Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 247 of 311
Found at i:82758648 original size:32 final size:28
Alignment explanation
Indices: 82758612--82758669 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 28
82758602 ATATCTAAAT
82758612 AATAACAATAAAATAGTAACAATATAATAGCA
1 AATAAC-ATAAAA-A-TAACAATA-AATAGCA
*
82758644 AATAACATCAAAATAACAATAAATAG
1 AATAACATAAAAATAACAATAAATAG
82758670 TAGTAGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 5 0.20
29 8 0.32
30 1 0.04
31 5 0.20
32 6 0.24
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (28 bp):
AATAACATAAAAATAACAATAAATAGCA
Found at i:82759635 original size:33 final size:33
Alignment explanation
Indices: 82759598--82759728 Score: 190
Period size: 33 Copynumber: 4.0 Consensus size: 33
82759588 TGGGACCCCG
* * *
82759598 ATTTCCAGGTATTCTAATTCTTGTTGGATCTCT
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
* * *
82759631 ATTTCCAGGTATTCTAATTCCTGTAGGAGCTCC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
*
82759664 ATTTCCAGGCATTCCAATTCCTGTTGGATCTCC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
*
82759697 ATTTCCAGGCATTCTAATTTCTGTTGGATCTC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTC
82759729 TATGATCTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (33 bp):
ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
Found at i:82764880 original size:30 final size:29
Alignment explanation
Indices: 82764844--82764904 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
82764834 AAACGGAAGT
82764844 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
82764874 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
82764903 TT
1 TT
82764905 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:82768745 original size:14 final size:14
Alignment explanation
Indices: 82768710--82768761 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
82768700 GTTTGCAGGT
*
82768710 AAAAT-ATTTTCTAG
1 AAAATGATTTT-TGG
*
82768724 AAAGTGATTTTTGG
1 AAAATGATTTTTGG
* *
82768738 AAAATGATTTCTGA
1 AAAATGATTTTTGG
82768752 AAAATGATTT
1 AAAATGATTT
82768762 ACTTTTCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 27 0.84
15 5 0.16
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (14 bp):
AAAATGATTTTTGG
Found at i:82775753 original size:25 final size:24
Alignment explanation
Indices: 82775717--82775769 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
82775707 ACATACCGCA
82775717 GCTCTTTATGAGCATATTGATATAG
1 GCTCTTTATGAGCATATTGATAT-G
* * *
82775742 GCTCTTTGTGAGCTTCTTGATATG
1 GCTCTTTATGAGCATATTGATATG
82775766 GCTC
1 GCTC
82775770 GCTTAAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCATATTGATATG
Found at i:82777519 original size:19 final size:20
Alignment explanation
Indices: 82777497--82777534 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
82777487 ACCACCGTCA
*
82777497 TCCATCGTAAT-AAAATTTG
1 TCCACCGTAATCAAAATTTG
*
82777516 TCCACCTTAATCAAAATTT
1 TCCACCGTAATCAAAATTT
82777535 TGATTAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (20 bp):
TCCACCGTAATCAAAATTTG
Found at i:82786318 original size:22 final size:22
Alignment explanation
Indices: 82786293--82786337 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
82786283 AACTAGACTG
82786293 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
82786315 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
82786337 T
1 T
82786338 TTTATTAAAA
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:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:82790092 original size:22 final size:22
Alignment explanation
Indices: 82790064--82790108 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
82790054 AGGGGGAGTG
82790064 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
82790086 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
82790108 T
1 T
82790109 TTTATTAAAA
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:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:82801743 original size:38 final size:38
Alignment explanation
Indices: 82801701--82801797 Score: 101
Period size: 39 Copynumber: 2.6 Consensus size: 38
82801691 CTCAATTTTG
*
82801701 TTTTTCAGTATAGAAGCTTAGA-TGCAAGGTCCATTTA
1 TTTTTCAGTTTAGAAGCTTAGATTGCAAGGTCCATTTA
* *
82801738 CTTTTTCTAGTTTA-AAGACCTA-ATTGTAAGGTCCATTTA
1 -TTTTTC-AGTTTAGAAG-CTTAGATTGCAAGGTCCATTTA
* *
82801777 TTTTTCAATTTAGAGGCTTAG
1 TTTTTCAGTTTAGAAGCTTAG
82801798 TTGTTGGGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
37 8 0.17
38 18 0.38
39 22 0.46
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42
Consensus pattern (38 bp):
TTTTTCAGTTTAGAAGCTTAGATTGCAAGGTCCATTTA
Found at i:82804387 original size:15 final size:15
Alignment explanation
Indices: 82804369--82804475 Score: 52
Period size: 15 Copynumber: 7.4 Consensus size: 15
82804359 TTATTAATAC
82804369 TATTATTTCTATTAT
1 TATTATTTCTATTAT
82804384 TATTATTGT-TATTAT
1 TATTATT-TCTATTAT
* *
82804399 TAATA-TTCTGGTTAT
1 TATTATTTCT-ATTAT
82804414 TA--A---CATATTAT
1 TATTATTTC-TATTAT
*
82804425 TATT-TTT-AATGTAT
1 TATTATTTCTAT-TAT
*
82804439 TATTATTACTAGTTAT
1 TATTATTTCTA-TTAT
* *
82804455 TATTAGTTCTAGTAT
1 TATTATTTCTATTAT
82804470 TATTAT
1 TATTAT
82804476 ATATATAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 26
0.66 0.10 0.25
Matches are distributed among these distances:
11 7 0.10
12 1 0.01
13 4 0.06
14 9 0.13
15 33 0.48
16 14 0.20
17 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (15 bp):
TATTATTTCTATTAT
Found at i:82804457 original size:16 final size:14
Alignment explanation
Indices: 82804435--82804475 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
82804425 TATTTTTAAT
82804435 GTATTATTATTACTA
1 GTATTATTATT-CTA
82804450 GTTATTATTAGTTCTA
1 G-TATTATTA-TTCTA
82804466 GTATTATTAT
1 GTATTATTAT
82804476 ATATATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.04
15 9 0.38
16 12 0.50
17 2 0.08
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (14 bp):
GTATTATTATTCTA
Found at i:82804475 original size:3 final size:3
Alignment explanation
Indices: 82804357--82804459 Score: 57
Period size: 3 Copynumber: 33.7 Consensus size: 3
82804347 TCATTCCTAA
* * * *
82804357 TAT TAT TAA TAC TAT TAT T-T CTAT TAT TAT TAT TGT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * * *
82804402 TAT TCT GGT TAT TAA CA- TAT TAT TAT TTT TAAT GTAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT
82804448 TAGT TAT TAT TA
1 TA-T TAT TAT TA
82804460 GTTCTAGTAT
Statistics
Matches: 75, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
2 2 0.03
3 66 0.88
4 6 0.08
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:82804513 original size:18 final size:18
Alignment explanation
Indices: 82804475--82804527 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
82804465 AGTATTATTA
82804475 TATATATAATATTAGTGTATG
1 TATATAT-ATA-TA-TGTATG
*
82804496 T-TTTATTATATATGTATG
1 TATATA-TATATATGTATG
82804514 TATATATATATATG
1 TATATATATATATG
82804528 ATATTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 15 0.54
19 5 0.18
20 6 0.21
21 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
TATATATATATATGTATG
Found at i:82804734 original size:22 final size:21
Alignment explanation
Indices: 82804695--82804759 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
82804685 TTTTCTTTTA
82804695 ATATTTTATATATTATTATGTAC
1 ATATTTT-TATA-TATTATGTAC
* *
82804718 ATATTTTGATATCATTA-GTTAT
1 ATATTTTTATAT-ATTATG-TAC
82804740 ATATTTTTATATATTATGTA
1 ATATTTTTATATATTATGTA
82804760 TATTTCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 8 0.22
22 21 0.58
23 7 0.19
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (21 bp):
ATATTTTTATATATTATGTAC
Found at i:82804965 original size:18 final size:18
Alignment explanation
Indices: 82804941--82804986 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
82804931 TTATATATAA
*
82804941 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
82804960 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
82804978 TATTATTTT
1 TATTATTTT
82804987 ATTCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:82808937 original size:19 final size:19
Alignment explanation
Indices: 82808915--82808974 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 19
82808905 ATAGCAGCGT
* *
82808915 AATAGTAAAATGATAATAA
1 AATAGTAAAATAACAATAA
82808934 AATAGTAAGAAAATAACAATAA
1 AATAGT---AAAATAACAATAA
82808956 AATAGTAAAA-AA-AATAA
1 AATAGTAAAATAACAATAA
82808973 AA
1 AA
82808975 GAGCAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 7 0.19
18 2 0.06
19 10 0.28
22 17 0.47
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (19 bp):
AATAGTAAAATAACAATAA
Found at i:82813938 original size:73 final size:73
Alignment explanation
Indices: 82813818--82813964 Score: 222
Period size: 73 Copynumber: 2.0 Consensus size: 73
82813808 TCTATCGAAT
* * * *
82813818 AAACTTCATTCGCTTTGGAAACCAAAAGTCCCAATTAAAATTATGAATTTTGAGAATGATTATTT
1 AAACTTCATTCACTTTGGAAACCAAAAGCCCCAATTAAAATTATGAATATTGAGAATAATTATTT
82813883 TATGGTTA
66 TATGGTTA
* * * *
82813891 AAACTTCATTCACTTTGGAAACTAAAAGCCCCATTTCAAATTGTGAATATTGAGAATAATTATTT
1 AAACTTCATTCACTTTGGAAACCAAAAGCCCCAATTAAAATTATGAATATTGAGAATAATTATTT
82813956 TATGGTTA
66 TATGGTTA
82813964 A
1 A
82813965 GTTTAAATGT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (73 bp):
AAACTTCATTCACTTTGGAAACCAAAAGCCCCAATTAAAATTATGAATATTGAGAATAATTATTT
TATGGTTA
Found at i:82817341 original size:29 final size:27
Alignment explanation
Indices: 82817304--82817420 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
82817294 ATTTTATTTT
*
82817304 TATAGTTTCTTTTAAATCTATTTAATATA
1 TATATTTTCTTTTAAATCTA-TT-ATATA
* * *
82817333 TATGTTTTCTTTTCAAATCTGTTATGTA
1 TATATTTTCTTTT-AAATCTATTATATA
* * *
82817361 AATATTTTCTTCTAAATTTATTATATA
1 TATATTTTCTTTTAAATCTATTATATA
*
