA AAAAGA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
21816808 GATAAGAGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:21822682 original size:46 final size:44
Alignment explanation
Indices: 21822632--21822807 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 44
21822622 TGTTTGGGCA
*
21822632 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
21822678 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* *
21822725 TCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
21822771 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21822808 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:21822787 original size:93 final size:93
Alignment explanation
Indices: 21822628--21822799 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
21822618 AGGATGTTTG
* * * *
21822628 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
21822693 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
21822721 GGCATCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
21822786 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
21822800 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:21832666 original size:46 final size:46
Alignment explanation
Indices: 21832616--21832791 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
21832606 TGGTTGAGCA
21832616 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
21832662 TCCGAACTCGTTGACTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21832707 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21832755 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21832792 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21832774 original size:93 final size:93
Alignment explanation
Indices: 21832613--21832784 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
21832603 GGATGGTTGA
* *
21832613 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGACT
21832678 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
21832706 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGACT
21832771 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21832785 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGACT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:21838764 original size:40 final size:40
Alignment explanation
Indices: 21838705--21838912 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
21838695 CAATTGAATG
* * * * * *
21838705 ATATCCAGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * * * *
21838745 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * *
21838785 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * *
21838825 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * * *
21838865 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
21838905 ATATCCGG
1 ATATCCGG
21838913 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
Found at i:21843458 original size:46 final size:46
Alignment explanation
Indices: 21843408--21843532 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
21843398 TGAGCATCCG
* *
21843408 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCA
*
21843454 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCA
* *
21843500 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21843533 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCA
Found at i:21858115 original size:39 final size:39
Alignment explanation
Indices: 21858035--21858186 Score: 259
Period size: 39 Copynumber: 3.9 Consensus size: 39
21858025 GTTATAGTAG
* *
21858035 CTCGCACAAATGCCTTCGGGACTTAACCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
*
21858075 CTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
21858114 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
*
21858153 CTCACACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
21858187 TACCCGAACA
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 89 0.83
40 18 0.17
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
Found at i:21867182 original size:46 final size:46
Alignment explanation
Indices: 21867132--21867260 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
21867122 TGGTTGAGCA
*
21867132 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
21867178 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * **
21867224 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21867261 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:21877038 original size:93 final size:93
Alignment explanation
Indices: 21876910--21877080 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
