Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 15 of 54
Found at i:6741894 original size:122 final size:121
Alignment explanation
Indices: 6741641--6742067 Score: 428
Period size: 123 Copynumber: 3.5 Consensus size: 121
6741631 AGGTTTTAGG
* * * * * *
6741641 AATGTACCCGGAGGTTTTAGAAGAAAAACTTGTT-CTCATCTTAGAATGAGGCTACATAACTTTG
1 AATGTACCCGGAGGTTTTAAAAGAAAAAGTTGTTCCTCATCTCAAAATGAGGCCACGTAACTTTG
* * * * * * *
6741705 AAGAAATCTTGAAACCAAA-TACCTAGAGGTTTTGGGAATATACTTGAAAGTTTTACA
66 AAGAAATCTT-AAAACAAATTACCCAGAGGTTTTAGGAATGTACTCGAAGGTTTGA-A
* ** *
6741762 AATGTTCCCGGAGGTTTTGGAAGAAAAAGTTGTTCCTCATCTCAAAATGAGGCCACGTAATTTTG
1 AATGTACCCGGAGGTTTTAAAAGAAAAAGTTGTTCCTCATCTCAAAATGAGGCCACGTAACTTTG
* * * * *
6741827 AAAAAATCTTAAAACAAATTACCCAAAGGTTTTAGGAATGTGCCCGGAGGTCTTGAA
66 AAGAAATCTTAAAACAAATTACCCAGAGGTTTTAGGAATGTACTCGAAGGT-TTGAA
* * * * *
6741884 GATGTACCCGGAGGCTTTAAAAGAAAAAGGTTGTTCCTCATCTCAAAATGAGGTCATGCAACTTT
1 AATGTACCCGGAGGTTTTAAAAGAAAAA-GTTGTTCCTCATCTCAAAATGAGGCCACGTAACTTT
* ** * * *
6741949 GAAGAAGTCTTAAAACTGATTACCCGGTGGTTTTA-AAGATGTACTCGAAGGTTTTGAA
65 GAAGAAATCTTAAAACAAATTACCCAGAGGTTTTAGGA-ATGTACTCGAAGG-TTTGAA
* ** * *
6742007 AATGCACCCAAAGGTTTTAAAAGAAAAAAGTTGTTTCTCATCTCAAAATGAGACCACGTAA
1 AATGTACCCGGAGGTTTTAAAAG-AAAAAGTTGTTCCTCATCTCAAAATGAGGCCACGTAA
6742068 TTTAAATTTT
Statistics
Matches: 249, Mismatches: 50, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
121 38 0.15
122 82 0.33
123 123 0.49
124 6 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (121 bp):
AATGTACCCGGAGGTTTTAAAAGAAAAAGTTGTTCCTCATCTCAAAATGAGGCCACGTAACTTTG
AAGAAATCTTAAAACAAATTACCCAGAGGTTTTAGGAATGTACTCGAAGGTTTGAA
Found at i:6742002 original size:21 final size:20
Alignment explanation
Indices: 6741977--6742028 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
6741967 ATTACCCGGT
* * *
6741977 GGTTTTAAAGATGTACTCGAA
1 GGTTTTAAA-ATGCACCCAAA
6741998 GGTTTTGAAAATGCACCCAAA
1 GGTTTT-AAAATGCACCCAAA
6742019 GGTTTTAAAA
1 GGTTTTAAAA
6742029 GAAAAAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 20 0.74
22 3 0.11
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
GGTTTTAAAATGCACCCAAA
Found at i:6742173 original size:61 final size:60
Alignment explanation
Indices: 6742108--6742689 Score: 596
Period size: 61 Copynumber: 9.5 Consensus size: 60
6742098 CTTAGACGTG
* * * ** ** *
6742108 TTGGATGCCAGCTACAGTGGGCTTAAACATATCGGTGCCAATATAACTGGGCTTAAACATC
1 TTGGATGCCAGCTAAATTGGGCTTAAAC-TCTTTGTGCCAACGTAACTGGACTTAAACATC
* * *
6742169 TTGGATGCCAGCTAAATTGCGCTTAAACTCCTTTTGTGCCAACGTAACTGGACTTATACATA
1 TTGGATGCCAGCTAAATTGGGCTTAAACT-C-TTTGTGCCAACGTAACTGGACTTAAACATC
* * * ** * * *
6742231 TTGGATGCTA-CTTTAATTGGGCTTAAATCTCTTTGTGTCAATATAACTGGGCTTAATCATT
1 TTGGATGCCAGC-TAAATTGGGCTTAAA-CTCTTTGTGCCAACGTAACTGGACTTAAACATC
* *
6742292 TTGGATGCCAGCTAAATTGGGCTT-AACTCCTTTTGTGCCAACATAACTAGACTTAAACATC
1 TTGGATGCCAGCTAAATTGGGCTTAAACT-C-TTTGTGCCAACGTAACTGGACTTAAACATC
* * * * * *
6742353 TTGAATGCCAACTAAATTGAGCTTAAACTCCCTTGTGCCAATGTAACTGGACTTACACATC
1 TTGGATGCCAGCTAAATTGGGCTTAAACT-CTTTGTGCCAACGTAACTGGACTTAAACATC
* ** * *
6742414 TTGGATGCCAGTTTGATTGGGCTTAAACTCCTTTTGTACCAACGTAACTGGACTTATACATC
1 TTGGATGCCAGCTAAATTGGGCTTAAACT-C-TTTGTGCCAACGTAACTGGACTTAAACATC
*
6742476 TTGGATGCCAG-TATAACTTGGGCTTAAATCTCTTTGTGCCAACGTAACTGGACTTATACATC
1 TTGGATGCCAGCTA-AA-TTGGGCTTAAA-CTCTTTGTGCCAACGTAACTGGACTTAAACATC
* *
6742538 TCGGATGCCAGTTAAATTGGGCTTAAATCTCTTTGTGCCAACGTAACTGGACTTAAACATC
1 TTGGATGCCAGCTAAATTGGGCTTAAA-CTCTTTGTGCCAACGTAACTGGACTTAAACATC
* * * * ** * *
6742599 TTGGATGCC-GGTTAATTGGGCTTAAATTCTTTCATGCCAACAAAAATGGACTTATACATC
1 TTGGATGCCAGCTAAATTGGGCTTAAACTCTTT-GTGCCAACGTAACTGGACTTAAACATC
*
6742659 TTGGATGCCAGTTAAATTGGGCTTAAGACTC
1 TTGGATGCCAGCTAAATTGGGCTTAA-ACTC
6742690 AAATCTTTCT
Statistics
Matches: 441, Mismatches: 64, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
59 7 0.02
60 50 0.11
61 231 0.52
62 135 0.31
63 16 0.04
64 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (60 bp):
TTGGATGCCAGCTAAATTGGGCTTAAACTCTTTGTGCCAACGTAACTGGACTTAAACATC
Found at i:6742193 original size:31 final size:31
Alignment explanation
Indices: 6742108--6742317 Score: 96
Period size: 31 Copynumber: 6.8 Consensus size: 31
6742098 CTTAGACGTG
* *
6742108 TTGGATGCCAGCTACAGTGGGCTTAAACATA
1 TTGGATGCCAGCTAAACTGGGCTTAAACATA
* * *
6742139 TCGG-TGCCA-ATATAACTGGGCTTAAACATC
1 TTGGATGCCAGCTA-AACTGGGCTTAAACATA
* * *
6742169 TTGGATGCCAGCTAAATTGCGCTTAAAC-TCCT
1 TTGGATGCCAGCTAAACTGGGCTTAAACAT--A
* * * *
6742201 TTTG-TGCCAACGT-AACTGGACTTATACATA
1 TTGGATGCCAGC-TAAACTGGGCTTAAACATA
* * * *
6742231 TTGGATGCTA-CTTTAATTGGGCTTAAATC-TC
1 TTGGATGCCAGC-TAAACTGGGCTTAAA-CATA
* * * * *
6742262 TTTG-TGTCA-ATATAACTGGGCTTAATCATT
1 TTGGATGCCAGCTA-AACTGGGCTTAAACATA
*
6742292 TTGGATGCCAGCTAAATTGGGCTTAA
1 TTGGATGCCAGCTAAACTGGGCTTAA
6742318 CTCCTTTTGT
Statistics
Matches: 129, Mismatches: 36, Indels: 28
0.67 0.19 0.15
Matches are distributed among these distances:
29 4 0.03
30 46 0.36
31 69 0.53
32 10 0.08
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (31 bp):
TTGGATGCCAGCTAAACTGGGCTTAAACATA
Found at i:6742362 original size:31 final size:29
Alignment explanation
Indices: 6742327--6742423 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 29
6742317 ACTCCTTTTG
6742327 TGCCAACATAACTAGACTTAAACATCTTGAA
1 TGCCAAC-TAACTAGACTTAAACATCTTG-A
* *
6742358 TGCCAACTAAATTGAGCTTAAAC-TCCCTTG-
1 TGCCAACTAACTAGA-CTTAAACAT--CTTGA
* * *
6742388 TGCCAATGTAACTGGACTTACACATCTTGGA
1 TGCCAA-CTAACTAGACTTAAACATCTT-GA
6742419 TGCCA
1 TGCCA
6742424 GTTTGATTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
29 3 0.06
30 20 0.38
31 26 0.49
32 4 0.08
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (29 bp):
TGCCAACTAACTAGACTTAAACATCTTGA
Found at i:6742516 original size:31 final size:30
Alignment explanation
Indices: 6742481--6742630 Score: 93
Period size: 30 Copynumber: 5.0 Consensus size: 30
6742471 ACATCTTGGA
6742481 TGCCAGTATAACTTGGGCTTAAATCTCTTTG
1 TGCCAGT-TAACTTGGGCTTAAATCTCTTTG
* *
6742512 TGCCAACG-TAAC-TGGACTTATACATCTC--GG
1 TGCC-A-GTTAACTTGGGCTTA-A-ATCTCTTTG
*
6742542 ATGCCAGTTAAATTGGGCTTAAATCTCTTTG
1 -TGCCAGTTAACTTGGGCTTAAATCTCTTTG
* *
6742573 TGCCAACG-TAAC-TGGACTTAAA-CATCTTGG
1 TGCC-A-GTTAACTTGGGCTTAAATC-TCTTTG
*
6742603 ATGCCGGTTAA-TTGGGCTTAAAT-TCTTT
1 -TGCCAGTTAACTTGGGCTTAAATCTCTTT
6742631 CATGCCAACA
Statistics
Matches: 92, Mismatches: 11, Indels: 34
0.67 0.08 0.25
Matches are distributed among these distances:
29 12 0.13
30 43 0.47
31 29 0.32
32 7 0.08
33 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (30 bp):
TGCCAGTTAACTTGGGCTTAAATCTCTTTG
Found at i:6742624 original size:245 final size:245
Alignment explanation
Indices: 6742142--6742689 Score: 717
Period size: 245 Copynumber: 2.2 Consensus size: 245
6742132 AAACATATCG
* * * *
6742142 GTGCCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGCGCTTAAACTCCTTTTGTG
1 GTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAACTCCTTTTGTA
* * *
6742207 CCAACGTAACTGGACTTATACATATTGGATGCTACTTTAATTGGGCTTAAATCTCTTTGTGTCAA
66 CCAACGTAACTGGACTTATACATATTGGATGCCACTATAATTGGGCTTAAATCTCTTTGTGCCAA
* * * * *
6742272 TATAACTGGGCTTAATCATTTTGGATGCCAGCTAAATTGGGCTTAACTCCTTTTGTGCCAACATA
131 CATAACTGGACTTAATCATCTCGGATGCCAGCTAAATTGGGCTTAAATCCTTTTGTGCCAACATA
6742337 ACTAGACTTAAACATCTTGAATGCCAACTAAATTGAGCTTAAACTCCCTT-
196 ACTAGACTTAAACATCTTGAATGCCAACTAAATTGAGCTTAAA-TCCCTTC
* * **
6742387 GTGCCAATGTAACTGGACTTACACATCTTGGATGCCAGTTTGATTGGGCTTAAACTCCTTTTGTA
1 GTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAACTCCTTTTGTA
* *
6742452 CCAACGTAACTGGACTTATACATCTTGGATGCCAGTATAACTTGGGCTTAAATCTCTTTGTGCCA
66 CCAACGTAACTGGACTTATACATATTGGATGCCACTATAA-TTGGGCTTAAATCTCTTTGTGCCA
* *
6742517 ACGTAACTGGACTT-ATACATCTCGGATGCCAGTTAAATTGGGCTTAAAT-CTCTTTGTGCCAAC
130 ACATAACTGGACTTAAT-CATCTCGGATGCCAGCTAAATTGGGCTTAAATCCT-TTTGTGCCAAC
* * * ** * * * *
6742580 GTAACTGGACTTAAACATCTTGGATGCC-GGTTAATTGGGCTTAAATTCTTTC
193 ATAACTAGACTTAAACATCTTGAATGCCAACTAAATTGAGCTTAAATCCCTTC
* * * * *
6742632 ATGCCAACAAAAATGGACTTATACATCTTGGATGCCAGTTAAATTGGGCTTAAGACTC
1 GTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAA-ACTC
6742690 AAATCTTTCT
Statistics
Matches: 261, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
244 4 0.02
245 155 0.59
246 102 0.39
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (245 bp):
GTGCCAATATAACTGGACTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAACTCCTTTTGTA
CCAACGTAACTGGACTTATACATATTGGATGCCACTATAATTGGGCTTAAATCTCTTTGTGCCAA
CATAACTGGACTTAATCATCTCGGATGCCAGCTAAATTGGGCTTAAATCCTTTTGTGCCAACATA
ACTAGACTTAAACATCTTGAATGCCAACTAAATTGAGCTTAAATCCCTTC
Found at i:6748704 original size:27 final size:27
Alignment explanation
Indices: 6748673--6748728 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
6748663 TTATTAGAAC
6748673 AAATATGAAATGATTGCATGTA-G-ATGA
1 AAATATGAAAT--TTGCATGTATGCATGA
*
6748700 AAATATGATATTTGCATGTATGCATGA
1 AAATATGAAATTTGCATGTATGCATGA
6748727 AA
1 AA
6748729 TGTTATGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 9 0.35
26 1 0.04
27 16 0.62
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (27 bp):
AAATATGAAATTTGCATGTATGCATGA
Found at i:6751306 original size:3 final size:3
Alignment explanation
Indices: 6751298--6751379 Score: 60
Period size: 3 Copynumber: 26.7 Consensus size: 3
6751288 TTTATATCAT
* * * *
6751298 TTA TTA TTA TTA TTG TTGT TTA TTA TTA -TA TTC TTAA TTA TTG TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* *
