Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold226
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: 1170647
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 7 of 8
Found at i:788332 original size:16 final size:16
Alignment explanation
Indices: 788313--788360 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
788303 ATGAATACGT
788313 AAATATAATATTAAAA
1 AAATATAATATTAAAA
*
788329 AAATAATTAAAATATAAAA
1 AAAT-A-TAATAT-TAAAA
788348 AAATATAAATATT
1 AAATAT-AATATT
788361 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 4 0.15
17 3 0.12
18 10 0.38
19 9 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATATAATATTAAAA
Found at i:788403 original size:25 final size:24
Alignment explanation
Indices: 788351--788427 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 24
788341 TATAAAAAAA
*
788351 TATAAATATTTTAAAATTTATATAT
1 TATAAA-ATTTTAAAATTTAAATAT
* *
788376 TATAAAATTTTTAAATATTAAATTT
1 TATAAAATTTTAAAAT-TTAAATAT
* *
788401 TATATAAATATAAAATATTTTAAATAT
1 TATA-AAATTTTAAA-A-TTTAAATAT
788428 GATTATAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 9 0.22
25 16 0.39
26 7 0.17
27 8 0.20
28 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TATAAAATTTTAAAATTTAAATAT
Found at i:788408 original size:18 final size:18
Alignment explanation
Indices: 788350--788416 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 18
788340 ATATAAAAAA
788350 ATATAAATATTTTAAAATTT
1 ATATAAATA--TTAAAATTT
*
788370 ATAT-ATTA-TAAAATTT
1 ATATAAATATTAAAATTT
*
788386 -T-TAAATATTAAATTTT
1 ATATAAATATTAAAATTT
788402 ATATAAATA-TAAAAT
1 ATATAAATATTAAAAT
788417 ATTTTAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
14 1 0.03
15 4 0.10
16 15 0.38
17 6 0.15
18 6 0.15
19 3 0.08
20 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATAAATATTAAAATTT
Found at i:788422 original size:34 final size:34
Alignment explanation
Indices: 788338--788427 Score: 103
Period size: 34 Copynumber: 2.6 Consensus size: 34
788328 AAAATAATTA
* * *
788338 AAATATAAAAAAATATAAATATTTTAAAATTTATAT
1 AAATATAAAATATTTTAAATA--TTAAAATTTATAT
* *
788374 -ATTATAAAAT-TTTTAAATATTAAATTTTATAT
1 AAATATAAAATATTTTAAATATTAAAATTTATAT
788406 AAATATAAAATATTTTAAATAT
1 AAATATAAAATATTTTAAATAT
788428 GATTATAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
32 12 0.26
33 9 0.20
34 17 0.37
35 8 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (34 bp):
AAATATAAAATATTTTAAATATTAAAATTTATAT
Found at i:788426 original size:16 final size:15
Alignment explanation
Indices: 788362--788427 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
788352 ATAAATATTT
* *
788362 TAAAATTTATATATTA
1 TAAAATTTTTA-AATA
788378 TAAAATTTTTAAATA
1 TAAAATTTTTAAATA
*
788393 TTAAATTTTATATAAATA
1 -TAAAATTT-T-TAAATA
788411 TAAAATATTTTAAATA
1 TAAAAT-TTTTAAATA
788427 T
1 T
788428 GATTATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 3 0.07
16 24 0.57
17 7 0.17
18 8 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTTTTAAATA
Found at i:791419 original size:2 final size:2
Alignment explanation
Indices: 791412--791445 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
791402 AACAATGATT
*
791412 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
791446 AGGTCTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:803908 original size:7 final size:7
Alignment explanation
Indices: 803896--803925 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
803886 GAGATGGCTA
803896 GATGTTT
1 GATGTTT
803903 GATGTTT
1 GATGTTT
803910 GATGTTT
1 GATGTTT
803917 GATGTTT
1 GATGTTT
803924 GA
1 GA
803926 GAAGAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (7 bp):
GATGTTT
Found at i:807122 original size:14 final size:14
Alignment explanation
Indices: 807103--807152 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
807093 GTTTTGATTT
*
807103 TTTAAATATTTATA
1 TTTAAATATTAATA
*
807117 TTTAAATATAAATA
1 TTTAAATATTAATA
**
807131 TAAAAATA-TAATA
1 TTTAAATATTAATA
807144 TTTAAATAT
1 TTTAAATAT
807153 ATAAAAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTAAATATTAATA
Found at i:809631 original size:38 final size:38
Alignment explanation
Indices: 809588--809695 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 38
809578 TGGTTTTTGC
809588 CGTGTCACCGGATAAGAATAATAGTTTTTGTTTC-AACT
1 CGTGTCACCGGATAAGAATAAT-GTTTTTGTTTCGAACT
* *
809626 CGTGTCACTGG-TAAAAATAATGATTTTT-TTTCTGAACT
1 CGTGTCACCGGATAAGAATAATG-TTTTTGTTTC-GAACT
* * *
809664 -GTGTCACCGAATTAGAATAGTGGTTTTTGTTT
1 CGTGTCACCGGATAAGAATAAT-GTTTTTGTTT
809696 TAACATATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
36 5 0.09
37 22 0.39
38 26 0.46
39 4 0.07
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (38 bp):
CGTGTCACCGGATAAGAATAATGTTTTTGTTTCGAACT
Found at i:809653 original size:37 final size:38
Alignment explanation
Indices: 809588--809672 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
809578 TGGTTTTTGC
*
809588 CGTGTCACCGGATAAGAATAATAGTTTTTGTTTC-AACT
1 CGTGTCACCGGATAAAAATAATAGTTTTT-TTTCGAACT
*
809626 CGTGTCACTGG-TAAAAATAAT-GATTTTTTTTCTGAACT
1 CGTGTCACCGGATAAAAATAATAG-TTTTTTTTC-GAACT
809664 -GTGTCACCG
