Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 32 of 438
Found at i:7881245 original size:17 final size:18
Alignment explanation
Indices: 7881208--7881255 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
7881198 AAACATCATA
*
7881208 AAAAATTATAAAATTATT
1 AAAAATAATAAAATTATT
* *
7881226 AAAAATGATAAACTTA-T
1 AAAAATAATAAAATTATT
7881243 AAAAATAATAAAA
1 AAAAATAATAAAA
7881256 AAACTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATAATAAAATTATT
Found at i:7881282 original size:19 final size:19
Alignment explanation
Indices: 7881260--7881325 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
7881250 ATAAAAAAAC
7881260 TTATAAATATTATAATAAA
1 TTATAAATATTATAATAAA
* * *
7881279 TTAT-AATAAATCTAATAAG
1 TTATAAAT-ATTATAATAAA
* *
7881298 TTATAATAAATTATAAAAAA
1 TTATAA-ATATTATAATAAA
7881318 TTATAAAT
1 TTATAAAT
7881326 TTAATAAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
18 3 0.09
19 17 0.49
20 14 0.40
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTATAAATATTATAATAAA
Found at i:7881305 original size:29 final size:27
Alignment explanation
Indices: 7881268--7881333 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 27
7881258 ACTTATAAAT
*
7881268 ATTATAATAAATTATAATAAATCTAATAA
1 ATTATAATAAATTATAAAAAAT-T-ATAA
*
7881297 GTTATAATAAATTATAAAAAATTATAA
1 ATTATAATAAATTATAAAAAATTATAA
7881324 ATT-TAATAAA
1 ATTATAATAAA
7881334 AACATATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.21
27 6 0.18
28 1 0.03
29 20 0.59
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
ATTATAATAAATTATAAAAAATTATAA
Found at i:7881441 original size:18 final size:19
Alignment explanation
Indices: 7881305--7881456 Score: 68
Period size: 19 Copynumber: 7.8 Consensus size: 19
7881295 AAGTTATAAT
7881305 AAATTATAAAAA--ATTATA
1 AAATTATAAAAACTATTA-A
* *
7881323 AATTTAATAAAAACATATTTA
1 AAATT-ATAAAAAC-TATTAA
7881344 AAA-TATATAAAA-TATTACAA
1 AAATTATA-AAAACTATT--AA
*
7881364 AAACTTATAAAAATTCA-TAA
1 AAA-TTATAAAAACT-ATTAA
* * *
7881384 AAGCTTGTAAAAA-TATAAAA
1 AA-ATTATAAAAACTAT-TAA
* *
7881404 AAATTCTAATAAAATA-TAA
1 AAATTATAA-AAACTATTAA
*
7881423 AAA-TATCAAAACTATTAA
1 AAATTATAAAAACTATTAA
7881441 AAATTATAAAAACTAT
1 AAATTATAAAAACTAT
7881457 AAATTACAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 35
0.68 0.09 0.23
Matches are distributed among these distances:
17 5 0.05
18 18 0.18
19 32 0.31
20 28 0.27
21 9 0.09
22 9 0.09
23 1 0.01
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (19 bp):
AAATTATAAAAACTATTAA
Found at i:7882214 original size:28 final size:28
Alignment explanation
Indices: 7882156--7882215 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
7882146 TAATTTAATA
**
7882156 TTTTATAATTTTATTAAAAAATATATTT
1 TTTTATAATTTTATTAAAAAATATAGAT
* *
7882184 TTTTATAA-TTTATTAGAACATATTAGAT
1 TTTTATAATTTTATTAAAAAATA-TAGAT
7882212 TTTT
1 TTTT
7882216 TTTATAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTTATAATTTTATTAAAAAATATAGAT
Found at i:7882347 original size:20 final size:18
Alignment explanation
Indices: 7882318--7882360 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
7882308 AGTTTTTGTT
7882318 TTTTTATAATATTT-ATAA
1 TTTTTATAAT-TTTAATAA
7882336 GTTTTTATTAATTTTAATAA
1 -TTTTTA-TAATTTTAATAA
7882356 TTTTT
1 TTTTT
7882361 TTGTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTATAATTTTAATAA
Found at i:7882358 original size:27 final size:27
Alignment explanation
Indices: 7882287--7882358 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
7882277 TTGGATATTT
* *
7882287 TTAATTTTAAAAATATTTATAAGTTTTTG
1 TTAATTTT-AATA-ATTTATAAGTTTTTA
**
7882316 TTTTTTTATAAT-ATTTATAAGTTTTTA
1 TTAATTT-TAATAATTTATAAGTTTTTA
7882343 TTAATTTTAATAATTT
1 TTAATTTTAATAATTT
7882359 TTTTGTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
26 4 0.11
27 23 0.66
29 7 0.20
30 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (27 bp):
TTAATTTTAATAATTTATAAGTTTTTA
Found at i:7882361 original size:20 final size:20
Alignment explanation
Indices: 7882318--7882383 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
7882308 AGTTTTTGTT
7882318 TTTTTA-TAATATTT-ATAAG
1 TTTTTATTAAT-TTTAATAAG
7882337 TTTTTATTAATTTTAATAA-
1 TTTTTATTAATTTTAATAAG
* * *
7882356 TTTTTTTGTATTTTTAATGAG
1 TTTTTAT-TAATTTTAATAAG
7882377 TTTTTAT
1 TTTTTAT
7882384 GAAAAATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 15 0.38
20 18 0.46
21 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTTTATTAATTTTAATAAG
Found at i:7899820 original size:20 final size:20
Alignment explanation
Indices: 7899795--7899840 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
7899785 TAAGTTTTAT
7899795 GTTTTT-TTAAATATTAATAA
1 GTTTTTATT-AATATTAATAA
*
7899815 GTTTTTATTAATTTTAATAA
1 GTTTTTATTAATATTAATAA
7899835 -TTTTTA
1 GTTTTTA
7899841 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 6 0.25
20 16 0.67
21 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
GTTTTTATTAATATTAATAA
Found at i:7899829 original size:27 final size:27
Alignment explanation
Indices: 7899761--7899831 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
7899751 ATTTATTGGA
*
7899761 TTTT-TGTAATTTTAAAAATATTTATAAG
1 TTTTATGTAATTTT--AAATATTAATAAG
**
7899789 TTTTATGTTTTTTTAAATATTAATAAG
1 TTTTATGTAATTTTAAATATTAATAAG
7899816 TTTTTAT-TAATTTTAA
1 -TTTTATGTAATTTTAA
7899832 TAATTTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 19 0.53
28 10 0.28
29 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (27 bp):
TTTTATGTAATTTTAAATATTAATAAG
Found at i:7899839 original size:10 final size:10
Alignment explanation
Indices: 7899808--7899849 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7899798 TTTTTAAATA
7899808 TTAATAAGTTT
1 TTAATAA-TTT
*
7899819 TTATTAA-TT
1 TTAATAATTT
7899828 TTAATAATTT
1 TTAATAATTT
*
7899838 TTAATGATTT
1 TTAATAATTT
7899848 TT
1 TT
7899850 GATGAGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 8 0.30
10 13 0.48
11 6 0.22
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (10 bp):
TTAATAATTT
Found at i:7899841 original size:66 final size:66
Alignment explanation
Indices: 7899716--7899838 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
7899706 TTTATCATGC
* * **
7899716 TTATAAGTTTTATGATTTTTTTATAATTTATTAGAATTTATTGGATTTTTGTAATTTTAAAAATA
1 TTATAAGTTTTATGATTTTTTTATAATTTATAAGAATTTATTGAATTTTAATAATTTTAAAAATA
7899781 T
66 T
**
7899782 TTATAAGTTTTATG-TTTTTTTA-AATATTAATAAGTTTTTATT-AATTTTAATAATTTT
1 TTATAAGTTTTATGATTTTTTTATAAT-TT-ATAAGAATTTATTGAATTTTAATAATTTT
7899839 TAATGATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
64 3 0.06
65 22 0.45
66 24 0.49
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (66 bp):
TTATAAGTTTTATGATTTTTTTATAATTTATAAGAATTTATTGAATTTTAATAATTTTAAAAATA
T
Found at i:7899849 original size:20 final size:20
Alignment explanation
Indices: 7899808--7899864 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
7899798 TTTTTAAATA
*
7899808 TTAATAAGTTTTTATTAATT
1 TTAATAAGTTTTTATGAATT
*
7899828 TTAATAA-TTTTTAATGATTT
1 TTAATAAGTTTTT-ATGAATT
* *
7899848 TTGATGAGTTTTTATGA
1 TTAATAAGTTTTTATGA
7899865 GAAAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 5 0.16
20 21 0.68
21 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (20 bp):
TTAATAAGTTTTTATGAATT
Found at i:7902603 original size:30 final size:31
Alignment explanation
Indices: 7902552--7902609 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
7902542 ATTATTTTTT
7902552 AACTTTTAAGGGATCTAAAAAAA-AATTATC
1 AACTTTTAAGGGATCTAAAAAAAGAATTATC
* *
7902582 AACTTTTAAGGAGTTC-CAAAAAAGAATT
1 AACTTTTAAGG-GATCTAAAAAAAGAATT
7902610 TTTTTAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (31 bp):
AACTTTTAAGGGATCTAAAAAAAGAATTATC
Found at i:7904319 original size:16 final size:16
Alignment explanation
Indices: 7904279--7904310 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7904269 TATTAATGTT
*
7904279 ATTATTAATTTAAATA
1 ATTATAAATTTAAATA
7904295 ATTATAAATTTAAATA
1 ATTATAAATTTAAATA
7904311 CGTTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTATAAATTTAAATA
Found at i:7907378 original size:24 final size:25
Alignment explanation