6751344 TTA TTA TTT TTG TTCA TTA CTT- TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA TTA TT
6751380 TATTTTAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
2 4 0.06
3 51 0.81
4 8 0.13
ACGTcount: A:0.24, C:0.04, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6751357 original size:40 final size:40
Alignment explanation
Indices: 6751301--6751379 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
6751291 ATATCATTTA
* *
6751301 TTATTATTATTGTTGTTTATTA-TTATATTCTTAATTATTG
1 TTATTATTATTGTTGTTCATTACTTATATTATT-ATTATTG
* *
6751341 TTATTATTATTTTTGTTCATTACTTTTATTATTATTATT
1 TTATTATTATTGTTGTTCATTACTTATATTATTATTATT
6751380 TATTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 26 0.76
41 8 0.24
ACGTcount: A:0.24, C:0.04, G:0.05, T:0.67
Consensus pattern (40 bp):
TTATTATTATTGTTGTTCATTACTTATATTATTATTATTG
Found at i:6751362 original size:25 final size:27
Alignment explanation
Indices: 6751306--6751378 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 27
6751296 ATTTATTATT
*
6751306 ATTATTGTTGTTTATTATTATATTCTTA
1 ATTATTGTT-ATTATTATTATATTCTTA
* *
6751334 ATTATTGTTATTATTATT-T-TTGTTC
1 ATTATTGTTATTATTATTATATTCTTA
6751359 ATTACTT-TTATTATTATTAT
1 ATTA-TTGTTATTATTATTAT
6751379 TTATTTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 19 0.47
26 4 0.10
27 8 0.20
28 9 0.22
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (27 bp):
ATTATTGTTATTATTATTATATTCTTA
Found at i:6752414 original size:16 final size:15
Alignment explanation
Indices: 6752382--6752447 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 15
6752372 TTCTCTGTTC
6752382 TTTTTTT-TT-TTTAA
1 TTTTTTTATTATTT-A
6752396 TTTTTTTATTATGTTA
1 TTTTTTTATTAT-TTA
**
6752412 TTTGATTA-T-TTTA
1 TTTTTTTATTATTTA
*
6752425 TTTTTATTATCATTTA
1 TTTTT-TTATTATTTA
6752441 TTTTTTT
1 TTTTTTT
6752448 TATTTTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
13 6 0.15
14 11 0.27
15 5 0.12
16 17 0.41
17 2 0.05
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTTTTATTATTTA
Found at i:6752451 original size:30 final size:31
Alignment explanation
Indices: 6752377--6752453 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 31
6752367 TTCCCTTCTC
* *
6752377 TGTTCTTTTTTTT-TTTTAATTTTTTTATTA
1 TGTTATTTTTTTTATTTTAATTTTTTTATCA
**
6752407 TGTTA-TTTGATTATTTT-ATTTTTATTATCA
1 TGTTATTTTTTTTATTTTAATTTTT-TTATCA
6752437 T-TTATTTTTTTTATTTT
1 TGTTATTTTTTTTATTTT
6752454 TTTAAAATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 14 0.37
30 24 0.63
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.77
Consensus pattern (31 bp):
TGTTATTTTTTTTATTTTAATTTTTTTATCA
Found at i:6756556 original size:33 final size:33
Alignment explanation
Indices: 6756507--6756588 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
6756497 TCATGTCAAA
* *
6756507 TTAACATGTCATATCATCATCAATTATGATATG
1 TTAACATATCACATCATCATCAATTATGATATG
* * * *
6756540 TTAACATATTACATCATTATCAATTATTATATT
1 TTAACATATCACATCATCATCAATTATGATATG
*
6756573 TTAGCATATCACATCA
1 TTAACATATCACATCA
6756589 GTGCACATGG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (33 bp):
TTAACATATCACATCATCATCAATTATGATATG
Found at i:6762105 original size:65 final size:67
Alignment explanation
Indices: 6761988--6762119 Score: 214
Period size: 65 Copynumber: 2.0 Consensus size: 67
6761978 GTCTAATTCT
6761988 TGTTCGCTGGTGAAAATTGTAGACACATCCCTCTCATCTACCCTCATCCATTCAGTCATCGTCAT
1 TGTTCGCTGGTGAAAATTGTAGACACATCCCTCTCATCTACCCTCATCCATTCAGTCATCGTCAT
6762053 CG
66 CG
* * * *
6762055 TGTT-GCTGGTG-AAATTGTAGACACATCCCTCTCATTTACCTTCATGCATTCAGTCATGGTCAT
1 TGTTCGCTGGTGAAAATTGTAGACACATCCCTCTCATCTACCCTCATCCATTCAGTCATCGTCAT
6762118 CG
66 CG
6762120 ATCAGAAGAG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 50 0.82
66 7 0.11
67 4 0.07
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (67 bp):
TGTTCGCTGGTGAAAATTGTAGACACATCCCTCTCATCTACCCTCATCCATTCAGTCATCGTCAT
CG
Found at i:6763466 original size:24 final size:25
Alignment explanation
Indices: 6763425--6763472 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
6763415 ATTTCTCAAG
6763425 GACCACCAAATCTAGTGC-TCCCAA
1 GACCACCAAATCTAGTGCTTCCCAA
*
6763449 GACCACCAACAT-TGGTGCTTCCCA
1 GACCACCAA-ATCTAGTGCTTCCCA
6763473 GGGAGCACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.19
Consensus pattern (25 bp):
GACCACCAAATCTAGTGCTTCCCAA
Found at i:6767864 original size:73 final size:74
Alignment explanation
Indices: 6767780--6767969 Score: 278
Period size: 73 Copynumber: 2.6 Consensus size: 74
6767770 TTAAAAACAG
* * **
6767780 AGACAACTTAATCGACTAAGAAATATTGTTAGTCGACTAAGAGCTTATTGCCAGAAACTAGG-TT
1 AGACAACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTATTACCAGAAACT-GGAAA
6767844 CAG-AGACAA
65 CAGAAGACAA
*
6767853 AGACAACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGTGCTTATTACCAGAAACTGGAAAC
1 AGACAACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTATTACCAGAAACTGGAAAC
*
6767918 AGAAGACAG
66 AGAAGACAA
* *
6767927 AGAC-ACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGC
1 AGACAACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGC
6767970 ACTCTGTTAG
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
72 2 0.02
73 95 0.90
74 9 0.08
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (74 bp):
AGACAACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTTATTACCAGAAACTGGAAAC
AGAAGACAA
Found at i:6778613 original size:81 final size:81
Alignment explanation
Indices: 6778472--6778631 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
6778462 ATAAACAAAT
* * *
6778472 TCTACCATCCAACCCAAATTGCAAGTTTACGTTGCAATCTGGTCCATTGTTTTCAGTAGGACAGT
1 TCTACCATCCAACCCAAATTACAAGTTTACCTTGCAATCTGGTCCATTGTTTTCAATAGGACAGT
6778537 TTGTTG-TTAGAAATGA
66 TTG-TGATTAGAAATGA
* * * * * *
6778553 TCTACCATCCAACCCAAATTATAAGTTTCCCTTGCAGTCTTGTCCATTGTTTTTAATAGGACATT
1 TCTACCATCCAACCCAAATTACAAGTTTACCTTGCAATCTGGTCCATTGTTTTCAATAGGACAGT
6778618 TTGTGATTAGAAAT
66 TTGTGATTAGAAAT
6778632 CAACCAATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.03
81 67 0.97
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (81 bp):
TCTACCATCCAACCCAAATTACAAGTTTACCTTGCAATCTGGTCCATTGTTTTCAATAGGACAGT
TTGTGATTAGAAATGA
Found at i:6784205 original size:11 final size:11
Alignment explanation
Indices: 6784189--6784225 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
6784179 TAAAACTTGT
6784189 AAAACTAAAAG
1 AAAACTAAAAG
6784200 AAAACTAAAAG
1 AAAACTAAAAG
6784211 AAAACTAAAAG
1 AAAACTAAAAG
6784222 AAAA
1 AAAA
6784226 GCTTCAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAACTAAAAG
Found at i:6785495 original size:161 final size:161
Alignment explanation
Indices: 6785229--6785535 Score: 420
Period size: 161 Copynumber: 1.9 Consensus size: 161
6785219 AAAAGTCAAT
* *
6785229 TTTTTTGGAATGTTAAAATTGAGTTAATTATAGAAAAATGGTCTTAATTTAATTTAATTTCCAAA
1 TTTTTTGGAATGTTAAAATTGAGTTAATTATAGAAAAATGGTCTTAATCTAATTTAATTTCAAAA
*
6785294 TTTGCAAAAATAATCCCAGACAAAATGAGATGTCTACAAATAATATTTTATATAAAGATTTGAAT
66 TTTACAAAAATAATCCCAGACAAAATGAGATGTCTACAAATAATATTTTATATAAAGATTTGAAT
6785359 AAAAGTGCTAAGATATGTACAAAAACTTGAC
131 AAAAGTGCTAAGATATGTACAAAAACTTGAC
* * * *
6785390 TTTTTTGTAGTGTTAAAATATTAGGTTAATTAT-TAAAAATGGTCTTAATCTAA-TTAATTTCAA
1 TTTTTTGGAATGTTAAAAT-TGA-GTTAATTATAGAAAAATGGTCTTAATCTAATTTAATTTCAA
* ** * * * * * * * *
6785453 AATTTATAAAAATAATCCTGGATAGAATGGGGTGTTTACAAATATTATTTTATATCAAGATTTGG
64 AATTTACAAAAATAATCCCAGACAAAATGAGATGTCTACAAATAATATTTTATATAAAGATTTGA
6785518 ATAAAAGTGCTAAGATAT
129 ATAAAAGTGCTAAGATAT
6785536 ATGTATGCAT
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
161 97 0.77
162 20 0.16
163 9 0.07
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.38
Consensus pattern (161 bp):
TTTTTTGGAATGTTAAAATTGAGTTAATTATAGAAAAATGGTCTTAATCTAATTTAATTTCAAAA
TTTACAAAAATAATCCCAGACAAAATGAGATGTCTACAAATAATATTTTATATAAAGATTTGAAT
AAAAGTGCTAAGATATGTACAAAAACTTGAC
Found at i:6791091 original size:19 final size:19
Alignment explanation
Indices: 6791051--6791092 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6791041 AGGCCTAAGG
* *
6791051 AATAAATGAATGAGGGTAA
1 AATAAATGAATGAAGATAA
6791070 AATAAATGAA-GAAGATAGA
1 AATAAATGAATGAAGATA-A
6791089 AATA
1 AATA
6791093 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:6791982 original size:41 final size:41
Alignment explanation
Indices: 6791925--6792044 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
6791915 TATCATTGTG
* *
6791925 TGATGAGATTGGAATGTGTGAGTAGGGAGTGCACATGATGA
1 TGATGAGATTGAAATGTGTGAGTAGGGAATGCACATGATGA
*
6791966 TGATGAGATTGAAATGTGTGAGTAAGGAATGCACATGATGA
1 TGATGAGATTGAAATGTGTGAGTAGGGAATGCACATGATGA
* *
6792007 TGAT---ATTGAAATGTGCGAGTAGGGAAAGCACATGATGA
1 TGATGAGATTGAAATGTGTGAGTAGGGAATGCACATGATGA
6792045 GGTTATTGCC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
38 31 0.42
41 42 0.58
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.26
Consensus pattern (41 bp):
TGATGAGATTGAAATGTGTGAGTAGGGAATGCACATGATGA
Found at i:6792004 original size:38 final size:38
Alignment explanation
Indices: 6791925--6792044 Score: 159
Period size: 38 Copynumber: 3.1 Consensus size: 38
6791915 TATCATTGTG
* *
6791925 TGATGAGATTGGAATGTGTGAGTAGGGAGTGCACATGATGA
1 TGATGAGATTGAAATGTGTGAGTAGGGAATGCAC---ATGA
*
6791966 TGATGAGATTGAAATGTGTGAGTAAGGAATGCACATGA
1 TGATGAGATTGAAATGTGTGAGTAGGGAATGCACATGA
* * *
6792004 TGATGATATTGAAATGTGCGAGTAGGGAAAGCACATGA
1 TGATGAGATTGAAATGTGTGAGTAGGGAATGCACATGA
6792042 TGA
1 TGA
6792045 GGTTATTGCC
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
38 41 0.57
41 31 0.43
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.26