21876900 GCCCATAAAT
* * *
21876910 GAACTCAGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21876975 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
21877003 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
21877068 CGAGTTCGGATGC
66 CGAGCTCGGATGC
21877081 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:21877077 original size:46 final size:46
Alignment explanation
Indices: 21876902--21877077 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
21876892 TGTAACCCGC
* * * * *
21876902 CCATAAATGAACTCAGACTTAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
21876948 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
21876998 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
21877041 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
21877078 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:21877096 original size:46 final size:44
Alignment explanation
Indices: 21876953--21877096 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
21876943 CGCATCCATA
*
21876953 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
21877000 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
21877046 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
21877092 AGTGA
1 AGTGA
21877097 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:21882405 original size:23 final size:23
Alignment explanation
Indices: 21882379--21882422 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21882369 ATATTACCTT
*
21882379 GCTTCAGCTCAAGAAATCTTTAC
1 GCTTCAGATCAAGAAATCTTTAC
* *
21882402 GCTTCTGATCAATAAATCTTT
1 GCTTCAGATCAAGAAATCTTT
21882423 CACTAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (23 bp):
GCTTCAGATCAAGAAATCTTTAC
Found at i:21884493 original size:40 final size:39
Alignment explanation
Indices: 21884366--21884495 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21884356 ATGCTGGAAA
* *
21884366 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
21884406 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
21884446 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
21884486 TTATATCCGG
1 TTATATCCGG
21884496 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:21892509 original size:40 final size:39
Alignment explanation
Indices: 21892382--21892511 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21892372 ATGCTGGAAA
* *
21892382 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
21892422 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
21892462 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
21892502 TTATATCCGG
1 TTATATCCGG
21892512 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:21899024 original size:25 final size:25
Alignment explanation
Indices: 21898995--21899050 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
21898985 TTGAAAAATT
*
21898995 TTCTCCATTTTTCTTTT-TTTTTCTG
1 TTCTCCA-TTTTCTTTTCTTTTTCTC
*
21899020 TTCTCTATTTTCTTTTCTTTTTCTC
1 TTCTCCATTTTCTTTTCTTTTTCTC
21899045 TTCTCC
1 TTCTCC
21899051 TCTTCTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.70
Consensus pattern (25 bp):
TTCTCCATTTTCTTTTCTTTTTCTC
Found at i:21902143 original size:46 final size:46
Alignment explanation
Indices: 21902086--21902252 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
21902076 ACACACCGTA
21902086 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * *
21902132 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
21902185 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
21902231 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
21902253 TTCCGTCAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
46 44 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:21903384 original size:23 final size:22
Alignment explanation
Indices: 21903317--21903402 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
21903307 CCTGATCAGT
*
21903317 ATACGACACATAA-GTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
21903338 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
21903358 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTG-A
* *
21903381 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
21903403 TCAGTATAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
20 10 0.18
21 26 0.46
22 1 0.02
23 19 0.34
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:21903399 original size:44 final size:41
Alignment explanation
Indices: 21903317--21903403 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
21903307 CCTGATCAGT
* * *