82817388 TATATTTTCTTTAAAAT-TATTCATATA
1 TATATTTTCTTTTAAATCTATT-ATATA
82817415 TA-ATTT
1 TATATTT
82817421 GGCTTTCTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.11
27 32 0.44
28 14 0.19
29 13 0.18
30 6 0.08
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (27 bp):
TATATTTTCTTTTAAATCTATTATATA
Found at i:82819673 original size:19 final size:19
Alignment explanation
Indices: 82819649--82819694 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
82819639 CTTACTTTCT
82819649 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
82819668 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
82819687 TGTGCATT
1 TTTGCATT
82819695 AAACTTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:82821710 original size:41 final size:41
Alignment explanation
Indices: 82821655--82821934 Score: 381
Period size: 41 Copynumber: 6.8 Consensus size: 41
82821645 GAATGTAATA
* *
82821655 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
82821696 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
82821737 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
82821778 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
82821819 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
82821860 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
82821901 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
82821935 ATCTGTTTAA
Statistics
Matches: 222, Mismatches: 10, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 3 0.01
40 8 0.04
41 209 0.94
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:82829377 original size:41 final size:41
Alignment explanation
Indices: 82829322--82829600 Score: 381
Period size: 41 Copynumber: 6.8 Consensus size: 41
82829312 GAATGTAATA
* *
82829322 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
82829363 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
82829404 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
82829445 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
82829486 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
82829527 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* **
82829568 CAG-CTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
82829601 ATCTGTTTAA
Statistics
Matches: 222, Mismatches: 9, Indels: 14
0.91 0.04 0.06
Matches are distributed among these distances:
39 3 0.01
40 30 0.14
41 189 0.85
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:82835031 original size:177 final size:175
Alignment explanation
Indices: 82834715--82835297 Score: 828
Period size: 177 Copynumber: 3.3 Consensus size: 175
82834705 CGGTAAATTC
*
82834715 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGAAAACTACAGATCTTATCTCCATGTAT
1 ACAAG-CTTTACCCCCTAAGCAGTAGGGTAACAGGATGAAAACTACAGATCTTATCTCCATGTAT
* * *
82834780 CGACTATGGAGCAGATCAAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCA
65 CGGCTAT-GAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
* *
82834845 GCCACCGGCCTTATATCTCTGAGGTAGCAAGAGAGCATGTTGAAGAT
129 GCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* * * * * *
82834892 ACAAGCTTTACCAACCTAAGCAGTAGAGCAACAAGCTGAAAACTACAAATCTTATCTCCATGTAT
1 ACAAGCTTTACC-CCCTAAGCAGTAGGGTAACAGGATGAAAACTACAGATCTTATCTCCATGTAT
* * * * * *
82834957 CGGCTATAGAGTAGATCGAAAATGGCGAGTCTTATCTCTATGTATTGGTTATGGAGCATATTTTA
65 CGGCTAT-GAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
* *
82835022 GCTACCGGCCTTATCTCTCTGAGGTAGCAAGACAGCAGGTTGAAGAT
129 GCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* * *
82835069 ACAAGCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAAACTATAGGTCTTATCTCCATGTAT
1 ACAAGCTTT-ACCCCCTAAGCAGTAGGGTAACAGGATGAAAACTACAGATCTTATCTCCATGTAT
82835134 -GGACTATGAAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
65 CGG-CTATG-AGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
82835198 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
128 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* * * *
82835246 ACGAGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTGGAAAA-TACAGATCT
1 ACAAG-CTTTACCCCCTAAGCAGTAGGGTAACAGGAT-GAAAACTACAGATCT
82835298 CCCCTAAACA
Statistics
Matches: 357, Mismatches: 43, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
176 9 0.03
177 337 0.94
178 11 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (175 bp):
ACAAGCTTTACCCCCTAAGCAGTAGGGTAACAGGATGAAAACTACAGATCTTATCTCCATGTATC
GGCTATGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
CACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
Found at i:82835438 original size:44 final size:44
Alignment explanation
Indices: 82835390--82835525 Score: 109
Period size: 44 Copynumber: 3.1 Consensus size: 44
82835380 CTTATCTCCC
*
82835390 TAAGCAGTAGTGGAGCGGATTGAAGACAGTGAGCCTTAACCCCT
1 TAAGCAGTAGTGGAGCGGATAGAAGACAGTGAGCCTTAACCCCT
* * * * * *
82835434 TAAGCAGTAG-GGTAACAGGCTAGAAATTACA--GA-TCTTATCTCCT
1 TAAGCAGTAGTGG-AGC-GGATAG-AA-GACAGTGAGCCTTAACCCCT
* * * *
82835478 TAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCC
1 TAAGCAGTAGTGGAGCGGATAGAAGACAGTGAGCCTTAACCCCT
82835522 TAAG
1 TAAG
82835526 TAATAGGGTA
Statistics
Matches: 67, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
41 2 0.03
42 2 0.03
43 7 0.10
44 43 0.64
45 8 0.12
46 2 0.03
47 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (44 bp):
TAAGCAGTAGTGGAGCGGATAGAAGACAGTGAGCCTTAACCCCT
Found at i:82835670 original size:88 final size:88
Alignment explanation
Indices: 82835248--82835657 Score: 499
Period size: 88 Copynumber: 4.7 Consensus size: 88
82835238 TTGAAGATAC
* * * * *
82835248 GAGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTGGAAAATACAGATC---TC-CCCTAAACAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGCAG
** * * *
82835309 TAGTGGAGTGGATCTAAAACAGT
66 TAGTGGAGCAGATCGAAGACGGT
** *
82835332 GAGCCTTAACCCTTTAAGCAGTACGGTAACAGGCTA-AAGATTACAAATCTTATCTCCCTAAGCA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAA-ATTACAAATCTTATCTCCCTAAGCA
* * *
82835396 GTAGTGGAGCGGATTGAAGACAGT
65 GTAGTGGAGCAGATCGAAGACGGT
* * *
82835420 GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTCCTTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGCAG
82835485 TAGTGGAGCAGATCGAAGACGGT
66 TAGTGGAGCAGATCGAAGACGGT
* * * * *
82835508 GAGCCTTAACCCCCTAAGTAATAGGGTAATAGGCTAGAAATTACAGATCTTATCTTCCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGCAG
82835573 TAGTGGAGCAGATCGAAGACGGT
66 TAGTGGAGCAGATCGAAGACGGT
* * * * *
82835596 AAGCTTTAACCCCCTAAGCAGTAAGGTAACAAGCT-GAAGATTACAAATCATATCTCCCTAAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAA-ATTACAAATCTTATCTCCCTAAG
82835658 TAATAGCGGA
Statistics
Matches: 284, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
83 2 0.01
84 39 0.14
87 5 0.02
88 236 0.83
89 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGACGGT
Found at i:82837255 original size:29 final size:27
Alignment explanation
Indices: 82837218--82837334 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
82837208 ATTTTATTTT
*
82837218 TATAGTTTCTTTTAAATCTATTTAATATA
1 TATATTTTCTTTTAAATCTA-TT-ATATA
* * *
82837247 TATGTTTTCTTTTCAAATCTGTTATGTA
1 TATATTTTCTTTT-AAATCTATTATATA
* * *
82837275 AATATTTTCTTCTAAATTTATTATATA
1 TATATTTTCTTTTAAATCTATTATATA
*
82837302 TATATTTTCTTTAAAAT-TATTCATATA
1 TATATTTTCTTTTAAATCTATT-ATATA
82837329 TA-ATTT
1 TATATTT
82837335 GGCTTTCTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.11
27 32 0.44
28 14 0.19
29 13 0.18
30 6 0.08
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (27 bp):
TATATTTTCTTTTAAATCTATTATATA
Found at i:82839397 original size:19 final size:18
Alignment explanation
Indices: 82839368--82839419 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
82839358 TCTTCTGACC
82839368 AAAATAGAAAATAT-ATCAA
1 AAAATA-AAAATATAAT-AA
82839387 AAAACTAAAAAGTATAATAA
1 AAAA-TAAAAA-TATAATAA
82839407 AAAATAATAAATA
1 AAAATAA-AAATA
82839420 AAAAATTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAATAAAAATATAATAA
Found at i:82843595 original size:5 final size:5
Alignment explanation
Indices: 82843585--82843612 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
82843575 CCAACTTGTA
82843585 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
82843613 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:82848675 original size:17 final size:17
Alignment explanation
Indices: 82848645--82848678 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
82848635 ATAATTAATT
* *
82848645 TAAATTTTATATAAATA
1 TAAATATTAAATAAATA
82848662 TAAATATTAAATAAATA
1 TAAATATTAAATAAATA
82848679 AAAACCCCAT
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):
TAAATATTAAATAAATA
Found at i:82852919 original size:18 final size:19
Alignment explanation
Indices: 82852861--82852908 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
82852851 TTACAAAAAG
82852861 AAATTCAAAAAAATTACTA
1 AAATTCAAAAAAATTACTA
*
82852880 AAGTTCAAAAAAATTACTA
1 AAATTCAAAAAAATTACTA
82852899 AAATTCAAAA
1 AAATTCAAAA
82852909 TATTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.25
Consensus pattern (19 bp):
AAATTCAAAAAAATTACTA
Found at i:82852931 original size:18 final size:19
Alignment explanation
Indices: 82852898--82852934 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
82852888 AAAAATTACT
82852898 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
*
82852917 AAAATTCCAAA-ATTTATA
1 AAAATTCAAAATATTTATA
82852935 TTTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:82854501 original size:26 final size:26
Alignment explanation
Indices: 82854465--82854516 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
82854455 GGGTTCAGGT
82854465 ATGTCTTCTTTGCATTCCTCTATCTC
1 ATGTCTTCTTTGCATTCCTCTATCTC
82854491 ATGTCTTCTTTGCATTCCTCTATCTC
1 ATGTCTTCTTTGCATTCCTCTATCTC
82854517 TTTTATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.12, C:0.31, G:0.08, T:0.50