Consensus pattern (38 bp):
TGATGAGATTGAAATGTGTGAGTAGGGAATGCACATGA
Found at i:6792060 original size:38 final size:38
Alignment explanation
Indices: 6791932--6792079 Score: 136
Period size: 38 Copynumber: 3.8 Consensus size: 38
6791922 GTGTGATGAG
* * * *
6791932 ATTGGAATGTGTGAGTAGGGAGTGCACATGATGATGATGAG
1 ATTGAAATGTGCGAGTAGGGAATGCACATGATGA-G--GAT
* * *
6791973 ATTGAAATGTGTGAGTAAGGAATGCACATGATGATGAT
1 ATTGAAATGTGCGAGTAGGGAATGCACATGATGAGGAT
* *
6792011 ATTGAAATGTGCGAGTAGGGAAAGCACATGATGAGGTT
1 ATTGAAATGTGCGAGTAGGGAATGCACATGATGAGGAT
*** *
6792049 ATTGCCTTGTGC-ATGTAGGGAGTGCACATGA
1 ATTGAAATGTGCGA-GTAGGGAATGCACATGA
6792080 GCTGAGTCAA
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
37 1 0.01
38 59 0.65
41 31 0.34
ACGTcount: A:0.31, C:0.08, G:0.34, T:0.27
Consensus pattern (38 bp):
ATTGAAATGTGCGAGTAGGGAATGCACATGATGAGGAT
Found at i:6796838 original size:84 final size:84
Alignment explanation
Indices: 6796691--6796854 Score: 204
Period size: 84 Copynumber: 2.0 Consensus size: 84
6796681 ATTTTGATTG
* * * **
6796691 ACTTATGACTTATTGCATCAAATTCTACCATCAAGAAAGCGAGTCACGCTACGGTCTTATCAATT
1 ACTTATGACTTATTGCATCAAATTCTACCACCAAGAAAGCAAGTCAAGCTACCCTCTTATCAATT
*
6796756 TAATTGTCTTCAATAGGGC
66 CAATTGTCTTCAATAGGGC
* * * * *
6796775 ACTTATGATTTATAT-CCTCAAATTCTACCACCTAGAAAGCAAGTTAAGCTACCCTCTTGTCAAT
1 ACTTATGACTTAT-TGCATCAAATTCTACCACCAAGAAAGCAAGTCAAGCTACCCTCTTATCAAT
*
6796839 TCAATTGTTTTCAATA
65 TCAATTGTCTTCAATA
6796855 AGACATTTTG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 66 0.99
85 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (84 bp):
ACTTATGACTTATTGCATCAAATTCTACCACCAAGAAAGCAAGTCAAGCTACCCTCTTATCAATT
CAATTGTCTTCAATAGGGC
Found at i:6799978 original size:10 final size:10
Alignment explanation
Indices: 6799948--6800006 Score: 54
Period size: 9 Copynumber: 6.3 Consensus size: 10
6799938 AGACACCTAA
6799948 AAAATA-AAT
1 AAAATATAAT
* *
6799957 AAAAAAT-TT
1 AAAATATAAT
*
6799966 AAATTATAAT
1 AAAATATAAT
*
6799976 AAAATAAAAT
1 AAAATATAAT
6799986 AAAATATAA-
1 AAAATATAAT
6799995 AAAATA-AAT
1 AAAATATAAT
6800004 AAA
1 AAA
6800007 GAAAATAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
8 2 0.05
9 20 0.51
10 17 0.44
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATATAAT
Found at i:6799983 original size:5 final size:5
Alignment explanation
Indices: 6799973--6800025 Score: 51
Period size: 5 Copynumber: 11.4 Consensus size: 5
6799963 TTTAAATTAT
* * *
6799973 AATAA AATAA AATAA AATAT AA-AA AAT-A AAT-A AAGAA AATAA ATTAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
6800020 AA-AA AA
1 AATAA AA
6800026 GAAGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
4 14 0.35
5 26 0.65
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:6800000 original size:14 final size:13
Alignment explanation
Indices: 6799945--6800023 Score: 57
Period size: 13 Copynumber: 6.5 Consensus size: 13
6799935 TGTAGACACC
6799945 TAAAAAATAAATA
1 TAAAAAATAAATA
*
6799958 -AAAAATTTAAAT-
1 TAAAAA-ATAAATA
*
6799970 T--ATAATAAA-A
1 TAAAAAATAAATA
*
6799980 TAAAATA-AAATA
1 TAAAAAATAAATA
6799992 TAAAAAATAAATA
1 TAAAAAATAAATA
6800005 -AAGAAAATAAAT-
1 TAA-AAAATAAATA
6800017 TAAAAAA
1 TAAAAAA
6800024 AAGAAGAAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 19
0.67 0.08 0.25
Matches are distributed among these distances:
10 5 0.10
11 5 0.10
12 20 0.39
13 21 0.41
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (13 bp):
TAAAAAATAAATA
Found at i:6800001 original size:27 final size:26
Alignment explanation
Indices: 6799945--6800025 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
6799935 TGTAGACACC
* * **
6799945 TAAAAAATAAATAAAAAATTTAAATTA
1 TAAAAAATAAA-ATAAAATATAAAAAA
6799972 TAATAAAATAAAATAAAATATAAAAAA
1 TAA-AAAATAAAATAAAATATAAAAAA
* * *
6799999 TAAATAAAGAAAATAAATTAAAAAAAA
1 TAAA-AAATAAAATAAAATATAAAAAA
6800026 GAAGAAGAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 36 0.80
28 8 0.18
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (26 bp):
TAAAAAATAAAATAAAATATAAAAAA
Found at i:6810835 original size:59 final size:59
Alignment explanation
Indices: 6810681--6810869 Score: 351
Period size: 59 Copynumber: 3.2 Consensus size: 59
6810671 CATTAAAGAA
*
6810681 TTAAATCGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTT
6810740 TTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTT
1 TT-AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTT
*
6810800 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTTTAGGAATTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTT
6810859 TTAAATCGAAC
1 TTAAATCGAAC
6810870 NNNNNNNNNN
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
59 69 0.54
60 58 0.46
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (59 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTT
Found at i:6812771 original size:13 final size:13
Alignment explanation
Indices: 6812753--6812777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6812743 ATATATAAAC
6812753 AAAAAATAAAAAT
1 AAAAAATAAAAAT
6812766 AAAAAATAAAAA
1 AAAAAATAAAAA
6812778 CGACATGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:6813096 original size:21 final size:23
Alignment explanation
Indices: 6813058--6813103 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
6813048 TAAATATTAC
*
6813058 TAAATAAAGTTAACTTAATCGTT
1 TAAATAAAATTAACTTAATCGTT
*
6813081 TAAA-AAAATTAA-TTAATTGTT
1 TAAATAAAATTAACTTAATCGTT
6813102 TA
1 TA
6813104 TTTGATAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 7 0.33
23 4 0.19
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (23 bp):
TAAATAAAATTAACTTAATCGTT
Found at i:6831222 original size:2 final size:2
Alignment explanation
Indices: 6831211--6831239 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6831201 GGGGAGGAGC
6831211 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6831240 GAGGAAGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6831321 original size:2 final size:2
Alignment explanation
Indices: 6831314--6831340 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6831304 GACTAACNAG
6831314 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
6831341 GAGGAAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6831321 original size:101 final size:100
Alignment explanation
Indices: 6831215--6831412 Score: 387
Period size: 101 Copynumber: 2.0 Consensus size: 100
6831205 AGGAGCAGAG
6831215 GAGAGAGAGAGAGAGAGAGAGAGAGGAGGAAGAGTCATGCCAGTTTAGACAAGTTTATTTAAATA
1 GAGAGAGAGAGAGAGAGAGAGAGAGGAGGAAGAGTCATGCCAGTTTAGACAAGTTTATTTAAATA
6831280 ATGTATTAGTGGAAAATCAGTCTTGACTAACNAGGA
66 ATGTATTAGTGGAAAATCAGTCTTGACTAAC-AGGA
6831316 GAGAGAGAGAGAGAGAGAGAGAGAGGAGGAAGAGTCATGCCAGTTTAGACAAGTTTATTTAAATA
1 GAGAGAGAGAGAGAGAGAGAGAGAGGAGGAAGAGTCATGCCAGTTTAGACAAGTTTATTTAAATA
6831381 ATGTATTAGTGGAAAATCAGTCTTGACTAACA
66 ATGTATTAGTGGAAAATCAGTCTTGACTAACA
6831413 TCAAATCTTA
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 1 0.01
101 96 0.99
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.22
Consensus pattern (100 bp):
GAGAGAGAGAGAGAGAGAGAGAGAGGAGGAAGAGTCATGCCAGTTTAGACAAGTTTATTTAAATA
ATGTATTAGTGGAAAATCAGTCTTGACTAACAGGA
Found at i:6833307 original size:24 final size:23
Alignment explanation
Indices: 6833263--6833311 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
6833253 GAAAGTTTAG
*
6833263 AATTTAGATAATACAAAGCAATAT
1 AATTTACATAATACAAAGCAA-AT
* *
6833287 AATTTACATAATATAATGCAAAT
1 AATTTACATAATACAAAGCAAAT
6833310 AA
1 AA
6833312 ATTAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (23 bp):
AATTTACATAATACAAAGCAAAT
Found at i:6836716 original size:48 final size:47
Alignment explanation
Indices: 6836607--6836754 Score: 210
Period size: 48 Copynumber: 3.2 Consensus size: 47
6836597 TTCCAGAAGT
* *
6836607 AAGTCTTCGTTAATCACTTCATCCAAAATTCTC--AAAAACAAAAGC
1 AAGTCTTCGTCAACCACTTCATCCAAAATTCTCAAAAAAACAAAAGC
6836652 AAGTCTTCGTCAACCACTTCATCCAAAATTCTCAAAAAAACCAAAAGC
1 AAGTCTTCGTCAACCACTTCATCCAAAATTCTCAAAAAAA-CAAAAGC
* * * * *
6836700 AATTCTTCGTCCACCACTTCATCCAAAATTCTCAAAAAACCGAAAGG
1 AAGTCTTCGTCAACCACTTCATCCAAAATTCTCAAAAAAACAAAAGC
6836747 AAGTCTTC
1 AAGTCTTC
6836755 ATCATCGACA
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 31 0.34
47 17 0.18
48 44 0.48
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (47 bp):
AAGTCTTCGTCAACCACTTCATCCAAAATTCTCAAAAAAACAAAAGC
Found at i:6842807 original size:17 final size:16
Alignment explanation
Indices: 6842785--6842818 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6842775 ATTTAACTAT
*
6842785 ATTAATTTAATTAATAA
1 ATTAATATAA-TAATAA
6842802 ATTAATATAATAATAA
1 ATTAATATAATAATAA
6842818 A
1 A
6842819 GCAACATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAATATAATAATAA
Found at i:6851551 original size:25 final size:24
Alignment explanation
Indices: 6851521--6851583 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
6851511 CCAGCGAGGG
*
6851521 AGAAAGAGGAAGAGAGAA-AAGAAA
1 AGAAAGAAGAAGAGAGAAGAAG-AA
*
6851545 AGAAAAGAAAAAGAGAGAAGAAGAA
1 AG-AAAGAAGAAGAGAGAAGAAGAA
6851570 AGAAAGAAGAAGAG
1 AGAAAGAAGAAGAG
6851584 GTGAGTGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.38
25 18 0.53
26 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
AGAAAGAAGAAGAGAGAAGAAGAA
Found at i:6851577 original size:14 final size:14
Alignment explanation
Indices: 6851549--6851582 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6851539 AAGAAAAGAA
*
6851549 AAGAA-AAAGAGAG
1 AAGAAGAAAGAAAG
6851562 AAGAAGAAAGAAAG
1 AAGAAGAAAGAAAG
6851576 AAGAAGA