Indices: 7907323--7907369 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
7907313 TTCCAGAGCT
7907323 AAAG-TAAAAAAATATATATTTTAA
1 AAAGATAAAAAAATATATATTTTAA
7907347 AAAGATAAAAAAATATA-ATTTTA
1 AAAGATAAAAAAATATATATTTTA
7907370 TCATTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAGATAAAAAAATATATATTTTAA
Found at i:7908112 original size:18 final size:18
Alignment explanation
Indices: 7908091--7908133 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7908081 TAAAAATGCG
*
7908091 AAAAATGCCAAA-ATTATT
1 AAAAATACCAAAGA-TATT
*
7908109 AAAAATACTAAAGATATT
1 AAAAATACCAAAGATATT
7908127 AAAAATA
1 AAAAATA
7908134 TAAAATTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAATACCAAAGATATT
Found at i:7908873 original size:18 final size:18
Alignment explanation
Indices: 7908847--7908882 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7908837 GCTAATAAAC
*
7908847 AGTCTAAAAATAAAACTA
1 AGTCCAAAAATAAAACTA
7908865 AGTCCAAAAATAAAACTA
1 AGTCCAAAAATAAAACTA
7908883 TCTAATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.19
Consensus pattern (18 bp):
AGTCCAAAAATAAAACTA
Found at i:7910992 original size:15 final size:15
Alignment explanation
Indices: 7910972--7911003 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7910962 TATCAGCTTG
7910972 TTGGTTTCCCTACTC
1 TTGGTTTCCCTACTC
7910987 TTGGTTTCCCTACTC
1 TTGGTTTCCCTACTC
7911002 TT
1 TT
7911004 TCAACTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.12, T:0.50
Consensus pattern (15 bp):
TTGGTTTCCCTACTC
Found at i:7914864 original size:2 final size:2
Alignment explanation
Indices: 7914857--7914884 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7914847 TAATATTATT
7914857 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7914885 ATTTAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7916347 original size:13 final size:12
Alignment explanation
Indices: 7916329--7916398 Score: 54
Period size: 14 Copynumber: 5.5 Consensus size: 12
7916319 AATAAGTTTT
7916329 TTAATTAAAATTA
1 TTAATTAAAA-TA
7916342 TTAATTAAAATA
1 TTAATTAAAATA
*
7916354 ATAATTTTAAAATTTA
1 TTAA--TTAAAA--TA
*
7916370 TCAATTAAAATA
1 TTAATTAAAATA
7916382 TT-ATT-AAATA
1 TTAATTAAAATA
7916392 TTTAATT
1 -TTAATT
7916399 CAAAGATTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
10 5 0.11
11 5 0.11
12 11 0.23
13 10 0.21
14 12 0.26
16 4 0.09
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAATTAAAATA
Found at i:7916358 original size:25 final size:25
Alignment explanation
Indices: 7916330--7916395 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 25
7916320 ATAAGTTTTT
*
7916330 TAATTAAAA-TTATTAATTAAAATAA
1 TAATTAAAATTTATCAATTAAAAT-A
7916355 TAATTTTAAAATTTATCAATTAAAATA
1 TAA--TTAAAATTTATCAATTAAAATA
*
7916382 TTATTAAATATTTA
1 TAATTAAA-ATTTA
7916396 ATTCAAAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 8 0.23
26 5 0.14
27 9 0.26
28 13 0.37
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATTAAAATTTATCAATTAAAATA
Found at i:7916377 original size:14 final size:12
Alignment explanation
Indices: 7916330--7916398 Score: 52
Period size: 13 Copynumber: 5.4 Consensus size: 12
7916320 ATAAGTTTTT
7916330 TAATTAAAATTA
1 TAATTAAAATTA
*
7916342 TTAATTAAAATAA
1 -TAATTAAAATTA
7916355 TAATTTTAAAATTTA
1 TAA--TTAAAA-TTA
7916370 TCAATTAAAA-TA
1 T-AATTAAAATTA
*
7916382 TTATTAAATATT-
1 TAATTAAA-ATTA
7916394 TAATT
1 TAATT
7916399 CAAAGATTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
11 6 0.13
12 11 0.24
13 12 0.26
14 12 0.26
15 3 0.07
16 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATTAAAATTA
Found at i:7918424 original size:20 final size:20
Alignment explanation
Indices: 7918399--7918436 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7918389 GTTTATTCGC
*
7918399 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
7918419 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
7918437 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:7920095 original size:28 final size:28
Alignment explanation
Indices: 7920063--7920131 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
7920053 GCGTAGATCA
7920063 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
7920091 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
7920119 CGATA-TACCCCTA
1 CGAAATTACCCCTA
7920132 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:7926431 original size:20 final size:20
Alignment explanation
Indices: 7926406--7926443 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7926396 GTTTATTCGC
*
7926406 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
7926426 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
7926444 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:7931652 original size:21 final size:21
Alignment explanation
Indices: 7931626--7931674 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
7931616 GAAATGCTCC
7931626 TCTCAAACTTTCGTGTTGCTT
1 TCTCAAACTTTCGTGTTGCTT
*
7931647 TCTCAAACTTTTGTGTTGCTT
1 TCTCAAACTTTCGTGTTGCTT
7931668 TCTCAAA
1 TCTCAAA
7931675 TGGGAAGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.47
Consensus pattern (21 bp):
TCTCAAACTTTCGTGTTGCTT
Found at i:7934784 original size:19 final size:20
Alignment explanation
Indices: 7934762--7934801 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7934752 AGCCTTTTTT
* *
7934762 TTTAACTCTT-TACTTTATA
1 TTTAACTATTATAATTTATA
7934781 TTTAACTATTATAATTTATA
1 TTTAACTATTATAATTTATA
7934801 T
1 T
7934802 GTAATAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAACTATTATAATTTATA
Found at i:7936233 original size:21 final size:21
Alignment explanation
Indices: 7936209--7936252 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7936199 TGAATCTAAA
7936209 CACTCAAAATAATCATAACTT
1 CACTCAAAATAATCATAACTT
7936230 CACTCAAAATAATCATAACTT
1 CACTCAAAATAATCATAACTT
7936251 CA
1 CA
7936253 GCCTAGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
CACTCAAAATAATCATAACTT
Found at i:7936648 original size:19 final size:18
Alignment explanation
Indices: 7936624--7936659 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7936614 TATGATTTAT
*
7936624 ATTTTAAATTAATTTTAAA
1 ATTTTAAAAT-ATTTTAAA
7936643 ATTTTAAAATATTTTAA
1 ATTTTAAAATATTTTAA
7936660 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAAAATATTTTAAA
Found at i:7936658 original size:29 final size:30
Alignment explanation
Indices: 7936622--7936679 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7936612 ACTATGATTT
*
7936622 ATATTTTAAATT-AA-TTTTAAAATTTTAAA
1 ATATTTT-AATTGAATTTTTAAAATATTAAA
7936651 ATATTTTAATTGAATTTTTAAAATATTAA
1 ATATTTTAATTGAATTTTTAAAATATTAA
7936680 TGTCGATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 9 0.35
30 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
ATATTTTAATTGAATTTTTAAAATATTAAA
Found at i:7942621 original size:13 final size:11
Alignment explanation
Indices: 7942587--7942615 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
7942577 CCTGACCCTC
7942587 ATTTTTATATA
1 ATTTTTATATA
7942598 ATTTTTATATA
1 ATTTTTATATA
7942609 ATTTTTA
1 ATTTTTA
7942616 AATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTTATATA
Found at i:7942851 original size:22 final size:22
Alignment explanation
Indices: 7942826--7942868 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7942816 TATTCATATA
7942826 ATAAAAATAAAATAGTAGCAAC
1 ATAAAAATAAAATAGTAGCAAC
* * *
7942848 ATAATAGTAAAATGGTAGCAA
1 ATAAAAATAAAATAGTAGCAA
7942869 AATGGGGAGA
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:0.58, C:0.07, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAAAAATAAAATAGTAGCAAC
Found at i:7946187 original size:17 final size:17
Alignment explanation
Indices: 7946165--7946199 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7946155 TATATTTATA
7946165 AAATTTGAATTCGAGAT
1 AAATTTGAATTCGAGAT
7946182 AAATTTGAATTCGAGAT
1 AAATTTGAATTCGAGAT
7946199 A
1 A
7946200 TTATTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (17 bp):
AAATTTGAATTCGAGAT
Found at i:7949190 original size:2 final size:2
Alignment explanation
Indices: 7949179--7949209 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7949169 ATTAACTTAA
