Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 35 of 205
Found at i:10490020 original size:24 final size:24
Alignment explanation
Indices: 10489982--10490027 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
10489972 ATATTATTGT
10489982 ATATATTTTAGGAATATATTTATGA
1 ATATATTTTAGGAATAT-TTTATGA
10490007 ATATA-TTTAGGAATATTTTAT
1 ATATATTTTAGGAATATTTTAT
10490028 ATACCTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (24 bp):
ATATATTTTAGGAATATTTTATGA
Found at i:10495810 original size:222 final size:222
Alignment explanation
Indices: 10495424--10495824 Score: 516
Period size: 222 Copynumber: 1.8 Consensus size: 222
10495414 GAACGACCTG
* *
10495424 TGCCCGTGTGGCCCACACGCCCAAATTGGCCTTGCCCGTATGCCCCACACGGCCTAACCCAAAGC
1 TGCCCGTGTGGCCCACACGCCCAAATTGGCCTTGCCCGTATGCCCCACACGACCTAACCCAAAAC
* * * * *
10495489 CCACACACCCAACTTGGCCTAGCCCGTGTGACCCATGCGATCACACTCACACTACCATATGACCG
66 CCACACACCCAACTTGGCCTAGCCCGTGTGACCCACGCGACCACACTCACACCACCACACGACCG
* ** * *
10495554 TGTCTTGCGTATGACCATGCTCTCGTCAACCACACAACCGTGTCTCACAAACGACCAGACATACA
131 TGTCTTACGTACAACCATGCCCTCATCAACCACACAACCGTGTCTCACAAACGACCAGACATACA
10495619 CCCGTGTTACAGAATTATTGTCCCACA
196 CCCGTGTTACAGAATTATTGTCCCACA
* * * * * * **
10495646 TGCCCGTGTGGCCCACACGTCTAGATTGGTCTTGCCCGTGTGGCCCACACGACCTGGCCCAAAAC
1 TGCCCGTGTGGCCCACACGCCCAAATTGGCCTTGCCCGTATGCCCCACACGACCTAACCCAAAAC
* * * * * * **
10495711 CCACACGCCCAACTTGGCTTAGCCCGTGT-AGCCCACGTGGCCACACTCATACCACTACACGGTC
66 CCACACACCCAACTTGGCCTAGCCCGTGTGA-CCCACGCGACCACACTCACACCACCACACGACC
**
10495775 GTGTCTTACGTACAACCATGCCCTCATCAACCACACAGTCGTGTCTCACA
130 GTGTCTTACGTACAACCATGCCCTCATCAACCACACAACCGTGTCTCACA
10495825 CACGGCCAAC
Statistics
Matches: 148, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
221 1 0.01
222 147 0.99
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.20
Consensus pattern (222 bp):
TGCCCGTGTGGCCCACACGCCCAAATTGGCCTTGCCCGTATGCCCCACACGACCTAACCCAAAAC
CCACACACCCAACTTGGCCTAGCCCGTGTGACCCACGCGACCACACTCACACCACCACACGACCG
TGTCTTACGTACAACCATGCCCTCATCAACCACACAACCGTGTCTCACAAACGACCAGACATACA
CCCGTGTTACAGAATTATTGTCCCACA
Found at i:10496870 original size:20 final size:21
Alignment explanation
Indices: 10496823--10496870 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
10496813 TACTGTAGTG
*
10496823 AAGAATATGAGAAGAGAGAAA
1 AAGAAAATGAGAAGAGAGAAA
* *
10496844 AA-TAAATGGGAAGA-AGAAA
1 AAGAAAATGAGAAGAGAGAAA
10496863 AAGAAAAT
1 AAGAAAAT
10496871 AAAGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 7 0.32
20 13 0.59
21 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (21 bp):
AAGAAAATGAGAAGAGAGAAA
Found at i:10496884 original size:14 final size:14
Alignment explanation
Indices: 10496860--10496892 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10496850 TGGGAAGAAG
10496860 AAAAA-GAAAATAA
1 AAAAATGAAAATAA
*
10496873 AGAAATGAAAATAA
1 AAAAATGAAAATAA
10496887 AAAAAT
1 AAAAAT
10496893 TCAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAAATGAAAATAA
Found at i:10497365 original size:60 final size:61
Alignment explanation
Indices: 10497291--10497406 Score: 198
Period size: 60 Copynumber: 1.9 Consensus size: 61
10497281 AGTTTACCCC
* * *
10497291 AAAATATAAGAAAAATTATGATAAATTATGATTATAATTTAATTTAAATATTATTAATTGG
1 AAAATATAAGAAAAATTATGATAAAATATAATTATAATTTAATTTAAAAATTATTAATTGG
10497352 AAAATATAA-AAAAATTATGATAAAATATAATTATAATTTAATTTAAAAATTATTA
1 AAAATATAAGAAAAATTATGATAAAATATAATTATAATTTAATTTAAAAATTATTA
10497407 GTTAAAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 43 0.83
61 9 0.17
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (61 bp):
AAAATATAAGAAAAATTATGATAAAATATAATTATAATTTAATTTAAAAATTATTAATTGG
Found at i:10500704 original size:22 final size:22
Alignment explanation
Indices: 10500676--10500720 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
10500666 AAAAAAACAA
*
10500676 ATCCCTACAAACCAGTTCTATG
1 ATCCCTACAAACCAGCTCTATG
*
10500698 ATCCCTACAAATCAGCTCTATG
1 ATCCCTACAAACCAGCTCTATG
10500720 A
1 A
10500721 ATCAACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.31, G:0.09, T:0.27
Consensus pattern (22 bp):
ATCCCTACAAACCAGCTCTATG
Found at i:10507516 original size:10 final size:9
Alignment explanation
Indices: 10507474--10507515 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
10507464 TTTTTAAAAT
10507474 TAAAAATT-
1 TAAAAATTA
**
10507482 TAAAAAAAA
1 TAAAAATTA
10507491 TAAAAATTA
1 TAAAAATTA
10507500 GTAAAAATTA
1 -TAAAAATTA
10507510 TAAAAA
1 TAAAAA
10507516 AATATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 6 0.21
9 13 0.46
10 9 0.32
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
TAAAAATTA
Found at i:10510922 original size:27 final size:27
Alignment explanation
Indices: 10510866--10510937 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
10510856 AATCTAATCA
* * * *
10510866 TTATAATATGGCCGGTGGAATTTGATTG
1 TTATAATATGG-TGTTGGAATCTGACTG
10510894 TTATAATATGGTGTTGGAATCTGACTG
1 TTATAATATGGTGTTGGAATCTGACTG
**
10510921 TTCCAATATGGTCGTTG
1 TTATAATATGGT-GTTG
10510938 AATTTTTTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (27 bp):
TTATAATATGGTGTTGGAATCTGACTG
Found at i:10525817 original size:26 final size:27
Alignment explanation
Indices: 10525774--10525835 Score: 108
Period size: 26 Copynumber: 2.3 Consensus size: 27
10525764 AATTTACTAC
10525774 GGGTAAAATCGTCAAAAATTTTATTGG
1 GGGTAAAATCGTCAAAAATTTTATTGG
*
10525801 GGGTAAAATGGTC-AAAATTTTATTGG
1 GGGTAAAATCGTCAAAAATTTTATTGG
10525827 GGGTAAAAT
1 GGGTAAAAT
10525836 AGGAATGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (27 bp):
GGGTAAAATCGTCAAAAATTTTATTGG
Found at i:10540808 original size:28 final size:28
Alignment explanation
Indices: 10540777--10540849 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
10540767 TTGCTCATGT
* **
10540777 GGGTTCACACTTTAGGGGTCACACCTAG
1 GGGTTCACACATTAGGGACCACACCTAG
* *
10540805 GGGTTCACTCATTAGGGACCACACTTAGG
1 GGGTTCACACATTAGGGACCACACCTA-G
**
10540834 GGGTTTGCACATTAGG
1 GGGTTCACACATTAGG
10540850 CTTTACACAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 22 0.61
29 14 0.39
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (28 bp):
GGGTTCACACATTAGGGACCACACCTAG
Found at i:10541171 original size:181 final size:181
Alignment explanation
Indices: 10540867--10541234 Score: 673
Period size: 181 Copynumber: 2.0 Consensus size: 181
10540857 CACAGGCTCA
* * * *
10540867 CACATAGGGTTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCACGCATATAGTTT
1 CACATAGGGCTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCACACATACAATTT
*
10540932 GCATAATTAAACATGTACAATCTGCATACTATATCGGGTTCGCTCGTCCTATGTAGCATGTGCTT
66 GCATAATTAAACATGTACAATCTGCATACTATATCGGGTTCGCTCGTCCTATGTAGCATGTGCCT
10540997 AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
131 AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
*
10541048 CACATAGGGCTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCGCACATACAATTT
1 CACATAGGGCTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCACACATACAATTT
*
10541113 GCATAATTAAACATGTACGATCTGCATACTATATCGGGTTCGCTCGTCCTATGTAGCATGTGCCT
66 GCATAATTAAACATGTACAATCTGCATACTATATCGGGTTCGCTCGTCCTATGTAGCATGTGCCT
10541178 AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
131 AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
10541229 CACATA
1 CACATA
10541235 ACTAAACATG
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
181 180 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (181 bp):
CACATAGGGCTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCACACATACAATTT
GCATAATTAAACATGTACAATCTGCATACTATATCGGGTTCGCTCGTCCTATGTAGCATGTGCCT
AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
Found at i:10541257 original size:23 final size:22
Alignment explanation
Indices: 10541196--10541257 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
10541186 CATATTTTAT
*
10541196 CATGTAGGGTTCGCATAATAAA
1 CATGTACGGTTCGCATAATAAA
* * * *
10541218 CAAGTATGTTTCACATAACTAAA
1 CATGTACGGTTCGCATAA-TAAA
10541241 CATGTACGGTTCGCATA
1 CATGTACGGTTCGCATA
10541258 CTATACAGGG
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (22 bp):
CATGTACGGTTCGCATAATAAA
Found at i:10541456 original size:18 final size:20
Alignment explanation
Indices: 10541413--10541460 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
10541403 ATAATAATTT
10541413 TAAAAATAAATATTAATTAAA
1 TAAAAAT-AATATTAATTAAA
*
10541434 GAAAAATAAT-TTAA-TAAA
1 TAAAAATAATATTAATTAAA
10541452 TAAAAATAA
1 TAAAAATAA
10541461 GCTAGAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.48
19 4 0.16
20 3 0.12
21 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAAAATAATATTAATTAAA
Found at i:10545654 original size:19 final size:19
Alignment explanation
Indices: 10545627--10545664 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10545617 CAAAAATATA
* *
10545627 TTATGATTTTTTTAGTTTT
1 TTATAATTTTTTGAGTTTT
10545646 TTATAATTTTTTGAGTTTT
1 TTATAATTTTTTGAGTTTT
10545665 AAGATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (19 bp):
TTATAATTTTTTGAGTTTT