21903317 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTG
*
21903358 ATACGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
21903402 AT
1 AT
21903404 CAGTATAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 12 0.31
42 7 0.18
43 2 0.05
44 18 0.46
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (41 bp):
ATACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:21903618 original size:23 final size:24
Alignment explanation
Indices: 21903592--21903686 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
21903582 AAATGTCCAA
21903592 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
21903615 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
21903643 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
21903672 CCAAAACACACCAGA
1 CCAAAACACACCAGA
21903687 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:21903688 original size:29 final size:28
Alignment explanation
Indices: 21903606--21903689 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
21903596 AACACACCAG
* *
21903606 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
21903634 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
21903662 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
21903690 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:21906967 original size:31 final size:31
Alignment explanation
Indices: 21906901--21906967 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
21906891 TGATGTTGCT
* *
21906901 AATTG-AATGCATGCTTAAACATGCTACTGA
1 AATTGTAAAGCATGCTTAAACATGCCACTGA
21906931 AATTGTAAAGCATG-TTAAAGCATGCCACT-A
1 AATTGTAAAGCATGCTTAAA-CATGCCACTGA
21906961 ATATTGT
1 A-ATTGT
21906968 TACTGTTACC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (31 bp):
AATTGTAAAGCATGCTTAAACATGCCACTGA
Found at i:21915279 original size:22 final size:22
Alignment explanation
Indices: 21915251--21915292 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21915241 ATATAGATAC
21915251 AACTT-AATCATGAACGAGCTCG
1 AACTTAAAT-ATGAACGAGCTCG
*
21915273 AACTTAAATATGAATGAGCT
1 AACTTAAATATGAACGAGCT
21915293 TAATTAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (22 bp):
AACTTAAATATGAACGAGCTCG
Found at i:21924734 original size:56 final size:56
Alignment explanation
Indices: 21924648--21924759 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
21924638 TCAAGTTCGG
21924648 TGAATTCATTTGGATTCTCAAACTCAGTTACATTGTACCAAAACTCT-CTCGCCTCA
1 TGAATTCATTTGGATTCTCAAACTCAGTTACATTGTACCAAAACT-TGCTCGCCTCA
21924704 TGAATTCATTTGGATTCTCAAACTCAGTTACATTGTACCAAAACTTGCTCGCCTCA
1 TGAATTCATTTGGATTCTCAAACTCAGTTACATTGTACCAAAACTTGCTCGCCTCA
21924760 GAAGTGGCAC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 1 0.02
56 54 0.98
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (56 bp):
TGAATTCATTTGGATTCTCAAACTCAGTTACATTGTACCAAAACTTGCTCGCCTCA
Found at i:21928747 original size:23 final size:23
Alignment explanation
Indices: 21928721--21928767 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
21928711 GAGATTTCAA
21928721 TTAATCAACCTAAAGTCAGTTGT
1 TTAATCAACCTAAAGTCAGTTGT
*
21928744 TTAATCAACCTAGAGTCAGTTGT
1 TTAATCAACCTAAAGTCAGTTGT
21928767 T
1 T
21928768 CTTACTCTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (23 bp):
TTAATCAACCTAAAGTCAGTTGT
Found at i:21929287 original size:18 final size:18
Alignment explanation
Indices: 21929264--21929334 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
21929254 AAGATGTGTC
21929264 ATTCATTTTCAAAACGTT
1 ATTCATTTTCAAAACGTT
*
21929282 ATTCATTATCACAAA-GTT
1 ATTCATTTTCA-AAACGTT
* *
21929300 ATAC-TCTTTCAAAGCGTT
1 ATTCAT-TTTCAAAACGTT
*
21929318 ATTAATTTTCAAAACGT
1 ATTCATTTTCAAAACGT
21929335 CACTTATTGC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 3 0.07
18 35 0.83
19 4 0.10
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (18 bp):
ATTCATTTTCAAAACGTT
Found at i:21930319 original size:26 final size:26
Alignment explanation
Indices: 21930277--21930329 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
21930267 TTATTTTTAT
21930277 TATCATTAATAACATAAT-TACTAAAC
1 TATCATTAATAACATAATATA-TAAAC
*
21930303 TATCCTTAATGAA-ATAATATATAAAC
1 TATCATTAAT-AACATAATATATAAAC
21930329 T
1 T
21930330 TAATAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (26 bp):
TATCATTAATAACATAATATATAAAC
Found at i:21930770 original size:18 final size:18
Alignment explanation
Indices: 21930747--21930784 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21930737 AGGACGTGTC
*
21930747 ATTCATTTTCA-AAACGTT
1 ATTCATTATCACAAA-GTT