7949179 TC TC -C 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
7949210 AAAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:7949985 original size:21 final size:21
Alignment explanation
Indices: 7949929--7949985 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
7949919 TCAACTGTAA
* *
7949929 CTGTTGTTCATGTTGCTCTTG
1 CTGTTGTTGATGTTGCACTTG
* *
7949950 CTGTTGTTGAAGTTGCAGTTG
1 CTGTTGTTGATGTTGCACTTG
*
7949971 CTGTTGTTGTTGTTG
1 CTGTTGTTGATGTTG
7949986 GAGGAGTTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.07, C:0.12, G:0.30, T:0.51
Consensus pattern (21 bp):
CTGTTGTTGATGTTGCACTTG
Found at i:7951233 original size:9 final size:9
Alignment explanation
Indices: 7951221--7951253 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7951211 AAAAAGAGAC
7951221 AAAAGAAAG
1 AAAAGAAAG
7951230 AAAAGAAA-
1 AAAAGAAAG
*
7951238 AAAAAAAAG
1 AAAAGAAAG
7951247 AAAAGAA
1 AAAAGAA
7951254 TCTCATACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:7951246 original size:17 final size:17
Alignment explanation
Indices: 7951221--7951253 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7951211 AAAAAGAGAC
*
7951221 AAAAGAAAGAAAAGAAA
1 AAAAAAAAGAAAAGAAA
7951238 AAAAAAAAGAAAAGAA
1 AAAAAAAAGAAAAGAA
7951254 TCTCATACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAGAAA
Found at i:7952092 original size:29 final size:32
Alignment explanation
Indices: 7952024--7952098 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 32
7952014 TAAATACATT
* *
7952024 TTATCAAAAAAAATTTAAATTCCAAATCTAAAA
1 TTATCATAAAAAA-TTAAAATCCAAATCTAAAA
7952057 TTA--ATAAAAAATTAAAAT-CAAA-CT-AAA
1 TTATCATAAAAAATTAAAATCCAAATCTAAAA
*
7952084 TTATCATAAACAATT
1 TTATCATAAAAAATT
7952099 CGAAAAACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
27 6 0.16
28 2 0.05
29 13 0.35
30 6 0.16
31 7 0.19
33 3 0.08
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.31
Consensus pattern (32 bp):
TTATCATAAAAAATTAAAATCCAAATCTAAAA
Found at i:7952251 original size:15 final size:15
Alignment explanation
Indices: 7952231--7952260 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7952221 TGTTGTAATC
7952231 CAAATTTCATATTTG
1 CAAATTTCATATTTG
*
7952246 CAAATTTTATATTTG
1 CAAATTTCATATTTG
7952261 ATTGCCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (15 bp):
CAAATTTCATATTTG
Found at i:7953893 original size:5 final size:5
Alignment explanation
Indices: 7953883--7953912 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
7953873 ACCATTTTTG
7953883 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
7953913 AAGGGTGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:7958179 original size:24 final size:24
Alignment explanation
Indices: 7958145--7958203 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
7958135 GGTTCGCCAT
*
7958145 AAAGGCAAAACAAAAGTACACCAC
1 AAAGGCCAAACAAAAGTACACCAC
*
7958169 AAAGGCCAAAC-AAAGTATACCAC
1 AAAGGCCAAACAAAAGTACACCAC
*
7958192 ACAGGCCAAACA
1 AAAGGCCAAACA
7958204 GAATGCACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.54, C:0.27, G:0.14, T:0.05
Consensus pattern (24 bp):
AAAGGCCAAACAAAAGTACACCAC
Found at i:7958559 original size:37 final size:37
Alignment explanation
Indices: 7958504--7958586 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
7958494 CATAAAAAAA
*
7958504 TTCTCATCACTCCATTACACCCCTACTTCTCCAACACT
1 TTCT-ATCACCCCATTACACCCCTACTTCTCCAACACT
* *
7958542 TTCTATCACCCCGTTACACCCTTACTTCTCCAACACT
1 TTCTATCACCCCATTACACCCCTACTTCTCCAACACT
7958579 TTCTATCA
1 TTCTATCA
7958587 TGCCTCACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 38 0.90
38 4 0.10
ACGTcount: A:0.23, C:0.42, G:0.01, T:0.34
Consensus pattern (37 bp):
TTCTATCACCCCATTACACCCCTACTTCTCCAACACT
Found at i:7978172 original size:21 final size:21
Alignment explanation
Indices: 7978139--7978196 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
7978129 ATTTTGATTC
7978139 ATTTTTAAATTTATAATATGTA
1 ATTTTT-AATTTATAATATGTA
* ** *
7978161 ATTTTTATTTTATTTTATGTT
1 ATTTTTAATTTATAATATGTA
*
7978182 ATTTATAATTTATAA
1 ATTTTTAATTTATAA
7978197 AAATTAAATA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTAATTTATAATATGTA
Found at i:7980605 original size:17 final size:19
Alignment explanation
Indices: 7980574--7980608 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
7980564 TTTGTTTTGA
7980574 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
7980593 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
7980609 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:7982101 original size:13 final size:13
Alignment explanation
Indices: 7982083--7982111 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7982073 TGTGTTAGAG
7982083 TTACATCTACCAT
1 TTACATCTACCAT
7982096 TTACATCTACCAT
1 TTACATCTACCAT
7982109 TTA
1 TTA
7982112 ATTACATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (13 bp):
TTACATCTACCAT
Found at i:7985747 original size:25 final size:24
Alignment explanation
Indices: 7985694--7985747 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
7985684 TTCTAATTAA
7985694 AAATACAAAATACATATAAATTATC
1 AAATACAAAATA-ATATAAATTATC
*
7985719 -AATACTAAAAT-ATATGAATTATC
1 AAATAC-AAAATAATATAAATTATC
7985742 GAAATA
1 -AAATA
7985748 TTTGGATTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 11 0.44
24 5 0.20
25 9 0.36
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATACAAAATAATATAAATTATC
Found at i:8000021 original size:39 final size:39
Alignment explanation
Indices: 7999967--8000200 Score: 292
Period size: 39 Copynumber: 6.0 Consensus size: 39
7999957 CAATACATCA
7999967 GCACATAGCCTGCTAGGCACATAGCCCGAATAATCACTG
1 GCACATAGCCTGCTAGGCACATAGCCCGAATAATCACTG
* * *
8000006 GCACACAGCCTGCTA-GCACATAGCCCGAATAATCTCCG
1 GCACATAGCCTGCTAGGCACATAGCCCGAATAATCACTG
* * * * *
8000044 GCATACAGCCTCCTAGGCACATAGCTCGAATAATCAAC-A
1 GCACATAGCCTGCTAGGCACATAGCCCGAATAATC-ACTG
* * * * *
8000083 GTACAAAGCCTGCTAGACACATAGCCCAAATAATCACTA
1 GCACATAGCCTGCTAGGCACATAGCCCGAATAATCACTG
* * *
8000122 GCACATAGCCTGTTAGGCACATAGCTCGAATAATCACCG
1 GCACATAGCCTGCTAGGCACATAGCCCGAATAATCACTG
*
8000161 GCACATAGCCTGCTAGGCACATAGCCTGAATAATCACTG
1 GCACATAGCCTGCTAGGCACATAGCCCGAATAATCACTG
8000200 G
1 G
8000201 ATTCTATTTC
Statistics
Matches: 165, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
38 36 0.22
39 128 0.78
40 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (39 bp):
GCACATAGCCTGCTAGGCACATAGCCCGAATAATCACTG
Found at i:8000184 original size:117 final size:116
Alignment explanation
Indices: 7999973--8000196 Score: 333
Period size: 117 Copynumber: 1.9 Consensus size: 116
7999963 ATCAGCACAT
* * *
7999973 AGCCTGCTAGGCACATAGCCCGAATAATCACTGGCACACAGCCTGCTAGCACATAGCCCGAATAA
1 AGCCTGCTAGACACATAGCCCAAATAATCACTAGCACACAGCCTGCTAGCACATAGCCCGAATAA
* *
8000038 TCTCCGGCATACAGCCTCCTAGGCACATAG-CTCGAATAATCAACAGTACAA
66 TCACCGGCACACAGCCTCCTAGGCACATAGCCT-GAATAATCAACAGTACAA
* * *
8000089 AGCCTGCTAGACACATAGCCCAAATAATCACTAGCACATAGCCTGTTAGGCACATAGCTCGAATA
1 AGCCTGCTAGACACATAGCCCAAATAATCACTAGCACACAGCCTGCTA-GCACATAGCCCGAATA
* *
8000154 ATCACCGGCACATAGCCTGCTAGGCACATAGCCTGAATAATCA
65 ATCACCGGCACACAGCCTCCTAGGCACATAGCCTGAATAATCA
8000197 CTGGATTCTA
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
116 43 0.45
117 51 0.53
118 2 0.02
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (116 bp):
AGCCTGCTAGACACATAGCCCAAATAATCACTAGCACACAGCCTGCTAGCACATAGCCCGAATAA
TCACCGGCACACAGCCTCCTAGGCACATAGCCTGAATAATCAACAGTACAA
Found at i:8015720 original size:26 final size:26
Alignment explanation
Indices: 8015684--8015819 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
8015674 CATGATATTC
*
8015684 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
8015710 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
8015736 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
8015762 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
8015788 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
8015814 TTATCA
1 TTATCA
8015820 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:8016748 original size:7 final size:7
Alignment explanation