Found at i:10545905 original size:30 final size:31
Alignment explanation
Indices: 10545837--10545900 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
10545827 TTACATAATC
* *
10545837 AAAGTACAAGGGCCAAGTTAATAACAAAAAT
1 AAAGTATAAGGGCCAAATTAATAACAAAAAT
* *
10545868 AAAGTATAAGGGCCAAATTGATAGAAAAAAAT
1 AAAGTATAAGGGCCAAATTAATA-ACAAAAAT
10545900 A
1 A
10545901 GTATAGGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.56, C:0.09, G:0.17, T:0.17
Consensus pattern (31 bp):
AAAGTATAAGGGCCAAATTAATAACAAAAAT
Found at i:10548433 original size:7 final size:8
Alignment explanation
Indices: 10548396--10548431 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
10548386 TATACAACTC
*
10548396 TTTTAAAA
1 TTTTTAAA
10548404 TTTTTAAA
1 TTTTTAAA
10548412 TTTTTAAA
1 TTTTTAAA
10548420 TTTTTAAA
1 TTTTTAAA
10548428 TTTT
1 TTTT
10548432 AATTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:10549492 original size:26 final size:26
Alignment explanation
Indices: 10549443--10549493 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10549433 TATTTGTTTA
*
10549443 TTTTAAAATTTTATTAAATAATATAT
1 TTTTAAAATTTTATAAAATAATATAT
*
10549469 TTTTATAATTTTA-AAAATATATATA
1 TTTTAAAATTTTATAAAATA-ATATA
10549494 CATATTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTAAAATTTTATAAAATAATATAT
Found at i:10550033 original size:14 final size:15
Alignment explanation
Indices: 10550007--10550039 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10549997 ATAGTATTTG
*
10550007 AATAATAAAATATCA
1 AATAATAAAATATAA
10550022 AATAAT-AAATATAA
1 AATAATAAAATATAA
10550036 AATA
1 AATA
10550040 TCAATTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAAAATATAA
Found at i:10551403 original size:24 final size:23
Alignment explanation
Indices: 10551360--10551454 Score: 66
Period size: 22 Copynumber: 4.5 Consensus size: 23
10551350 ATAGATAGAA
* *
10551360 TTTATATATTTT-TAAGTTTAAT
1 TTTATATATTTTAAAATTTTAAT
10551382 TTTATATATTTTAAAATTTTTAA-
1 TTTATATATTTTAAAA-TTTTAAT
*
10551405 -TGA-A-A-TTTAAAATTTTAAT
1 TTTATATATTTTAAAATTTTAAT
*
10551424 TTT-TATGATTTTTAAATTTT--T
1 TTTATAT-ATTTTAAAATTTTAAT
10551445 TTTATA-ATTT
1 TTTATATATTT
10551455 ATATTTAACT
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
18 6 0.10
19 7 0.12
20 7 0.12
21 5 0.08
22 17 0.29
23 12 0.20
24 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (23 bp):
TTTATATATTTTAAAATTTTAAT
Found at i:10559340 original size:24 final size:21
Alignment explanation
Indices: 10559300--10559342 Score: 59
Period size: 24 Copynumber: 1.9 Consensus size: 21
10559290 ATACTTCTTT
10559300 TAATAATTAAATTTTATTTTA
1 TAATAATTAAATTTTATTTTA
10559321 TAATAAATTAATATTTTTATTT
1 TAAT-AATTAA-A-TTTTATTT
10559343 AAATTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 1 0.05
24 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATAATTAAATTTTATTTTA
Found at i:10559686 original size:17 final size:17
Alignment explanation
Indices: 10559666--10559699 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10559656 ATTTTTAAAT
10559666 TTAAAATAAAAATATTA
1 TTAAAATAAAAATATTA
* *
10559683 TTAATATAATAATATTA
1 TTAAAATAAAAATATTA
10559700 GACTTTATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAATAAAAATATTA
Found at i:10559696 original size:23 final size:23
Alignment explanation
Indices: 10559653--10559696 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10559643 GTTTGATGTT
* *
10559653 AATATTTTTAAATTTAAAATAAA
1 AATATTATTAAATATAAAATAAA
10559676 AATATTATT-AATATAATAATA
1 AATATTATTAAATATAA-AATA
10559697 TTAGACTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATTATTAAATATAAAATAAA
Found at i:10562988 original size:28 final size:28
Alignment explanation
Indices: 10562956--10563014 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
10562946 TATCATACTT
10562956 AGGCCCGACACAAATTATAAGACTAGAA
1 AGGCCCGACACAAATTATAAGACTAGAA
*
10562984 AGGCCCGACACAAATTATAGGACTAGAA
1 AGGCCCGACACAAATTATAAGACTAGAA
10563012 AGG
1 AGG
10563015 TTGGTATGGT
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:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (28 bp):
AGGCCCGACACAAATTATAAGACTAGAA
Found at i:10574620 original size:3 final size:3
Alignment explanation
Indices: 10574612--10574648 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10574602 TGAAGAGATA
10574612 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
10574649 GTGGTGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:10575985 original size:19 final size:20
Alignment explanation
Indices: 10575961--10576001 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10575951 ACAACAAAAT
*
10575961 AATAGCAACATAATAG-TGA
1 AATAGCAACAAAATAGTTGA
*
10575980 AATAGCAGCAAAATAGTTGA
1 AATAGCAACAAAATAGTTGA
10576000 AA
1 AA
10576002 AAATAGTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.20
Consensus pattern (20 bp):
AATAGCAACAAAATAGTTGA
Found at i:10576003 original size:11 final size:11
Alignment explanation
Indices: 10575979--10576036 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
10575969 CATAATAGTG
* *
10575979 AAATAGCAGCA
1 AAATAGTAGAA
*
10575990 AAATAGTTGAAA
1 AAATAGTAG-AA
*
10576002 AAATAGTAGGA
1 AAATAGTAGAA
10576013 AAATAGTAGAA
1 AAATAGTAGAA
*
10576024 AAACAGT-GAA
1 AAATAGTAGAA
10576034 AAA
1 AAA
10576037 ATAATAGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
10 6 0.15
11 24 0.62
12 9 0.23
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.16
Consensus pattern (11 bp):
AAATAGTAGAA
Found at i:10576006 original size:23 final size:23
Alignment explanation
Indices: 10575979--10576026 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
10575969 CATAATAGTG
*
10575979 AAATAGCAGCAAAATAGTTGAAA
1 AAATAGCAGCAAAATAGTAGAAA
* *
10576002 AAATAGTAGGAAAATAGTAGAAA
1 AAATAGCAGCAAAATAGTAGAAA
10576025 AA
1 AA
10576027 CAGTGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.04, G:0.19, T:0.17
Consensus pattern (23 bp):
AAATAGCAGCAAAATAGTAGAAA
Found at i:10578088 original size:43 final size:43
Alignment explanation
Indices: 10578001--10578107 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 43
10577991 TTTGTGTAAT
* * * * *
10578001 ACCATGTCTGGGACATTGGCATCAATATGAGATTACGTGTAAG
1 ACCATGTCTGGGACAGTGGCATCAAGATGAGATAACATGGAAG
* * * *
10578044 ACCCTGTCTGGGACAGTGGTATCGAGATGTGATAACATGGAAG
1 ACCATGTCTGGGACAGTGGCATCAAGATGAGATAACATGGAAG
* *
10578087 ACCATATCTGGGATA-TGGCAT
1 ACCATGTCTGGGACAGTGGCAT
10578108 TGAATGTGAT
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
42 5 0.10
43 46 0.90
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
ACCATGTCTGGGACAGTGGCATCAAGATGAGATAACATGGAAG
Found at i:10579026 original size:69 final size:69
Alignment explanation
Indices: 10578915--10579074 Score: 248
Period size: 69 Copynumber: 2.3 Consensus size: 69
10578905 CTATTTTTAC
* *
10578915 ATGTTATTAATGCTATCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCTATGCTAT
1 ATGTTATTAATGCTATCCAAATTAGTGCTTAAATGCTGTCCATGTTTGGTACAAATCAATGCTAT
*
10578980 CCGA
66 CCAA
* * *
10578984 ATGTTATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATGTTTGGTACAAGTCAATGCTGT
1 ATGTTATTAATGCTATCCAAATTAGTGCTTAAATGCTGTCCATGTTTGGTACAAATCAATGCTAT
10579049 CCAA
66 CCAA
* *
10579053 ATGTTTTTACTGCTATCCAAAT
1 ATGTTATTAATGCTATCCAAAT
10579075 ATTTGTGAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 82 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (69 bp):
ATGTTATTAATGCTATCCAAATTAGTGCTTAAATGCTGTCCATGTTTGGTACAAATCAATGCTAT
CCAA
Found at i:10614199 original size:17 final size:18
Alignment explanation
Indices: 10614158--10614208 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
10614148 ACTAAACTTT
*
10614158 CTTATTAACATAAAATTA
1 CTTAATAACATAAAATTA
* *
10614176 CTAAATAACTTAAAA-TA
1 CTTAATAACATAAAATTA
10614193 CTTAATAATCATAAAA
1 CTTAATAA-CATAAAA
10614209 AATTTGGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
CTTAATAACATAAAATTA
Found at i:10616047 original size:27 final size:27
Alignment explanation
Indices: 10615954--10616054 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
10615944 CACGATAGAT
* ***
10615954 AAGGAATACCTTTGTGGTGCAATATGA
1 AAGGAATGCCTTTGTGGCAAAATATGA
* * * ** *
10615981 ATGGAATGCCCTTATGGCGCAATATGG
1 AAGGAATGCCTTTGTGGCAAAATATGA
*
10616008 AAGGAACGCCTTTGTGGCAAAATATGA
1 AAGGAATGCCTTTGTGGCAAAATATGA
*
10616035 AAGGAATGTCTTTGTGGCAA
1 AAGGAATGCCTTTGTGGCAA
10616055 CCCGGATGGG
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (27 bp):
AAGGAATGCCTTTGTGGCAAAATATGA
Found at i:10625549 original size:26 final size:26
Alignment explanation
Indices: 10625513--10625572 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
10625503 CGTAGCTTTT
* *
10625513 ATGAGCGT-CCCATTATAAGGCTCTTC
1 ATGAGCTTCCCCATTA-AAGGATCTTC
*
10625539 ATGAGCTTCCCCATTAAAGGATCTTT
1 ATGAGCTTCCCCATTAAAGGATCTTC
*
10625565 GTGAGCTT
1 ATGAGCTT
10625573 TTTGATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (26 bp):
ATGAGCTTCCCCATTAAAGGATCTTC
Found at i:10628854 original size:19 final size:17
Alignment explanation
Indices: 10628823--10628866 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