1 AAGAAGA
6851583 GGTGAGTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAGAAAG
Found at i:6851582 original size:10 final size:10
Alignment explanation
Indices: 6851521--6851582 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
6851511 CCAGCGAGGG
*
6851521 AGAAAGAGGA
1 AGAAAGAAGA
*
6851531 AGAGAGAA-A
1 AGAAAGAAGA
6851540 AGAAAAGAA-A
1 AG-AAAGAAGA
6851550 AGAAA-AAG-
1 AGAAAGAAGA
6851558 AGAGAAGAAGAA
1 AGA-AAGAAG-A
6851570 AGAAAGAAGA
1 AGAAAGAAGA
6851580 AGA
1 AGA
6851583 GGTGAGTGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
8 5 0.12
9 8 0.19
10 21 0.49
11 6 0.14
12 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
AGAAAGAAGA
Found at i:6853063 original size:28 final size:28
Alignment explanation
Indices: 6853023--6853081 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
6853013 CTAACCCTTC
6853023 TCTGTGCATAACCGCACTCCCAAACCTA
1 TCTGTGCATAACCGCACTCCCAAACCTA
*
6853051 TCTGTGCATAACCGCACTCCCGAACCTA
1 TCTGTGCATAACCGCACTCCCAAACCTA
6853079 TCT
1 TCT
6853082 CTGAAAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.39, G:0.12, T:0.24
Consensus pattern (28 bp):
TCTGTGCATAACCGCACTCCCAAACCTA
Found at i:6854535 original size:21 final size:21
Alignment explanation
Indices: 6854509--6854561 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
6854499 CATAGCATAT
6854509 CATGCATCATATTTTCATCTA
1 CATGCATCATATTTTCATCTA
6854530 CATGCATCATATTTTCATCTA
1 CATGCATCATATTTTCATCTA
6854551 CATGCAATCAT
1 CATGC-ATCAT
6854562 TTCATGTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.84
22 5 0.16
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.40
Consensus pattern (21 bp):
CATGCATCATATTTTCATCTA
Found at i:6858600 original size:20 final size:20
Alignment explanation
Indices: 6858575--6858620 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
6858565 TTTTGGCCCC
* *
6858575 ATTTGACTTATTGGAGTATG
1 ATTTGACTAATTGAAGTATG
*
6858595 ATTTGAGTAATTGAAGTATG
1 ATTTGACTAATTGAAGTATG
6858615 ATTTGA
1 ATTTGA
6858621 GGTTTAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTAATTGAAGTATG
Found at i:6858621 original size:20 final size:20
Alignment explanation
Indices: 6858584--6858621 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6858574 CATTTGACTT
*
6858584 ATTGGAGTATGATTTGAGTA
1 ATTGAAGTATGATTTGAGTA
6858604 ATTGAAGTATGATTTGAG
1 ATTGAAGTATGATTTGAG
6858622 GTTTAGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
ATTGAAGTATGATTTGAGTA
Found at i:6871135 original size:45 final size:47
Alignment explanation
Indices: 6871071--6871218 Score: 221
Period size: 48 Copynumber: 3.2 Consensus size: 47
6871061 TTCCAGAAGT
* * *
6871071 AAGTCTTCGT-TAATCACTTCATCCAAATTTTTC-AAAAA-CAAAAGC
1 AAGTCTTCGTCT-ACCACTTCATCCAAAATTCTCAAAAAACCAAAAGC
6871116 AAGTCTTCGTCTACCACTTCATCCAAAATTCTCAAAAAAACCAAAAGC
1 AAGTCTTCGTCTACCACTTCATCCAAAATTCTC-AAAAAACCAAAAGC
*
6871164 AAGTCTTCGTCCACCACTTCATCCAAAATTCTCAAAAAACCAAAAGC
1 AAGTCTTCGTCTACCACTTCATCCAAAATTCTCAAAAAACCAAAAGC
6871211 AAGTCTTC
1 AAGTCTTC
6871219 ATCATCGACA
Statistics
Matches: 95, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
45 28 0.29
46 1 0.01
47 27 0.28
48 39 0.41
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.26
Consensus pattern (47 bp):
AAGTCTTCGTCTACCACTTCATCCAAAATTCTCAAAAAACCAAAAGC
Found at i:6877393 original size:12 final size:12
Alignment explanation
Indices: 6877371--6877453 Score: 98
Period size: 12 Copynumber: 6.8 Consensus size: 12
6877361 TGTATTAGAT
6877371 TTAACTAAATTATA
1 TTAA-TAAATTA-A
6877385 TT-ATAAATTAA
1 TTAATAAATTAA
6877396 TTAATAAATTAA
1 TTAATAAATTAA
6877408 TTAATAAATTATA
1 TTAATAAATTA-A
**
6877421 TTATATACTTTAA
1 TTA-ATAAATTAA
6877434 TTAATAAATTAA
1 TTAATAAATTAA
6877446 -TAATAAAT
1 TTAATAAAT
6877454 AAAGCAACAT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
11 11 0.18
12 34 0.55
13 9 0.15
14 8 0.13
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAATAAATTAA
Found at i:6877443 original size:38 final size:36
Alignment explanation
Indices: 6877371--6877453 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 36
6877361 TGTATTAGAT
6877371 TTAACTAAATTATATTATAAATTAATTAATAAATTAA
1 TTAA-TAAATTATATTATAAATTAATTAATAAATTAA
*
6877408 TTAATAAATTATATTATATACTTTAATTAATAAATTAA
1 TTAATAAATTATATTATA-A-ATTAATTAATAAATTAA
6877446 -TAATAAAT
1 TTAATAAAT
6877454 AAAGCAACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 14 0.33
37 13 0.30
38 16 0.37
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (36 bp):
TTAATAAATTATATTATAAATTAATTAATAAATTAA
Found at i:6877815 original size:16 final size:16
Alignment explanation
Indices: 6877796--6877835 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6877786 TTATTTTATC
6877796 ATTAAATTA-ATAATTA
1 ATTAAATTATATAA-TA
*
6877812 ATTAATTTATATAATA
1 ATTAAATTATATAATA
6877828 ATTAAATT
1 ATTAAATT
6877836 TTTTTATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAAATTATATAATA
Found at i:6879082 original size:340 final size:342
Alignment explanation
Indices: 6878445--6879093 Score: 998
Period size: 340 Copynumber: 1.9 Consensus size: 342
6878435 TTTCAAGTCT
* * *
6878445 TTTTAAATTGTTTTATATCAATGAAATTCAAGTCAAGTCTTCTCAACTTGAAAGTTTATGTCTAG
1 TTTTAAATTGTTTTATATCAATGAAATTCAAGTCAAATCTTCTCAACTTGAAAATTTATGCCTAG
* *
6878510 AATCAAACTTAAATTAATGGAATAAAAAGGAAAAGCGTATGTGCCGTGTTAGAAAGAAAAGCATC
66 AATCAAAATTAAATTAATGGAATAAAAAGGAAAAGCATATGTGCCGTGTTAGAAAGAAAAGCATC
* * * *
6878575 AAGGCCACTGTATCCTATCCCATCTGCGACAGTTAGAAGGATTTGCATATTTTCCTTGCTTTCTC
131 AAGGCCACTGCATCCTATCCCATCTGAGACAGTTAGAAGGAATTGCATATTTTCCTTGATTTCTC
* * * * *
6878640 ATTTGGTGTCTATTTTCATTTTAAGCTTATCGGGATGTGCTAATTAGACCCAAATTTCAGTAGAG
196 ATTTGATGTCTATTTTCATTTTAAGCTTATCGGGATCTACTAATTAGACCCAAATCTCAGCAGAG
6878705 ACACAAAACTAATTCATCTTAAAATCGCAACTCATTACTGTTTAACTCACCTGACATCTCTTTTT
261 ACACAAAACTAATTCATCTTAAAATCGCAACTCATTACTGTTTAACTCACCTGACATCTCTTTTT
6878770 CAAGTCTTTGCAAAATC
326 CAAGTCTTTGCAAAATC
* * *
6878787 TTTTAAATTGTTTTATATTAATGAATTTCAAGTCAAATCTTCTCAACTTGAAAATTTATGCCTGG
1 TTTTAAATTGTTTTATATCAATGAAATTCAAGTCAAATCTTCTCAACTTGAAAATTTATGCCTAG
* * * *
6878852 AATCAAAATTAAATTAATGGAAT-AAAAGGGAAAGTATATGTGTCGTGTTAGAATGAAAAGCATC
66 AATCAAAATTAAATTAATGGAATAAAAAGGAAAAGCATATGTGCCGTGTTAGAAAGAAAAGCATC
* * *
6878916 AAGGCCGCTGCATCCTATCCCATCTGAGAC-GTTAGTAGGAATTGCATATTTTTCTTGATTTCTC
131 AAGGCCACTGCATCCTATCCCATCTGAGACAGTTAGAAGGAATTGCATATTTTCCTTGATTTCTC
* * *
6878980 ATTTGATGTCTACTTTT-ATTTTAGGTTTATTGGGATCTACTAATTAGACCCAAATCTCAGCAGA
196 ATTTGATGTCTA-TTTTCATTTTAAGCTTATCGGGATCTACTAATTAGACCCAAATCTCAGCAGA
* * *
6879044 GACACAAAACTAATTCATTTTAGAATTGCAACTCATTACTGTTTAACTCA
260 GACACAAAACTAATTCATCTTAAAATCGCAACTCATTACTGTTTAACTCA
6879094 TCACTTGATG
Statistics
Matches: 276, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
340 128 0.46
341 67 0.24
342 81 0.29
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (342 bp):
TTTTAAATTGTTTTATATCAATGAAATTCAAGTCAAATCTTCTCAACTTGAAAATTTATGCCTAG
AATCAAAATTAAATTAATGGAATAAAAAGGAAAAGCATATGTGCCGTGTTAGAAAGAAAAGCATC
AAGGCCACTGCATCCTATCCCATCTGAGACAGTTAGAAGGAATTGCATATTTTCCTTGATTTCTC
ATTTGATGTCTATTTTCATTTTAAGCTTATCGGGATCTACTAATTAGACCCAAATCTCAGCAGAG
ACACAAAACTAATTCATCTTAAAATCGCAACTCATTACTGTTTAACTCACCTGACATCTCTTTTT
CAAGTCTTTGCAAAATC
Found at i:6879617 original size:17 final size:16
Alignment explanation
Indices: 6879595--6879628 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6879585 ATTTAACTAT
*
6879595 ATTAATTTAATTAATAA
1 ATTAATATAA-TAATAA
6879612 ATTAATATAATAATAA
1 ATTAATATAATAATAA
6879628 A
1 A
6879629 GCAACAGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAATATAATAATAA
Found at i:6882192 original size:24 final size:23
Alignment explanation
Indices: 6882160--6882205 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
6882150 TTAGATCTAC
*
6882160 AAAAATGTTCTAAAAAATATTTA
1 AAAAATGTTATAAAAAATATTTA
*
6882183 AAAAAGTGTTATTAAAAATATTT
1 AAAAA-TGTTATAAAAAATATTT
6882206 TTAGTAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (23 bp):
AAAAATGTTATAAAAAATATTTA
Found at i:6898880 original size:16 final size:16
Alignment explanation
Indices: 6898859--6898889 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6898849 AATATTCATA
6898859 TTTTAAATTAAATATT
1 TTTTAAATTAAATATT
*
6898875 TTTTAAGTTAAATAT
1 TTTTAAATTAAATAT
6898890 CTTCTACGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTTAAATTAAATATT
Found at i:6899925 original size:16 final size:15
Alignment explanation
Indices: 6899900--6899929 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6899890 ATTCATATAT
6899900 AAATTACTTTTTGAC
1 AAATTACTTTTTGAC
6899915 AAATCTACTTTTTGA
1 AAAT-TACTTTTTGA
6899930 TAATATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
AAATTACTTTTTGAC
Found at i:6904799 original size:44 final size:46
Alignment explanation
Indices: 6904712--6904802 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 46
6904702 GTCGACCAGT
* *
6904712 ACTTCATCCAAAATTCCAAAAAGACAAAAGCAAGTCTTGGTCATCC
1 ACTTCATCCAAAATTCCAAAAAGACAAAAGAAAATCTTGGTCATCC
* * *
6904758 ACTTCATCC-AAATTCTAGAAA-ACAAAAGAAAATCTTTGTCATCC
1 ACTTCATCCAAAATTCCAAAAAGACAAAAGAAAATCTTGGTCATCC
6904802 A
1 A
6904803 AATTCTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 21 0.52
45 10 0.25
46 9 0.22
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (46 bp):
ACTTCATCCAAAATTCCAAAAAGACAAAAGAAAATCTTGGTCATCC
Found at i:6908829 original size:50 final size:50
Alignment explanation
Indices: 6908754--6908907 Score: 290
Period size: 50 Copynumber: 3.1 Consensus size: 50
6908744 GGTTTTGGAA