Consensus pattern (26 bp):
ATGTCTTCTTTGCATTCCTCTATCTC
Found at i:82855632 original size:26 final size:24
Alignment explanation
Indices: 82855602--82855651 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
82855592 AAATAAAAAA
*
82855602 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
82855628 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
82855652 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:82861485 original size:24 final size:25
Alignment explanation
Indices: 82861407--82861499 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 25
82861397 AATAATAAGG
* * *
82861407 ATAATATAAAAAATACATACATGAA
1 ATAATATAAAATATATATATATGAA
*
82861432 ATAGTATAAAATATATATATAT-AA
1 ATAATATAAAATATATATATATGAA
* *
82861456 CTAATAATATACATATATATATATGAA
1 ATAAT-ATA-AAATATATATATATGAA
*
82861483 ATAACAATAAAATATAT
1 ATAA-TATAAAATATAT
82861500 GAATAGTATG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
24 5 0.09
25 21 0.39
26 20 0.37
27 8 0.15
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAATATAAAATATATATATATGAA
Found at i:82861601 original size:73 final size:75
Alignment explanation
Indices: 82861470--82861608 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 75
82861460 TAATATACAT
* * * * * *
82861470 ATATATATATGAAATAACAATAAAATATATGAATAGTATGATACTTACAAATATATACATAATAT
1 ATATATATAT-AAATAACAATAAAATATACGAATAATATGAAAATTACAAAAAAATACATAATAT
82861535 AATTATTTAAA
65 AATTATTTAAA
*
82861546 ATATATATAT-AAT-ACAATAAAATATACGAATAATAT-AAAATATATAAAAAAATACATAATAT
1 ATATATATATAAATAACAATAAAATATACGAATAATATGAAAAT-TACAAAAAAATACATAATAT
82861608 A
65 A
82861609 TGAAAAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
72 3 0.05
73 39 0.71
74 3 0.05
76 10 0.18
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (75 bp):
ATATATATATAAATAACAATAAAATATACGAATAATATGAAAATTACAAAAAAATACATAATATA
ATTATTTAAA
Found at i:82861607 original size:37 final size:35
Alignment explanation
Indices: 82861550--82861638 Score: 90
Period size: 37 Copynumber: 2.5 Consensus size: 35
82861540 TTTAAAATAT
* * *
82861550 ATATATAATACAATAAAATATACGAATAATATAAA
1 ATATATAAAAAAATAAAATATACGAAAAATATAAA
* *
82861585 ATATATAAAAAAATACATAATATATGAAAAATATAAT
1 ATATATAAAAAAATA-A-AATATACGAAAAATATAAA
*
82861622 AT-TTTAAAAAAACTAAA
1 ATATATAAAAAAA-TAAA
82861639 TAAGAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
35 14 0.31
36 11 0.24
37 20 0.44
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (35 bp):
ATATATAAAAAAATAAAATATACGAAAAATATAAA
Found at i:82861623 original size:35 final size:33
Alignment explanation
Indices: 82861543--82861638 Score: 86
Period size: 35 Copynumber: 2.8 Consensus size: 33
82861533 ATAATTATTT
* *
82861543 AAAATAT-ATATATAATACAATAAAATATACGA
1 AAAATATAATATATAAAAAAATAAAATATACGA
* *
82861575 ATAATATAAAATATATAAAAAAATACATAATATATGA
1 A-AA-ATATAATATATAAAAAAATA-A-AATATACGA
*
82861612 AAAATATAATATTTTAAAAAAACTAAA
1 AAAATATAATA-TATAAAAAAA-TAAA
82861639 TAAGAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
32 1 0.02
33 2 0.04
34 3 0.06
35 21 0.41
36 13 0.25
37 11 0.22
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (33 bp):
AAAATATAATATATAAAAAAATAAAATATACGA
Found at i:82861631 original size:16 final size:16
Alignment explanation
Indices: 82861530--82861623 Score: 50
Period size: 18 Copynumber: 5.6 Consensus size: 16
82861520 ATATATACAT
**
82861530 AATATAAT-TATTTAA
1 AATATAATATATGAAA
82861545 AATAT-ATATAT-AATA
1 AATATAATATATGAA-A
* *
82861560 CAATAAAATATACGAATA
1 -AATATAATATATGAA-A
* *
82861578 ATATAAAATATATAAAAA
1 A-ATATAATATAT-GAAA
82861596 AATACATAATATATGAAA
1 AAT--ATAATATATGAAA
82861614 AATATAATAT
1 AATATAATAT
82861624 TTTAAAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
14 3 0.05
15 9 0.14
16 11 0.17
17 8 0.13
18 22 0.35
19 10 0.16
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (16 bp):
AATATAATATATGAAA
Found at i:82861665 original size:13 final size:13
Alignment explanation
Indices: 82861649--82861675 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
82861639 TAAGAATATT
82861649 AAAATAAAAAATA
1 AAAATAAAAAATA
82861662 AAAATAAAAAATA
1 AAAATAAAAAATA
82861675 A
1 A
82861676 TGAAGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:82861875 original size:3 final size:3
Alignment explanation
Indices: 82861867--82861897 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
82861857 TATATATATC
82861867 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
82861898 TTATTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:82862153 original size:16 final size:16
Alignment explanation
Indices: 82862123--82862179 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
82862113 TATTATATAT
82862123 AATAATAAT-ACTAGA
1 AATAATAATAACTAGA
82862138 AATAATAATAACTAGA
1 AATAATAATAACTAGA
*
82862154 AATAATAATACATTA-A
1 AATAATAATA-ACTAGA
82862170 AATAATAATA
1 AATAATAATA
82862180 TTTAATAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
15 9 0.23
16 27 0.69
17 3 0.08
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (16 bp):
AATAATAATAACTAGA
Found at i:82862186 original size:143 final size:138
Alignment explanation
Indices: 82861868--82862180 Score: 321
Period size: 143 Copynumber: 2.2 Consensus size: 138
82861858 ATATATATCT
* *
82861868 AATAATAATAATAATAATAATAATATAATATTATTAGAATAAAGTAATTAAAATAATACTGTATA
1 AATAATAATAATAA-AATAATAATATAATAATATTAAAATAAAGTAATTAAAATAATAC-GTATA
* * *
82861933 TAAAAATGTATATATATACATATATAATAAAACATACACTAAGATTAATAATAATAACCACACTA
64 T---AATATATATATATACATACATAATAAAACATACACTAAGATTAATAATAATAACAACACTA
*
82861998 GAAATAATGATGA
126 GAAATAATAATGA
* * *
82862011 AAT-ATAAAAAGTAAATATAATACA-ATAGTAATATTAAAATAAAGTAATTAAGATAATAC-TAT
1 AATAATAATAA-TAAA-ATAATA-ATATAATAATATTAAAATAAAGTAATTAAAATAATACGTAT
* * * *
82862073 AT-ATATATATATGTACATACATATATAAAACATACACTAATATT-ATATATAATAATAATACTA
63 ATAATATATATATATACATACATA-ATAAAACATACACTAAGATTAATA-ATAATAACAACACTA
82862136 GAAATAATAATAACTAGA
126 G--A-AATAATAA-T-GA
82862154 AATAATAATACATTAAAATAATAATAT
1 AATAATAATA-A-TAAAATAATAATAT
82862181 TTAATAACCA
Statistics
Matches: 142, Mismatches: 15, Indels: 25
0.78 0.08 0.14
Matches are distributed among these distances:
137 21 0.15
138 32 0.23
140 1 0.01
141 12 0.08
142 8 0.06
143 49 0.35
144 14 0.10
145 5 0.04
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (138 bp):
AATAATAATAATAAAATAATAATATAATAATATTAAAATAAAGTAATTAAAATAATACGTATATA
ATATATATATATACATACATAATAAAACATACACTAAGATTAATAATAATAACAACACTAGAAAT
AATAATGA
Found at i:82862256 original size:3 final size:3
Alignment explanation
Indices: 82862121--82862240 Score: 59
Period size: 3 Copynumber: 39.0 Consensus size: 3
82862111 AATATTATAT
*
82862121 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GA-A ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA -ATA ATA ATA ATA -A-TA
* ** * * *
82862169 A-A ATA ATA ATA TTTA ATA ACC AGA ATA TTA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
82862214 ACA ATA GA-A ATA ATA GTA TTA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA
82862241 TTAGGAATGA
Statistics
Matches: 88, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
2 5 0.06
3 73 0.83
4 7 0.08
5 3 0.03
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:82862926 original size:23 final size:22
Alignment explanation
Indices: 82862889--82862931 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
82862879 TATATGTGGA
* *
82862889 AAAATGAAACCAAAACAGAATTT
1 AAAATGAAA-AAAAAAAGAATTT
82862912 AAAATGAAAAAAAAAAGAAT
1 AAAATGAAAAAAAAAAGAAT
82862932 AATCACCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAATGAAAAAAAAAAGAATTT
Found at i:82863516 original size:25 final size:25
Alignment explanation
Indices: 82863478--82863525 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
82863468 TCTTTACTCA
*
82863478 TTGTCGTATAACGATAACAGAGTTG
1 TTGTCGTATAACGAGAACAGAGTTG
* * *
82863503 TTGTCGTGTGACGAGAATAGAGT
1 TTGTCGTATAACGAGAACAGAGT
82863526 AAAGACTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (25 bp):
TTGTCGTATAACGAGAACAGAGTTG
Found at i:82863877 original size:21 final size:21
Alignment explanation
Indices: 82863844--82863888 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
82863834 TCTGATATCC
*
82863844 TCGATCAGTTCCACTGTAACT
1 TCGATCAGCTCCACTGTAACT
*
82863865 TCGATTAGCTCCACTGTAACT
1 TCGATCAGCTCCACTGTAACT
82863886 TCG
1 TCG
82863889 GGGCTCTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (21 bp):
TCGATCAGCTCCACTGTAACT
Found at i:82864400 original size:14 final size:14
Alignment explanation
Indices: 82864381--82864416 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
82864371 AGTTGATTTT
82864381 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
82864395 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
82864409 TTTGAAAA
1 TTTGAAAA
82864417 TACCTCAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (14 bp):
TTTGAAAAGCAGAA
Found at i:82864416 original size:176 final size:173
Alignment explanation
Indices: 82864082--82864816 Score: 899
Period size: 176 Copynumber: 4.2 Consensus size: 173
82864072 ACGTGAGCCA
** * * * * **
82864082 AGGCTCAACTCATTTCTCGCAATATGAGTTGGTTTTTTG-AAA-CTTAATTTGAAAAGAAGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAA-AGGAAAT
** * * *
82864145 TGAAAATACCTCGATATGTGACCCGAGGCTCAACTCACCTCTCGCAATAGGAGTTGATTTTTGAA
65 TGAAAATACCTC-A-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
** *
82864210 AAATATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTG
128 AAGCA-AATTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTG
*
82864258 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAACTTGAAAAACGGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAA-GGAAAT
* * * *
82864322 TGAAACTACCTCAGCGTGTCCTGAGACTCAACTCATCTCTTGCAATATGAGTTGATTTTTTTGAA