10628813 GTAGCAAAAA
10628823 AAAAATTAAAATTTTAAT
1 AAAAATTAAAA-TTTAAT
* *
10628841 AAAAATATATAATTTATT
1 AAAAAT-TAAAATTTAAT
10628859 AAAAATTA
1 AAAAATTA
10628867 GAAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAATTAAAATTTAAT
Found at i:10628939 original size:29 final size:29
Alignment explanation
Indices: 10628830--10628941 Score: 84
Period size: 29 Copynumber: 3.8 Consensus size: 29
10628820 AAAAAAAATT
* *
10628830 AAAATTTTAATAAAAATATATAA-TTTATTA
1 AAAATTATAA-AAAAATATAAAATTTTA-TA
* ** *
10628860 AAAATTAGAAAAAAATTATAAGAATCGTA-G
1 AAAATTATAAAAAAA-TATAA-AATTTTATA
* * *
10628890 AAAATTATAAATAATTGTAAAATTTTATA
1 AAAATTATAAAAAAATATAAAATTTTATA
*
10628919 AAAATCATAAAAAAATATAAAAT
1 AAAATTATAAAAAAATATAAAAT
10628942 GCATCAGTAA
Statistics
Matches: 61, Mismatches: 17, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
28 5 0.08
29 28 0.46
30 24 0.39
31 2 0.03
32 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATTATAAAAAAATATAAAATTTTATA
Found at i:10629225 original size:85 final size:85
Alignment explanation
Indices: 10629041--10629287 Score: 257
Period size: 85 Copynumber: 2.9 Consensus size: 85
10629031 GTGATTGATA
** ***
10629041 CATTTTGGTAGTTCAAATACCCAATTGAGTGCAAAAAAAAGGGGCTTAATTG-TTTTTTTTTTAA
1 CATTTTGAAAGTTCAAATACCCAATTGAGTGC-AAAAAAAGGGGCTTAATTGCTTTTTTTGAAAA
* * *
10629105 -GTTTGAGGGCCTTTTTTATG
65 TTTTTAAGAGCCTTTTTTATG
* * *
10629125 TATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGGGGCTTAATTGCTTGTTTTGAAAAT
1 CATTTTGAAAGTTCAAATACCCAATTGAGTGCAAAAAAAGGGGCTTAATTGCTTTTTTTGAAAAT
10629190 TTTTAAGAGCCTTTTTTATG
66 TTTTAAGAGCCTTTTTTATG
* * * * *
10629210 CATTTT-AAACTTTCAATTACCCAATTAAGTGCCAAAAAAAGTAGAGACTTAATAGCTTTTTTTA
1 CATTTTGAAA-GTTCAAATACCCAATTGAGTG-CAAAAAAAG--G-GGCTTAATTGCTTTTTTT-
*
10629274 GAAAATTTTGAAGA
60 GAAAATTTTTAAGA
10629288 CTTTTTACAC
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
83 19 0.14
84 39 0.29
85 40 0.29
86 9 0.07
88 1 0.01
89 15 0.11
90 13 0.10
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (85 bp):
CATTTTGAAAGTTCAAATACCCAATTGAGTGCAAAAAAAGGGGCTTAATTGCTTTTTTTGAAAAT
TTTTAAGAGCCTTTTTTATG
Found at i:10629986 original size:5 final size:5
Alignment explanation
Indices: 10629976--10630007 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
10629966 TTTTCTAATT
10629976 TTCTA TTCTA TTCTA TTCTA TTCTA TTCTA TT
1 TTCTA TTCTA TTCTA TTCTA TTCTA TTCTA TT
10630008 TATATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (5 bp):
TTCTA
Found at i:10634277 original size:41 final size:41
Alignment explanation
Indices: 10634232--10634417 Score: 291
Period size: 41 Copynumber: 4.5 Consensus size: 41
10634222 GACTTTAAGT
* * *
10634232 CTAGCAGGCTAAGTGTCGGTGAGCTTAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
10634273 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
10634314 CTAGTAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
10634355 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
10634396 CTAACAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
10634418 ATATGTTAAA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:10636698 original size:46 final size:46
Alignment explanation
Indices: 10636598--10636923 Score: 378
Period size: 46 Copynumber: 7.6 Consensus size: 46
10636588 TACATATGAT
*
10636598 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
10636641 CACTTATCACTTTGTCACTTGATCAGATAAGGGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
10636687 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
10636733 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
10636769 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
10636815 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
10636851 CACTTATCACTTTTTCACTTGATCAGATCAA-TGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGAT-AAGTGTAGCTAAGGCTAC
10636897 CACTTATCAC-TTGATCACTTGATCAGA
1 CACTTATCACTTTG-TCACTTGATCAGA
10636924 AGTACTCAAA
Statistics
Matches: 247, Mismatches: 12, Indels: 45
0.81 0.04 0.15
Matches are distributed among these distances:
36 55 0.22
37 2 0.01
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.04
44 10 0.04
45 21 0.09
46 130 0.53
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:10636774 original size:36 final size:36
Alignment explanation
Indices: 10636733--10636878 Score: 166
Period size: 36 Copynumber: 3.8 Consensus size: 36
10636723 CTAAGGCTAA
10636733 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
10636769 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
10636811 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
10636851 CACTTATCACTTTTTCACTTGATCAGAT
1 CACTTATCACTTTGTCACTTGATCAGAT
10636879 CAATGTAGCT
Statistics
Matches: 94, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
36 55 0.59
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.30
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:10636824 original size:82 final size:82
Alignment explanation
Indices: 10636687--10636923 Score: 388
Period size: 82 Copynumber: 2.9 Consensus size: 82
10636677 CTAAGGCTAC
* * *
10636687 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
10636752 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
*
10636769 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
10636834 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
*
10636851 CACTTATCACTTTTTCACTTGATCAGATCAA-TGTAGCTAATGCTACCACTTATCAC-TTGATCA
1 CACTTATCACTTTTTCACTTGATCAGAT-AAGTGTAGCTAAAGCTACCACTTATCACTTTG-TCA
10636914 CTTGATCAGA
64 CTTGATCAGA
10636924 AGTACTCAAA
Statistics
Matches: 146, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
81 3 0.02
82 141 0.97
83 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTATAG
Found at i:10636886 original size:36 final size:36
Alignment explanation
Indices: 10636815--10636887 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
10636805 CTAAAGCTAC
*
10636815 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
10636851 CACTTATCACTTTTTCACTTGATCAGATCAA-TGTAG
1 CACTTATCACTTTGTCACTTGATCAGAT-AAGTGTAG
10636887 C
1 C
10636888 TAATGCTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 32 0.94
37 2 0.06
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:10636901 original size:128 final size:131
Alignment explanation
Indices: 10636598--10636923 Score: 385
Period size: 128 Copynumber: 2.5 Consensus size: 131
10636588 TACATATGAT
* *
10636598 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAA-TGTAGCTA-GCTACCACTTATCACTTTATCACTT
*
10636661 GATCAGATAAGGGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
64 GATCAGATAAGGGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAG-GTAGCTA
10636726 AGGCTAA
128 AGG---A
*
10636733 CACTTATCACTTTGTCACTTGATCAGATAA-GTA--TAG----CACTTATCACTTTTTCACTTGA
1 CACTTATCACTTTGTCACTTGATCAGATAATGTAGCTAGCTACCACTTATCACTTTATCACTTGA
* * *
10636791 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-A-G
66 TCAGATAAGGGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAGG
10636851 -
131 A
* *
10636851 CACTTATCACTTTTTCACTTGATCAGATCAATGTAGCTAATGCTACCACTTATCACTTGATCACT
1 CACTTATCACTTTGTCACTTGATCAGAT-AATGTAGCT-A-GCTACCACTTATCACTTTATCACT
10636916 TGATCAGA
63 TGATCAGA
10636924 AGTACTCAAA
Statistics
Matches: 170, Mismatches: 9, Indels: 31
0.81 0.04 0.15
Matches are distributed among these distances:
118 27 0.16
119 2 0.01
120 3 0.02
122 2 0.01
123 2 0.01
124 2 0.01
125 1 0.01
126 2 0.01
128 96 0.56
132 1 0.01
133 2 0.01
135 13 0.08
136 5 0.03
137 12 0.07
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (131 bp):
CACTTATCACTTTGTCACTTGATCAGATAATGTAGCTAGCTACCACTTATCACTTTATCACTTGA
TCAGATAAGGGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAGG
A
Found at i:10643361 original size:64 final size:64
Alignment explanation
Indices: 10643292--10643448 Score: 178
Period size: 63 Copynumber: 2.5 Consensus size: 64
10643282 TTCTATAAGC
* * *
10643292 AAAAATATAATGGTATGAATTGTATA-A-ATATGTTAGCCGAATGTATGTTTTGA-ATTTATAAG
1 AAAAATAAAAT-GTATGAATTGTATATATATATGTTAGCC-AATGTAT-ATTAGAGATTTATAAG
10643354 TT
63 TT
* *
10643356 AAAAATAAAATGTATGAATTGTATATATATATGTTAGTCAATGTATATTAGAGTTTTATAAGTT
1 AAAAATAAAATGTATGAATTGTATATATATATGTTAGCCAATGTATATTAGAGATTTATAAGTT
* * * *
10643420 -AAAATAAATTGCATAAATTATATATATAT
1 AAAAATAAAATGTATGAATTGTATATATAT
10643449 TTTTCCGAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 43 0.53
64 28 0.35
65 10 0.12
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (64 bp):
AAAAATAAAATGTATGAATTGTATATATATATGTTAGCCAATGTATATTAGAGATTTATAAGTT
Found at i:10643371 original size:63 final size:65
Alignment explanation
Indices: 10643292--10643427 Score: 174
Period size: 64 Copynumber: 2.1 Consensus size: 65
10643282 TTCTATAAGC
* * *
10643292 AAAAATATAATGGTATGAATTGTATA-A-ATATGTTAGCCGAATGTATGTTTTGA-ATTTATAAG
1 AAAAATAAAATGGTATGAATTGTATATATATATGTTAGCC-AATGTAT-ATTAGAGATTTATAAG
10643354 TT
64 TT
* *
10643356 AAAAATAAAAT-GTATGAATTGTATATATATATGTTAGTCAATGTATATTAGAGTTTTATAAGTT