21930765 ATTCATTATCACAAAGTT
1 ATTCATTATCACAAAGTT
21930783 AT
1 AT
21930785 ACTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (18 bp):
ATTCATTATCACAAAGTT
Found at i:21930923 original size:18 final size:18
Alignment explanation
Indices: 21930856--21930926 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
21930846 GCAATAAGTG
*
21930856 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
* *
21930874 ACATTTTGAAAGA-GTATA
1 ACGTTTTGAAA-ATGAATA
*
21930892 AC-TTTGTGACAATGAATA
1 ACGTTT-TGAAAATGAATA
21930910 ACGTTTTGAAAATGAAT
1 ACGTTTTGAAAATGAAT
21930927 GATACTTCCT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
17 4 0.09
18 35 0.81
19 4 0.09
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.35
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:21940852 original size:66 final size:66
Alignment explanation
Indices: 21940782--21940915 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
21940772 AAAAAGAGAG
21940782 TATAGAGGAAAAAGGCGAAATAAAAAATGAAGAGAATAAAGAGATGCGCCAATTTCTCTTTAGCC
1 TATAGAGGAAAAAGGCGAAATAAAAAATGAAGAGAATAAAGAGATGCGCCAATTTCTCTTTAGCC
21940847 T
66 T
* *
21940848 TATAGAGGAAAAAGGTGAAATAAAAAATGAAGAGAATAAAGAGATGCGTCAATTTCTCTTTAGCC
1 TATAGAGGAAAAAGGCGAAATAAAAAATGAAGAGAATAAAGAGATGCGCCAATTTCTCTTTAGCC
21940913 T
66 T
21940914 TA
1 TA
21940916 CTTTTTCAGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (66 bp):
TATAGAGGAAAAAGGCGAAATAAAAAATGAAGAGAATAAAGAGATGCGCCAATTTCTCTTTAGCC
T
Found at i:21960671 original size:45 final size:46
Alignment explanation
Indices: 21960585--21960699 Score: 112
Period size: 45 Copynumber: 2.5 Consensus size: 46
21960575 TATCGATATA
* *
21960585 TCAGCTCGTAAGAGCTTACTATTTTCAGCTCATTGGAGCTTAGCGAT
1 TCAGCTCGTAAGAGCTTAC-ATGTTCAGCTCATTAGAGCTTAGCGAT
* * * *
21960632 TCAGCTCGTATGAGTTTAC-TGTTCAGCTCGA-TAGAGCTTATCGTT
1 TCAGCTCGTAAGAGCTTACATGTTCAGCTC-ATTAGAGCTTAGCGAT
*
21960677 TCAGCTC-AATAGAGCTTAC-TGTT
1 TCAGCTCGTA-AGAGCTTACATGTT
21960700 TATCAGCTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
44 1 0.02
45 38 0.67
46 1 0.02
47 17 0.30
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (46 bp):
TCAGCTCGTAAGAGCTTACATGTTCAGCTCATTAGAGCTTAGCGAT
Found at i:21960683 original size:23 final size:23
Alignment explanation
Indices: 21960570--21960694 Score: 80
Period size: 23 Copynumber: 5.3 Consensus size: 23
21960560 CAGCTTGTAT
21960570 GAGCTTATCGATATATCAGCTCG-TAA
1 GAGCTTATCG-T-T-TCAGCTCGAT-A
** *
21960596 GAGCTTACTATTTTCAGCTC-ATTG
1 GAGCTTA-TCGTTTCAGCTCGA-TA
* *
21960620 GAGCTTAGCGATTCAGCTCG-TA
1 GAGCTTATCGTTTCAGCTCGATA
*
21960642 TGAGTTTA-C-TGTTCAGCTCGATA
1 -GAGCTTATCGT-TTCAGCTCGATA
*
21960665 GAGCTTATCGTTTCAGCTCAATA
1 GAGCTTATCGTTTCAGCTCGATA
21960688 GAGCTTA
1 GAGCTTA
21960695 CTGTTTATCA
Statistics
Matches: 78, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
22 17 0.22
23 35 0.45
24 15 0.19
25 2 0.03
26 8 0.10
27 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (23 bp):
GAGCTTATCGTTTCAGCTCGATA
Found at i:21960700 original size:23 final size:23
Alignment explanation
Indices: 21960595--21960720 Score: 89
Period size: 23 Copynumber: 5.3 Consensus size: 23
21960585 TCAGCTCGTA
* *
21960595 AGAGCTTACTATTTTCAGCTCATT
1 AGAGCTTACT-GTTTCAGCTCAAT
* * *
21960619 GGAGCTTAGC-GATTCAGCTC-GT
1 AGAGCTTA-CTGTTTCAGCTCAAT
* *
21960641 ATGAGTTTACTG-TTCAGCTCGAT
1 A-GAGCTTACTGTTTCAGCTCAAT
21960664 AGAGCTTA-TCGTTTCAGCTCAAT
1 AGAGCTTACT-GTTTCAGCTCAAT
*
21960687 AGAGCTTACTGTTTATCAGCTCAAG
1 AGAGCTTACTG-TT-TCAGCTCAAT
21960712 AGGAGCTTA
1 A-GAGCTTA
21960721 TCGATCATGG
Statistics
Matches: 82, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
21 1 0.01
22 17 0.21
23 36 0.44
24 10 0.12
25 11 0.13
26 7 0.09
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:21960899 original size:20 final size:19
Alignment explanation
Indices: 21960870--21960954 Score: 98
Period size: 20 Copynumber: 4.3 Consensus size: 19
21960860 AGATATGTGT
*
21960870 TTATATGGATGAATTACTG
1 TTATACGGATGAATTACTG
21960889 TTGATACGGATGAATTACTG
1 TT-ATACGGATGAATTACTG
* * *
21960909 TTATTACTGATGAACTACTAT
1 TTA-TACGGATGAATTACT-G
21960930 TTATACGGATGAATTACTGG
1 TTATACGGATGAATTACT-G
21960950 TTATA
1 TTATA
21960955 TTAATGAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.05
20 49 0.89
21 3 0.05
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (19 bp):
TTATACGGATGAATTACTG
Found at i:21960921 original size:40 final size:40
Alignment explanation
Indices: 21960877--21960966 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