6908754 AAGCCATAATAAAGAGAACTAAGAAAGTGGCTAAGGTTTGTACGCTAACT
1 AAGCCATAATAAAGAGAACTAAGAAAGTGGCTAAGGTTTGTACGCTAACT
6908804 AAGCCATAATAAAGAGAACTAAGAAAGTGGCTAAGGTTTGTACGCTAACT
1 AAGCCATAATAAAGAGAACTAAGAAAGTGGCTAAGGTTTGTACGCTAACT
* *
6908854 AAGCCACAATAAAGAGAACTAAGAAAGTGGCTAAGGTTTGTATGCTAACT
1 AAGCCATAATAAAGAGAACTAAGAAAGTGGCTAAGGTTTGTACGCTAACT
6908904 AAGC
1 AAGC
6908908 GTATTAGCAT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 102 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.21
Consensus pattern (50 bp):
AAGCCATAATAAAGAGAACTAAGAAAGTGGCTAAGGTTTGTACGCTAACT
Found at i:6922640 original size:51 final size:51
Alignment explanation
Indices: 6922549--6922726 Score: 245
Period size: 57 Copynumber: 3.4 Consensus size: 51
6922539 CACAAACTTG
*
6922549 GACTTAGTCTTGATCACGAACG--CTTGATCTTCT-CTTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACGTACTTGATCTT-TGCGTCAAGGGTCTTCAC
* *
6922598 GATTTAATCTTGATCACGAACGTACTTGATCTTTGCGTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACGTACTTGATCTTTGCGTCAAGGGTCTTCAC
6922649 GACTTAGTCTTGATCACGAACACGAACGTACTTGATCTTTGCGTCAAGGGTCTTCAC
1 GACTTAGTCTTGAT------CACGAACGTACTTGATCTTTGCGTCAAGGGTCTTCAC
6922706 GACTTAGTCTTGATCACGAAC
1 GACTTAGTCTTGATCACGAAC
6922727 ACTCGATCTT
Statistics
Matches: 115, Mismatches: 5, Indels: 16
0.85 0.04 0.12
Matches are distributed among these distances:
49 20 0.17
50 1 0.01
51 43 0.37
57 51 0.44
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (51 bp):
GACTTAGTCTTGATCACGAACGTACTTGATCTTTGCGTCAAGGGTCTTCAC
Found at i:6922755 original size:73 final size:73
Alignment explanation
Indices: 6922676--6922811 Score: 254
Period size: 73 Copynumber: 1.9 Consensus size: 73
6922666 GAACACGAAC
*
6922676 GTACTTGATCTTTGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCACT
1 GTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCACT
6922741 TCAAGGGT
66 TCAAGGGT
*
6922749 GTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCATGAACACTCGATCTTCA
1 GTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCA
6922812 AGGGTCTTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (73 bp):
GTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCACT
TCAAGGGT
Found at i:6922834 original size:117 final size:125
Alignment explanation
Indices: 6922619--6922865 Score: 366
Period size: 117 Copynumber: 2.0 Consensus size: 125
6922609 GATCACGAAC
*
6922619 GTACTTGATCTTTGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACGAACGTACTTGA
1 GTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACAC-AACGTAC-TGA
6922684 TCTTTGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCACTTCAAGGGT
64 TC-TT--GTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCACTTCAAGGGT
*
6922749 GTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCATG-A-AC-AC-T-C-GATC
1 GTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACAACGTACTGATC
*
6922808 -T-TCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCGCTTCAAGGGT
66 TTGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCACTTCAAGGGT
6922866 CTTCACGACT
Statistics
Matches: 114, Mismatches: 3, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
117 56 0.49
120 1 0.01
122 4 0.04
124 1 0.01
125 1 0.01
126 2 0.02
128 2 0.02
129 1 0.01
130 46 0.40
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (125 bp):
GTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACAACGTACTGATC
TTGTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTCGATCTTCACTTCAAGGGT
Found at i:6922879 original size:49 final size:49
Alignment explanation
Indices: 6922755--6922892 Score: 223
Period size: 44 Copynumber: 2.9 Consensus size: 49
6922745 GGGTGTACTT
* *
6922755 GATCTTCGCGTCAAGGGTCTTCACGACTTAGTCTTGATCATGAACACTC
1 GATCTTCGCTTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTC
6922804 GA---T--CTTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTC
1 GATCTTCGCTTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTC
6922848 GATCTTCGCTTCAAGGGTCTTCACGACTTAGTCTTGATCACGAAC
1 GATCTTCGCTTCAAGGGTCTTCACGACTTAGTCTTGATCACGAAC
6922893 GTACTTGATC
Statistics
Matches: 82, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
44 41 0.50
46 1 0.01
47 1 0.01
49 39 0.48
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
GATCTTCGCTTCAAGGGTCTTCACGACTTAGTCTTGATCACGAACACTC
Found at i:6922997 original size:23 final size:25
Alignment explanation
Indices: 6922896--6922985 Score: 130
Period size: 25 Copynumber: 3.7 Consensus size: 25
6922886 CACGAACGTA
*
6922896 CTTGATCATGAACTTCGCTTGATAT
1 CTTGATCACGAACTTCGCTTGATAT
* *
6922921 CTTGATCACGAGCTTTGCTTGATAT
1 CTTGATCACGAACTTCGCTTGATAT
*
6922946 CTTGATCACGAACTTCG-TTGCTA-
1 CTTGATCACGAACTTCGCTTGATAT
6922969 CTTGATCACGAACTTCG
1 CTTGATCACGAACTTCG
6922986 TTGTTGCTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 17 0.29
24 5 0.08
25 37 0.63
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (25 bp):
CTTGATCACGAACTTCGCTTGATAT
Found at i:6923003 original size:26 final size:23
Alignment explanation
Indices: 6922894--6922997 Score: 109
Period size: 25 Copynumber: 4.3 Consensus size: 23
6922884 ATCACGAACG
* *
6922894 TACTTGATCATGAACTTCGCTTGA
1 TACTTGATCACGAACTTCG-TTGC
* * *
6922918 TATCTTGATCACGAGCTTTGCTTGA
1 TA-CTTGATCACGAACTTCG-TTGC
6922943 TATCTTGATCACGAACTTCGTTGC
1 TA-CTTGATCACGAACTTCGTTGC
*
6922967 TACTTGATCACGAACTTCGTTGT
1 TACTTGATCACGAACTTCGTTGC
*
6922990 TGCTTGAT
1 TACTTGAT
6922998 TTTCACTTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
23 27 0.38
24 7 0.10
25 37 0.52
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (23 bp):
TACTTGATCACGAACTTCGTTGC
Found at i:6923057 original size:17 final size:17
Alignment explanation
Indices: 6923035--6923092 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
6923025 TTGATCTCTG
6923035 AAATGCTCTCAATCTTC
1 AAATGCTCTCAATCTTC
*
6923052 AAATGCTCCCAATCTTC
1 AAATGCTCTCAATCTTC
*
6923069 GAATGC-CTCCGAATCTTC
1 AAATGCTCT-C-AATCTTC
*
6923087 GAATGC
1 AAATGC
6923093 CTCTGAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
16 1 0.03
17 22 0.61
18 13 0.36
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (17 bp):
AAATGCTCTCAATCTTC
Found at i:6923083 original size:18 final size:18
Alignment explanation
Indices: 6923045--6923100 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
6923035 AAATGCTCTC
* *
6923045 AATCTTCAAATG-CTCCC
1 AATCTTCGAATGCCTCCG
6923062 AATCTTCGAATGCCTCCG
1 AATCTTCGAATGCCTCCG
*
6923080 AATCTTCGAATGCCTCTG
1 AATCTTCGAATGCCTCCG
6923098 AAT
1 AAT
6923101 GAATGAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
17 11 0.31
18 24 0.69
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (18 bp):
AATCTTCGAATGCCTCCG
Found at i:6923468 original size:81 final size:80
Alignment explanation
Indices: 6923368--6923590 Score: 342
Period size: 81 Copynumber: 2.8 Consensus size: 80
6923358 AATATAATTA
* * *
6923368 TTAGAGATAAATTAAATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATATTATCTCTA
1 TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGTCAAAAATAT-AATATTATCTCTA
6923433 AATTATCTTGATTTAT
65 AATTATCTTGATTTAT
* *
6923449 TTAGAGATAAATTGGATGACCAACAACTAATTTTTGATTGGTCAAAAATATAAATATTATCTCTA
1 TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGTCAAAAATAT-AATATTATCTCTA
*
6923514 AATTATTTTGATTTAT
65 AATTATCTTGATTTAT
6923530 TTAGAGATAAATTGAATGACCAATAACTAATTTTTTGATTGGTCCAAAAA-A-AATATTATCT
1 TTAGAGATAAATTGAATGACCAATAACTAA-TTTTTGATTGGT-CAAAAATATAATATTATCT
6923591 GCCAATAGGT
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
80 10 0.08
81 102 0.78
82 13 0.10
83 6 0.05
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (80 bp):
TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGTCAAAAATATAATATTATCTCTAA
ATTATCTTGATTTAT
Found at i:6925158 original size:32 final size:32
Alignment explanation
Indices: 6925117--6925182 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
6925107 ATATCCACAC
* * *
6925117 CAACATTTTCGCCACATCAGCAAGTGCCATGT
1 CAACATTTTCACCACATCAACAACTGCCATGT
6925149 CAACATTTTCACCACATCAACAACTGCCATGT
1 CAACATTTTCACCACATCAACAACTGCCATGT
6925181 CA
1 CA
6925183 GCAAAATGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.33, G:0.11, T:0.24
Consensus pattern (32 bp):
CAACATTTTCACCACATCAACAACTGCCATGT
Found at i:6926113 original size:17 final size:18
Alignment explanation
Indices: 6926088--6926121 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6926078 TTTTGCTTTT
*
6926088 AAAAGTGATTTT-TTAAA
1 AAAAATGATTTTATTAAA
6926105 AAAAATGATTTTATTAA
1 AAAAATGATTTTATTAA
6926122 CAATAAAACC
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:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
AAAAATGATTTTATTAAA
Found at i:6932621 original size:35 final size:35
Alignment explanation
Indices: 6932563--6932657 Score: 145
Period size: 35 Copynumber: 2.7 Consensus size: 35
6932553 TAATTTAGAT
* * *
6932563 TTGAAAAGTTGTTAGACCTACATCTAGTTTAAGAG
1 TTGAAAACTTGTTAAACCCACATCTAGTTTAAGAG
*
6932598 TTGAAAACTTATTAAACCCACATCTAGTTTAAGAG
1 TTGAAAACTTGTTAAACCCACATCTAGTTTAAGAG
*
6932633 TTGAAAACTTGTTAAACTCACATCT
1 TTGAAAACTTGTTAAACCCACATCT
6932658 GATGTGAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (35 bp):
TTGAAAACTTGTTAAACCCACATCTAGTTTAAGAG
Found at i:6939801 original size:12 final size:13
Alignment explanation
Indices: 6939777--6939818 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
6939767 ATCACATTTA
*
6939777 AATATATTAAATT
1 AATATAATAAATT
6939790 AAT-TAATAAATT
1 AATATAATAAATT
*
6939802 AATATAATAAATA
1 AATATAATAAATT
6939815 AATA
1 AATA