1 AAAAATAAAATGGTATGAATTGTATATATATATGTTAGCCAATGTATATTAGAGATTTATAAGTT
10643420 -AAAATAAA
1 AAAAATAAA
10643428 TTGCATAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
63 26 0.41
64 28 0.44
65 10 0.16
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.40
Consensus pattern (65 bp):
AAAAATAAAATGGTATGAATTGTATATATATATGTTAGCCAATGTATATTAGAGATTTATAAGTT
Found at i:10644136 original size:41 final size:41
Alignment explanation
Indices: 10644091--10644276 Score: 300
Period size: 41 Copynumber: 4.5 Consensus size: 41
10644081 GACTTTAAGT
* *
10644091 CTAGCAGGCTAGGTGCCGGTGAGCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
**
10644132 CTAGCAGGCTAAGTGCTAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
10644173 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
10644214 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
10644255 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
10644277 ATATGTTAAA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:10653604 original size:26 final size:25
Alignment explanation
Indices: 10653559--10653631 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
10653549 TCTCATCCCT
**
10653559 ATTTTACCCCCAGTAAAATTTTAACG
1 ATTTTACCCCTGGT-AAATTTTAACG
*
10653585 ATTTTACCCCTGGTATAATTTTGACG
1 ATTTTACCCCTGGTA-AATTTTAACG
* *
10653611 ATTTTGCCTCTGGTAAATTTT
1 ATTTTACCCCTGGTAAATTTT
10653632 CGAGAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.17
26 34 0.83
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (25 bp):
ATTTTACCCCTGGTAAATTTTAACG
Found at i:10658197 original size:73 final size:73
Alignment explanation
Indices: 10658113--10658307 Score: 300
Period size: 73 Copynumber: 2.6 Consensus size: 73
10658103 TTTTTTTATT
* * *
10658113 TTTTCATTTTTGGGTAAATTGTAAATAATTATATTATTGATGTAAAATACAATAGAATACAGTAC
1 TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAATACAATAAAATACAATAC
10658178 AAACAATA
66 AAACAATA
* *
10658186 TTTTCAGTTTTGGGTAAATTGTAACTAAATATATTATTGATGTAAAAATACAATAAAATACAATA
1 TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGT-AAAATACAATAAAATACAATA
10658251 CAAACAATA
65 CAAACAATA
** *
10658260 TTTTCATTTTTTTTGTAAATTGTAAATAAGTATATTATTGATGTAAAA
1 TTTTCA-TTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAA
10658308 AATAAACAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
73 40 0.36
74 38 0.35
75 32 0.29
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (73 bp):
TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAATACAATAAAATACAATAC
AAACAATA
Found at i:10658322 original size:54 final size:56
Alignment explanation
Indices: 10658264--10658373 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 56
10658254 ACAATATTTT
* * * * * *
10658264 CATTTTTTTTGTAAATTGTAAATAAGTATATTATTGATGTAAAAAA-TAA-ACAAA
1 CATTTATTTTATAAAATGTAAATAAGTAAATTATGGATGAAAAAAATTAATACAAA
*
10658318 CATTTATTTTATAAAATGTGAATAAGTAAATTATGGATGAAAAAAATTAATACAAA
1 CATTTATTTTATAAAATGTAAATAAGTAAATTATGGATGAAAAAAATTAATACAAA
10658374 TTAAATGATG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 39 0.83
55 3 0.06
56 5 0.11
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (56 bp):
CATTTATTTTATAAAATGTAAATAAGTAAATTATGGATGAAAAAAATTAATACAAA
Found at i:10660374 original size:163 final size:163
Alignment explanation
Indices: 10660104--10660434 Score: 646
Period size: 163 Copynumber: 2.0 Consensus size: 163
10660094 CCCAAAGGAA
10660104 TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
1 TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
*
10660169 TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCTAAATAATATGTTACTAATG
66 TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCAAAATAATATGTTACTAATG
10660234 AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
131 AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
10660267 TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
1 TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
10660332 TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCAAAATAATATGTTACTAATG
66 TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCAAAATAATATGTTACTAATG
10660397 AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
131 AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
10660430 T-CATT
1 TACATT
10660435 CCCTGAAGTG
Statistics
Matches: 167, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
162 4 0.02
163 163 0.98
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (163 bp):
TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCAAAATAATATGTTACTAATG
AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
Found at i:10664882 original size:29 final size:30
Alignment explanation
Indices: 10664843--10664899 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
10664833 TAACAATTTG
* * *
10664843 ATAACGTGGGTGATCATAATATAATTTTTT
1 ATAACGTGGGTGATAAAAACATAATTTTTT
10664873 ATAAC-TGGGTGATAAAAACATAATTTT
1 ATAACGTGGGTGATAAAAACATAATTTT
10664900 AATTTTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (30 bp):
ATAACGTGGGTGATAAAAACATAATTTTTT
Found at i:10669109 original size:54 final size:54
Alignment explanation
Indices: 10669045--10669155 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
10669035 AATCTTCATA
*
10669045 CATGATTGAAGATGTTCTAAACATTTCCCAAAGAGAAACAACCCAAGAATTTCC
1 CATGATTGAAGATGTTCTAAACATATCCCAAAGAGAAACAACCCAAGAATTTCC
10669099 CATGATTGAAGATGTTCTAAACATATCCCAAAGAGAAACAACCCAAGAATTTCC
1 CATGATTGAAGATGTTCTAAACATATCCCAAAGAGAAACAACCCAAGAATTTCC
10669153 CAT
1 CAT
10669156 TTAAAAGAGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (54 bp):
CATGATTGAAGATGTTCTAAACATATCCCAAAGAGAAACAACCCAAGAATTTCC
Found at i:10670658 original size:24 final size:25
Alignment explanation
Indices: 10670616--10670665 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
10670606 CCGAAAAATA
10670616 TTAAATATATATATATTTTTTATTT
1 TTAAATATATATATATTTTTTATTT
10670641 TTAAA-ATATA-ATAGTTTTTTATTT
1 TTAAATATATATATA-TTTTTTATTT
10670665 T
1 T
10670666 AAGTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 3 0.12
24 16 0.67
25 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTAAATATATATATATTTTTTATTT
Found at i:10670808 original size:17 final size:17
Alignment explanation
Indices: 10670762--10670801 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
10670752 TTTTGTTACA
*
10670762 ACAATTAATACAATTGAT
1 ACAATTAATA-ATTTGAT
10670780 ACAATTAATAATTTGAT
1 ACAATTAATAATTTGAT
10670797 A-AATT
1 ACAATT
10670802 TACTAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (17 bp):
ACAATTAATAATTTGAT
Found at i:10670883 original size:16 final size:16
Alignment explanation
Indices: 10670862--10670903 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10670852 AATAATTTGA
*
10670862 TAATTTTATTAACAAT
1 TAATTTTAATAACAAT
*
10670878 TAATTTTAATAACGAT
1 TAATTTTAATAACAAT
*
10670894 TAGTTTTAAT
1 TAATTTTAAT
10670904 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:10675918 original size:43 final size:43
Alignment explanation
Indices: 10675856--10675944 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
10675846 TCTGTGTACG
* * *
10675856 GAAGAGCAGTGGAATTCGGAAGTTCGAAAATGCTGTCTACGGA
1 GAAGAGCAGCGGAACTCGGAAGTTCGAAAAAGCTGTCTACGGA
* *
10675899 GAAGAGCGGCGGAACTCGGAAGTTCGAAAAAGCTGTTTACGGA
1 GAAGAGCAGCGGAACTCGGAAGTTCGAAAAAGCTGTCTACGGA
10675942 GAA
1 GAA
10675945 CATTTAGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.18
Consensus pattern (43 bp):
GAAGAGCAGCGGAACTCGGAAGTTCGAAAAAGCTGTCTACGGA
Found at i:10689989 original size:11 final size:11
Alignment explanation
Indices: 10689973--10689999 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10689963 TGTTAATGAT
10689973 TTTTATTTTTA
1 TTTTATTTTTA
10689984 TTTTATTTTTA
1 TTTTATTTTTA
10689995 TTTTA
1 TTTTA
10690000 CTTTGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:10690523 original size:29 final size:30
Alignment explanation
Indices: 10690468--10690543 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
10690458 AAGTTATTTG
* * *
10690468 AAAAGTAGAGAGACTAATTTCAAACAAA-T
1 AAAAGTAGAGGGACTAAATCCAAACAAATT
*
10690497 AAAAGTAGAGGGACTAAATCCACACAAATTT
1 AAAAGTAGAGGGACTAAATCCAAACAAA-TT
* *
10690528 ATAAGTACAGGGACTA
1 AAAAGTAGAGGGACTA
10690544 TCCTTAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (30 bp):
AAAAGTAGAGGGACTAAATCCAAACAAATT
Found at i:10691890 original size:13 final size:12
Alignment explanation
Indices: 10691872--10691910 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
10691862 AATGGCATAA
10691872 AAATAATATAAAC
1 AAATAA-ATAAAC
10691885 AAATAAATAAAC
1 AAATAAATAAAC
10691897 GAAATAAA-AAAC
1 -AAATAAATAAAC
10691909 AA
1 AA
10691911 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:10692382 original size:21 final size:20
Alignment explanation
Indices: 10692345--10692383 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10692335 ATTATACTAC
*
10692345 AAAAATAAATATGCATATGT
1 AAAAATAAATATACATATGT
*
10692365 AAAATATATATATACATAT
1 AAAA-ATAAATATACATAT
10692384 ATTTTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAATAAATATACATATGT
Found at i:10693814 original size:44 final size:42
Alignment explanation
Indices: 10693758--10694176 Score: 198
Period size: 44 Copynumber: 9.8 Consensus size: 42
10693748 TAGTGCTTCA
*
10693758 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT-TT-G
* * **
10693802 ATCTGCTTCACTGCAACTTCA-GGAGGAT--GACTAG-ATGCG
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGTATTTG
* * * * *
10693841 ATCTG-TTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT--TGTATTTG
* * ** *
10693884 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T-GTATTTG
* * *
10693928 ATCTGCTCCACTGCAACTTC-GAGGAGATAAGATTTGCCATCTTT
1 ATCTGCTCCACTGCAACTTCAG-GGAGATAAGACTTG-TAT-TTG
* * *
10693972 AGTCTGC-CTCACTGCAACTTCA-AGAGGATAAGACTT-TCTTCCTT
1 A-TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGTATT--TG
* * * *
10694016 AGTCTGCTCCACTACAACTTCAGGAAGATAAGACTAG-ATGTG
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTG
* * * * *
10694058 ATCTACT-CTCTGCAAATTCAGAGAGATAAGA-TCTGTTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-TA-TTTG
* * * ** *
10694101 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGTATTTG
* * *
10694145 ATCTGCTCCGCTGCATCTTCAAGGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
10694177 TTTTCCATTG
Statistics
Matches: 289, Mismatches: 55, Indels: 62
0.71 0.14 0.15
Matches are distributed among these distances:
38 17 0.06
39 9 0.03
40 22 0.08
41 9 0.03
42 11 0.04
43 23 0.08
44 167 0.58
45 28 0.10
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTG
Found at i:10706765 original size:22 final size:23
Alignment explanation
Indices: 10706740--10706789 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
10706730 TAAAGTATAT
*
10706740 AAAAAATAT-TTACAT-TTTAAAA
1 AAAAAATATGTT-CATATATAAAA
10706762 AAAAAATATGTTCATATATAAAA
1 AAAAAATATGTTCATATATAAAA
10706785 AAAAA
1 AAAAA
10706790 TTAGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAAATATGTTCATATATAAAA
Found at i:10706978 original size:23 final size:25
Alignment explanation
Indices: 10706951--10706998 Score: 82
Period size: 23 Copynumber: 2.0 Consensus size: 25
10706941 TATATTTTTT
10706951 TAAAAAAA-TAATTAA-ATAAAAAA
1 TAAAAAAACTAATTAATATAAAAAA
10706974 TAAAAAAACTAATTAATATAAAAAA
1 TAAAAAAACTAATTAATATAAAAAA
10706999 AATAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.35
24 7 0.30
25 8 0.35
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (25 bp):
TAAAAAAACTAATTAATATAAAAAA
Found at i:10713453 original size:41 final size:42
Alignment explanation
Indices: 10713392--10713473 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
10713382 GAGTCTTAGG
* *
10713392 GGAAAGAAGATTTTTTACAGAAGTGATGAGTCAGTATTCATA
1 GGAAAGAAGATTTATTACAGAAGTGATGAGTAAGTATTCATA
10713434 NGGAAAG-AG-TTTATTACAGAAGTGATGAGTAAGTATTCAT
1 -GGAAAGAAGATTTATTACAGAAGTGATGAGTAAGTATTCAT
10713474 GTCACTCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 29 0.78
42 2 0.05
43 6 0.16
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.30
Consensus pattern (42 bp):
GGAAAGAAGATTTATTACAGAAGTGATGAGTAAGTATTCATA
Found at i:10714388 original size:102 final size:101
Alignment explanation
Indices: 10714216--10714428 Score: 300
Period size: 102 Copynumber: 2.1 Consensus size: 101
10714206 GAATTATATA
* * * *
10714216 TATTATTTAAGAATGTATTGGCCCTTTTGACGCGAAGTGGAATGATAACTCAAACACCTCACCCC
1 TATTGTTTAAGAATGTATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCACCCC
** *
10714281 AGTTACTTAGCCCAACACACTCTTAATTTATTATTTT
66 AGTTACCCAGCCCAACACACTCCTAATTTATT-TTTT
* * *
10714318 TATTGTTTAAGAATGTATTGGCCCTTTTGACTCGAAGTGGAATGACAACCCAAGCACCCCATCCC
1 TATTGTTTAAGAATGTATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCACCCC
* *
10714383 GGTTACCCAGCCCAACACACTCCTAATTTGTTTTTT
66 AGTTACCCAGCCCAACACACTCCTAATTTATTTTTT
*
10714419 TTTTGTTTAA
1 TATTGTTTAA
10714429 TTTTAGTTAG
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
101 13 0.13
102 85 0.87
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (101 bp):
TATTGTTTAAGAATGTATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCACCCC
AGTTACCCAGCCCAACACACTCCTAATTTATTTTTT
Found at i:10721447 original size:18 final size:18
Alignment explanation
Indices: 10721424--10721464 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10721414 GGTTTGATTA
* * *
10721424 AAAAATTATCAAAATTTT
1 AAAAATAATAAAAATATT
10721442 AAAAATAATAAAAATATT
1 AAAAATAATAAAAATATT
10721460 AAAAA
1 AAAAA
10721465 AATCTAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATAATAAAAATATT
Found at i:10734148 original size:20 final size:19
Alignment explanation
Indices: 10734125--10734230 Score: 92
Period size: 19 Copynumber: 5.6 Consensus size: 19
10734115 AAAAAAATTC
10734125 AAATATTAAAAATTAG-AAAA
1 AAATA-TAAAAA-TAGTAAAA
10734145 AAATATAAAAATAGTAAAA
1 AAATATAAAAATAGTAAAA
* *
10734164 AAATAAAAAAAATTGTAAAA
1 AAAT-ATAAAAATAGTAAAA
***
10734184 TTTTATAAAAATAGTAAAA
1 AAATATAAAAATAGTAAAA
* * *
10734203 AATTAT-AAAATA-TATAG
1 AAATATAAAAATAGTAAAA
10734220 AAATATAAAAA
1 AAATATAAAAA
10734231 AAATTATAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
17 8 0.11
18 13 0.18
19 31 0.44
20 19 0.27
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATATAAAAATAGTAAAA
Found at i:10734182 original size:29 final size:29
Alignment explanation
Indices: 10734125--10734242 Score: 111
Period size: 29 Copynumber: 4.1 Consensus size: 29
10734115 AAAAAAATTC
*
10734125 AAATAT-TA-AAAATTAGAAAAAAA-TATA
1 AAATATATAGAAAAATA-AAAAAAATTATA
* *
10734152 AAA-ATAGTAAAAAAATAAAAAAAATTGTA
1 AAATATA-TAGAAAAATAAAAAAAATTATA
* * *
10734181 AAAT-TTTATAAAAATAGTAAAAAATTATA
1 AAATATATAGAAAAATA-AAAAAAATTATA
*
10734210 AAATATATAGAAATATAAAAAAAATTATA
1 AAATATATAGAAAAATAAAAAAAATTATA
10734239 AAAT
1 AAAT
10734243 TTTATGAAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
26 2 0.03
27 3 0.04
28 18 0.24
29 42 0.57
30 9 0.12
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (29 bp):
AAATATATAGAAAAATAAAAAAAATTATA
Found at i:10734194 original size:58 final size:58
Alignment explanation
Indices: 10734131--10734247 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 58
10734121 ATTCAAATAT
*
10734131 TAAAAATTAG-AAAAAAATATAAAA-ATAGTAAAAAAATAAAAAAAATTGTAAAATTTTA
1 TAAAAA-TAGTAAAAAAATATAAAATATA-TAAAAAAATAAAAAAAATTATAAAATTTTA
* * *
10734189 TAAAAATAGTAAAAAATTATAAAATATATAGAAATATAAAAAAAATTATAAAATTTTA
1 TAAAAATAGTAAAAAAATATAAAATATATAAAAAAATAAAAAAAATTATAAAATTTTA
10734247 T
1 T
10734248 GAAGTCGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
57 3 0.06
58 47 0.89
59 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (58 bp):
TAAAAATAGTAAAAAAATATAAAATATATAAAAAAATAAAAAAAATTATAAAATTTTA
Found at i:10734241 original size:11 final size:10
Alignment explanation
Indices: 10734125--10734241 Score: 57
Period size: 10 Copynumber: 12.0 Consensus size: 10
10734115 AAAAAAATTC
*
10734125 AAATATTAAA
1 AAATATAAAA
* *
10734135 AATTAGAAAA
1 AAATATAAAA
10734145 AAATAT--AA
1 AAATATAAAA
10734153 AAATAGTAAAA
1 AAATA-TAAAA
10734164 AAATA-AAAA
1 AAATATAAAA
**
10734173 AAAT-TGTAA
1 AAATATAAAA
* * *
10734182 AATTTTATAA
1 AAATATAAAA
10734192 AAATAGTAAAA
1 AAATA-TAAAA
*
10734203 AATTAT-AAA
1 AAATATAAAA
* *
10734212 ATATATAGAA
1 AAATATAAAA
*
10734222 ATATA-AAAA
1 AAATATAAAA
10734231 AAATTATAAAA
1 AAA-TATAAAA
10734242 TTTTATGAAG
Statistics
Matches: 80, Mismatches: 18, Indels: 17
0.70 0.16 0.15
Matches are distributed among these distances:
8 7 0.09
9 26 0.32
10 28 0.35
11 19 0.24
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.26
Consensus pattern (10 bp):
AAATATAAAA
Found at i:10734498 original size:10 final size:10
Alignment explanation
Indices: 10734445--10734498 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
10734435 TTTTTTTATG
10734445 ATTTTTATAA
1 ATTTTTATAA
* *
10734455 AATTTTA-CA
1 ATTTTTATAA
10734464 ATTTTTATAA
1 ATTTTTATAA
10734474 ATTTTT-TAA
1 ATTTTTATAA
*
10734483 TTTTTTATAA
1 ATTTTTATAA
10734493 ATTTTT
1 ATTTTT
10734499 TTTCTAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 15 0.42
10 21 0.58
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:10734498 original size:19 final size:20
Alignment explanation
Indices: 10734445--10734499 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
10734435 TTTTTTTATG
*
10734445 ATTTTTATAAA-ATTTTACA
1 ATTTTTATAAATTTTTTACA
10734464 ATTTTTATAAATTTTTTA-A
1 ATTTTTATAAATTTTTTACA
*
10734483 TTTTTTATAAATTTTTT
1 ATTTTTATAAATTTTTT
10734500 TTCTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTTATAAATTTTTTACA
Found at i:10734619 original size:87 final size:89
Alignment explanation
Indices: 10734525--10734694 Score: 238
Period size: 88 Copynumber: 1.9 Consensus size: 89
10734515 AGTGCATGGA
* *
10734525 CTTAATTGCTT-TTTTGAA-AATTTTTGAGGGTATTTTTTTTATGCATTTTGAAAGTTCAAATAC
1 CTTAATTGCTTCTTTTGAAGAA-GTTTGAGGGCATTTTTTTTATGCATTTTGAAAGTTCAAATAC
10734588 CCAATTGAGTG-AAAAAAATAGGGG
65 CCAATTGAGTGCAAAAAAATAGGGG
* * * * *
10734612 CTTAATTGCTTCTTTTGAAGAAGTTTGAGGGCCTTTTTTTTATGTATTTTGAAAGTTCAAGTTCT
1 CTTAATTGCTTCTTTTGAAGAAGTTTGAGGGCATTTTTTTTATGCATTTTGAAAGTTCAAATACC