65 TGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA
* * *
82864387 AAGCAGAATTTGAAAAGCAGAATTTGAAAATACCTCAGCATGCCCTG
128 AAGCA-AATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTG
*
82864434 AGGCTCAACCCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAAAATGGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAA-GGAAAT
*
82864498 TGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
65 TGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA
* * *
82864563 AAGCAAAATTTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTG
128 AAGC-AAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTG
* * * *
82864610 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGAAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAGCATAAATTGAAAA-AGGAAA
*
82864675 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGA--TTT----
64 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
82864734 -----ATTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCC-G
129 AGCAAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTG-CCCTG
82864774 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
82864817 ATAGAAATAA
Statistics
Matches: 503, Mismatches: 46, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
163 11 0.02
164 64 0.13
165 2 0.00
174 3 0.01
175 40 0.08
176 260 0.52
177 42 0.08
178 80 0.16
179 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (173 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAAGGAAATT
GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAG
CAAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTG
Found at i:82864434 original size:89 final size:89
Alignment explanation
Indices: 82864082--82864742 Score: 863
Period size: 89 Copynumber: 7.5 Consensus size: 89
82864072 ACGTGAGCCA
** * * * **
82864082 AGGCTCAACTCATTTCTCGCAATATGAGTTG-GTTTTTTG-AAA-CTTAATTTGAAAAGAAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAATTTGAAAAGCAGAAA
** * *
82864144 TTGAAAATACCTCGATATGTGACCCG
66 TTGAAAATACCTC-A-GCGTGTCCTG
* ** * *
82864170 AGGCTCAACTCACCTCTCGCAATAGGAGTTGA--TTTTTGAAAAATATAAATTGAAAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAATTTG-AAAAGCAGAA
*
82864233 ATTGAAAATACCTCAGCGTGCCCTG
65 ATTGAAAATACCTCAGCGTGTCCTG
* * *
82864258 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGCATAACTTGAAAAACGGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAATTTGAAAAGCAGAAA
*
82864321 TTGAAACTACCTCAGCGTGTCCTG
66 TTGAAAATACCTCAGCGTGTCCTG
* * * * *
82864345 AGACTCAACTCATCTCTTGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGCAGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAATTTGAAAAGCAGAAA
* *
82864410 TTGAAAATACCTCAGCATGCCCTG
66 TTGAAAATACCTCAGCGTGTCCTG
* * ***
82864434 AGGCTCAACCCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGCATAAATTGAAAAATGGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAATTTGAAAAGCAGAAA
*
82864497 TTGAAAATACCTCAGCGTGTCTTG
66 TTGAAAATACCTCAGCGTGTCCTG
* *
82864521 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAAAATTTGAAAAGCAGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAATTTGAAAAGCAGAAA
82864586 TTGAAAATACCTCAGCGTGTCCTG
66 TTGAAAATACCTCAGCGTGTCCTG
* * *
82864610 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGAAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAATTTGAAAAGCAGAAA
82864675 TTGAAAATACCTCAGCGTGTCCTG
66 TTGAAAATACCTCAGCGTGTCCTG
* *
82864699 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTATTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
82864743 ACAGAAATTA
Statistics
Matches: 507, Mismatches: 58, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
87 144 0.28
88 85 0.17
89 258 0.51
90 20 0.04
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (89 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAATTTGAAAAGCAGAAA
TTGAAAATACCTCAGCGTGTCCTG
Found at i:82864576 original size:14 final size:14
Alignment explanation
Indices: 82864557--82864592 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
82864547 AGTTGATTTT
82864557 TTTGAAAAGCAAAA
1 TTTGAAAAGCAAAA
*
82864571 TTTGAAAAGCAGAA
1 TTTGAAAAGCAAAA
82864585 TTTGAAAA
1 TTTGAAAA
82864593 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (14 bp):
TTTGAAAAGCAAAA
Found at i:82864643 original size:265 final size:262
Alignment explanation
Indices: 82864082--82864816 Score: 1007
Period size: 265 Copynumber: 2.8 Consensus size: 262
82864072 ACGTGAGCCA
* * ** *
82864082 AGGCTCAACTCATTTCTCGCAATATGAGTTG-GTTTTTTG-AAA-CTTAATTTGAAAAGAAGATT
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGAAGAAT
* *
82864144 TTGAAAATACCTC-GATATGTGACCC-GAGGCTCAACTCACCTCTCGCAATAGGAGTTGATTTTT
66 TTGAAAATACCTCAG-CA--TG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
82864207 GAAAAATATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACC
127 G-AAAA-ATAAATTG-AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
* * *
82864272 TCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAACTTGAAAAACGGAAATTGAAACTACCTCAG
189 TCTCGCAATATGAGTTGATTTTTTGAAAAGCAAAACTTGAAAAACAGAAATTGAAAATACCTCAG
82864336 CGTGTCCTG
254 CGTGTCCTG
* * *
82864345 AGACTCAACTCATCTCTTGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGCAGAAT
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGAAGAAT
*
82864410 TTGAAAATACCTCAGCATGCCCTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAA
66 TTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
** *
82864475 AGCATAAATTGAAAAATGGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCG
131 A--ATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* * *
82864540 CAATATGAGTTGATTTTTTTGAAAAGCAAAATTTGAAAAGCAGAATTTGAAAATACCTCAGCGTG
194 CAATATGAGTTGA-TTTTTTGAAAAGCAAAACTTGAAAAACAGAAATTGAAAATACCTCAGCGTG
82864605 TCCTG
258 TCCTG
* * *
82864610 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGAAGAAA
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGAAGAAT
* * *
82864675 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGA--TTT----
66 TTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
82864734 -AT---TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
131 AATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
82864795 ATATGAGTTGATTTTTTGAAAA
196 ATATGAGTTGATTTTTTGAAAA
82864817 ATAGAAATAA
Statistics
Matches: 427, Mismatches: 37, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
252 11 0.03
253 65 0.15
256 2 0.00
263 101 0.24
264 54 0.13
265 163 0.38
266 30 0.07
267 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (262 bp):
AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGAAGAAT
TTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
AATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTGAAAAGCAAAACTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCC
TG
Found at i:82864665 original size:14 final size:14
Alignment explanation
Indices: 82864646--82864681 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
82864636 AGTTGATTTT
*
82864646 TTTGAAAAGCAGAA
1 TTTGAAAAGAAGAA
82864660 TTTGAAAAGAAGAA
1 TTTGAAAAGAAGAA
*
82864674 ATTGAAAA
1 TTTGAAAA
82864682 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.19, T:0.22
Consensus pattern (14 bp):
TTTGAAAAGAAGAA
Found at i:82864738 original size:75 final size:75
Alignment explanation
Indices: 82864659--82864829 Score: 276
Period size: 75 Copynumber: 2.3 Consensus size: 75
82864649 GAAAAGCAGA
* *
82864659 ATTTGAAAAGA-AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATA
1 ATTTGAAAA-ACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCGCAATA
82864723 TGAGTTGATTT
65 TGAGTTGATTT
*
82864734 ATTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
1 ATTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCGCAATAT
82864799 GAGTTGATTT
66 GAGTTGATTT
*
82864809 -TTTGAAAAATAGAAA-TAAAAA
1 ATTTGAAAAACAGAAATTAAAAA
82864830 CATTAGAATA
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
73 6 0.07
74 15 0.16
75 70 0.77
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (75 bp):
ATTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCGCAATAT
GAGTTGATTT
Found at i:82876930 original size:27 final size:29
Alignment explanation
Indices: 82876900--82876967 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 29
82876890 TAATGTTACC
*
82876900 TATATACATACGTAT-ATA-TATTATAAA-
1 TATATACATA-GTATAATAGTATTACAAAG
*
82876927 TATAAACAT-G-ATAATAGTATTACAAAG
1 TATATACATAGTATAATAGTATTACAAAG
82876954 TATATACATAGTAT
1 TATATACATAGTAT
82876968 GATGTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.06
25 4 0.12
26 8 0.24
27 16 0.48
28 1 0.03
29 2 0.06
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (29 bp):
TATATACATAGTATAATAGTATTACAAAG
Found at i:82877336 original size:22 final size:23
Alignment explanation
Indices: 82877262--82877350 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 23
82877252 AACAATAAGG
* *
82877262 ATAATATAAAAAATACATACATGAA
1 ATAATAT--AAAATATATATATGAA
*
82877287 ATAGTATAAAATATATATAT-AA
1 ATAATATAAAATATATATATGAA
* *
82877309 CTAATAATATACATATATATATGAA
1 ATAAT-ATA-AAATATATATATGAA
*
82877334 ATAACAATAAAATATAT
1 ATAA-TATAAAATATAT
82877351 GAATAGTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
22 5 0.10
23 14 0.27
24 18 0.35
25 14 0.27
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (23 bp):
ATAATATAAAATATATATATGAA
Found at i:82877439 original size:16 final size:15
Alignment explanation
Indices: 82877398--82877472 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 15
82877388 TTATTTAAAA
82877398 AAAAATAT-ATATA-
1 AAAAATATAATATAG
* *
82877411 ATACAATAAAATATACG
1 A-AAAATATAATATA-G
*
82877428 AATAATATAATATA-
1 AAAAATATAATATAG
82877442 AAAAATACATAATATATG
1 AAAAAT--ATAATATA-G
82877460 AAAAATATAATAT
1 AAAAATATAATAT
82877473 TTTTTTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 5 0.10