Indices: 8016738--8016770 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
8016728 AACGAAACGG
8016738 GAAAAAA
1 GAAAAAA
8016745 GAAAAAA
1 GAAAAAA
8016752 GAAAAAA
1 GAAAAAA
8016759 -AAAGAAA
1 GAAA-AAA
8016766 GAAAA
1 GAAAA
8016771 TGGAAAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:8016770 original size:11 final size:11
Alignment explanation
Indices: 8016742--8016802 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
8016732 AAACGGGAAA
8016742 AAAGAAAAAAG
1 AAAGAAAAAAG
8016753 AAA-AAAAAAG
1 AAAGAAAAAAG
**
8016763 AAAGAAAATGG
1 AAAGAAAAAAG
*
8016774 AAAGAAGAAGAG
1 AAAGAA-AAAAG
*
8016786 GAAGAAAACAA-
1 AAAGAAAA-AAG
8016797 AAAGAA
1 AAAGAA
8016803 TGTTTAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
10 10 0.25
11 21 0.52
12 9 0.22
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:8020986 original size:3 final size:3
Alignment explanation
Indices: 8020980--8021022 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
8020970 AAGGTCTTAA
8020980 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8021023 TTTCTAAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8022405 original size:31 final size:32
Alignment explanation
Indices: 8022324--8022407 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 32
8022314 AAATAAATTT
*
8022324 TAATTTTATACAAATTA--AATAATTTGTATAAA
1 TAATTTTATA-AAATTATTAA-ATTTTGTATAAA
**
8022356 TAAATTGGATAAAA--ATTAAATTTTGT-TAAA
1 T-AATTTTATAAAATTATTAAATTTTGTATAAA
8022386 TAATTTTATAAAATTATTAAAT
1 TAATTTTATAAAATTATTAAAT
8022408 AATAAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
29 10 0.24
30 6 0.14
31 13 0.31
32 6 0.14
33 7 0.17
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (32 bp):
TAATTTTATAAAATTATTAAATTTTGTATAAA
Found at i:8023987 original size:3 final size:3
Alignment explanation
Indices: 8023981--8024020 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8023971 AGAAGAATAA
8023981 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8024021 AGCTCATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8024408 original size:18 final size:19
Alignment explanation
Indices: 8024381--8024421 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
8024371 TTTTATATTT
* *
8024381 AAAATCATTAAAAGTTATA
1 AAAATCATTAAAAATTACA
8024400 AAAAT-ATTAAAAATTACA
1 AAAATCATTAAAAATTACA
8024418 AAAA
1 AAAA
8024422 AACTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATCATTAAAAATTACA
Found at i:8024452 original size:9 final size:9
Alignment explanation
Indices: 8024439--8024568 Score: 58
Period size: 9 Copynumber: 14.7 Consensus size: 9
8024429 ATAAAAGTGC
8024439 AAAAAGTTAT
1 AAAAA-TTAT
8024449 AAAAATTATT
1 AAAAATTA-T
* *
8024459 ATAAATGACT
1 AAAAATTA-T
*
8024469 AAAGA-TAT
1 AAAAATTAT
*
8024477 ATAAATTAT
1 AAAAATTAT
*
8024486 GAAAATTAT
1 AAAAATTAT
*
8024495 GAAAATTA-
1 AAAAATTAT
8024503 AAAAATT-T
1 AAAAATTAT
**
8024511 AAAAATGGT
1 AAAAATTAT
**
8024520 ATGAATTA-
1 AAAAATTAT
8024528 AAAAA-TAT
1 AAAAATTAT
8024536 GAAAAATT-T
1 -AAAAATTAT
*
8024545 TAAAA-TAT
1 AAAAATTAT
8024553 AAAAAATTAT
1 -AAAAATTAT
*
8024563 TAAAAT
1 AAAAAT
8024569 GATTATACAA
Statistics
Matches: 89, Mismatches: 21, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
7 3 0.03
8 24 0.27
9 42 0.47
10 20 0.22
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:8024516 original size:25 final size:25
Alignment explanation
Indices: 8024487--8024560 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 25
8024477 ATAAATTATG
*
8024487 AAAATTATGAAAATTAAAAAATTTA
1 AAAATTATGAAAATTAAAAAATTGA
8024512 AAAATGGTATG--AATTAAAAAATATGA
1 AAAAT--TATGAAAATTAAAAAAT-TGA
*
8024538 AAAATT-TTAAAATATAAAAAATT
1 AAAATTATGAAAAT-TAAAAAATT
8024561 ATTAAAATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 20 0.49
26 15 0.37
27 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (25 bp):
AAAATTATGAAAATTAAAAAATTGA
Found at i:8024543 original size:17 final size:17
Alignment explanation
Indices: 8024523--8024561 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8024513 AAATGGTATG
*
8024523 AATTAAAAAATATGAAA
1 AATTAAAAAATATAAAA
**
8024540 AATTTTAAAATATAAAA
1 AATTAAAAAATATAAAA
8024557 AATTA
1 AATTA
8024562 TTAAAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AATTAAAAAATATAAAA
Found at i:8024568 original size:18 final size:17
Alignment explanation
Indices: 8024529--8024568 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
8024519 TATGAATTAA
*
8024529 AAAATATGAAAAATTTT
1 AAAATATAAAAAATTTT
8024546 AAAATATAAAAAATTATT
1 AAAATATAAAAAATT-TT
8024564 AAAAT
1 AAAAT
8024569 GATTATACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATATAAAAAATTTT
Found at i:8024602 original size:20 final size:21
Alignment explanation
Indices: 8024579--8024622 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
8024569 GATTATACAA
*
8024579 ATATAGAAAGTGCAAAAAAAAT
1 ATATA-AAAGTACAAAAAAAAT
*
8024601 ATATAAAATTACAAAAAAAAT
1 ATATAAAAGTACAAAAAAAAT
8024622 A
1 A
8024623 AAAGATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (21 bp):
ATATAAAAGTACAAAAAAAAT
Found at i:8024618 original size:19 final size:18
Alignment explanation
Indices: 8024593--8024639 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
8024583 AGAAAGTGCA
8024593 AAAAAAATATATAAA-ATT
1 AAAAAAATATA-AAAGATT
*
8024611 ACAAAAAAAATAAAAGATT
1 A-AAAAAATATAAAAGATT
8024630 AAAAAAATAT
1 AAAAAAATAT
8024640 TTACAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAAAATATAAAAGATT
Found at i:8024794 original size:10 final size:10
Alignment explanation
Indices: 8024767--8024820 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
8024757 AAATCATTAG
*
8024767 AAATTTTAAA
1 AAATTATAAA
8024777 AGAATTATAAA
1 A-AATTATAAA
*
8024788 AAATTATACA
1 AAATTATAAA
*
8024798 AAATCATAAA
1 AAATTATAAA
*
8024808 AGATTATAAA
1 AAATTATAAA
8024818 AAA
1 AAA
8024821 ATATTAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
10 27 0.75
11 9 0.25
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (10 bp):
AAATTATAAA
Found at i:8024820 original size:20 final size:20
Alignment explanation
Indices: 8024756--8024820 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
8024746 TTTTACACTT
* * *
8024756 AAAATCATTAGAAATTTTAA
1 AAAATCATAAAAAATTATAA
* *
8024776 AAGAATTATAAAAAATTATAC
1 AA-AATCATAAAAAATTATAA
*
8024797 AAAATCATAAAAGATTATAA
1 AAAATCATAAAAAATTATAA
8024817 AAAA
1 AAAA
8024821 ATATTAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAATCATAAAAAATTATAA
Found at i:8025574 original size:31 final size:31
Alignment explanation
Indices: 8025507--8025575 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
8025497 GAGTTTGTTT
* * * *
8025507 ACAAAATGGGAGAAAAAAAAATTTTTTTTTA
1 ACAAAATAGGAGAAAAAAAAATTTGTTATAA
*
8025538 ACAAAATAGGAGAGAAAAAAA-TTGTTATAA
1 ACAAAATAGGAGAAAAAAAAATTTGTTATAA
8025568 ATCAAAAT
1 A-CAAAAT
8025576 TAAATATCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (31 bp):
ACAAAATAGGAGAAAAAAAAATTTGTTATAA
Found at i:8026958 original size:17 final size:18
Alignment explanation
Indices: 8026933--8026983 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
8026923 GGGAGCACGT
8026933 ATGTATGCGAACCCTAGG
1 ATGTATGCGAACCCTAGG
*
8026951 AT-TATGCGAA-CCTA-T
1 ATGTATGCGAACCCTAGG
*
8026966 ATGCATGCGAACCCTAGG
1 ATGTATGCGAACCCTAGG
8026984 TGCATGCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 2 0.07
16 11 0.41
17 12 0.44
18 2 0.07
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (18 bp):
ATGTATGCGAACCCTAGG
Found at i:8026983 original size:33 final size:33
Alignment explanation
Indices: 8026849--8027035 Score: 139
Period size: 33 Copynumber: 5.7 Consensus size: 33
8026839 TAAAACCATA
* * *
8026849 TAGGATTATACGAGCCTGTATGTATGTGAACCC
1 TAGGATTATGCGAGCCTATATGTATGCGAACCC
* * * *
8026882 TAGAATTATGTGAGCTTATATGTATACGAACCC
1 TAGGATTATGCGAGCCTATATGTATGCGAACCC
* * *
8026915 -AAGATTATGGGAGCAC-GTATGTATGCGAACCC
1 TAGGATTATGCGAGC-CTATATGTATGCGAACCC
* *
8026947 TAGGATTATGCGAACCTATATGCATGCGAACCC
1 TAGGATTATGCGAGCCTATATGTATGCGAACCC
* * * * *
8026980 TAGG-TGCATGCAAGCTTATATGCCATGTGAACCC
1 TAGGAT-TATGCGAGCCTATATG-TATGCGAACCC
* *
8027014 TAGG-TACATGCGAGCCAATATG