*
10734677 TAATTGAGTGCAAAAAAA
66 CAATTGAGTGCAAAAAAA
10734695 AAAAAGAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
87 11 0.15
88 52 0.72
89 9 0.12
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (89 bp):
CTTAATTGCTTCTTTTGAAGAAGTTTGAGGGCATTTTTTTTATGCATTTTGAAAGTTCAAATACC
CAATTGAGTGCAAAAAAATAGGGG
Found at i:10735419 original size:13 final size:11
Alignment explanation
Indices: 10735383--10735413 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10735373 CCGCCTGTAT
10735383 TAATTTTTATA
1 TAATTTTTATA
*
10735394 TTATTTTTATA
1 TAATTTTTATA
10735405 TAATTTTTA
1 TAATTTTTA
10735414 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:10735569 original size:30 final size:30
Alignment explanation
Indices: 10735535--10735597 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
10735525 ACTTAACAAG
10735535 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
10735565 CAAATGGCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
10735595 CAA
1 CAA
10735598 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:10735652 original size:22 final size:22
Alignment explanation
Indices: 10735627--10735669 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10735617 TATCCAAACA
*
10735627 ATAACAATAAAATAGTAGCAAT
1 ATAACAATAAAATAATAGCAAT
* *
10735649 ATAATAGTAAAATAATAGCAA
1 ATAACAATAAAATAATAGCAA
10735670 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAATAGCAAT
Found at i:10735665 original size:11 final size:11
Alignment explanation
Indices: 10735635--10735673 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10735625 CAATAACAAT
*
10735635 AAAATAGTAGC
1 AAAATAATAGC
* *
10735646 AATATAATAGT
1 AAAATAATAGC
10735657 AAAATAATAGC
1 AAAATAATAGC
10735668 AAAATA
1 AAAATA
10735674 GGGAGAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:10739987 original size:19 final size:19
Alignment explanation
Indices: 10739913--10739990 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
10739903 TAAAAAACTT
*
10739913 ATAAAATTATTTTAAAAATC
1 ATAAAATT-TTATAAAAATC
* * *
10739933 ATTAAATTTTATAATAATT
1 ATAAAATTTTATAAAAATC
* * *
10739952 ATAAAAAATTAATTAAAAACC
1 AT-AAAATTTTA-TAAAAATC
10739973 ATAAAATTTTATAAAAAT
1 ATAAAATTTTATAAAAAT
10739991 AATTTATTAC
Statistics
Matches: 43, Mismatches: 13, Indels: 5
0.70 0.21 0.08
Matches are distributed among these distances:
19 16 0.37
20 20 0.47
21 7 0.16
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAATTTTATAAAAATC
Found at i:10741537 original size:15 final size:15
Alignment explanation
Indices: 10741517--10741555 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
10741507 TATTTATTCC
*
10741517 TAGGGTTTTTTG-GTT
1 TAGGGTTTTTAGAG-T
10741532 TAGGGTTTTTAGAGT
1 TAGGGTTTTTAGAGT
10741547 TAGGGTTTT
1 TAGGGTTTT
10741556 GTTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (15 bp):
TAGGGTTTTTAGAGT
Found at i:10741703 original size:34 final size:33
Alignment explanation
Indices: 10741619--10741727 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 33
10741609 TTTAGTGTTC
* *
10741619 TTTTTTAAAAATTAATTAAATTAGGGTTTAG-G
1 TTTTTAAAAAATTAATTAAATTAAGGTTTAGTG
* *
10741651 ATTTTAAATAAATAAATTAAATTAAGGTTTAGTG
1 TTTTTAAA-AAATTAATTAAATTAAGGTTTAGTG
*
10741685 TTTTTAAGAAAATTAATTAAATT-AGAGTTTAGTT
1 TTTTTAA-AAAATTAATTAAATTAAG-GTTTAGTG
10741719 TTTTTAAAA
1 TTTTTAAAA
10741728 TAATATCGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.09
33 25 0.38
34 34 0.52
35 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAAGGTTTAGTG
Found at i:10741948 original size:126 final size:126
Alignment explanation
Indices: 10741787--10742055 Score: 387
Period size: 126 Copynumber: 2.1 Consensus size: 126
10741777 GGATTTTGTT
* * * * *
10741787 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAAATTTGAGAAGACGGTTCTAAACAAATAGTGTGAAAA
* * * * * *
10741852 ATGCTTCAAGTAGGATGCACTATCAGCAAAATT-ATTGAAAAAAACTTCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTATCAGAAAAATTGA-TGAAAAAAACTCCCACGTCGACACTC
*
10741913 TTTTTCTACAGTAGTTCCTAAAAAAATAAATTTGAGAAGACGTTTCTAAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAAATTTGAGAAGACGGTTCTAAACAAATAGTGTGAAAA
* * *
10741978 ACGCTTCAAGCAGGATGCACTGTTAGAAAAATTGATGAAAAAAGCTCCCACGTCGACACTC
66 ACGCTTCAAGCAGGATGCACTATCAGAAAAATTGATGAAAAAAACTCCCACGTCGACACTC
10742039 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
10742056 ATGTTTGGCC
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
126 126 0.99
127 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAAATTTGAGAAGACGGTTCTAAACAAATAGTGTGAAAA
ACGCTTCAAGCAGGATGCACTATCAGAAAAATTGATGAAAAAAACTCCCACGTCGACACTC
Found at i:10744966 original size:20 final size:20
Alignment explanation
Indices: 10744941--10744981 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10744931 CTTTCAGCGG
*
10744941 GGGTTGTGGTTGCCCCGGTT
1 GGGTTGTGATTGCCCCGGTT
*
10744961 GGGTTGTGATTGCTCCGGTT
1 GGGTTGTGATTGCCCCGGTT
10744981 G
1 G
10744982 TTGATGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.02, C:0.17, G:0.44, T:0.37
Consensus pattern (20 bp):
GGGTTGTGATTGCCCCGGTT
Found at i:10747056 original size:30 final size:30
Alignment explanation
Indices: 10747022--10747086 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
10747012 ATTAATTAAA
*
10747022 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAAATT
* *
10747052 GAGAGCTTTGAGAAATTTAGGGATAAAATT
1 GAGAGCTTTGAGAAATTTAAGGAGAAAATT
10747082 GAGAG
1 GAGAG
10747087 TTTTTTTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.28
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAAATT
Found at i:10747944 original size:33 final size:33
Alignment explanation
Indices: 10747907--10747971 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
10747897 TTACAAATAA
10747907 AGACTCATAGCACTAGAAAAGTACTAGCAATCT
1 AGACTCATAGCACTAGAAAAGTACTAGCAATCT
*
10747940 AGACTCATAGCACTAGAAAAGTACTATCAATC
1 AGACTCATAGCACTAGAAAAGTACTAGCAATC
10747972 CTTTCAACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.22
Consensus pattern (33 bp):
AGACTCATAGCACTAGAAAAGTACTAGCAATCT
Found at i:10764825 original size:22 final size:21
Alignment explanation
Indices: 10764799--10764849 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
10764789 CAATCTATGA
10764799 AAACATTGCTACTTCTTTTGTG
1 AAACATT-CTACTTCTTTTGTG
10764821 AAACACTTCTACTTCTTTTGTG
1 AAACA-TTCTACTTCTTTTGTG
10764843 AAGACAT
1 AA-ACAT
10764850 CCTGGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (21 bp):
AAACATTCTACTTCTTTTGTG
Found at i:10766139 original size:31 final size:31
Alignment explanation
Indices: 10766102--10766163 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
10766092 CTTAACGACC
10766102 TAGTGATTTAAATAAAAATTTTCGAACAGTT
1 TAGTGATTTAAATAAAAATTTTCGAACAGTT
* *
10766133 TAGTGATTTAAATGAAAATTTTCGAATAGTT
1 TAGTGATTTAAATAAAAATTTTCGAACAGTT
10766164 CAATAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (31 bp):
TAGTGATTTAAATAAAAATTTTCGAACAGTT
Found at i:10766247 original size:3 final size:3
Alignment explanation
Indices: 10766239--10766263 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10766229 AACTTAGGTG
10766239 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
10766264 TTCATTCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:10767463 original size:10 final size:10
Alignment explanation
Indices: 10767450--10767491 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
10767440 GTTTTAGAAA
*
10767450 TTTTATTAAT
1 TTTTAATAAT
10767460 TTTTAATAAGT
1 TTTTAATAA-T
10767471 TTTT-ATAAT
1 TTTTAATAAT
*
10767480 TATTAATAAT
1 TTTTAATAAT
10767490 TT
1 TT
10767492 AAATAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.15
10 18 0.67
11 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:10767479 original size:20 final size:20
Alignment explanation
Indices: 10767450--10767526 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
10767440 GTTTTAGAAA
10767450 TTTTATTAATTTTTAATAAGT
1 TTTTA-TAATTTTTAATAAGT
*
10767471 TTTTATAATTATTAATAA-T
1 TTTTATAATTTTTAATAAGT
** * *
10767490 TTAAATAA-ATTTATATGAGT
1 TTTTATAATTTTTA-ATAAGT
*
10767510 TCTTAT-ATTTTTAATAA
1 TTTTATAATTTTTAATAA
10767527 TTATTATTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
18 3 0.07
19 14 0.33
20 20 0.48
21 5 0.12
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTATAATTTTTAATAAGT
Found at i:10767525 original size:29 final size:29
Alignment explanation
Indices: 10767458--10767526 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
10767448 AATTTTATTA
* *
10767458 ATTTTTAATAAGTTTTTATAATTATTAAT
1 ATTTTTAATAAATTTATATAATTATTAAT
* * * *
10767487 AATTTAAATAAATTTATATGAGTTCTT-AT
1 ATTTTTAATAAATTTATAT-AATTATTAAT
10767516 ATTTTTAATAA
1 ATTTTTAATAA
10767527 TTATTATTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
ATTTTTAATAAATTTATATAATTATTAAT
Found at i:10767629 original size:14 final size:14
Alignment explanation
Indices: 10767610--10767656 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
10767600 TGGAAGTCGT
*
10767610 AATTTGAAAAATAA
1 AATTTGAAAAATTA
*
10767624 AATTTGAAAACTTA