21960867 TGTTTATATG
*
21960877 GATGAATTACTGTTGATACGGATGAATTACT-GTTATTACT
1 GATGAATTACTATTGATACGGATGAATTACTGGTTA-TACT
* * *
21960917 GATGAACTACTATTTATACGGATGAATTACTGGTTATATT
1 GATGAATTACTATTGATACGGATGAATTACTGGTTATACT
*
21960957 AATGAATTAC
1 GATGAATTAC
21960967 AGGTTATACG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (40 bp):
GATGAATTACTATTGATACGGATGAATTACTGGTTATACT
Found at i:21960974 original size:40 final size:39
Alignment explanation
Indices: 21960878--21960976 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 39
21960868 GTTTATATGG
* *
21960878 ATGAATTACTGTTGATACGGATGAATTACTGTTATTACTG
1 ATGAATTACAGTT-ATACGGATGAATTACTGTTATTACTA
* * *
21960918 ATGAACTACTATTTATACGGATGAATTACTGGTTA-TATTA
1 ATGAATTAC-AGTTATACGGATGAATTACT-GTTATTACTA
21960958 ATGAATTACAGGTTATACG
1 ATGAATTACA-GTTATACG
21960977 AATAGAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
39 1 0.02
40 42 0.86
41 6 0.12
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (39 bp):
ATGAATTACAGTTATACGGATGAATTACTGTTATTACTA
Found at i:21962532 original size:20 final size:20
Alignment explanation
Indices: 21962498--21962547 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
21962488 AGTACATGTA
21962498 TAATGTAAATG-AATGATATT
1 TAATG-AAATGAAATGATATT
21962518 TAATGAAATGAAATGATATT
1 TAATGAAATGAAATGATATT
*
21962538 TGAT-AAATGA
1 TAATGAAATGA
21962548 TTGTTCTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (20 bp):
TAATGAAATGAAATGATATT
Found at i:21980338 original size:2 final size:2
Alignment explanation
Indices: 21980331--21980366 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
21980321 ACACTCATCA
21980331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21980367 TGCTTCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21982402 original size:119 final size:120
Alignment explanation
Indices: 21982190--21982434 Score: 474
Period size: 119 Copynumber: 2.0 Consensus size: 120
21982180 TCTAATTGCC
21982190 ATTTAAGGACCTCCTCTTTAAACCCCCATTTCAATCAAGTACTTATGAATTAGAACACATATTTT
1 ATTTAAGGACCTCCTCTTTAAACCCCCATTTCAATCAAGTACTTATGAATTAGAACACATATTTT
21982255 GCAACTTTTGCAATTTAGTCCTAAAAGTCCAATTAAGCACTTTATCAATAAAATT
66 GCAACTTTTGCAATTTAGTCCTAAAAGTCCAATTAAGCACTTTATCAATAAAATT
21982310 ATTTAAGGACCTCCTCTTTAAA-CCCCATTTCAATCAAGTACTTATGAATTAGAACACATATTTT
1 ATTTAAGGACCTCCTCTTTAAACCCCCATTTCAATCAAGTACTTATGAATTAGAACACATATTTT
21982374 GCAACTTTTGCAATTTAGTCCTAAAAGTCCAATTAAGCACTTTATCAATAAAATT
66 GCAACTTTTGCAATTTAGTCCTAAAAGTCCAATTAAGCACTTTATCAATAAAATT
*
21982429 ACTTAA
1 ATTTAA
21982435 CGATATTTTT
Statistics
Matches: 124, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 102 0.82
120 22 0.18
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (120 bp):
ATTTAAGGACCTCCTCTTTAAACCCCCATTTCAATCAAGTACTTATGAATTAGAACACATATTTT
GCAACTTTTGCAATTTAGTCCTAAAAGTCCAATTAAGCACTTTATCAATAAAATT
Found at i:21988677 original size:5 final size:5
Alignment explanation
Indices: 21988662--21988716 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 5
21988652 TAAGTCTTCA
21988662 AAAAT -AAAT AAAAT AAAGAT AAAAT AAAAAT AAAGAT AAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAA-AT AAAAT -AAAAT AAA-AT -AAAAT -AAAAT
21988711 AAAAT A
1 AAAAT A
21988717 GATGGACTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.09
5 18 0.40
6 20 0.44
7 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:21988691 original size:6 final size:6
Alignment explanation
Indices: 21988667--21988714 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
21988657 CTTCAAAAAT
* *
21988667 AAAT-A AAATAA AGAT-A AAATAA AAATAA AGATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
21988713 AA
1 AA
21988715 TAGATGGACT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
5 8 0.22
6 29 0.78
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:21988693 original size:17 final size:18
Alignment explanation
Indices: 21988667--21988713 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
21988657 CTTCAAAAAT
21988667 AAAT-AAAATAAAGAT-A
1 AAATAAAAATAAAGATAA
21988683 AAATAAAAATAAAGATAA
1 AAATAAAAATAAAGATAA
21988701 AAATAAAAATAAA
1 AAATAAAAATAAA
21988714 ATAGATGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.14
17 11 0.38
18 14 0.48
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (18 bp):
AAATAAAAATAAAGATAA
Found at i:21988702 original size:12 final size:11
Alignment explanation
Indices: 21988667--21988714 Score: 69
Period size: 11 Copynumber: 4.2 Consensus size: 11
21988657 CTTCAAAAAT
21988667 AAATAAAATAA
1 AAATAAAATAA