16 26 0.53
17 1 0.02
18 6 0.12
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAAATATAATATAG
Found at i:82877453 original size:21 final size:21
Alignment explanation
Indices: 82877375--82877457 Score: 60
Period size: 23 Copynumber: 3.6 Consensus size: 21
82877365 TTACAAATAT
82877375 ATACATAATATAATTATTTAAAAA
1 ATACATAATATAA-TA--TAAAAA
* *
82877399 A-AAATATATATAATACAATAAAAT
1 ATACATA-ATATAAT---ATAAAAA
82877423 ATACGAATAATATAATATAAAAA
1 ATAC--ATAATATAATATAAAAA
82877446 ATACATAATATA
1 ATACATAATATA
82877458 TGAAAAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
21 8 0.17
23 15 0.31
24 13 0.27
25 1 0.02
26 8 0.17
27 3 0.06
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (21 bp):
ATACATAATATAATATAAAAA
Found at i:82877467 original size:32 final size:31
Alignment explanation
Indices: 82877398--82877472 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
82877388 TTATTTAAAA
*
82877398 AAAAATAT-ATATAATACAATAAAATATACG
1 AAAAATATAATATAATAAAATAAAATATACG
* *
82877428 AATAATATAATATAA-AAAATACATAATATATG
1 AAAAATATAATATAATAAAATA-A-AATATACG
82877460 AAAAATATAATAT
1 AAAAATATAATAT
82877473 TTTTTTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.32
31 7 0.18
32 19 0.50
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (31 bp):
AAAAATATAATATAATAAAATAAAATATACG
Found at i:82877511 original size:6 final size:6
Alignment explanation
Indices: 82877502--82877537 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
82877492 TAAGAATATT
82877502 AAAATAA AAAATA AAAATA AAAATAA AAAATA AAAA
1 AAAAT-A AAAATA AAAATA AAAAT-A AAAATA AAAA
82877538 ATAATGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.61
7 11 0.39
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:82877514 original size:7 final size:7
Alignment explanation
Indices: 82877502--82877541 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
82877492 TAAGAATATT
82877502 AAAATAA
1 AAAATAA
82877509 AAAAT-A
1 AAAATAA
82877515 AAAAT-A
1 AAAATAA
82877521 AAAATAA
1 AAAATAA
82877528 AAAATAA
1 AAAATAA
82877535 AAAATAA
1 AAAATAA
82877542 TGAAGAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.38
7 20 0.62
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:82877518 original size:13 final size:13
Alignment explanation
Indices: 82877502--82877541 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
82877492 TAAGAATATT
82877502 AAAATAAAAAATA
1 AAAATAAAAAATA
82877515 AAAAT-AAAAATAA
1 AAAATAAAAAAT-A
82877528 AAAATAAAAAATA
1 AAAATAAAAAATA
82877541 A
1 A
82877542 TGAAGAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 13 0.52
14 6 0.24
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:82878010 original size:16 final size:16
Alignment explanation
Indices: 82877980--82878036 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
82877970 TATTATATAT
82877980 AATAATAAT-ACTAGA
1 AATAATAATAACTAGA
82877995 AATAATAATAACTAGA
1 AATAATAATAACTAGA
*
82878011 AATAATAATACATTA-A
1 AATAATAATA-ACTAGA
82878027 AATAATAATA
1 AATAATAATA
82878037 TTTAATAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
15 9 0.23
16 27 0.69
17 3 0.08
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (16 bp):
AATAATAATAACTAGA
Found at i:82878113 original size:3 final size:3
Alignment explanation
Indices: 82877978--82878097 Score: 68
Period size: 3 Copynumber: 39.0 Consensus size: 3
82877968 AATATTATAT
*
82877978 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GA-A ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA -ATA ATA ATA ATA -A-TA
* ** * * *
82878026 A-A ATA ATA ATA TTTA ATA ACC AGA ATA TTA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
82878071 ATA ATA GA-A ATA ATA GTA TTA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA
82878098 TTAGGAATGA
Statistics
Matches: 90, Mismatches: 16, Indels: 22
0.70 0.12 0.17
Matches are distributed among these distances:
2 5 0.06
3 75 0.83
4 7 0.08
5 3 0.03
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:82882463 original size:13 final size:13
Alignment explanation
Indices: 82882445--82882469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82882435 TGTTTCCATT
82882445 TTTAAAATTTTTA
1 TTTAAAATTTTTA
82882458 TTTAAAATTTTT
1 TTTAAAATTTTT
82882470 GGATTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAAATTTTTA
Found at i:82882517 original size:17 final size:17
Alignment explanation
Indices: 82882495--82882528 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
82882485 AAATTCAAAT
82882495 TATTATATATAA-AATAA
1 TATTATAT-TAATAATAA
82882512 TATTATATTAATAATAA
1 TATTATATTAATAATAA
82882529 AAAATTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATTATATTAATAATAA
Found at i:82888677 original size:10 final size:10
Alignment explanation
Indices: 82888643--82888696 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
82888633 AATAATTATG
82888643 AAAATATCATA
1 AAAATAT-ATA
82888654 AAAA-ATATA
1 AAAATATATA
*
82888663 AAAATATTTA
1 AAAATATATA
82888673 AAAATGAT-TA
1 AAAAT-ATATA
*
82888683 AGAAT-TATA
1 AAAATATATA
82888692 AAAAT
1 AAAAT
82888697 TTTTACTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.03
9 13 0.35
10 17 0.46
11 6 0.16
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
AAAATATATA
Found at i:82890611 original size:3 final size:3
Alignment explanation
Indices: 82890603--82890633 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
82890593 CTTCGACTCC
82890603 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
82890634 TATTTTCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:82891410 original size:78 final size:78
Alignment explanation
Indices: 82891324--82891480 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
82891314 TGCATTTGTC
82891324 TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
1 TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
82891389 TATAACTTTAAAA
66 TATAACTTTAAAA
82891402 TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
1 TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
82891467 TATAACTTTAAAA
66 TATAACTTTAAAA
82891480 T
1 T
82891481 AATTCAATGG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (78 bp):
TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
TATAACTTTAAAA
Found at i:82895364 original size:22 final size:22
Alignment explanation
Indices: 82895278--82895365 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
82895268 CTCACCACAA
82895278 CTCATATGAGCTTACCGTTTCAG
1 CTCATATGAGCTTACCGTTT-AG
* * *
82895301 CTCTTATGAGCTTACTGTTCAG
1 CTCATATGAGCTTACCGTTTAG
* *
82895323 CTCCTAGGAGCTTACCGTTTAG
1 CTCATATGAGCTTACCGTTTAG
*
82895345 CTCA-ATTGAGCTTACTGTTTA
1 CTCATA-TGAGCTTACCGTTTA
82895366 TCAGCTCAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 1 0.02
22 36 0.67
23 17 0.31
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (22 bp):
CTCATATGAGCTTACCGTTTAG
Found at i:82895564 original size:16 final size:16
Alignment explanation
Indices: 82895543--82895577 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
82895533 ATAAAATACC
82895543 TTACATGAAATACATG
1 TTACATGAAATACATG
* *
82895559 TTACATGAATTATATG
1 TTACATGAAATACATG
82895575 TTA
1 TTA
82895578 TAAGAGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (16 bp):
TTACATGAAATACATG
Found at i:82896967 original size:45 final size:45
Alignment explanation
Indices: 82896908--82897015 Score: 180
Period size: 45 Copynumber: 2.4 Consensus size: 45
82896898 CACCAGTATA
*
82896908 CAGTAATCAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAGT
1 CAGTAA-CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
* *
82896954 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
82896999 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
82897016 GTCGGCACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 53 0.91
46 5 0.09
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
Found at i:82897039 original size:38 final size:39
Alignment explanation
Indices: 82896912--82897042 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 39
82896902 AGTATACAGT
* *
82896912 AATCAGTAACAGTAACAGTATTCAACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
* *
82896951 AGTCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 A------ATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
* *
82896996 AATCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG
1 AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCC-G
82897035 -ATCAGTAA
1 AATCAGTAA
82897043 GCCAGCAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
38 15 0.19
39 27 0.34
45 37 0.47
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
Found at i:82897303 original size:39 final size:40
Alignment explanation
Indices: 82897217--82897304 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
82897207 AATTCTTTAC
* *
82897217 TTCAGTAATTTCACAATTCAATGCATTATGCATAACAATA
1 TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
*
82897257 TTCAGTATTTTCACAATTCACT-CAGTAAT-CA-AGACAATA
1 TTCAGTATTTTCACAATTCAATGCA-TAATGCATA-ACAATA
82897296 TTCAGTATT
1 TTCAGTATT
82897305 CCATAATTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 19 0.44
40 23 0.53
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (40 bp):
TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
Found at i:82898041 original size:11 final size:11
Alignment explanation
Indices: 82898025--82898050 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
82898015 CTTTTTCTTC
82898025 TTTCTCCCCTG
1 TTTCTCCCCTG
82898036 TTTCTCCCCTG
1 TTTCTCCCCTG
82898047 TTTC
1 TTTC
82898051 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:82900966 original size:12 final size:12
Alignment explanation
Indices: 82900951--82900981 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
82900941 TTCTCTTTTA