1 TAGGAT-TATGCGAGCCTATATG
8027036 AGCATGCGAA
Statistics
Matches: 122, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
32 27 0.22
33 67 0.55
34 28 0.23
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (33 bp):
TAGGATTATGCGAGCCTATATGTATGCGAACCC
Found at i:8026987 original size:17 final size:17
Alignment explanation
Indices: 8026937--8027026 Score: 60
Period size: 17 Copynumber: 5.4 Consensus size: 17
8026927 GCACGTATGT
*
8026937 ATGCGAACCCTAGGAT-T
1 ATGCGAACCCTAGG-TGC
**
8026954 ATGCGAA-CCTATATGC
1 ATGCGAACCCTAGGTGC
8026970 ATGCGAACCCTAGGTGC
1 ATGCGAACCCTAGGTGC
* * **
8026987 ATGC-AAGCTTATATGCC
1 ATGCGAACCCTAGGTG-C
* *
8027004 ATGTGAACCCTAGGTAC
1 ATGCGAACCCTAGGTGC
8027021 ATGCGA
1 ATGCGA
8027027 GCCAATATGA
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
15 1 0.02
16 18 0.34
17 28 0.53
18 6 0.11
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (17 bp):
ATGCGAACCCTAGGTGC
Found at i:8027035 original size:34 final size:33
Alignment explanation
Indices: 8026932--8027047 Score: 117
Period size: 33 Copynumber: 3.4 Consensus size: 33
8026922 TGGGAGCACG
* * *
8026932 TATGTATGCGAACCCTAGG-ATTATGCGAACCTA
1 TATGCATGCGAACCCTAGGTA-CATGCGAGCCTA
* * *
8026965 TATGCATGCGAACCCTAGGTGCATGCAAGCTTA
1 TATGCATGCGAACCCTAGGTACATGCGAGCCTA
* *
8026998 TATGCCATGTGAACCCTAGGTACATGCGAGCCAA
1 TATG-CATGCGAACCCTAGGTACATGCGAGCCTA
8027032 TATGAGCATGCGAACC
1 TAT--GCATGCGAACC
8027048 TAGAAATGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
33 30 0.45
34 27 0.40
35 9 0.13
36 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (33 bp):
TATGCATGCGAACCCTAGGTACATGCGAGCCTA
Found at i:8027050 original size:34 final size:34
Alignment explanation
Indices: 8026937--8027047 Score: 102
Period size: 34 Copynumber: 3.3 Consensus size: 34
8026927 GCACGTATGT
* *
8026937 ATGCGAACCCTAGG-ATTATGCGAA-CCTATAT-GC
1 ATGCGAACCCTAGGTA-CATGC-AAGCCAATATGGC
* ** *
8026970 ATGCGAACCCTAGGTGCATGCAAGCTTATATGCC
1 ATGCGAACCCTAGGTACATGCAAGCCAATATGGC
* *
8027004 ATGTGAACCCTAGGTACATGCGAGCCAATATGAGC
1 ATGCGAACCCTAGGTACATGCAAGCCAATATG-GC
8027039 ATGCGAACC
1 ATGCGAACC
8027048 TAGAAATGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
32 2 0.03
33 24 0.38
34 28 0.44
35 9 0.14
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (34 bp):
ATGCGAACCCTAGGTACATGCAAGCCAATATGGC
Found at i:8028661 original size:2 final size:2
Alignment explanation
Indices: 8028654--8028686 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8028644 ATAGTATAAC
8028654 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
8028687 AAACAACATT
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:8029147 original size:14 final size:14
Alignment explanation
Indices: 8029130--8029167 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
8029120 TATAGCAATA
8029130 AAAATATATGTAAT
1 AAAATATATGTAAT
8029144 AAAATATATGTAAT
1 AAAATATATGTAAT
*
8029158 ACAATATATG
1 AAAATATATG
8029168 AAGAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (14 bp):
AAAATATATGTAAT
Found at i:8029185 original size:28 final size:28
Alignment explanation
Indices: 8029132--8029186 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
8029122 TAGCAATAAA
* *
8029132 AATATATGTAATAAAATATATGTAATAC
1 AATATATGTAAGAAAATATAAGTAATAC
*
8029160 AATATATG-AAGAATATATAAGATAATA
1 AATATATGTAAGAAAATATAAG-TAATA
8029187 ATAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (28 bp):
AATATATGTAAGAAAATATAAGTAATAC
Found at i:8029295 original size:9 final size:8
Alignment explanation
Indices: 8029280--8029457 Score: 72
Period size: 9 Copynumber: 21.6 Consensus size: 8
8029270 AAATAAAATG
8029280 TATAATAA
1 TATAATAA
8029288 TATGAATAA
1 TAT-AATAA
8029297 TATAAT-A
1 TATAATAA
8029304 TATAAT-A
1 TATAATAA
8029311 TAT-A-AA
1 TATAATAA
*
8029317 -ATAATAT
1 TATAATAA
*
8029324 TATTAAAAA
1 TA-TAATAA
*
8029333 CAT-ATAA
1 TATAATAA
8029340 TATAAATATA
1 TAT-AATA-A
8029350 TATATATAA
1 TATA-ATAA
8029359 TA-AATATA
1 TATAATA-A
*
8029367 TGATAAAAA
1 T-ATAATAA
*
8029376 T-TAAAAA
1 TATAATAA
8029383 TGTATAATAA
1 --TATAATAA
8029393 TATAATAGA
1 TATAATA-A
*
8029402 TAAAAT-A
1 TATAATAA
8029409 TAGTAA-AA
1 TA-TAATAA
8029417 TA-AATAA
1 TATAATAA
8029424 TATATATATA
1 TATA-ATA-A
8029434 TATATATAA
1 TATA-ATAA
*
8029443 TGAAAATATA
1 T-ATAATA-A
8029453 TATAA
1 TATAA
8029458 CATATAGTAA
Statistics
Matches: 133, Mismatches: 12, Indels: 49
0.69 0.06 0.25
Matches are distributed among these distances:
5 2 0.02
6 5 0.04
7 33 0.25
8 24 0.18
9 41 0.31
10 28 0.21
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (8 bp):
TATAATAA
Found at i:8029303 original size:14 final size:14
Alignment explanation
Indices: 8029284--8029457 Score: 82
Period size: 15 Copynumber: 12.3 Consensus size: 14
8029274 AAAATGTATA
*
8029284 ATAATATGAATAAT
1 ATAATATAAATAAT
8029298 ATAATAT--ATAAT
1 ATAATATAAATAAT
8029310 AT-ATA-AAATAAT
1 ATAATATAAATAAT
* *
8029322 ATTAT-TAAAAACAT
1 ATAATATAAATA-AT
8029336 ATAATATAAATATAT
1 ATAATATAAATA-AT
8029351 ATATATAATAAAT-AT
1 ATA-AT-ATAAATAAT
* *
8029366 ATGATAAAAATTAA-
1 ATAATATAAA-TAAT
*
8029380 A-AATGTATAATAAT
1 ATAATATA-AATAAT
8029394 ATAATAGATAAA-ATAT
1 ATAAT--ATAAATA-AT
*
8029410 AGTAAAATAAATAAT
1 A-TAATATAAATAAT
*
8029425 AT-ATATATATATAT
1 ATAATATAAATA-AT
8029439 ATAATGA-AAATATAT
1 ATAAT-ATAAATA-AT
8029454 ATAA
1 ATAA
8029458 CATATAGTAA
Statistics
Matches: 125, Mismatches: 14, Indels: 41
0.69 0.08 0.23
Matches are distributed among these distances:
11 3 0.02
12 14 0.11
13 23 0.18
14 25 0.20
15 40 0.32
16 9 0.07
17 11 0.09
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (14 bp):
ATAATATAAATAAT
Found at i:8029320 original size:19 final size:19
Alignment explanation
Indices: 8029293--8029499 Score: 64
Period size: 19 Copynumber: 10.8 Consensus size: 19
8029283 AATAATATGA
*
8029293 ATAATATAATATATAATAT
1 ATAAAATAATATATAATAT
*
8029312 ATAAAATAATAT-TATTA-
1 ATAAAATAATATATAATAT
*
8029329 AAAACATATAATATA-AATAT
1 ATAA-A-ATAATATATAATAT
* *
8029349 ATATATATAATAAAT-ATAT
1 ATA-AAATAATATATAATAT
*
8029368 GAT-AAA-AAT-TA-AAAAT
1 -ATAAAATAATATATAATAT
* * *
8029384 GTATAAT-A-ATATAATAG
1 ATAAAATAATATATAATAT
* *
8029401 ATAAAAT-ATAGTAAAATAA
1 ATAAAATAATA-TATAATAT
*
8029420 ATAATATATATATATATATAT
1 ATAAAATA-ATATATA-ATAT
8029441 AATGAAAAT-ATATATAACATAT
1 -AT-AAAATAATATAT-A-ATAT
*
8029463 AGTAAAATGCAA-ATATAATAAA
1 A-TAAAAT--AATATATAAT-AT
8029485 ATAAAAT-ATATATAA
1 ATAAAATAATATATAA
8029500 AAAAATATAT
Statistics
Matches: 138, Mismatches: 24, Indels: 52
0.64 0.11 0.24
Matches are distributed among these distances:
15 1 0.01
16 9 0.07
17 15 0.11
18 9 0.07
19 50 0.36
20 7 0.05
21 27 0.20
22 11 0.08
23 8 0.06
24 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAAATAATATATAATAT
Found at i:8029451 original size:21 final size:19
Alignment explanation
Indices: 8029271--8029499 Score: 101
Period size: 21 Copynumber: 11.8 Consensus size: 19
8029261 TAAATTTTTA
*
8029271 AATAAAATGTATAATAATAT
1 AATAAAATATAT-ATAATAT
*
8029291 GAATAATATAATATATAATAT
1 -AATAAAAT-ATATATAATAT
8029312 -ATAAAATA-ATAT--TAT
1 AATAAAATATATATAATAT
*
8029327 --TAAAA-ACATAT-A-AT
1 AATAAAATATATATAATAT
8029341 -AT-AAATATATAT-ATAT
1 AATAAAATATATATAATAT
8029357 AAT-AAATATATGATAA-A-
1 AATAAAATATAT-ATAATAT
*
8029374 AATTAAAAATGTATAATAATAT
1 AA-T-AAAATATAT-ATAATAT
* *
8029396 AATAGATAAAATATAGTAAAAT
1 AATA-A-AATATATA-TAATAT
8029418 AAATAATATATATATATATATAT
1 -AATAA-A-ATATATATA-ATAT
8029441 AATGAAAATATATATAACATAT
1 AAT-AAAATATATAT-A-ATAT
* * *
8029463 AGTAAAATGCAAATATAATAA
1 AATAAAAT--ATATATAATAT
8029484 AATAAAATATATATAA
1 AATAAAATATATATAA
8029500 AAAAATATAT
Statistics
Matches: 167, Mismatches: 17, Indels: 50
0.71 0.07 0.21
Matches are distributed among these distances:
13 1 0.01
14 14 0.08
15 10 0.06
16 2 0.01
17 16 0.10
18 5 0.03
19 14 0.08
20 12 0.07
21 41 0.25
22 32 0.19
23 20 0.12
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (19 bp):
AATAAAATATATATAATAT
Found at i:8029471 original size:27 final size:27
Alignment explanation
Indices: 8029401--8029487 Score: 99
Period size: 26 Copynumber: 3.3 Consensus size: 27
8029391 AATATAATAG
*