1 AATTTGAAAAATTA
10767638 AA-TTG-AAAATTA
1 AATTTGAAAAATTA
10767650 AATTTGA
1 AATTTGA
10767657 TTTGTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 6 0.21
14 14 0.50
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (14 bp):
AATTTGAAAAATTA
Found at i:10767656 original size:13 final size:13
Alignment explanation
Indices: 10767610--10767656 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
10767600 TGGAAGTCGT
*
10767610 AATTTGAAAAATAA
1 AATTTG-AAAATTA
10767624 AATTTGAAAACTTA
1 AATTTGAAAA-TTA
10767638 AA-TTGAAAATTA
1 AATTTGAAAATTA
10767650 AATTTGA
1 AATTTGA
10767657 TTTGTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.17
13 15 0.50
14 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (13 bp):
AATTTGAAAATTA
Found at i:10768127 original size:73 final size:73
Alignment explanation
Indices: 10767953--10768129 Score: 214
Period size: 73 Copynumber: 2.4 Consensus size: 73
10767943 GGAATCTCAC
* * * * * * *
10767953 TGTTTATTTTTATCTTTGCTTGGCAGGAAATTTCACTGTTCATTCTTGGTTGCTTTTGGTAGAGA
1 TGTTTATTTTTGTCTTTGCTTTGCAGGGAATTTCACTATTCATTATTGATTGCTTTTGGCAGAGA
10768018 ATCACTTA
66 ATCACTTA
* * * **
10768026 TGTTCATTTATGTCTTTGCTCTATAGGGAATTTCACTATTCATTATTGATTGCTTTTGGCAG-GA
1 TGTTTATTTTTGTCTTTGCTTTGCAGGGAATTTCACTATTCATTATTGATTGCTTTTGGCAGAG-
10768090 AATCACTCT-
65 AATCACT-TA
10768099 TGTTTATTTTTGTCTTTGCTTTGCAGGGAAT
1 TGTTTATTTTTGTCTTTGCTTTGCAGGGAAT
10768130 CTCCCATGTT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
72 1 0.01
73 83 0.98
74 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (73 bp):
TGTTTATTTTTGTCTTTGCTTTGCAGGGAATTTCACTATTCATTATTGATTGCTTTTGGCAGAGA
ATCACTTA
Found at i:10773199 original size:14 final size:16
Alignment explanation
Indices: 10773180--10773223 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
10773170 GGCAAGCCAT
10773180 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
10773194 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
10773210 ATTAAGTTTAATTT
1 ATTTA-TTTAATTT
10773224 ATGTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:10775633 original size:19 final size:20
Alignment explanation
Indices: 10775601--10775646 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
10775591 CGAAAAATGA
10775601 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
10775621 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
10775640 TTTCTGG
1 TTTCTGG
10775647 TGTTTGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:10775748 original size:18 final size:18
Alignment explanation
Indices: 10775722--10775764 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
10775712 AAAAGCTGGT
*
10775722 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
10775740 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
10775758 TTTATAT
1 TTTATAT
10775765 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:10778563 original size:14 final size:14
Alignment explanation
Indices: 10778521--10778565 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10778511 GAGAAGATGA
10778521 AGAACGGAAGAAGG
1 AGAACGGAAGAAGG
10778535 AGAA-GGAATG-A--
1 AGAACGGAA-GAAGG
10778546 AGAACGGAAGAAGG
1 AGAACGGAAGAAGG
10778560 AGAACG
1 AGAACG
10778566 AGCCTTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 5 0.19
14 11 0.42
ACGTcount: A:0.51, C:0.07, G:0.40, T:0.02
Consensus pattern (14 bp):
AGAACGGAAGAAGG
Found at i:10781050 original size:107 final size:103
Alignment explanation
Indices: 10780912--10781207 Score: 310
Period size: 103 Copynumber: 2.8 Consensus size: 103
10780902 TACAAAAAAG
* * * *
10780912 AAAAAAAG-AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCCTGTATACGAATT
1 AAAAAAAGTAAAAAAAAAAATT-GGTGGTGGCCTGCCAATGGCCGGCACCACCTGTAT-CGAA-T
* **
10780976 TTTTTTTCAAGTATTGGTC-TGTCAATGGCCGGCACCAGAATAC
63 TTTTTTT--ACT-TTGGTCGTGTCAATGGCAAGCACCAGAATAC
* * * * *
10781019 AAAAAAAGTAAAAAAAAATAATT-TTGGTGGCCTACCAATGGCCGACACCACCTTTATTGAATTT
1 AAAAAAAGTAAAAAAAAA-AATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTGTATCGAATTT
** *
10781083 TTTTTACTTTTTTCGTGTCAATGGCAAGCACCAGTATAC
65 TTTTTACTTTGGTCGTGTCAATGGCAAGCACCAGAATAC
* * * * *
10781122 GAAAAAAGTAAAAAAAAAAATTGGTGGTGGCATGCCAATGGCCGGCACCACCTTTATGGGATTTT
1 AAAAAAAGTAAAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTGTATCGAATTTT
**
10781187 TTTTACTTTTTTCGTGTCAAT
66 TTTTACTTTGGTCGTGTCAAT
10781208 AGCTGGCACC
Statistics
Matches: 163, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
102 8 0.05
103 97 0.60
105 8 0.05
106 3 0.02
107 35 0.21
108 9 0.06
109 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (103 bp):
AAAAAAAGTAAAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTGTATCGAATTTT
TTTTACTTTGGTCGTGTCAATGGCAAGCACCAGAATAC
Found at i:10781217 original size:103 final size:103
Alignment explanation
Indices: 10780995--10781218 Score: 324
Period size: 103 Copynumber: 2.2 Consensus size: 103
10780985 AGTATTGGTC
* * *
10780995 TGTCAATGGCCGGCACCAGAATACAAAAAAAGTAAAAAAAAATAATTTTGGTGGCCTACCAATGG
1 TGTCAATGGCAGGCACCAGAATACAAAAAAAGTAAAAAAAAATAATTGTGGTGGCATACCAATGG
*
10781060 CCGACACCACCTTTATTGAATTTTTTTTACTTTTTTCG
66 CCGACACCACCTTTATGGAATTTTTTTTACTTTTTTCG
* * * *
10781098 TGTCAATGGCAAGCACCAGTATACGAAAAAAGTAAAAAAAAA-AATTGGTGGTGGCATGCCAATG
1 TGTCAATGGCAGGCACCAGAATACAAAAAAAGTAAAAAAAAATAATT-GTGGTGGCATACCAATG
* *
10781162 GCCGGCACCACCTTTATGGGATTTTTTTTACTTTTTTCG
65 GCCGACACCACCTTTATGGAATTTTTTTTACTTTTTTCG
* *
10781201 TGTCAATAGCTGGCACCA
1 TGTCAATGGCAGGCACCA
10781219 TTTTTTCGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
102 4 0.04
103 103 0.96
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (103 bp):
TGTCAATGGCAGGCACCAGAATACAAAAAAAGTAAAAAAAAATAATTGTGGTGGCATACCAATGG
CCGACACCACCTTTATGGAATTTTTTTTACTTTTTTCG
Found at i:10781425 original size:108 final size:106
Alignment explanation
Indices: 10781219--10781588 Score: 521
Period size: 108 Copynumber: 3.5 Consensus size: 106
10781209 GCTGGCACCA
*
10781219 TTTTTTCGTATACTGGTGCCGGCTATTGACAGACCAAAAGTAAAAAAAAAAAATTGGGGAAAAAG
1 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAAAATT-GGGAAAAAG
* *
10781284 GTGTTACCGGCCATTGGCAGGCCACCACCAATTTTTTTATTAC
65 GTGGTGCCGGCCATTGGCAGGCCACCACCAATTTTTTT-TTAC
* * *
10781327 TTTTTTCGTATACTGGTGCTGACCATTTACAGACCAAAAGTAAAAAAAAAAAATTGGGAAAAAGG
1 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAAAATTGGGAAAAAGG
* *
10781392 TGGTGCCCGCCATTGGCAGGCCACTACCAAATTTTTTTTTTAC
66 TGGTGCCGGCCATTGGCAGGCCACCACC-AA-TTTTTTTTTAC
* * * *
10781435 TTTTTTCGTATACTAGTGCCGGCAATTAACAGACCAAAAGT---AAAAAAAAATTGTGAAAAAGG
1 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAAAATTGGGAAAAAGG
* *
10781497 TGGTGTCGGCCATTGGCAGGCCACCACGGAATTTTTTTTTAC
66 TGGTGCCGGCCATTGGCAGGCCACCAC-CAATTTTTTTTTAC
* * *
10781539 TTTTTTCGTATATTGGTGTCGGCCATTGACAGACCCAAAGTAAAAAAAAA
1 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAA
10781589 TTTTGGAACC
Statistics
Matches: 232, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
104 46 0.20
105 46 0.20
107 40 0.17
108 93 0.40
109 7 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (106 bp):
TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAAAATTGGGAAAAAGG
TGGTGCCGGCCATTGGCAGGCCACCACCAATTTTTTTTTAC
Found at i:10781802 original size:110 final size:109
Alignment explanation
Indices: 10781602--10781833 Score: 340
Period size: 110 Copynumber: 2.1 Consensus size: 109
10781592 TGGAACCACC
* *
10781602 AAAATTTTTTTTAACTTTTTTCGTATACTGGTGCATGCCATTGACACGAAAAAAGTAAAAAAAAA
1 AAAATTTTTTTT-ACTTTTTTCGTATACTGGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAAA
* * * * *
10781667 TTCTCATAAAGGTGGTGCTGACCATTGGCAGGCCACCACCAAAAA
65 TTCTAATAAAGGTGATGCCGACCATTGACAAGCCACCACCAAAAA
10781712 AAAATTTTGTTTTACTTTTTTCGTATACTGGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAAA
1 AAAATTTT-TTTTACTTTTTTCGTATACTGGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAAA
* *
10781777 TT-TAAATAAAGGTGATGCCGGCCATTGACAAGCCACCACTAAAAA
65 TTCT-AATAAAGGTGATGCCGACCATTGACAAGCCACCACCAAAAA
*
10781822 AATATTTTTTTT
1 AAAATTTTTTTT
10781834 TTGTTTTTTT
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
109 5 0.05
110 101 0.92
111 4 0.04
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (109 bp):
AAAATTTTTTTTACTTTTTTCGTATACTGGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAAAT
TCTAATAAAGGTGATGCCGACCATTGACAAGCCACCACCAAAAA
Found at i:10790573 original size:21 final size:21
Alignment explanation
Indices: 10790556--10790607 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
10790546 CAGCATAACA
*
10790556 ATTTTGACTAGCCCCATAAGC
1 ATTTTGACCAGCCCCATAAGC
*
10790577 ATTTTGACCAGCCTCATAAGC
1 ATTTTGACCAGCCCCATAAGC
*
10790598 ACTTTGACCA
1 ATTTTGACCA
10790608 AGATTAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (21 bp):
ATTTTGACCAGCCCCATAAGC
Found at i:10792792 original size:19 final size:21
Alignment explanation
Indices: 10792770--10792814 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 21
10792760 ATAGACATTC
*
10792770 ATTTTTATAATAATAA-A-AT
1 ATTTTTATAACAATAATATAT
10792789 A--TTTATAACAATAATATAT