82900951 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
82900963 TTTTTCTTTCTC
1 TTTTTCTTTCCC
82900975 TTTTTCT
1 TTTTTCT
82900982 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:82908565 original size:12 final size:12
Alignment explanation
Indices: 82908550--82908580 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
82908540 TTCTCTTTTA
82908550 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
82908562 TTTTTCTTTCTC
1 TTTTTCTTTCCC
82908574 TTTTTCT
1 TTTTTCT
82908581 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:82912835 original size:40 final size:39
Alignment explanation
Indices: 82912710--82912846 Score: 121
Period size: 35 Copynumber: 3.7 Consensus size: 39
82912700 GGTTTTCCTC
* * * *
82912710 ATTGA-AATACCATACCTACGTTTTACAACTCGGCATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
* * **
82912748 ---GA-AATGCCATACCTACGTTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
*
82912783 ATTTGATAATACCATACCTACATTTCACAACTTAGTATGG
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGG
82912823 A-TG---ATACCATACCTACATTTCACA
1 ATTGATAATACCATACCTACATTTCACA
82912847 CTTTGCCATG
Statistics
Matches: 83, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
35 50 0.60
38 2 0.02
39 2 0.02
40 29 0.35
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:82914644 original size:20 final size:21
Alignment explanation
Indices: 82914611--82914649 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
82914601 TACTTTGAAA
* *
82914611 ATGTATATATTAG-AGTTGGC
1 ATGTATAGACTAGAAGTTGGC
82914631 ATGTATAGACTAGAAGTTG
1 ATGTATAGACTAGAAGTTG
82914650 TGGGATTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (21 bp):
ATGTATAGACTAGAAGTTGGC
Found at i:82917287 original size:23 final size:22
Alignment explanation
Indices: 82917245--82917289 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
82917235 AAAAATAGTG
82917245 AAAATTGAGTTAGAAGATTAAT
1 AAAATTGAGTTAGAAGATTAAT
*
82917267 AAAATATGAGATTA-AATATTAAT
1 AAAAT-TGAG-TTAGAAGATTAAT
82917290 GAGTCTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 12 0.60
24 3 0.15
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (22 bp):
AAAATTGAGTTAGAAGATTAAT
Found at i:82923498 original size:256 final size:256
Alignment explanation
Indices: 82923043--82923812 Score: 1378
Period size: 256 Copynumber: 3.0 Consensus size: 256
82923033 TTTGAAAGCA
*
82923043 AGACTTTTGTTCTTATAGCAGATTATCGAAGCTCAGAAGATTGATAATGAGATTTTAGCTAAAAG
1 AGACTTTTGTTCTTATAACAGATTATCGAAGCTCAGAAGATTGATAATGAGATTTTAGCTAAAAG
82923108 AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
66 AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
* *
82923173 GAGATCGAATTTGTGTTTCGAGAAATTCAGATTTAATTTAGATGATTTTGAGTAAAGCTCACAAT
131 GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
82923238 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAGCATTACT
196 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAGCATTACT
*
82923299 AGACTTTTGTTCTTACAACAGATTATCGAAGCTCAGAAGATTGATAATGAGATTTTAGCTAAAAG
1 AGACTTTTGTTCTTATAACAGATTATCGAAGCTCAGAAGATTGATAATGAGATTTTAGCTAAAAG
*
82923364 AGCTTTGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
66 AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
82923429 GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
131 GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
*
82923494 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAACATTACT
196 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAGCATTACT
* *
82923555 AGACTTTTGTTCCTATAACAGATTATCGAAGTTCAGAAGATTGATAATGAGATTTTAGCTAAAAG
1 AGACTTTTGTTCTTATAACAGATTATCGAAGCTCAGAAGATTGATAATGAGATTTTAGCTAAAAG
*
82923620 AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTTC
66 AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
* *
82923685 GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTTACAAC
131 GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
* * * ** * *
82923750 AGTCGGTTATGTGTGCATCCGGGTAGTACAAAAATTTATAATAATCTGAAACAGCATTACT
196 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAGCATTACT
82923811 AG
1 AG
82923813 TGGTCTGGAA
Statistics
Matches: 493, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
256 493 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (256 bp):
AGACTTTTGTTCTTATAACAGATTATCGAAGCTCAGAAGATTGATAATGAGATTTTAGCTAAAAG
AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAGCATTACT
Found at i:82925474 original size:20 final size:20
Alignment explanation
Indices: 82925449--82925488 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
82925439 ATTTGAAAAG
82925449 AAGAAAGCCAAAGGCTAGGT
1 AAGAAAGCCAAAGGCTAGGT
*
82925469 AAGAAAGCTAAAGGCTAGGT
1 AAGAAAGCCAAAGGCTAGGT
82925489 TTTCATTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.30, T:0.12
Consensus pattern (20 bp):
AAGAAAGCCAAAGGCTAGGT
Found at i:82933918 original size:23 final size:23
Alignment explanation
Indices: 82933883--82933946 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
82933873 CAGCTCGTAT
*
82933883 GAGCTTA-CTGTTTCAGTCTTTA-G
1 GAGCTTATC-GTTTCAG-CTCTACG
*
82933906 GGGCTTATCGTTTCAGCTCTACG
1 GAGCTTATCGTTTCAGCTCTACG
82933929 GAGCTTATCG-TTCAGCTC
1 GAGCTTATCGTTTCAGCTC
82933947 AATTGAGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.33
23 23 0.64
24 1 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (23 bp):
GAGCTTATCGTTTCAGCTCTACG
Found at i:82933954 original size:22 final size:22
Alignment explanation
Indices: 82933908--82933962 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
82933898 GTCTTTAGGG
*
82933908 GCTTATCGTTTCAGCTCTACGGA
1 GCTTATCG-TTCAGCTCAACGGA
**
82933931 GCTTATCGTTCAGCTCAATTGA
1 GCTTATCGTTCAGCTCAACGGA
*
82933953 GCTTACCGTT
1 GCTTATCGTT
82933963 TATCGGCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (22 bp):
GCTTATCGTTCAGCTCAACGGA
Found at i:82938758 original size:4 final size:4
Alignment explanation
Indices: 82938749--82938784 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
82938739 TTCATGAAAT
* *
82938749 TTTA TTTA TTTA TTTA TATA TTTA TTTA TTTC TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
82938785 CTCTTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:82945528 original size:176 final size:176
Alignment explanation
Indices: 82945121--82945903 Score: 1147
Period size: 176 Copynumber: 4.4 Consensus size: 176
82945111 AATAACTTAG
* * * * * * * *
82945121 ATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTCAACCTGCTCCATAGCCAATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
* * * * *
82945186 ATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTATCT
66 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTGTATCT
* * * *
82945251 TCAACTTGCTCCACTGC-AACTTCAGAGAGATAAGGCTGGTGGCTAAA
131 TCAACCTGCT-CTCTGCAAAC-TCAGAGAGATAAGGTTAGTGGCTAAA
* * *
82945298 ATCTACTCCATAGTCGATACGTGGAGATAAGACTTGCCATCTTCGATCTGCTCCATAACCGATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
* *
82945363 ATGGAGATAAAACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGTATCT
66 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTGTATCT
*
82945428 TCAACCTGCTCTCTGCAAACTTAGAGAGATAAGGTTAGTGGCTAAA
131 TCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
* *
82945474 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCAATCTGCTCCATAACCGAAAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
* * * * * *
82945539 ATGGAGATAAGACCTTTAACTTTCATTCTACTTTCTGCAACTTTAGGAAGATAAGACCTGTATCT
66 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTGTATCT
82945604 TCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
131 TCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
* * * *
82945650 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTTCGATCTGCTCCGTAACCGATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
*
82945715 ATGGAGATAAGACCTGTAATTTTCAGTCTGCTTCCTGCAACTTC-AGAAAGATAAGACCTGTATC
66 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAG-AAGATAAGACCTGTATC
82945779 TTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
130 TTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
* * * * **
82945826 ATCTACTCCATAGTCGATACATGAAGATAAGACTCGCCATTTTCGATTTGCTCCATAGTCGATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
82945891 ATGGAGATAAGAC
66 ATGGAGATAAGAC
82945904 TCAATTTTCA
Statistics
Matches: 548, Mismatches: 56, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
175 1 0.00
176 421 0.77
177 126 0.23
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (176 bp):
ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTGTATCT
TCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
Found at i:82945804 original size:43 final size:44
Alignment explanation
Indices: 82945719--82945812 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 44
82945709 CGATACATGG
* **
82945719 AGATAAGACCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGAA
1 AGATAAGACCTGTAATCTTCAACCTGCTTCCTGCAACTTCAGAA
*
82945763 AGATAAGACCTGT-ATCTTCAACCTGC-TCTCTGCAAAC-TCAGAG
1 AGATAAGACCTGTAATCTTCAACCTGCTTC-CTGC-AACTTCAGAA
82945806 AGATAAG
1 AGATAAG
82945813 GTTAGTGGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 2 0.05
43 26 0.59
44 16 0.36
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
AGATAAGACCTGTAATCTTCAACCTGCTTCCTGCAACTTCAGAA
Found at i:82957108 original size:21 final size:20
Alignment explanation
Indices: 82957058--82957108 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
82957048 CAGATCACCT
**
82957058 TAAAAATTTGATCATTTTAA
1 TAAAAATTTGATCATTAAAA
*
82957078 TAAAACATTTGATTTATTAAAA
1 TAAAA-ATTTGA-TCATTAAAA
82957100 TAAAAATTT
1 TAAAAATTT
82957109 TAGGTCTACG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 11 0.42
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (20 bp):
TAAAAATTTGATCATTAAAA
Found at i:82959479 original size:6 final size:6