8029401 ATAAAATATAGTAAAATAAATAATATAT
1 ATAAAATATAGTAAAATGAA-AATATAT
* *
8029429 AT-ATATATA-TATAATGAAAATATAT
1 ATAAAATATAGTAAAATGAAAATATAT
* *
8029454 ATAACATATAGTAAAATGCAAATATA-
1 ATAAAATATAGTAAAATGAAAATATAT
8029480 ATAAAATA
1 ATAAAATA
8029488 AAATATATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 9 0.18
26 20 0.40
27 19 0.38
28 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
ATAAAATATAGTAAAATGAAAATATAT
Found at i:8029484 original size:16 final size:15
Alignment explanation
Indices: 8029454--8029501 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
8029444 GAAAATATAT
* *
8029454 ATAACATATAGTAAA
1 ATAAAATATAATAAA
*
8029469 ATGCAAATATAATAAA
1 AT-AAAATATAATAAA
8029485 ATAAAATATATATAAA
1 ATAAAATATA-ATAAA
8029501 A
1 A
8029502 AAATATATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (15 bp):
ATAAAATATAATAAA
Found at i:8029492 original size:84 final size:80
Alignment explanation
Indices: 8029305--8029509 Score: 199
Period size: 84 Copynumber: 2.5 Consensus size: 80
8029295 AATATAATAT
* *
8029305 ATAATAT-ATAAAATAATAT-TATTAAAAACATATAATATAAATATATATATATAATAAATATAT
1 ATAATATAATAAAATAAAATATA-TAAAAA-A-ATAATATATATATATATATATAATAAATATAT
* *
8029368 GATAAAAATTAAAAATGT
63 GATAAAAAGTAAAAATGC
8029386 ATAATA-ATATAATAGATAAAATATAGTAAAATAAATAATATATATATATATATATAATGAAAAT
1 ATAATATA-ATAA-A-ATAAAATATA-TAAAA-AAATAATATATATATATATATATAAT--AAAT
8029450 ATAT-ATAACATATAGT-AAAATGC
59 ATATGATAA-A-A-AGTAAAAATGC
*
8029473 A-AATATAATAAAATAAAATATATATAAAAA-AATATAT
1 ATAATATAATAAAATAAAATATATAAAAAAATAATATAT
8029510 TGTCGAAACC
Statistics
Matches: 106, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
81 13 0.12
82 7 0.07
83 5 0.05
84 39 0.37
85 13 0.12
86 18 0.17
87 9 0.08
88 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (80 bp):
ATAATATAATAAAATAAAATATATAAAAAAATAATATATATATATATATATAATAAATATATGAT
AAAAAGTAAAAATGC
Found at i:8030377 original size:33 final size:30
Alignment explanation
Indices: 8030332--8030404 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
8030322 AAACGTACAA
* *
8030332 ACATACAAAGTAA-TAATTAAATAATGCATG
1 ACATACAAA-AAAGTAATAAAATAATGCATG
*
8030362 ATATACAAAAAAGTAATAAAATAATGCATG
1 ACATACAAAAAAGTAATAAAATAATGCATG
8030392 ACATACAAAAAAG
1 ACATACAAAAAAG
8030405 AGTAATACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (30 bp):
ACATACAAAAAAGTAATAAAATAATGCATG
Found at i:8030855 original size:28 final size:26
Alignment explanation
Indices: 8030806--8030859 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
8030796 TACAAATTTT
8030806 AAACAAAATAATGAATAAATAATATA
1 AAACAAAATAATGAATAAATAATATA
* *
8030832 AAACATAAATAATATAATAGATAATATA
1 AAACA-AAATAAT-GAATAAATAATATA
8030860 TGATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
28 12 0.50
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (26 bp):
AAACAAAATAATGAATAAATAATATA
Found at i:8030966 original size:9 final size:9
Alignment explanation
Indices: 8030917--8030972 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
8030907 AATAAATGTT
8030917 ATATAATAAA
1 ATATAAT-AA
8030927 ATATAATTTAA
1 ATATAA--TAA
8030938 ATAT-ATAA
1 ATATAATAA
* *
8030946 GAAATAAGAA
1 -ATATAATAA
8030956 ATATAATAA
1 ATATAATAA
8030965 ATATAATA
1 ATATAATA
8030973 TAAAATAACG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
8 3 0.08
9 18 0.47
10 10 0.26
11 6 0.16
12 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
ATATAATAA
Found at i:8031052 original size:3 final size:3
Alignment explanation
Indices: 8031044--8031135 Score: 50
Period size: 3 Copynumber: 30.7 Consensus size: 3
8031034 CAAGTAAGAT
* * *
8031044 ATA ATA AT- ATA AAA ATA ATA AT- GTA A-A ATA ATA ATA ATA ATTT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * *
8031087 GTGA AAA ATA AGA TATA ATAA ATA ATA ATA AT- ATA TATA ATA A-A ATA
1 AT-A ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA ATA
8031134 AT
1 AT
8031136 CTTATAATGT
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
2 9 0.13
3 49 0.73
4 9 0.13
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8031063 original size:14 final size:13
Alignment explanation
Indices: 8031044--8031079 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
8031034 CAAGTAAGAT
8031044 ATAATAATATAAAA
1 ATAATAATAT-AAA
*
8031058 ATAATAATGTAAA
1 ATAATAATATAAA
8031071 ATAATAATA
1 ATAATAATA
8031080 ATAATTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:8031065 original size:94 final size:95
Alignment explanation
Indices: 8030955--8031128 Score: 223
Period size: 94 Copynumber: 1.8 Consensus size: 95
8030945 AGAAATAAGA
* *
8030955 AATATAATAAATATAATATAAAATAACGAA-AATATATATGT-AAGAACAATATAT-ATAAATAA
1 AATATAATAAATATAATATAAAATAA-GAATAATA-ATATGTGAAAAACAAGATATAATAAATAA
8031017 TTAATAA-ATATATAATACAAGTAAGATATAAT
64 -TAATAATATATATAATACAAGTAAGATATAAT
* * * *
8031049 AATATAA-AAATAATAATGTAAAATAATAATAATAATTTGTGAAAAATAAGATATAATAAATAAT
1 AATATAATAAAT-ATAATATAAAATAAGAATAATAATATGTGAAAAACAAGATATAATAAATAAT
8031113 AATAATATATATAATA
65 AATAATATATATAATA
8031129 AAATAATCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
93 11 0.16
94 40 0.58
95 18 0.26
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (95 bp):
AATATAATAAATATAATATAAAATAAGAATAATAATATGTGAAAAACAAGATATAATAAATAATA
ATAATATATATAATACAAGTAAGATATAAT
Found at i:8031078 original size:16 final size:16
Alignment explanation
Indices: 8031022--8031081 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
8031012 AATAATTAAT
*
8031022 AAATATATAATACAAGTA
1 AAATA-ATAATA-ATGTA
* *
8031040 AGAT-ATAATAATAT-
1 AAATAATAATAATGTA
8031054 AAA-AATAATAATGTA
1 AAATAATAATAATGTA
8031069 AAATAATAATAAT
1 AAATAATAATAAT
8031082 AATTTGTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 11 0.32
15 5 0.15
16 15 0.44
18 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (16 bp):
AAATAATAATAATGTA
Found at i:8031116 original size:20 final size:17
Alignment explanation
Indices: 8031091--8031134 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
8031081 TAATTTGTGA
8031091 AAAATAAGATATAATAAAT
1 AAAATAAGATAT-AT-AAT
*
8031110 AATAATAATATATATAAT
1 AA-AATAAGATATATAAT
8031128 AAAATAA
1 AAAATAA
8031135 TCTTATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 5 0.22
18 5 0.22
19 4 0.17
20 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATAAGATATATAAT
Found at i:8031141 original size:20 final size:22
Alignment explanation
Indices: 8031003--8031065 Score: 53
Period size: 24 Copynumber: 2.9 Consensus size: 22
8030993 TGTAAGAACA
8031003 ATATAT-ATAAATAATTAATAA-
1 ATATATAATAAATAA-TAATAAT
*
8031024 ATATATAATACAAGTAAGATATAAT
1 ATATATAATA-AA-TAATA-ATAAT
8031049 A-ATATAA-AAATAATAAT
1 ATATATAATAAATAATAAT
8031066 GTAAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
20 2 0.06
21 10 0.29
22 5 0.14
23 4 0.11
24 13 0.37
25 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (22 bp):
ATATATAATAAATAATAATAAT
Found at i:8033480 original size:206 final size:206
Alignment explanation
Indices: 8032824--8033449 Score: 1018
Period size: 206 Copynumber: 3.0 Consensus size: 206
8032814 TAAATTTGCT
* * *
8032824 TCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTTGCTTCAGTGTAATC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
* *
8032889 GTCTGAAGGTTAGATCAGCTATGTATCTGCTCTCCATTGAAGTGGAGATGCCAGACTTCGATTTG
66 GTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGCCAGACTTCGATTTG
* * * * * *
8032954 TTCTCTGACACTACAGAGACGACAAATTATCTTAGATTTGCTTTATCGTAAGCACGTGAAAGCTA
131 TTATCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGCCA
8033019 AATCAGCTATG
196 AATCAGCTATG
8033030 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
* * * **
8033095 GTTTGAAGGTCAGATCTGCTATGTATCTGCTCTCTATTAAAGTAAAGATGCCAGACTTCGATTTG
66 GTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGCCAGACTTCGATTTG
* *
8033160 TTATCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTGAACACGTGAAAGCCA
131 TTATCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGCCA
*
8033225 AATAAGCTATG
196 AATCAGCTATG
* *
8033236 TCTTCCATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
* * *
8033301 GTCTGAAGGTCAGATCTGTTGTGTATCTGCTCTCCATTGAAGTGGAGATGCCGGACTTCGATTTG