*
21988678 AGATAAAATAA
1 AAATAAAATAA
21988689 AAATAAAGATAA
1 AAATAAA-ATAA
21988701 AAATAAAAATAA
1 AAAT-AAAATAA
21988713 AA
1 AA
21988715 TAGATGGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 16 0.48
12 14 0.42
13 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:21999848 original size:24 final size:24
Alignment explanation
Indices: 21999817--21999880 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 24
21999807 AATGGGGAGA
*
21999817 AAAGAGGAGGGAAG-AAGAAAGGG
1 AAAGAGGAGGAAAGAAAGAAAGGG
21999840 AAAGAAGGAGGAAAGAAAGAAA--G
1 AAAG-AGGAGGAAAGAAAGAAAGGG
21999863 -AAGA-GA-GAAAGAAAGAAA
1 AAAGAGGAGGAAAGAAAGAAA
21999881 AAGAAAGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 12 0.32
20 2 0.05
21 1 0.03
22 3 0.08
23 5 0.13
24 9 0.24
25 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (24 bp):
AAAGAGGAGGAAAGAAAGAAAGGG
Found at i:21999859 original size:4 final size:4
Alignment explanation
Indices: 21999850--21999897 Score: 57
Period size: 4 Copynumber: 12.5 Consensus size: 4
21999840 AAAGAAGGAG
*
21999850 GAAA GAAA GAAA G-AA GAGA GAAA GAAA G-AA -AAA GAAA GAAA GAGAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA
21999896 GA
1 GA
21999898 GAAAGGGAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
3 7 0.18
4 27 0.71
5 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:21999859 original size:15 final size:14
Alignment explanation
Indices: 21999831--21999902 Score: 74
Period size: 15 Copynumber: 4.9 Consensus size: 14
21999821 AGGAGGGAAG
*
21999831 AAGAAAGGGAAAGA
1 AAGAAAGAGAAAGA
*
21999845 AGGAGGAA-AGAAAGA
1 A--AGAAAGAGAAAGA
21999860 AAGAAGAGAGAAAGA
1 AAGAA-AGAGAAAGA
*
21999875 AAGAAAAAGAAAGA
1 AAGAAAGAGAAAGA
21999889 AAGAGAAGAGAAAG
1 AAGA-AAGAGAAAG
21999903 GGAGGGGGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.06
14 14 0.29
15 27 0.56
16 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AAGAAAGAGAAAGA
Found at i:21999863 original size:19 final size:19
Alignment explanation
Indices: 21999839--21999897 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
21999829 AGAAGAAAGG
21999839 GAAAGAAG-GAGGAAAGAAA
1 GAAAGAAGAGA-GAAAGAAA
21999858 GAAAGAAGAGAGAAAGAAA
1 GAAAGAAGAGAGAAAGAAA
*
21999877 GAAA-AAGAAAGAAAGAGAA
1 GAAAGAAGAGAGAAAGA-AA
21999896 GA
1 GA
21999898 GAAAGGGAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 11 0.30
19 24 0.65
20 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
GAAAGAAGAGAGAAAGAAA
Found at i:21999883 original size:25 final size:25
Alignment explanation
Indices: 21999855--21999902 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
21999845 AGGAGGAAAG
21999855 AAAGAAAGAAGAGAGAA-AGAAAGAA
1 AAAGAAAGAA-AGAGAAGAGAAAGAA
21999880 AAAGAAAGAAAGAGAAGAGAAAG
1 AAAGAAAGAAAGAGAAGAGAAAG
21999903 GGAGGGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (25 bp):
AAAGAAAGAAAGAGAAGAGAAAGAA
Found at i:22004099 original size:7 final size:7
Alignment explanation
Indices: 22004087--22004111 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22004077 GTTGTCTTCT
22004087 TGTTTGA
1 TGTTTGA
22004094 TGTTTGA
1 TGTTTGA
22004101 TGTTTGA
1 TGTTTGA
22004108 TGTT
1 TGTT
22004112 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:22005037 original size:27 final size:28
Alignment explanation
Indices: 22004981--22005050 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
22004971 AAATTTGTAC
22004981 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
22005009 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
22005036 AGCACTAAGCGTGCG
1 AGCACTAAGTGTGCG
22005051 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:22010602 original size:12 final size:12
Alignment explanation
Indices: 22010585--22010619 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22010575 GAGCACATGG
22010585 CCGTGTCCAAAC
1 CCGTGTCCAAAC
* *
22010597 CCGTGTCCTACC
1 CCGTGTCCAAAC
22010609 CCGTGTCCAAA
1 CCGTGTCCAAA
22010620 AAAGTGAGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (12 bp):
CCGTGTCCAAAC
Found at i:22013733 original size:10 final size:10
Alignment explanation
Indices: 22013715--22013743 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
22013705 TATTTTTTCA
22013715 TCATTTTTTT
1 TCATTTTTTT
22013725 TCATTTTTTT
1 TCATTTTTTT
22013735 TC-TTTTTTT
1 TCATTTTTTT
22013744 ATAACAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (10 bp):
TCATTTTTTT
Found at i:22014732 original size:12 final size:11
Alignment explanation
Indices: 22014709--22014748 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