1 ATTTTTATAACAATAATATAT
10792808 ATTTTTA
1 ATTTTTA
10792815 ATTAAGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 12 0.57
18 1 0.05
19 4 0.19
21 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTTATAACAATAATATAT
Found at i:10797345 original size:15 final size:15
Alignment explanation
Indices: 10797294--10797346 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
10797284 ATCATATTAA
10797294 ACACATCACTATCAG
1 ACACATCACTATCAG
* * * * *
10797309 ATATATCATTAACAA
1 ACACATCACTATCAG
*
10797324 ACCCATCACTATCAG
1 ACACATCACTATCAG
10797339 ACACATCA
1 ACACATCA
10797347 AAATCAACCA
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.23
Consensus pattern (15 bp):
ACACATCACTATCAG
Found at i:10797468 original size:30 final size:30
Alignment explanation
Indices: 10797434--10797515 Score: 164
Period size: 30 Copynumber: 2.7 Consensus size: 30
10797424 GCAGACAACA
10797434 ACCAAACAATTTAATACAACATAAGCAATG
1 ACCAAACAATTTAATACAACATAAGCAATG
10797464 ACCAAACAATTTAATACAACATAAGCAATG
1 ACCAAACAATTTAATACAACATAAGCAATG
10797494 ACCAAACAATTTAATACAACAT
1 ACCAAACAATTTAATACAACAT
10797516 GACAGACAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.54, C:0.21, G:0.05, T:0.21
Consensus pattern (30 bp):
ACCAAACAATTTAATACAACATAAGCAATG
Found at i:10800159 original size:18 final size:18
Alignment explanation
Indices: 10800138--10800193 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
10800128 CAACATTAGT
10800138 TTGATACAAACAATAAAC
1 TTGATACAAACAATAAAC
* **
10800156 TTGACATACACAAC-ATCAGT
1 TTG--ATACA-AACAATAAAC
10800176 TTGATACAAACAATAAAC
1 TTGATACAAACAATAAAC
10800194 ATGACATACA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
17 3 0.11
18 11 0.39
20 11 0.39
21 3 0.11
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (18 bp):
TTGATACAAACAATAAAC
Found at i:10800164 original size:20 final size:20
Alignment explanation
Indices: 10800141--10800203 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
10800131 CATTAGTTTG
10800141 ATACAAACAATAAACTTGAC
1 ATACAAACAATAAACTTGAC
* **
10800161 ATACACAAC-ATCAGTTTG--
1 ATACA-AACAATAAACTTGAC
*
10800179 ATACAAACAATAAACATGAC
1 ATACAAACAATAAACTTGAC
10800199 ATACA
1 ATACA
10800204 CAATTTCATG
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
17 3 0.09
18 10 0.31
20 16 0.50
21 3 0.09
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (20 bp):
ATACAAACAATAAACTTGAC
Found at i:10800170 original size:38 final size:38
Alignment explanation
Indices: 10800118--10800206 Score: 160
Period size: 38 Copynumber: 2.3 Consensus size: 38
10800108 GCACTTGCAA
*
10800118 ATGACATACACAACATTAGTTTGATACAAACAATAAAC
1 ATGACATACACAACATCAGTTTGATACAAACAATAAAC
*
10800156 TTGACATACACAACATCAGTTTGATACAAACAATAAAC
1 ATGACATACACAACATCAGTTTGATACAAACAATAAAC
10800194 ATGACATACACAA
1 ATGACATACACAA
10800207 TTTCATGCAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.22
Consensus pattern (38 bp):
ATGACATACACAACATCAGTTTGATACAAACAATAAAC
Found at i:10800897 original size:22 final size:20
Alignment explanation
Indices: 10800872--10800924 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
10800862 AAAATATGTT
10800872 ATTTTATTTTAA-TATTTAATAA
1 ATTTTATTTTAATTA-TT-A-AA
10800894 ATTTATATTTTTAATTATTAAA
1 ATTT-TA-TTTTAATTATTAAA
10800916 ATTTTATTT
1 ATTTTATTT
10800925 ATAGTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 10 0.36
23 3 0.11
24 8 0.29
25 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTATTTTAATTATTAAA
Found at i:10800914 original size:24 final size:23
Alignment explanation
Indices: 10800878--10800922 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
10800868 TGTTATTTTA
10800878 TTTTAATATTTAATAAATTTATAT
1 TTTTAATATTTAA-AAATTTATAT
*
10800902 TTTTAAT-TATTAAAATTTTAT
1 TTTTAATAT-TTAAAAATTTAT
10800923 TTATAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATTTAAAAATTTATAT
Found at i:10801524 original size:17 final size:18
Alignment explanation
Indices: 10801492--10801526 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10801482 TTTGTATTAT
*
10801492 AAATTACATAATATATAA
1 AAATAACATAATATATAA
10801510 AAATAACAT-ATATATAA
1 AAATAACATAATATATAA
10801527 CATTACAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:10805651 original size:152 final size:152
Alignment explanation
Indices: 10805375--10805664 Score: 571
Period size: 152 Copynumber: 1.9 Consensus size: 152
10805365 AACCATTCCC
10805375 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
1 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
10805440 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
66 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
10805505 AAAAAAAATGACAAATTCCACA
131 AAAAAAAATGACAAATTCCACA
10805527 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
1 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
*
10805592 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGGTCTTCATTTA
66 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
10805657 AAAAAAAA
131 AAAAAAAA
10805665 AAGACCAATA
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 137 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (152 bp):
CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
AAAAAAAATGACAAATTCCACA
Found at i:10811464 original size:4 final size:4
Alignment explanation
Indices: 10811457--10811500 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
10811447 TATGTAGTGG
* *
10811457 ATAA ATAA ATAA ATAA ATGA ATAA ATAA ATCAA ACAA ATGAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA AT-AA AT
10811501 TATAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:10811539 original size:16 final size:16
Alignment explanation
Indices: 10811518--10811548 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10811508 AATGCAAGAA
10811518 ATGTATGGATGTACAC
1 ATGTATGGATGTACAC
*
10811534 ATGTATGTATGTACA
1 ATGTATGGATGTACA
10811549 TATAAATTAT
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:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (16 bp):
ATGTATGGATGTACAC
Found at i:10813660 original size:21 final size:21
Alignment explanation
Indices: 10813634--10813676 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10813624 CGTTACCTTC
10813634 TTCTTTCACTATATACATATA
1 TTCTTTCACTATATACATATA
*
10813655 TTCTTTCACTATATAGATATA
1 TTCTTTCACTATATACATATA
10813676 T
1 T
10813677 AGTATAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (21 bp):
TTCTTTCACTATATACATATA
Found at i:10815662 original size:14 final size:14
Alignment explanation
Indices: 10815628--10815662 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
10815618 TATAAATCAT
*
10815628 AAAAAATTTATAAA
1 AAAAAATTTACAAA
10815642 AATAAAATTTACAAA
1 AA-AAAATTTACAAA
10815657 AAAAAA
1 AAAAAA
10815663 GATAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAATTTACAAA
Found at i:10815786 original size:19 final size:19
Alignment explanation
Indices: 10815740--10815786 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
10815730 AAACATATTT
10815740 TTTTATAAAATTCTAAAATA
1 TTTT-TAAAATTCTAAAATA
* *
10815760 ATTATAAAATTCTAAAA-A
1 TTTTTAAAATTCTAAAATA
10815778 GTTTTTAAA
1 -TTTTTAAA
10815787 TTACTTGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.05
19 19 0.86
20 2 0.09
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTTTAAAATTCTAAAATA
Found at i:10824201 original size:26 final size:25
Alignment explanation
Indices: 10824158--10824209 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
10824148 GTTCCCTATG
* *
10824158 TATAAAATTTCGATAAATGA-AAAAT
1 TATAAAATTTCAAAAAAT-ATAAAAT
10824183 TATAAAATTTTCAAAAAATATAAAAT
1 TATAAAA-TTTCAAAAAATATAAAAT
10824209 T
1 T
10824210 TTCAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (25 bp):
TATAAAATTTCAAAAAATATAAAAT
Found at i:10824204 original size:18 final size:18
Alignment explanation
Indices: 10824177--10824217 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
10824167 TCGATAAATG
*
10824177 AAAAATTATAAAATTTTC
1 AAAAAATATAAAATTTTC
10824195 AAAAAATATAAAATTTTC
1 AAAAAATATAAAATTTTC
10824213 AAAAA
1 AAAAA
10824218 CTTAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAATATAAAATTTTC
Found at i:10824724 original size:18 final size:19
Alignment explanation
Indices: 10824703--10824738 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10824693 GTTTTTGAAA
10824703 AAAAATATTTTT-TATTTT
1 AAAAATATTTTTATATTTT
*
10824721 AAAATTATTTTTATATTT
1 AAAAATATTTTTATATTT
10824739 ATTTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAAAATATTTTTATATTTT
Found at i:10826177 original size:18 final size:17
Alignment explanation
Indices: 10826146--10826195 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
10826136 CTTAAAACAT
10826146 AATATAATATTTATTATAGA
1 AATA-AATA-TTATTAT-GA
10826166 AATAAATATTATT-TGA
1 AATAAATATTATTATGA
*
10826182 AA-AAAAATTATTAT
1 AATAAATATTATTAT
10826196 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 9 0.32
16 5 0.18
17 1 0.04
18 5 0.18
19 4 0.14
20 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
AATAAATATTATTATGA
Done.