6939819 AAAACATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATAATAAATT
Found at i:6939802 original size:17 final size:17
Alignment explanation
Indices: 6939775--6939817 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
6939765 GTATCACATT
*
6939775 TAAATATATTAA-ATTAA
1 TAAATAAATTAATA-TAA
*
6939792 TTAATAAATTAATATAA
1 TAAATAAATTAATATAA
6939809 TAAATAAAT
1 TAAATAAAT
6939818 AAAAACATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATAAATTAATATAA
Found at i:6941250 original size:12 final size:13
Alignment explanation
Indices: 6941223--6941262 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
6941213 TGTATCACAT
*
6941223 TTAAGTATATTAAA
1 TTAA-TATAATAAA
6941237 TTAAT-TAATAAA
1 TTAATATAATAAA
6941249 TTAATATAATAAA
1 TTAATATAATAAA
6941262 T
1 T
6941263 AAAAATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 9 0.38
14 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
TTAATATAATAAA
Found at i:6943564 original size:15 final size:15
Alignment explanation
Indices: 6943541--6943571 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6943531 TGTTATCTTC
6943541 CCTGCAATCACATTA
1 CCTGCAATCACATTA
*
6943556 CCTGTAATCACATTA
1 CCTGCAATCACATTA
6943571 C
1 C
6943572 ATTGTAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.06, T:0.29
Consensus pattern (15 bp):
CCTGCAATCACATTA
Found at i:6944466 original size:21 final size:21
Alignment explanation
Indices: 6944408--6944472 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
6944398 TTCAAATAAC
6944408 AATTATACGTAAAATA-AAA-AT
1 AATTAT-C-TAAAATATAAAGAT
*
6944429 -ATT-TCTAAAATATAAAGTT
1 AATTATCTAAAATATAAAGAT
6944448 AATTATCTATAAATA-AAAGAT
1 AATTATCTA-AAATATAAAGAT
6944469 AATT
1 AATT
6944473 CAAGTTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 7 0.19
18 4 0.11
19 2 0.05
20 6 0.16
21 13 0.35
22 5 0.14
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
AATTATCTAAAATATAAAGAT
Found at i:6950237 original size:2 final size:2
Alignment explanation
Indices: 6950230--6950262 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6950220 AACAGGGATA
6950230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6950263 GTACAAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6951823 original size:44 final size:44
Alignment explanation
Indices: 6951773--6951863 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
6951763 ATATTTGATG
6951773 TGAATGTGATTATTAAGACCTACTAACAATTTGAACTT-AAGCTT
1 TGAATGTGATTATTAAGACCTACTAACAATTTGAACTTGAA-CTT
6951817 TGAATGTGATTATTAAGACCTACTAACAATTTGAACTTGAACTT
1 TGAATGTGATTATTAAGACCTACTAACAATTTGAACTTGAACTT
6951861 TGA
1 TGA
6951864 GAGCCACGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (44 bp):
TGAATGTGATTATTAAGACCTACTAACAATTTGAACTTGAACTT
Found at i:6971517 original size:13 final size:13
Alignment explanation
Indices: 6971499--6971523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6971489 TGTGGCAACA
6971499 GACTCCATCCCAC
1 GACTCCATCCCAC
6971512 GACTCCATCCCA
1 GACTCCATCCCA
6971524 TGAACAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.52, G:0.08, T:0.16
Consensus pattern (13 bp):
GACTCCATCCCAC
Found at i:6982566 original size:2 final size:2
Alignment explanation
Indices: 6982561--6982590 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6982551 GTATGAAAAA
*
6982561 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6982591 GTAATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6983414 original size:8 final size:8
Alignment explanation
Indices: 6983401--6983427 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6983391 TACAGTACCC
6983401 AATAATTT
1 AATAATTT
6983409 AATAATTT
1 AATAATTT
6983417 AATAATTT
1 AATAATTT
6983425 AAT
1 AAT
6983428 TGTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATAATTT
Found at i:6984375 original size:17 final size:17
Alignment explanation
Indices: 6984335--6984378 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
6984325 TTTTATTAAT
*
6984335 TATTTTT-ACTTTTATA
1 TATTTTTAATTTTTATA
6984351 TA-TTTTAATTTTTATA
1 TATTTTTAATTTTTATA
6984367 TATTTTTAATTT
1 TATTTTTAATTT
6984379 ATTAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 4 0.16
16 12 0.48
17 9 0.36
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTTTAATTTTTATA
Found at i:6984379 original size:15 final size:15
Alignment explanation
Indices: 6984335--6984399 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
6984325 TTTTATTAAT
*
6984335 TATTTTTACTTT-TA
1 TATTTTTAATTTATA
6984349 TATATTTTAATTTTTATA
1 TAT-TTTTAA--TTTATA
6984367 TATTTTTAATTTAT-
1 TATTTTTAATTTATA
* *
6984381 TAATTTCTAATATATA
1 T-ATTTTTAATTTATA
6984397 TAT
1 TAT
6984400 ATATATAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.10
15 23 0.55
16 1 0.02
17 9 0.21
18 5 0.12
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTAATTTATA
Found at i:6986595 original size:43 final size:43
Alignment explanation
Indices: 6986547--6986652 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 43
6986537 CTCGGCTATG
* * **
6986547 TGCGAGTAGGGAGTGCGCATAAGCCGATGATGACACGGTGATA
1 TGCGAGTAGGGAGTGCGCATAACCCGATGATGACACAGCCATA
* * * *
6986590 TGCGAGTAGGGAGTACGCATAACCCGGTGATGACCCAGCCATG
1 TGCGAGTAGGGAGTGCGCATAACCCGATGATGACACAGCCATA
*
6986633 TGCGAGTAGGGAGTGTGCAT
1 TGCGAGTAGGGAGTGCGCAT
6986653 GAGCTGATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.37, T:0.19
Consensus pattern (43 bp):
TGCGAGTAGGGAGTGCGCATAACCCGATGATGACACAGCCATA
Found at i:6988167 original size:14 final size:15
Alignment explanation
Indices: 6988131--6988171 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
6988121 AACCCACAAC
6988131 AATAC-AAAAAATCA
1 AATACAAAAAAATCA
*
6988145 AAAATCAAAAAAAT-A
1 AATA-CAAAAAAATCA
6988160 AATACAAAAAAA
1 AATACAAAAAAA
6988172 CACAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.48
15 5 0.22
16 7 0.30
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (15 bp):
AATACAAAAAAATCA
Found at i:6988186 original size:29 final size:28
Alignment explanation
Indices: 6988131--6988192 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
6988121 AACCCACAAC
*
6988131 AATACAAAAAATCAAAAATCAAAAAAATA
1 AATACAAAAAAACAAAAA-CAAAAAAATA
* *
6988160 AATACAAAAAAACACAAAAAAAGAAAAAAA
1 AATACAAAAAAACA-AAAACAA-AAAAATA
6988190 AAT
1 AAT
6988193 GAGAGGGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.79, C:0.10, G:0.02, T:0.10
Consensus pattern (28 bp):
AATACAAAAAAACAAAAACAAAAAAATA
Found at i:6989279 original size:119 final size:119
Alignment explanation
Indices: 6989068--6989294 Score: 319
Period size: 119 Copynumber: 1.9 Consensus size: 119
6989058 TTGGGTGCGG
** * * * * * * *
6989068 AGTTCGAGATGAATTTTCACCGAAGCGTCGGGATAAATTCGGATTCTATACTCCAAAACCTATTA
1 AGTTCGAGACAAATTCTCACCGAAGCATCAGAATAAATCCGAATTCTATACTCCAAAACCCATTA
* * *
6989133 ACTCAAATAATCGTTGTTAAAAAATAATATATATTAAAAAATAAATTTACATAA
66 ACTCAAATAATCATTGTAAAAAAATAATATACATTAAAAAATAAATTTACATAA
* * *
6989187 AGTTCGAGACAAATTCTCACCGAAGCATCAGAATGAATCCGAATTCTATACTCTAATACCCATTA
1 AGTTCGAGACAAATTCTCACCGAAGCATCAGAATAAATCCGAATTCTATACTCCAAAACCCATTA
6989252 ACTCAAATAATCATTGTAAAAAAATAATATACATTAAAAAATA
66 ACTCAAATAATCATTGTAAAAAAATAATATACATTAAAAAATA
6989295 TATATATAAT
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
119 93 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.29
Consensus pattern (119 bp):
AGTTCGAGACAAATTCTCACCGAAGCATCAGAATAAATCCGAATTCTATACTCCAAAACCCATTA
ACTCAAATAATCATTGTAAAAAAATAATATACATTAAAAAATAAATTTACATAA
Found at i:7008746 original size:14 final size:14
Alignment explanation
Indices: 7008727--7008756 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7008717 GCTACAAATA
7008727 GTATCAAATCATGT
1 GTATCAAATCATGT
7008741 GTATCAAATCATGT
1 GTATCAAATCATGT
7008755 GT
1 GT
7008757 CAACAGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (14 bp):
GTATCAAATCATGT
Found at i:7015889 original size:78 final size:78
Alignment explanation
Indices: 7015731--7015893 Score: 191
Period size: 78 Copynumber: 2.1 Consensus size: 78
7015721 GTTGTGAGCA
* * * * *
7015731 AGGTTGAGTCGTTGGAGTCCTTGAAGGTGGAAGAGGCTGCTGTTTTCAAGAAGAGAGCCATCAAG
1 AGGTCGAGTCGTTGGAGTCCTTGAAGGTGGAAGAGACTACTGTTATCAAGAAGAGAGCCATAAAG
*** * *
7015796 TTTGTTGAAATTG
66 GCAGCTGAAACTG
* * *
7015809 AGGTCGAGTCGTTGGAGTCCTTGAAGGTGGAAGAGACTACTGTTATCATGGAGAGTGCCATAAAG
1 AGGTCGAGTCGTTGGAGTCCTTGAAGGTGGAAGAGACTACTGTTATCAAGAAGAGAGCCATAAAG
**
7015874 GCAGCTGGCACTG
66 GCAGCTGAAACTG
7015887 AGGTCGA
1 AGGTCGA
7015894 TGCCAATGAC
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (78 bp):
AGGTCGAGTCGTTGGAGTCCTTGAAGGTGGAAGAGACTACTGTTATCAAGAAGAGAGCCATAAAG
GCAGCTGAAACTG
Found at i:7016604 original size:17 final size:17
Alignment explanation
Indices: 7016582--7016615 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7016572 AAAATTGAGA
7016582 AAATAAATATATGAAGT
1 AAATAAATATATGAAGT
7016599 AAATAAATATATGAAGT
1 AAATAAATATATGAAGT
7016616 TTTTGTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
AAATAAATATATGAAGT
Found at i:7025453 original size:5 final size:6
Alignment explanation
Indices: 7025435--7025461 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7025425 ACCAGTTCTA
7025435 TTATTT TTATTT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTA
7025462 GTGTTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:7037267 original size:78 final size:78
Alignment explanation
Indices: 7037126--7037277 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 78
7037116 GGTTGAGTCG
** *
7037126 TTGAAGTCCTTGAAGGTGGAAGAGGCTGCTGATTTCAAGAAGAGAGCCATGAAGGTTGTTGGCAC