66 GTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGCCAGACTTCGATTTG
* *
8033366 TTTTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTTATTGTAAACACGTGAAAGCCA
131 TTATCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGCCA
8033431 AATCAGCTATG
196 AATCAGCTATG
8033442 TCTTCGAT
1 TCTTCGAT
8033450 CTACTCTCTG
Statistics
Matches: 385, Mismatches: 35, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 385 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (206 bp):
TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
GTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGCCAGACTTCGATTTG
TTATCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGCCA
AATCAGCTATG
Found at i:8033493 original size:44 final size:44
Alignment explanation
Indices: 8033427--8033534 Score: 146
Period size: 44 Copynumber: 2.4 Consensus size: 44
8033417 ACACGTGAAA
* *
8033427 GCCAAATCAGCTATGTCTTCGATCTACTCTCTGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTACTCTCTGACAATACAGAGAT
*
8033473 GCCAAATCTAG-TATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCT-GCTATCTTCGATCTACTCTCTGACAATACAGAGAT
*
8033517 GCCGAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
8033535 AACTTGTTCC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.02
44 44 0.79
46 10 0.18
47 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGAT
Found at i:8044554 original size:15 final size:15
Alignment explanation
Indices: 8044512--8044561 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
8044502 ATAACTTTGA
* *
8044512 ATGCAAACG-ATGTG
1 ATGCAAATGCATGAG
8044526 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
8044541 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
8044555 ATGCAAA
1 ATGCAAA
8044562 AAGGATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:8044560 original size:14 final size:16
Alignment explanation
Indices: 8044525--8044561 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
8044515 CAAACGATGT
8044525 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
8044540 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
8044555 -ATGCAAA
1 GATGCAAA
8044562 AAGGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:8048082 original size:2 final size:2
Alignment explanation
Indices: 8048034--8048074 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8048024 GTATACAAAG
8048034 AT AT AT 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 AT AT AT A
8048075 GCATATATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8048155 original size:33 final size:29
Alignment explanation
Indices: 8048110--8048181 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
8048100 AAACGTACAA
*
8048110 ACATACAAAGTAA-TAATTAAATAATGCATG
1 ACATACAAA-AAAGTAA-TAAATAATGCATG
*
8048140 ATATACAAAAAAGTAATAAATAATGCATG
1 ACATACAAAAAAGTAATAAATAATGCATG
8048169 ACATACAAAAAAG
1 ACATACAAAAAAG
8048182 AGTAATACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 27 0.71
30 11 0.29
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (29 bp):
ACATACAAAAAAGTAATAAATAATGCATG
Found at i:8048241 original size:14 final size:15
Alignment explanation
Indices: 8048213--8048247 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
8048203 ATGTTCATGA
*
8048213 AATATAATATCAAAT
1 AATATAATATAAAAT
8048228 AATA-AATATAAAAT
1 AATATAATATAAAAT
8048242 AATATA
1 AATATA
8048248 TAACACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATAATATAAAAT
Found at i:8048823 original size:3 final size:3
Alignment explanation
Indices: 8048815--8048872 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
8048805 CAAGTAAGAT
* * *
8048815 ATA ATA ATA AT- ATA AAA ATA ATA ATGT AGA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
8048859 TATA ATA A-A ATA AT
1 -ATA ATA ATA ATA AT
8048873 CTTCTAATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
2 6 0.14
3 34 0.77
4 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8048824 original size:30 final size:28
Alignment explanation
Indices: 8048783--8048867 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 28
8048773 AATATATATA
8048783 AATAATTAATAA-ATATATAATACAAGTAAG
1 AATAA-TAATAATATATATAATA-AAGT-AG
* *
8048813 ATATAATAATAATATAAAAATAATAATGTAG
1 A-ATAATAATAATAT--ATATAATAAAGTAG
8048844 AATAATAATAATATATATAATAAA
1 AATAATAATAATATATATAATAAA
8048868 ATAATCTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
28 8 0.17
30 20 0.43
31 9 0.19
32 3 0.06
33 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (28 bp):
AATAATAATAATATATATAATAAAGTAG
Found at i:8048914 original size:2 final size:2
Alignment explanation
Indices: 8048909--8048933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8048899 GTAAAAAAAA
8048909 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 A
8048934 AAATAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8051603 original size:28 final size:28
Alignment explanation
Indices: 8051571--8051630 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
8051561 TACCGAGTTT
* *
8051571 TGGGTCGTTTAGCTGGGTTACGGGTTAA
1 TGGGTAGTTTAGCTGGGTTACAGGTTAA
8051599 TGGGTAGTTTAGCTGGGTTACAGGTTAA
1 TGGGTAGTTTAGCTGGGTTACAGGTTAA
8051627 TGGG
1 TGGG
8051631 CTTGCTGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.08, G:0.40, T:0.35
Consensus pattern (28 bp):
TGGGTAGTTTAGCTGGGTTACAGGTTAA
Found at i:8056221 original size:2 final size:2
Alignment explanation
Indices: 8056208--8056246 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8056198 AGTTTATAAC
* * *
8056208 TA TA TC TA TA TA TA TA TA TA TA TG TA GA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8056247 CTTAAAATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8059872 original size:91 final size:91
Alignment explanation
Indices: 8059705--8059912 Score: 226
Period size: 91 Copynumber: 2.3 Consensus size: 91
8059695 GCAGTTTATT
* * *
8059705 TGCAAACACTGGAGGTTTATCCAAAAATTTACTGGCAATTTTTATCTATAAACTTATTGTGCATT
1 TGCAAACACTGGTGGTTTATCCACAAATTTACTGGCAACTTTTATCTATAAACTTATTGTGCATT
* *
8059770 CATCGCCTATTGGCAGCGTATTAACC
66 CATCACATATTGGCAGCGTATTAACC
* * * **
8059796 TGCAAACACTGGTGGTTTATCCACAAATTTACTGGCTACTTTTATCTGA-AAA-TTCGTTTTGTT
1 TGCAAACACTGGTGGTTTATCCACAAATTTACTGGCAACTTTTATCT-ATAAACTT-ATTGTGCA
* *
8059859 TTCA-CAACATATTGGTAGTGTATTAACC
64 TTCATC-ACATATTGGCAGCGTATTAACC
* * *
8059887 TAC-AACATTGGTGGTTCATCCACAAA
1 TGCAAACACTGGTGGTTTATCCACAAA
8059913 CTGGAGTGTC
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
90 24 0.24
91 74 0.75
92 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (91 bp):
TGCAAACACTGGTGGTTTATCCACAAATTTACTGGCAACTTTTATCTATAAACTTATTGTGCATT
CATCACATATTGGCAGCGTATTAACC
Found at i:8060794 original size:3 final size:3
Alignment explanation
Indices: 8060786--8060827 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8060776 CTTAAATTAA
8060786 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
8060828 TTACAATTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8061214 original size:31 final size:31
Alignment explanation
Indices: 8061178--8061236 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8061168 TAATAACTAG
* *
8061178 TGGCTTAAATAAAAACTTTTGAATAGTTCAA
1 TGGCTTAAATAAAAACATTTAAATAGTTCAA
*
8061209 TGGCTTAAATGAAAACATTTAAATAGTT
1 TGGCTTAAATAAAAACATTTAAATAGTT
8061237 ATAAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (31 bp):
TGGCTTAAATAAAAACATTTAAATAGTTCAA
Found at i:8061584 original size:2 final size:2
Alignment explanation
Indices: 8061571--8061601 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8061561 ATTCCACCAA
*
8061571 AT AT AA 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 A
8061602 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8063294 original size:29 final size:29
Alignment explanation
Indices: 8063262--8063367 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 29
8063252 ATACCCTCCG
** *
8063262 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
8063291 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
8063320 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