22014699 TAAGTCTAAG
*
22014709 AAAATTAAAAT
1 AAAATAAAAAT
22014720 AAACATAAAAAT
1 AAA-ATAAAAAT
22014732 AAAATAAAAATT
1 AAAATAAAAA-T
22014744 AAAAT
1 AAAAT
22014749 TAAAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:22014747 original size:17 final size:17
Alignment explanation
Indices: 22014709--22014758 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
22014699 TAAGTCTAAG
* *
22014709 AAAATTAAAATAAACAT
1 AAAAATAAAATAAAAAT
22014726 AAAAATAAAATAAAAAT
1 AAAAATAAAATAAAAAT
* * *
22014743 TAAAATTAAAGAAAAA
1 AAAAATAAAATAAAAA
22014759 AGAAAGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:22014758 original size:29 final size:29
Alignment explanation
Indices: 22014709--22014769 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
22014699 TAAGTCTAAG
*
22014709 AAAATTAAAATAAACATAAAAATAAAATA
1 AAAATTAAAATAAACATAAAAAGAAAATA
* *
22014738 AAAATTAAAATTAAAGA-AAAAAGAAAGTA
1 AAAATTAAAA-TAAACATAAAAAGAAAATA
22014767 AAA
1 AAA
22014770 CAAATAGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (29 bp):
AAAATTAAAATAAACATAAAAAGAAAATA
Found at i:22017463 original size:25 final size:25
Alignment explanation
Indices: 22017435--22017482 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22017425 GTATACCATG
* * *
22017435 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22017460 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22017483 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22017551 original size:20 final size:20
Alignment explanation
Indices: 22017526--22017584 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
22017516 TAAATATGGT
*
22017526 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
22017546 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
22017566 ATGTATGATATGCATATGA
1 ATGTATGATATGCACATGA
22017585 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:22017662 original size:24 final size:24
Alignment explanation
Indices: 22017635--22017777 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
22017625 GAGGAAGTGA
22017635 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
22017659 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
22017683 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
22017706 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
22017730 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
22017754 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22017778 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:22017728 original size:47 final size:47
Alignment explanation
Indices: 22017635--22017777 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
22017625 GAGGAAGTGA
22017635 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
22017683 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
22017730 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
22017778 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:22017751 original size:71 final size:72
Alignment explanation
Indices: 22017635--22017778 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
22017625 GAGGAAGTGA
*
22017635 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
22017698 CCAGTTAT
65 CCAGTTAT
** * *
22017706 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
22017771 CAGTTAT
66 CAGTTAT
22017778 A
1 A
22017779 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:22018003 original size:31 final size:31
Alignment explanation
Indices: 22017968--22018062 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
22017958 CGTTTACAGT
22017968 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22017999 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
22018030 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22018061 AA
1 AA
22018063 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22022494 original size:39 final size:39
Alignment explanation
Indices: 22022440--22022622 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
22022430 GAATGTTCGA
22022440 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
22022479 GTGATATCCGGGCTAAGCTCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
22022518 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
22022557 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
22022596 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
22022623 CTTTGAGCGG
Statistics
Matches: 132, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 123 0.93
40 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Done.