1 TTGAAGTCCTTGAAGGTGGAAGAGGCTGCTGATTTCAAGAAGAGAGCCATGAAGGCAGCTGGCAC
7037191 TGAGGTCGAGCCA
66 TGAGGTCGAGCCA
* * * * * *
7037204 TTGAAGTCTTTGAAGGTGGAAGAGGCTGTTG-TTTGCAGGGAGAGTA-CCGTTAAGGCAGCTGGC
1 TTGAAGTCCTTGAAGGTGGAAGAGGCTGCTGATTT-CAAGAAGAG-AGCCATGAAGGCAGCTGGC
7037267 ACTGAGGTCGA
64 ACTGAGGTCGA
7037278 TTCCAATGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
77 3 0.05
78 59 0.94
79 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.24
Consensus pattern (78 bp):
TTGAAGTCCTTGAAGGTGGAAGAGGCTGCTGATTTCAAGAAGAGAGCCATGAAGGCAGCTGGCAC
TGAGGTCGAGCCA
Found at i:7039599 original size:28 final size:28
Alignment explanation
Indices: 7039559--7039612 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
7039549 GTCCCTTTCC
*
7039559 AGCTACAATATTAAATAGTTTTTTTTTT
1 AGCTACAATATTAAATAGTTTATTTTTT
7039587 AGCTACAATATTAAATAGTTTATTTT
1 AGCTACAATATTAAATAGTTTATTTT
7039613 CAAATGAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (28 bp):
AGCTACAATATTAAATAGTTTATTTTTT
Found at i:7042522 original size:78 final size:78
Alignment explanation
Indices: 7042364--7042523 Score: 176
Period size: 78 Copynumber: 2.1 Consensus size: 78
7042354 GTTGTGAGCA
* * * * *
7042364 AGGTTGAGTCATTGGAGTCCTTGAAGGTGGAAGAGGCTGCTGTTTTCAAGAAGAGAGCCATCAAG
1 AGGTCGAGTCATTGGAGTCCTTGAAGGTGGAAGAGACTACTGTTATCAAGAAGAGAGCCATAAAG
*** * *
7042429 TTTGTTGAAATTG
66 GCAGCTGAAACTG
* * * *
7042442 AGGTCGAGTCGTTGGAGTCCTTGAAGGTGGAAGAGACTACTGTTATCATGGAGAGTGCCATAAAG
1 AGGTCGAGTCATTGGAGTCCTTGAAGGTGGAAGAGACTACTGTTATCAAGAAGAGAGCCATAAAG
**
7042507 GCAGCTGGTACTG
66 GCAGCTGAAACTG
7042520 AGGT
1 AGGT
7042524 TGATGCCAAT
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.26, C:0.13, G:0.34, T:0.27
Consensus pattern (78 bp):
AGGTCGAGTCATTGGAGTCCTTGAAGGTGGAAGAGACTACTGTTATCAAGAAGAGAGCCATAAAG
GCAGCTGAAACTG
Found at i:7043557 original size:2 final size:2
Alignment explanation
Indices: 7043552--7043586 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7043542 TAAAACGTAA
7043552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7043587 ATAATTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7043725 original size:2 final size:2
Alignment explanation
Indices: 7043720--7043762 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
7043710 TAAAACGTAA
*
7043720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7043762 A
1 A
7043763 GATTTAATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7043734 original size:168 final size:164
Alignment explanation
Indices: 7043434--7043762 Score: 595
Period size: 168 Copynumber: 2.0 Consensus size: 164
7043424 TCTTCACTCT
*
7043434 ACAAACTTAAATTAATTGTTACATGGACCCTTACTTCATATTAATCCCTTTTCTTGCCTATGAAA
1 ACAAACTTAAATTAATTGTTACATGGACCCTTACTTCATATTAATCCCTTTTCTTACCTATGAAA
7043499 AAAAATATATAATTTTTAAATATTTAACTCAATAATAAATATATAAAACGTAAATATATATATAT
66 AAAAATATATAATTTTTAAATATTTAACTCAATAATAAATATATAAAACGTAAATATATATATAT
7043564 ATATATATATATATATATATATAATAATTTATANTCA
131 ATATATATATATATATATATAT-AT-ATTTATA-TCA
* *
7043601 ACAAACTTAAATTAATTGTTACATGGACCCTTACTTCATGTTAATCCCTTTTTTTACCTATGAAA
1 ACAAACTTAAATTAATTGTTACATGGACCCTTACTTCATATTAATCCCTTTTCTTACCTATGAAA
7043666 AAAATATATATAATTTTTAAATATTTAACTCAATAATAAATATATAAAACGTAAATATATATATA
66 AAAA-ATATATAATTTTTAAATATTTAACTCAATAATAAATATATAAAACGTAAATATATATATA
7043731 TATATATATATATATATATATATATATTTATA
130 TATATATATATATATATATATATATATTTATA
7043763 GATTTAATGC
Statistics
Matches: 158, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
166 7 0.04
167 68 0.43
168 83 0.53
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (164 bp):
ACAAACTTAAATTAATTGTTACATGGACCCTTACTTCATATTAATCCCTTTTCTTACCTATGAAA
AAAAATATATAATTTTTAAATATTTAACTCAATAATAAATATATAAAACGTAAATATATATATAT
ATATATATATATATATATATATATATTTATATCA
Found at i:7050896 original size:23 final size:23
Alignment explanation
Indices: 7050868--7050949 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
7050858 TTGTAGTGAA
7050868 GATCAAGTAGCAGCAAAGTTCGT
1 GATCAAGTAGCAGCAAAGTTCGT
* *
7050891 GATCAAGATCAAGCGGCAACAAATTTCGT
1 GATCAAG-T--A---GCAGCAAAGTTCGT
* * *
7050920 GATCAAGCAGTAGCGAAGTTCGT
1 GATCAAGTAGCAGCAAAGTTCGT
7050943 GATCAAG
1 GATCAAG
7050950 ATATCAAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
23 24 0.52
24 1 0.02
26 2 0.04
29 19 0.41
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (23 bp):
GATCAAGTAGCAGCAAAGTTCGT
Found at i:7050899 original size:29 final size:29
Alignment explanation
Indices: 7050866--7050951 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 29
7050856 TTTTGTAGTG
7050866 AAGATCAAGTAGCAGCAAAGTTCGTGATC
1 AAGATCAAGTAGCAGCAAAGTTCGTGATC
** * *
7050895 AAGATCAAGCGGCAACAAATTTCGTGATC
1 AAGATCAAGTAGCAGCAAAGTTCGTGATC
7050924 AAG--C-AGTAGC-G--AAGTTCGTGATC
1 AAGATCAAGTAGCAGCAAAGTTCGTGATC
7050947 AAGAT
1 AAGAT
7050952 ATCAAGTGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
23 14 0.30
26 4 0.09
27 1 0.02
29 28 0.60
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (29 bp):
AAGATCAAGTAGCAGCAAAGTTCGTGATC
Found at i:7051005 original size:54 final size:51
Alignment explanation
Indices: 7050947--7051056 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
7050937 GTTCGTGATC
* *
7050947 AAGATATCAAGTGAAGTTTGTAATCAAGATTAAGTAGTGAAGACCCTTGAAGCA
1 AAGATATCAAGT---GTTCGTAATCAAAATTAAGTAGTGAAGACCCTTGAAGCA
* * *
7051001 AAGATATCAAGTGTTCGTGATCAAAATTAAGTCGTTAAGACCCTTGAAGCA
1 AAGATATCAAGTGTTCGTAATCAAAATTAAGTAGTGAAGACCCTTGAAGCA
7051052 AAGAT
1 AAGAT
7051057 CAAACGAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
51 39 0.76
54 12 0.24
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (51 bp):
AAGATATCAAGTGTTCGTAATCAAAATTAAGTAGTGAAGACCCTTGAAGCA
Found at i:7051183 original size:70 final size:68
Alignment explanation
Indices: 7051107--7051237 Score: 190
Period size: 70 Copynumber: 1.9 Consensus size: 68
7051097 GTCATGATCC
* *
7051107 AGATTAAGTCATTAAGACCTTTGAAACGAAGATCAAGTGAAGTTCGTGATCAAGGTATCAAGTGT
1 AGATTAAGTCATTAAGACCCTTGAAACGAAGATCAAGTGAAATTCGTGATCAA-G-ATCAAGTGT
7051172 TTGTG
64 TTGTG
** **
7051177 AGATTAAGTTGTTAAGACCCTTGAAGTGAAGATCAAGTGAAATTCGTGATCAAGATCAAGT
1 AGATTAAGTCATTAAGACCCTTGAAACGAAGATCAAGTGAAATTCGTGATCAAGATCAAGT
7051238 CATCAAGCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 7 0.13
69 1 0.02
70 47 0.85
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (68 bp):
AGATTAAGTCATTAAGACCCTTGAAACGAAGATCAAGTGAAATTCGTGATCAAGATCAAGTGTTT
GTG
Found at i:7057982 original size:2 final size:2
Alignment explanation
Indices: 7057975--7058012 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7057965 TAACAGCAAA
7057975 AT 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 AT
7058013 TGAAAGAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7058191 original size:17 final size:17
Alignment explanation
Indices: 7058169--7058203 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7058159 ATTTAAGTAT
* *
7058169 ATTAATTTAATTAATAA
1 ATTAATATAATAAATAA
7058186 ATTAATATAATAAATAA
1 ATTAATATAATAAATAA
7058203 A
1 A
7058204 ACAACAAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAATATAATAAATAA
Found at i:7074025 original size:18 final size:19
Alignment explanation
Indices: 7073989--7074027 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
7073979 ATTAATTGCT
7073989 ACAATCAGTACATCAATCA
1 ACAATCAGTACATCAATCA
7074008 ACAATCCAGTA-A-CAATCA
1 ACAAT-CAGTACATCAATCA
7074026 AC
1 AC
7074028 TAAAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 6 0.32
20 5 0.26
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.18
Consensus pattern (19 bp):
ACAATCAGTACATCAATCA
Found at i:7077574 original size:23 final size:23
Alignment explanation
Indices: 7077548--7077593 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
7077538 ATACAATACC
*
7077548 CTTATCCTAATATAATTAGGAAT
1 CTTATCCTAATAGAATTAGGAAT
*
7077571 CTTATCCTAATAGAATTATGAAT
1 CTTATCCTAATAGAATTAGGAAT
7077594 TGTTATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (23 bp):
CTTATCCTAATAGAATTAGGAAT
Found at i:7084435 original size:78 final size:79
Alignment explanation
Indices: 7084292--7084444 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 79
7084282 GAGTTGTTGG
* * ** * *
7084292 AGTCCTTGAAGGTGGAAGAGGCTGCTGTTTTCAAGAAGAGAGCCATGAAGGTTGTTGGCAGTGAG
1 AGTCCTTGAAGGTGGAAGAGGCTGCTGTTTGCAAGAAGAGAGCCATAAAGGCAGCTGGCACTGAG
7084357 GTCGA-GCCATTGA
66 GTCGATGCCATTGA
* * * *
7084370 AGTCTTTGAAGGTGGAAGAGGCTGCTGTTTGCAGGAAGAGTGCCGTAAAGGCAGCT-GCTACTGA
1 AGTCCTTGAAGGTGGAAGAGGCTGCTGTTTGCAAGAAGAGAGCCATAAAGGCAGCTGGC-ACTGA
7084434 GGTCGATGCCA
65 GGTCGATGCCA
7084445 ATGACATGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 2 0.03
78 57 0.90
79 4 0.06
ACGTcount: A:0.25, C:0.16, G:0.36, T:0.24
Consensus pattern (79 bp):
AGTCCTTGAAGGTGGAAGAGGCTGCTGTTTGCAAGAAGAGAGCCATAAAGGCAGCTGGCACTGAG
GTCGATGCCATTGA
Found at i:7088289 original size:52 final size:53
Alignment explanation
Indices: 7088228--7088333 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
7088218 AAAAAAAAAA
7088228 CAAGTCATGTTTCTTTATCAAATTAAGCTGTTTTTTTTTTT-CAATTTACTGT
1 CAAGTCATGTTTCTTTATCAAATTAAGCTGTTTTTTTTTTTCCAATTTACTGT
7088280 CAAGTCATGTTTCTTTATCAAATTAAGCTGTTTTTTTTTTTCCAATTTACTGT
1 CAAGTCATGTTTCTTTATCAAATTAAGCTGTTTTTTTTTTTCCAATTTACTGT
7088333 C
1 C
7088334 TGTGTGAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 41 0.77
53 12 0.23
ACGTcount: A:0.23, C:0.15, G:0.09, T:0.53
Consensus pattern (53 bp):
CAAGTCATGTTTCTTTATCAAATTAAGCTGTTTTTTTTTTTCCAATTTACTGT
Found at i:7090159 original size:199 final size:199
Alignment explanation
Indices: 7089812--7090197 Score: 659