8063349 AG-ACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
8063368 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 14 0.22
29 49 0.77
30 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:8071174 original size:29 final size:29
Alignment explanation
Indices: 8071142--8071248 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
8071132 ATACCCTCCG
** *
8071142 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
8071171 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
8071200 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
8071229 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
8071249 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:8078155 original size:23 final size:23
Alignment explanation
Indices: 8078129--8078191 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
8078119 TAAAAAACGC
8078129 TAATACAATTACATATAAAATTT
1 TAATACAATTACATATAAAATTT
*
8078152 TAATA-AATATAAAT-TAAAAATTT
1 TAATACAAT-TACATAT-AAAATTT
*
8078175 AAATACAATTACATATA
1 TAATACAATTACATATA
8078192 TAGGATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.12
23 25 0.76
24 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATACAATTACATATAAAATTT
Found at i:8078701 original size:21 final size:21
Alignment explanation
Indices: 8078647--8078719 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
8078637 ATTATTTTTC
8078647 TAAACTCTAAACCCTTAACCCT
1 TAAACTCT-AACCCTTAACCCT
* * *
8078669 TAACCCCAAACCCTT-ACACCT
1 TAAACTCTAACCCTTAAC-CCT
*
8078690 TAAACTCTAA-CCTTAACCCC
1 TAAACTCTAACCCTTAACCCT
*
8078710 TAAACCCTAA
1 TAAACTCTAA
8078720 ATTATAATCC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
20 17 0.41
21 19 0.46
22 5 0.12
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACTCTAACCCTTAACCCT
Found at i:8078719 original size:7 final size:7
Alignment explanation
Indices: 8078646--8078720 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
8078636 TATTATTTTT
*
8078646 CTAAACT
1 CTAAACC
8078653 CTAAACC
1 CTAAACC
*
8078660 CTTAACC
1 CTAAACC
*
8078667 CTTAACC
1 CTAAACC
*
8078674 CCAAACC
1 CTAAACC
*
8078681 CTTACACC
1 C-TAAACC
* *
8078689 TTAAACT
1 CTAAACC
8078696 CT-AACC
1 CTAAACC
* *
8078702 TTAACCC
1 CTAAACC
8078709 CTAAACC
1 CTAAACC
8078716 CTAAA
1 CTAAA
8078721 TTATAATCCC
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.84
8 4 0.08
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:8078806 original size:21 final size:21
Alignment explanation
Indices: 8078780--8078864 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
8078770 ACTCCTAAAC
*
8078780 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
8078801 CTTAAACCATAGTTAACTCAAAAAT
1 CTTAAACCATA---AAC-CATATAT
* *
8078826 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
8078847 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
8078865 AACTATAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 30 0.59
22 3 0.06
24 3 0.06
25 15 0.29
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:8078817 original size:46 final size:46
Alignment explanation
Indices: 8078764--8078857 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
8078754 CTTCAAATAC
**
8078764 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
* *
8078810 TAGTTAACTCAAAAATCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
8078856 TA
1 TA
8078858 AACCATAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:8079237 original size:41 final size:41
Alignment explanation
Indices: 8079028--8079248 Score: 311
Period size: 41 Copynumber: 5.4 Consensus size: 41
8079018 GTTATATGAC
* *
8079028 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
8079069 TTTTAGCGGCGTTTTGCCAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
8079110 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
8079151 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTAGA
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * *
8079192 TTTTAGCGGCGTTTTTTACTAAAA-CACTGCTATTGCTCT-GT
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTGGT
*
8079233 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
8079249 GGTAAAACGC
Statistics
Matches: 166, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
40 5 0.03
41 139 0.84
42 17 0.10
43 5 0.03
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:8079278 original size:123 final size:123
Alignment explanation
Indices: 8079028--8079277 Score: 319
Period size: 123 Copynumber: 2.0 Consensus size: 123
8079018 GTTATATGAC
*
8079028 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTACCAAAAGC
* * * *
8079093 GCTGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
66 ACTGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGCGCCACTAATACTATGGT
* *
8079151 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTAGA-TTTTAGCGGCGTTTTTTACTAAA
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GATTTTTAGCGGCG--TTTTACCAAA
* * ** *
8079215 A-CACTGCTATTGCTCT-GTTTTTAGTGGCGTTTTTGGTAAAA-CGCCACTATTACTATGTGT
63 AGCACTGCTAATGCTCTGGTTTTTAGCGGCGTTTTT-CCAAAAGCGCCACTAATACTATG-GT
8079275 TTT
1 TTT
8079278 ATAATTTTTG
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
123 77 0.70
124 24 0.22
125 9 0.08
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTACCAAAAGC
ACTGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGCGCCACTAATACTATGGT
Found at i:8079473 original size:13 final size:13
Alignment explanation
Indices: 8079442--8079475 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
8079432 TAAAGAGATA
8079442 ATAATTAAATTAT
1 ATAATTAAATTAT
8079455 -TAAATTAAATTAT
1 AT-AATTAAATTAT
8079468 ATAATTAA
1 ATAATTAA
8079476 TTTTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 17 0.89
14 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATTAAATTAT
Found at i:8080809 original size:22 final size:22
Alignment explanation
Indices: 8080784--8080825 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8080774 AAAATAATTT
* *
8080784 AAAATTTTTTAAAATATTTATA
1 AAAAGTTTTTAAAAAATTTATA
8080806 AAAAGTTTTTAAAAAATTTA
1 AAAAGTTTTTAAAAAATTTA
8080826 AAATTCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AAAAGTTTTTAAAAAATTTATA
Found at i:8081555 original size:17 final size:18
Alignment explanation
Indices: 8081533--8081567 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8081523 GATATGATAC
*
8081533 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
8081550 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
8081568 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:8081856 original size:22 final size:21
Alignment explanation
Indices: 8081821--8081896 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
8081811 AAAAGGTATC
* *
8081821 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
8081842 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
8081865 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
8081884 TGC-AATCATATCT
1 TACAAATCATATCT
8081897 AAGATTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 6 0.14
19 10 0.23
20 1 0.02
21 3 0.07
22 15 0.34
23 9 0.20
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:8081911 original size:35 final size:37
Alignment explanation
Indices: 8081859--8081947 Score: 128
Period size: 35 Copynumber: 2.4 Consensus size: 37
8081849 TCATATCTTT
*
8081859 TAAGATTGCATATCATATCTAAGATTGCA-ATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCACATC
8081896 TAAGATTG-TATCATATCTAAGATTGCATATCACATC
1 TAAGATTGATATCATATCTAAGATTGCATATCACATC
*
8081932 CAAGATTGCATATCAT
1 TAAGATTG-ATATCAT
8081948 TGAAGATTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
35 19 0.40
36 14 0.30
37 8 0.17
38 6 0.13
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCACATC
Found at i:8081926 original size:14 final size:15
Alignment explanation
Indices: 8081871--8081926 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
8081861 AGATTGCATA
8081871 TCATATCTAAGATTG
1 TCATATCTAAGATTG
8081886 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
8081904 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
8081921 -CATATC
1 TCATATC
8081927 ACATCCAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Done.