Alignment explanation
Indices: 82959468--82959523 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
82959458 CAAAATAGAC
* *
82959468 ATAAAA ATAAAA ATAAAAA TATAAGAA GATAAAA ATAAAC ATAAAC ATAAAA
1 ATAAAA ATAAAA AT-AAAA -ATAA-AA -ATAAAA ATAAAA ATAAAA ATAAAA
82959520 ATAA
1 ATAA
82959524 TCAGACTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
6 28 0.64
7 8 0.18
8 8 0.18
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:82960794 original size:17 final size:17
Alignment explanation
Indices: 82960772--82960830 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
82960762 AAGCAAATAT
82960772 TAAAATAGACAAACCAA
1 TAAAATAGACAAACCAA
*** * *
82960789 TAAAATAGATTCA-TAT
1 TAAAATAGACAAACCAA
*
82960805 TAAAATAGCCAAACCAA
1 TAAAATAGACAAACCAA
82960822 TAAAATAGA
1 TAAAATAGA
82960831 TGCATTCTTA
Statistics
Matches: 29, Mismatches: 12, Indels: 2
0.67 0.28 0.05
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.20
Consensus pattern (17 bp):
TAAAATAGACAAACCAA
Found at i:82960805 original size:33 final size:33
Alignment explanation
Indices: 82960768--82960831 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
82960758 AAGCAAGCAA
82960768 ATATTAAAATAGACAAACCAATAAAATAGATTC
1 ATATTAAAATAGACAAACCAATAAAATAGATTC
*
82960801 ATATTAAAATAGCCAAACCAATAAAATAGAT
1 ATATTAAAATAGACAAACCAATAAAATAGAT
82960832 GCATTCTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.23
Consensus pattern (33 bp):
ATATTAAAATAGACAAACCAATAAAATAGATTC
Found at i:82965156 original size:12 final size:12
Alignment explanation
Indices: 82965139--82965163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82965129 CTAAAAGTAC
82965139 TAGTATTAACTA
1 TAGTATTAACTA
82965151 TAGTATTAACTA
1 TAGTATTAACTA
82965163 T
1 T
82965164 CTTTTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TAGTATTAACTA
Found at i:82967123 original size:20 final size:20
Alignment explanation
Indices: 82967098--82967142 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
82967088 GCCTGACGGA
*
82967098 GGGATATATGTCATAACTAT
1 GGGATATATGTCAGAACTAT
*
82967118 GGGATATATGTTAGAACTAT
1 GGGATATATGTCAGAACTAT
82967138 GGGAT
1 GGGAT
82967143 TTCACTCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (20 bp):
GGGATATATGTCAGAACTAT
Found at i:82984316 original size:46 final size:46
Alignment explanation
Indices: 82984172--82984341 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
82984162 TGTGTGCTAA
* *
82984172 TGTAAGACATGTCTGGGACATGCATCGACTAC-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACTTCGA-GATGAGAGCCAG
* * *
82984218 TGTAAGACCATGTTTGGGACATGGCATCGACATT-GAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGAC-TTCGAGATGAGAGCCAG
* **
82984266 TGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGTCAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACTTCGAGATGAGAGCCAG
* * *
82984312 TGTAAAATATGTCAGGGACATGCATCGACT
1 TGTAAGACATGTCTGGGACATGCATCGACT
82984342 ACAAGATGTG
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
45 2 0.02
46 50 0.48
47 26 0.25
48 24 0.23
49 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGACTTCGAGATGAGAGCCAG
Found at i:82985733 original size:44 final size:44
Alignment explanation
Indices: 82985670--82985767 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
82985660 GTCATTGTAG
** * * * *
82985670 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGGAGCTA
1 CAAATCTTATCTAACTGAAGTTGCAGTAGAGCAAACTGAAGCAA
* *
82985714 CAAATCTTATCTAATTGAAGTTGCAGTAGAGCAGACTGAAGCAA
1 CAAATCTTATCTAACTGAAGTTGCAGTAGAGCAAACTGAAGCAA
82985758 CAAATCTTAT
1 CAAATCTTAT
82985768 ACCTCCAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTAACTGAAGTTGCAGTAGAGCAAACTGAAGCAA
Found at i:82987467 original size:4 final size:4
Alignment explanation
Indices: 82987458--82987492 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
82987448 TCATGAAATT
* *
82987458 TTTA TTTA TTTA TTTA TATA TTTA TTTA TATA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
82987493 GCTCTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:82987479 original size:12 final size:12
Alignment explanation
Indices: 82987458--82987492 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
82987448 TCATGAAATT
*
82987458 TTTATTTATTTA
1 TTTATATATTTA
82987470 TTTATATATTTA
1 TTTATATATTTA
82987482 TTTATATATTT
1 TTTATATATTT
82987493 GCTCTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATATATTTA
Found at i:82989763 original size:27 final size:27
Alignment explanation
Indices: 82989721--82989773 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
82989711 TATAAAGTAG
*
82989721 GAATGTTTCATTAGGTGCCTAAGAAGA
1 GAATGTTTCATCAGGTGCCTAAGAAGA
82989748 GAATGTTTCATCAGGTGCCTAAGAAG
1 GAATGTTTCATCAGGTGCCTAAGAAG
82989774 GTGAACCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (27 bp):
GAATGTTTCATCAGGTGCCTAAGAAGA
Found at i:82991631 original size:42 final size:42
Alignment explanation
Indices: 82991584--82991674 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
82991574 TGCTTCCACA
82991584 TTGCTTCCTTTTTTGTCTCAACCTGGATGTTGTTTTCCCAAG
1 TTGCTTCCTTTTTTGTCTCAACCTGGATGTTGTTTTCCCAAG
* *
82991626 TTGCTTCCTTTTTTGTCTGAACCTGGATGTTGTTTTCCCATG
1 TTGCTTCCTTTTTTGTCTCAACCTGGATGTTGTTTTCCCAAG
82991668 TTGCTTC
1 TTGCTTC
82991675 ATTGGTTTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.10, C:0.23, G:0.18, T:0.49
Consensus pattern (42 bp):
TTGCTTCCTTTTTTGTCTCAACCTGGATGTTGTTTTCCCAAG
Found at i:82996410 original size:6 final size:6
Alignment explanation
Indices: 82996401--82996450 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
82996391 ATTTTACTTT
*
82996401 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTCTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
82996448 TTT
1 TTT
82996451 AAAATTCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 4 0.10
6 37 0.90
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:83002006 original size:67 final size:67
Alignment explanation
Indices: 83001922--83002048 Score: 209
Period size: 67 Copynumber: 1.9 Consensus size: 67
83001912 AGACCTTTTC
* ** *
83001922 AGAGAGCATACTCCCGCGAACCTCATTTCTTACAGTAGGATTATCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACAGGATTACCAGTCCAGGCTAAATCCCCTA
83001987 TA
66 TA
*
83001989 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATC
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACAGGATTACCAGTCCAGGCTAAATC
83002049 TCCTGTAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACAGGATTACCAGTCCAGGCTAAATCCCCTA
TA
Found at i:83006660 original size:41 final size:39
Alignment explanation
Indices: 83006615--83006750 Score: 100
Period size: 40 Copynumber: 3.5 Consensus size: 39
83006605 CGAGTTTGAG
83006615 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTAAT
* * *
83006656 TCGATG-GTGCACTGGGTGCCAATT-TACTTCGGTTTAA-
1 TCGATGAG-ACACTGGGTGTCAATTATACTTCGGATTAAT
* * * ** * *
83006693 CCAATAAGACACTATGTGTAAAATTATTACTTCGAATT-AT
1 TCGATGAGACACTGGGTGT-CAATTA-TACTTCGGATTAAT
*
83006733 TCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
83006751 CTAAACTGGT
Statistics
Matches: 70, Mismatches: 19, Indels: 13
0.69 0.19 0.13
Matches are distributed among these distances:
37 10 0.14
38 17 0.24
39 1 0.01
40 24 0.34
41 18 0.26
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTATACTTCGGATTAAT
Found at i:83006900 original size:53 final size:53
Alignment explanation
Indices: 83006842--83006949 Score: 173
Period size: 53 Copynumber: 2.0 Consensus size: 53
83006832 AAAGTTCTAT
* *
83006842 AATTGATATTTAAATGGCATGTTATGAGAAAT-GAAAGTGAAATAGTGAATTGA
1 AATTGATATTGAAATGGCATGGTATGAGAAATAG-AAGTGAAATAGTGAATTGA
*
83006895 AATTGATATTGAAATGGCATGGTATGAGAAATAGAAGTGATATAGTGAATTGA
1 AATTGATATTGAAATGGCATGGTATGAGAAATAGAAGTGAAATAGTGAATTGA
83006948 AA
1 AA
83006950 ATAGAATGTG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 50 0.98
54 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.31
Consensus pattern (53 bp):
AATTGATATTGAAATGGCATGGTATGAGAAATAGAAGTGAAATAGTGAATTGA
Found at i:83007052 original size:16 final size:16
Alignment explanation
Indices: 83007001--83007056 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
83006991 TTATATACTC
*
83007001 ATGAATTGAGTATGGT
1 ATGAATTGAGTATTGT
* *
83007017 ATGAAATGATGTATT-C
1 ATGAATTGA-GTATTGT
83007033 ATGAATTGAGTATTGT
1 ATGAATTGAGTATTGT
83007049 ATG-ATTGA
1 ATGAATTGA
83007057 TGCCATTGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 10 0.30
16 19 0.58
17 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (16 bp):
ATGAATTGAGTATTGT
Found at i:83007401 original size:31 final size:31
Alignment explanation
Indices: 83007365--83007429 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
83007355 TGCCAAGAGA
83007365 GTATGTTTCAAAATTTTGAATAAAATGGCAT
1 GTATGTTTCAAAATTTTGAATAAAATGGCAT
**
83007396 GTATGTTTCAAAATTTTGAATAGGATGGCAT
1 GTATGTTTCAAAATTTTGAATAAAATGGCAT
83007427 GTA
1 GTA
83007430 CTTAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (31 bp):
GTATGTTTCAAAATTTTGAATAAAATGGCAT
Found at i:83007832 original size:22 final size:22
Alignment explanation
Indices: 83007804--83007851 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
83007794 AATAACATAG
*
83007804 TTTTAATAAATGCAAAAA-AATC
1 TTTTAATAAATG-AAAAACAATA
83007826 TTTTAATAAATGAAAAACAATA
1 TTTTAATAAATGAAAAACAATA
83007848 TTTT
1 TTTT
83007852 GAACTGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (22 bp):
TTTTAATAAATGAAAAACAATA
Found at i:83018485 original size:16 final size:16
Alignment explanation
Indices: 83018461--83018491 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83018451 AATATAAGCT
*
83018461 ATCTTATCACATAATA
1 ATCTAATCACATAATA
83018477 ATCTAATCACATAAT
1 ATCTAATCACATAAT
83018492 GCAACTTAAT
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:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCTAATCACATAATA
Found at i:83028026 original size:24 final size:24
Alignment explanation
Indices: 83027994--83028045 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
83027984 TATTTTAGAC
* * *
83027994 TTTTTTATTAATGATTTTAAATTG
1 TTTTATATTAATCACTTTAAATTG
*
83028018 TTTTATATTATTCACTTTAAATTG
1 TTTTATATTAATCACTTTAAATTG
83028042 TTTT
1 TTTT
83028046 CTATAATATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTTATATTAATCACTTTAAATTG
Found at i:83028062 original size:26 final size:24
Alignment explanation
Indices: 83028007--83028064 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
83027997 TTTATTAATG
*
83028007 ATTTTAAATTGTTTTATATTATTC
1 ATTTTAAATTGTTTTATATAATTC
* *
83028031 ACTTTAAATTGTTTTCTATAATATC
1 ATTTTAAATTGTTTTATATAAT-TC
83028056 TATTTTAAA
1 -ATTTTAAA
83028065 CCTATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 19 0.68
25 2 0.07
26 7 0.25
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (24 bp):
ATTTTAAATTGTTTTATATAATTC
Found at i:83028110 original size:22 final size:24
Alignment explanation
Indices: 83028084--83028135 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
83028074 TATGTATTAC
*
83028084 TTATTTAAAATTGTTTCA-G-TAT
1 TTATTTAAAATAGTTTCATGTTAT
* *
83028106 TTATTTTAAATAGTTTTATGTTAT
1 TTATTTAAAATAGTTTCATGTTAT
83028130 TTATTT
1 TTATTT
83028136 CATTCTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 15 0.60
23 1 0.04
24 9 0.36
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.62
Consensus pattern (24 bp):
TTATTTAAAATAGTTTCATGTTAT
Found at i:83035892 original size:10 final size:10
Alignment explanation
Indices: 83035877--83035933 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
83035867 GTCCTCTTAT
83035877 TCAAATTCTC
1 TCAAATTCTC
83035887 TCAAATTCT-
1 TCAAATTCTC
83035896 TCCAAAAATTCTC
1 T-C--AAATTCTC
*
83035909 TCATATTCTC
1 TCAAATTCTC
* *
83035919 GCAAATTTTC
1 TCAAATTCTC
83035929 TCAAA
1 TCAAA
83035934 GCTCTCTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 1 0.03
10 28 0.74
12 8 0.21
13 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:83035924 original size:20 final size:20
Alignment explanation
Indices: 83035878--83035933 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
83035868 TCCTCTTATT
83035878 CAAATTCTCTCAAATTCTTC
1 CAAATTCTCTCAAATTCTTC
*
83035898 CAAAAATTCTCTCATATTC-TC
1 C--AAATTCTCTCAAATTCTTC
*
83035919 GCAAATTTTCTCAAA
1 -CAAATTCTCTCAAA
83035934 GCTCTCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 12 0.40
21 2 0.07
22 16 0.53
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (20 bp):
CAAATTCTCTCAAATTCTTC
Found at i:83036152 original size:48 final size:49
Alignment explanation
Indices: 83036090--83036182 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
83036080 AATTTTAATA
**
83036090 TTTCAATAGTATTTAATA-TTTTTTTAATTTATGCAATTTTAATTCATT
1 TTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAATTCATT
*
83036138 TTTCAATACAATTTAATATTTTTTTTCATTTATGCAATTTTAATT
1 TTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAATT
83036183 TTAATTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 16 0.39
49 25 0.61
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (49 bp):
TTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAATTCATT
Found at i:83037087 original size:7 final size:7
Alignment explanation
Indices: 83037075--83037115 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
83037065 TAATCGTTTT
83037075 GTATTTA
1 GTATTTA
83037082 GTATTTTA
1 GTA-TTTA
*
83037090 ATATTTA
1 GTATTTA
83037097 GTATTTA
1 GTATTTA
83037104 GTATTTA
1 GTATTTA
83037111 GTATT
1 GTATT
83037116 ATGTATACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:83037622 original size:30 final size:30
Alignment explanation
Indices: 83037583--83037651 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
83037573 GGATAATGAC
*
83037583 CTGGGCCCATCAACAATGCCCATACAATCA
1 CTGGGCCCATCAACAATGCCCACACAATCA
* * *
83037613 GCT-GGCCCATCAATAGTGCCCACACAGTCA
1 -CTGGGCCCATCAACAATGCCCACACAATCA
83037643 CTGGGCCCA
1 CTGGGCCCA
83037652 ACACTTCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.06
30 29 0.88
31 2 0.06
ACGTcount: A:0.28, C:0.38, G:0.19, T:0.16
Consensus pattern (30 bp):
CTGGGCCCATCAACAATGCCCACACAATCA
Found at i:83038223 original size:54 final size:55
Alignment explanation
Indices: 83038160--83038296 Score: 213
Period size: 54 Copynumber: 2.5 Consensus size: 55
83038150 TTCTTTGATT
*
83038160 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTC-TTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTGAATTATAATTTACTCTTTATATTTG
*
83038214 TAATAAAATAAAAGTTGTTTTTAGTATTTGAATTATAATTTACTCTTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTGAATTATAATTTACTC--TTTATATTTG
* *
83038271 TAATAGAATAAAAGTTGTTTTGAATA
1 TAATAAAATAAAAGTTGTTTTTAATA
83038297 AGGAAATATT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 43 0.57
57 32 0.43
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.50
Consensus pattern (55 bp):
TAATAAAATAAAAGTTGTTTTTAATATTTGAATTATAATTTACTCTTTATATTTG
Found at i:83041614 original size:126 final size:126
Alignment explanation
Indices: 83041384--83041711 Score: 332
Period size: 126 Copynumber: 2.6 Consensus size: 126
83041374 GTACTGTAGA
*
83041384 AAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGAAAGTGCATACTGCATGAAGCGT
1 AAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGAAAGTGCATACTGCATAAAGCGT
* * *
83041449 TTTTGACACTATTTGTTCAGAAAGGTCATCTTACAATTATTTT-TTCAGATACCACTGTATC
66 TTTTGACACTATTTGTTCAAAAACGTCATCTCACAATTATTTTCTT-AGATACCACTGTATC
* * * * * *
83041510 AAAAGATCGTCCACGT-AGGAGCTTTTTTTAGTACTTTTGCTGATAA-TGCATCCTGCTTAAAGT
1 AAAAGAGCGTCCACGTGA-GAGCTTTTTTCAGTAATTTTGCTGA-AAGTGCATACTGCATAAAGC
* * * *
83041573 GTTTTTTACACTATTTTTTCAAAAACGTCTTCTCA-AGATTATTTTCTTAGATACCACTGTA-G
64 GTTTTTGACACTATTTGTTCAAAAACGTCATCTCACA-ATTATTTTCTTAGATACCACTGTATC
* * * * * * *
83041635 AAAAAAGCATCCACGT--GAG-TATTTTTCAGTAATTTTACTGACAGTTCATCCTGCTTTAAA-C
1 AAAAGAGCGTCCACGTGAGAGCT-TTTTTCAGTAATTTTGCTGAAAGTGCATACTGC-ATAAAGC
* *
83041696 GTTTTGGATACTATTT
64 GTTTTTGACACTATTT
83041712 CTTTAGAAAC
Statistics
Matches: 169, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
122 2 0.01
123 42 0.25
124 5 0.03
125 15 0.09
126 101 0.60
127 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
AAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGAAAGTGCATACTGCATAAAGCGT
TTTTGACACTATTTGTTCAAAAACGTCATCTCACAATTATTTTCTTAGATACCACTGTATC
Found at i:83041727 original size:123 final size:121
Alignment explanation
Indices: 83041376--83041742 Score: 323
Period size: 126 Copynumber: 2.9 Consensus size: 121
83041366 AATAGAAAGT
*
83041376 ACTGTAGAAAAAGAGCGTCCACGTGAG-AGCTTTTTTCAGTAATTTTGCTGAAAGTGCATACTGC
1 ACTGTAGAAAAA-AGCGTCCACGTGAGTA---TTTTTCAGTAATTTTGCTGAAAGTGCATCCTGC
* * * * * *
83041440 ATGAAGCGTTTTTGACACTATTTGTTCAGAAAGGTCATCTTACAATTATTTTTTCAGATACC
62 -TTAAACGTTTTTGACACTATTT-TTTAGAAACGTCTTCTCACAATTATTTTTTCAGATACC
* * * * *
83041502 ACTGTATCAAAAGATCGTCCACGTAGGAGCT-TTTTTTAGTACTTTTGCTGATAA-TGCATCCTG
1 ACTGTA-GAAAAAAGCGTCCACGT--GAG-TATTTTTCAGTAATTTTGCTGA-AAGTGCATCCTG
* * *
83041565 CTTAAAGTGTTTTTTACACTATTTTTTCAAAAACGTCTTCTCA-AGATTATTTTCTT-AGATACC
61 CTTAAA-CGTTTTTGACACTATTTTTT-AGAAACGTCTTCTCACA-ATTATTTT-TTCAGATACC
* * * *
83041628 ACTGTAGAAAAAAGCATCCACGTGAGTATTTTTCAGTAATTTTACTGACAGTTCATCCTGCTTTA
1 ACTGTAGAAAAAAGCGTCCACGTGAGTATTTTTCAGTAATTTTGCTGAAAGTGCATCCTGC-TTA
* * * * *
83041693 AACGTTTTGGATACTATTTCTTTAGAAACTTCTTCTTAAAATT-TTTTTTC
65 AACGTTTTTGACACTATTT-TTTAGAAACGTCTTCTCACAATTATTTTTTC
83041743 CAAATACTAT
Statistics
Matches: 194, Mismatches: 31, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
121 2 0.01
122 6 0.03
123 57 0.29
124 9 0.05
125 19 0.10
126 90 0.46
127 8 0.04
128 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (121 bp):
ACTGTAGAAAAAAGCGTCCACGTGAGTATTTTTCAGTAATTTTGCTGAAAGTGCATCCTGCTTAA
ACGTTTTTGACACTATTTTTTAGAAACGTCTTCTCACAATTATTTTTTCAGATACC
Found at i:83041878 original size:12 final size:12
Alignment explanation
Indices: 83041862--83041904 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
83041852 CTAAACTTGA
83041862 ATTTAATTAATT
1 ATTTAATTAATT
*
83041874 TTTTAATTAA-T
1 ATTTAATTAATT
83041885 ATTTAATTTAATT
1 ATTTAA-TTAATT
*
83041898 AATTAAT
1 ATTTAAT
83041905 CTTACACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 6 0.23
12 14 0.54
13 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTAATTAATT
Found at i:83041967 original size:16 final size:17
Alignment explanation
Indices: 83041927--83041972 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
83041917 TTTATTTAAT
83041927 TAAACCCTTACAAAAACCA
1 TAAACCC-TA-AAAAACCA
*
83041946 TAAACCCTAAAAAACCC
1 TAAACCCTAAAAAACCA
83041963 T-AACCCTAAA
1 TAAACCCTAAA
83041973 CCATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.35
17 8 0.31
18 2 0.08
19 7 0.27
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (17 bp):
TAAACCCTAAAAAACCA
Found at i:83047205 original size:13 final size:13
Alignment explanation
Indices: 83047187--83047214 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
83047177 ATAAAGTTAG
83047187 AAAGATGATAAAT
1 AAAGATGATAAAT
83047200 AAAGATGATAAAT
1 AAAGATGATAAAT
83047213 AA
1 AA
83047215 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:83048143 original size:25 final size:25
Alignment explanation
Indices: 83048080--83048144 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
83048070 CAGCTTGAAA
* *
83048080 GAGCATCACGTTAT-TAGCTCTCAT
1 GAGCATCCCGTTATATAGCCCTCAT
* * *
83048104 GAGCATCCTGATATATAGCCCTCTT
1 GAGCATCCCGTTATATAGCCCTCAT
*
83048129 GAGCTTCCCGTTATAT
1 GAGCATCCCGTTATAT
83048145 GGTTCCTACG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (25 bp):
GAGCATCCCGTTATATAGCCCTCAT
Done.