Period size: 199 Copynumber: 1.9 Consensus size: 199
7089802 GCAATACCCT
* *
7089812 AAGACCACAAAACAAAAATGATCCAAAAACAGAGAAGAGACTTCAAGATCCCTTGAAGCCCTTGA
1 AAGACAACAAAACAAAAATGATCCAAAAACAGAGAAGAGACTTCAAGATCCCTTGAAGCACTTGA
7089877 TCATCAAAGCCAAGATCCAATCAAGTCGGGGAAGTTGACAGCACATTGAGAAATCCAAGCTAGTT
66 TCATCAAAGCCAAGATCCAATCAAGTCGGGGAAGTTGACAGCACATTGAGAAATCCAAGCTAGTT
*
7089942 AATTAATTGTTATATGAACCCCTAGTTCACGTTAATCCCTTTTCTTACATATGAAAATATAGATA
131 AATTAATTGTTATATGAACCCCTAGCTCACGTTAATCCCTTTTCTTACATATGAAAATATAGATA
7090007 TATA
196 TATA
* * *
7090011 NAAGACAACAAAACAAAAATGATCC-AAAATAGAGTAGAGCCTTCAACG-TCCCTTGAAGCACTT
1 -AAGACAACAAAACAAAAATGATCCAAAAACAGAGAAGAGACTTCAA-GATCCCTTGAAGCACTT
7090074 GATCATCAAAGCCAAGATCCAATCAAGTCGGGGAAGTTGACAGCACATTGAGAAATCCAAGCTAG
64 GATCATCAAAGCCAAGATCCAATCAAGTCGGGGAAGTTGACAGCACATTGAGAAATCCAAGCTAG
* * *
7090139 TTAATTAATTGTTATATGAACCCTTAGCTCACGTTAATCCCTTTTTTTACGTATGAAAA
129 TTAATTAATTGTTATATGAACCCCTAGCTCACGTTAATCCCTTTTCTTACATATGAAAA
7090198 ACGTATATAT
Statistics
Matches: 176, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
199 152 0.86
200 24 0.14
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (199 bp):
AAGACAACAAAACAAAAATGATCCAAAAACAGAGAAGAGACTTCAAGATCCCTTGAAGCACTTGA
TCATCAAAGCCAAGATCCAATCAAGTCGGGGAAGTTGACAGCACATTGAGAAATCCAAGCTAGTT
AATTAATTGTTATATGAACCCCTAGCTCACGTTAATCCCTTTTCTTACATATGAAAATATAGATA
TATA
Found at i:7090208 original size:2 final size:2
Alignment explanation
Indices: 7090201--7090233 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7090191 ATGAAAAACG
7090201 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
7090234 GTGTGTGTGT
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:7091997 original size:67 final size:66
Alignment explanation
Indices: 7091915--7092040 Score: 182
Period size: 67 Copynumber: 1.9 Consensus size: 66
7091905 ATTGACCCTT
** * *
7091915 AACTTGAGCTGAGGGTCATTGTATAGTTTTTGG-GAGTGAAGAGTGAAGACTACGTCCCACCCTT
1 AACTTGAGCAAAGGGTCATTGAATAG-CTTTGGAGAGTGAAGAGTGAAGACTACG-CCCACCCTT
7091979 AAC
64 AAC
*
7091982 AACTTGAGCAAAGGGTCATTGAATAGCTTTGGAGAGTGAAGAGTGAGGACTACGCCCAC
1 AACTTGAGCAAAGGGTCATTGAATAGCTTTGGAGAGTGAAGAGTGAAGACTACGCCCAC
7092041 TCTTTTCAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
66 10 0.19
67 43 0.81
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (66 bp):
AACTTGAGCAAAGGGTCATTGAATAGCTTTGGAGAGTGAAGAGTGAAGACTACGCCCACCCTTAA
C
Found at i:7094263 original size:18 final size:20
Alignment explanation
Indices: 7094228--7094266 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
7094218 ATATGATGTC
7094228 ATGGTAAAAAATTATTGAAG
1 ATGGTAAAAAATTATTGAAG
*
7094248 ATGG-AAAAACTT-TTGAAG
1 ATGGTAAAAAATTATTGAAG
7094266 A
1 A
7094267 AGGGTCATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.49, C:0.03, G:0.21, T:0.28
Consensus pattern (20 bp):
ATGGTAAAAAATTATTGAAG
Found at i:7096396 original size:2 final size:2
Alignment explanation
Indices: 7096389--7096422 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7096379 AGTGCAAGGG
7096389 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
7096423 GCATATTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7112069 original size:2 final size:2
Alignment explanation
Indices: 7112062--7112114 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
7112052 CTTGCTCAGG
7112062 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7112104 TC TC TC TC TC T
1 TC TC TC TC TC T
7112115 GTGTCTGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7120672 original size:33 final size:33
Alignment explanation
Indices: 7120635--7120697 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
7120625 ATTCAAATGA
* *
7120635 TTACCGAATCTTTGATAAATAGTAATTTCATTG
1 TTACCGAATCTTTGACAAATAATAATTTCATTG
7120668 TTACCGAATCTTTGACAAATAATAATTTCA
1 TTACCGAATCTTTGACAAATAATAATTTCA
7120698 CTATTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (33 bp):
TTACCGAATCTTTGACAAATAATAATTTCATTG
Found at i:7123606 original size:17 final size:18
Alignment explanation
Indices: 7123584--7123620 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7123574 CATCAACAAA
7123584 CCCCCAACCCCCC-CCCC
1 CCCCCAACCCCCCGCCCC
*
7123601 CCCCCANCCCCCCGCCCC
1 CCCCCAACCCCCCGCCCC
7123619 CC
1 CC
7123621 TTCCCAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.08, C:0.86, G:0.03, T:0.00
Consensus pattern (18 bp):
CCCCCAACCCCCCGCCCC
Found at i:7125633 original size:30 final size:31
Alignment explanation
Indices: 7125599--7125665 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
7125589 TACTGACATG
*
7125599 TATAAATAATGTACATAA-ACTTTATTT-ATA
1 TATAAATAATAT-CATAATACTTTATTTAATA
* *
7125629 TAT-AATAATATTATAATACTTTATTTAATT
1 TATAAATAATATCATAATACTTTATTTAATA
7125659 TATAAAT
1 TATAAAT
7125666 TATTAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 4 0.13
29 16 0.52
30 8 0.26
31 3 0.10
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (31 bp):
TATAAATAATATCATAATACTTTATTTAATA
Found at i:7138675 original size:12 final size:12
Alignment explanation
Indices: 7138632--7138675 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
7138622 TTCTTTGAAT
7138632 AATAAA-AATAA
1 AATAAACAATAA
*
7138643 AATAAATAAT-A
1 AATAAACAATAA
7138654 AATAAGACAATAA
1 AATAA-ACAATAA
7138667 AATAAACAA
1 AATAAACAA
7138676 AAGCATTGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 12 0.41
12 11 0.38
13 6 0.21
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (12 bp):
AATAAACAATAA
Found at i:7143686 original size:66 final size:66
Alignment explanation
Indices: 7143580--7143729 Score: 291
Period size: 66 Copynumber: 2.3 Consensus size: 66
7143570 CTAATAGGTA
*
7143580 AAGCCATAAATCCCACATAGAAGTTCTTAGAAGGGAGTTAAGAAAGGATATCATGATCCTAGAGG
1 AAGCCATGAATCCCACATAGAAGTTCTTAGAAGGGAGTTAAGAAAGGATATCATGATCCTAGAGG
7143645 G
66 G
7143646 AAGCCATGAATCCCACATAGAAGTTCTTAGAAGGGAGTTAAGAAAGGATATCATGATCCTAGAGG
1 AAGCCATGAATCCCACATAGAAGTTCTTAGAAGGGAGTTAAGAAAGGATATCATGATCCTAGAGG
7143711 G
66 G
7143712 AAGCCATGAATCCCACAT
1 AAGCCATGAATCCCACAT
7143730 TGGCTATGTG
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 83 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (66 bp):
AAGCCATGAATCCCACATAGAAGTTCTTAGAAGGGAGTTAAGAAAGGATATCATGATCCTAGAGG
G
Found at i:7144048 original size:16 final size:16
Alignment explanation
Indices: 7144024--7144057 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7144014 TATTAAGAAG
*
7144024 AATTGATAATAAACTT
1 AATTAATAATAAACTT
*
7144040 AATTAATAATATACTT
1 AATTAATAATAAACTT
7144056 AA
1 AA
7144058 AACATATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
AATTAATAATAAACTT
Found at i:7157021 original size:36 final size:36
Alignment explanation
Indices: 7156981--7157059 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
7156971 TTGTAATTTT
* *
7156981 ACTATAATCTTTTTTCATAATTTGATTTGATGTGTC
1 ACTATAATCTTTTTTCATAATTTGATTTGATATATC
* ** *
7157017 ACTATAATTTTTTTTTTTAGTTTGATTTGATATATC
1 ACTATAATCTTTTTTCATAATTTGATTTGATATATC
7157053 ACTATAA
1 ACTATAA
7157060 ATTCTATCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (36 bp):
ACTATAATCTTTTTTCATAATTTGATTTGATATATC
Found at i:7182935 original size:2 final size:2
Alignment explanation
Indices: 7182928--7183007 Score: 142
Period size: 2 Copynumber: 40.0 Consensus size: 2
7182918 AACTTTCTTA
* *
7182928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7182970 AT 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 AT
7183008 GCATTATCTT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7183424 original size:30 final size:30
Alignment explanation
Indices: 7183388--7183514 Score: 98
Period size: 30 Copynumber: 4.2 Consensus size: 30
7183378 CCTTCAATTG
*
7183388 TAGCATTTTATTGGATGAAACCCTTAACTA
1 TAGCATTTTATTGGATGAAACCCTCAACTA
** *
7183418 TAGCATTCCATTGG-TGGAAAACCTCAACTA
1 TAGCATTTTATTGGAT-GAAACCCTCAACTA
* *
7183448 TTA-CCTTTTATT-GACTAAAACCCTCAACTA
1 -TAGCATTTTATTGGA-TGAAACCCTCAACTA
* * * * * *
7183478 TAGCATTCTACTAGCTTAAACCCTCAACTG
1 TAGCATTTTATTGGATGAAACCCTCAACTA
7183508 TAGCATT
1 TAGCATT
7183515 CCACTAACTA
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
29 4 0.05
30 68 0.89
31 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (30 bp):
TAGCATTTTATTGGATGAAACCCTCAACTA
Found at i:7195327 original size:154 final size:155
Alignment explanation
Indices: 7195034--7195328 Score: 420
Period size: 154 Copynumber: 1.9 Consensus size: 155
7195024 TTGCTAATAC
* *
7195034 CTCTATTCCTACTCTACCTTATATTAAAGTGTGCAGCTCTTGTATAGAATATTTTGTACAGGGAA
1 CTCTACTCCTACTCTACCTGATATTAAAGTGTGCAGCTC-TGTATAGAATATTTTGTACAGGGAA
* * * * * *
7195099 TCCTTTCCTCGCTGTTGCTTTTGATTGCAGGGGCCATCATCACGCGCCCACCACTTAAGTGGTGT
65 TCCTTTCCTAGCTGTTGCTTTTGACTACAGAGGCCATCATCACGCGACCACCACTTAAGCGGTGT
7195164 CGTGGTCTTCTTCCAGCAACTACCCT
130 CGTGGTCTTCTTCCAGCAACTACCCT
* * *
7195190 CTCTACTCCTACTCTACCTGATATTTAGGTGTGCAGCTC-GTGTAGAAT-TTTTGTTACAGGGAA
1 CTCTACTCCTACTCTACCTGATATTAAAGTGTGCAGCTCTGTATAGAATATTTTG-TACAGGGAA
* *
7195253 TCCTTTCCTAGCTGTTGCTTTTGACTACAGAGGCCATGA-CAC-C-ACCACCAGTTAAGCGGTGT
65 TCCTTTCCTAGCTGTTGCTTTTGACTACAGAGGCCATCATCACGCGACCACCACTTAAGCGGTGT
7195315 CGTGGTCTTCTTCC
130 CGTGGTCTTCTTCC
7195329 CGTAAGCTGC
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
151 30 0.24
152 1 0.01
153 8 0.06
154 51 0.41
156 35 0.28
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (155 bp):
CTCTACTCCTACTCTACCTGATATTAAAGTGTGCAGCTCTGTATAGAATATTTTGTACAGGGAAT
CCTTTCCTAGCTGTTGCTTTTGACTACAGAGGCCATCATCACGCGACCACCACTTAAGCGGTGTC
GTGGTCTTCTTCCAGCAACTACCCT
Done.