1 CGTGTCACCG
809673 AATTAGAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
36 5 0.12
37 22 0.54
38 14 0.34
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (38 bp):
CGTGTCACCGGATAAAAATAATAGTTTTTTTTCGAACT
Found at i:810658 original size:11 final size:13
Alignment explanation
Indices: 810628--810666 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
810618 CATTTAAATA
810628 TATTATATCTTATT
1 TATTATAT-TTATT
810642 TATTATA-TTATT
1 TATTATATTTATT
810654 T-TTATATTTATT
1 TATTATATTTATT
810666 T
1 T
810667 GCATCGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.21
12 12 0.50
14 7 0.29
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTATATTTATT
Found at i:811614 original size:9 final size:9
Alignment explanation
Indices: 811600--811643 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
811590 AATTTAAATT
811600 TTAAATATA
1 TTAAATATA
811609 TTAAATATCA
1 TTAAATAT-A
*
811619 TTTAA-ATA
1 TTAAATATA
811627 TTAAATATA
1 TTAAATATA
811636 TTAAATAT
1 TTAAATAT
811644 CAACTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 5 0.16
9 21 0.68
10 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAAATATA
Found at i:811623 original size:27 final size:27
Alignment explanation
Indices: 811591--811645 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
811581 AAATACTAAA
*
811591 ATTTAAATTTTAAATATATTAAATATC
1 ATTTAAATATTAAATATATTAAATATC
811618 ATTTAAATATTAAATATATTAAATATC
1 ATTTAAATATTAAATATATTAAATATC
811645 A
1 A
811646 ACTTTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTTAAATATTAAATATATTAAATATC
Found at i:815101 original size:2 final size:2
Alignment explanation
Indices: 815094--815134 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
815084 TTCAATTTGC
815094 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
815135 CCACCTATAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:815732 original size:28 final size:28
Alignment explanation
Indices: 815695--815757 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
815685 TAAATACCAC
* *
815695 TTTTTGTATTTGTCAAATATGATGATTT
1 TTTTTGTATTTATCAAATATGATGATTA
* *
815723 TTTTTGTATTTATCAAATATGGTGGTTA
1 TTTTTGTATTTATCAAATATGATGATTA
815751 TTTTTGT
1 TTTTTGT
815758 TTGTAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (28 bp):
TTTTTGTATTTATCAAATATGATGATTA
Found at i:815783 original size:23 final size:24
Alignment explanation
Indices: 815754--815798 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
815744 GTGGTTATTT
815754 TTGTTTGT-AAAAATGGTGGCTTG
1 TTGTTTGTCAAAAATGGTGGCTTG
*
815777 TTGTTTGTCAAAATTGGTGGCT
1 TTGTTTGTCAAAAATGGTGGCT
815799 AATTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (24 bp):
TTGTTTGTCAAAAATGGTGGCTTG
Found at i:821312 original size:18 final size:18
Alignment explanation
Indices: 821276--821327 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
821266 TATTAATTTT
*
821276 AATATTA-TTTATTATAAA
1 AATATTATTTTA-TAAAAA
*
821294 ATTATTATTTTATAAAAA
1 AATATTATTTTATAAAAA
*
821312 AATA-TATCTTATAAAA
1 AATATTATTTTATAAAA
821328 CGTTTAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 11 0.38
18 14 0.48
19 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATTATTTTATAAAAA
Found at i:832352 original size:14 final size:15
Alignment explanation
Indices: 832333--832361 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
832323 TTTGTTTTAA
832333 TTAAAATTT-TAAAT
1 TTAAAATTTATAAAT
832347 TTAAAATTTATAAAT
1 TTAAAATTTATAAAT
832362 AACAAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAATTTATAAAT
Found at i:835643 original size:2 final size:2
Alignment explanation
Indices: 835636--835676 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
835626 GTCAATTTGC
*
835636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
835677 CCACCTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:844806 original size:7 final size:7
Alignment explanation
Indices: 844794--844823 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
844784 GAGATGGCTA
844794 GATGTTT
1 GATGTTT
844801 GATGTTT
1 GATGTTT
844808 GATGTTT
1 GATGTTT
844815 GATGTTT
1 GATGTTT
844822 GA
1 GA
844824 GAAGAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (7 bp):
GATGTTT
Found at i:848044 original size:13 final size:13
Alignment explanation
Indices: 847998--848047 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
847988 TGTTTTGATT
*
847998 TTTAAATATTTATA
1 TTTAAATA-TAATA
848012 TTTAAATATAATA
1 TTTAAATATAATA
**
848025 TAAAAATATAATA
1 TTTAAATATAATA
848038 TTTAAATATA
1 TTTAAATATA
848048 TAAAAATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
13 23 0.74
14 8 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAATATAATA
Found at i:850517 original size:38 final size:38
Alignment explanation
Indices: 850474--850581 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 38
850464 TGGTTTTTGC
850474 CGTGTCACCGGATAAGAATAATAGTTTTTGTTTC-AACT
1 CGTGTCACCGGATAAGAATAAT-GTTTTTGTTTCGAACT
* *
850512 CGTGTCACTGG-TAAAAATAATGATTTTT-TTTCTGAACT
1 CGTGTCACCGGATAAGAATAATG-TTTTTGTTTC-GAACT
* * *
850550 -GTGTCACCGAATTAGAATAGTGGTTTTTGTTT
1 CGTGTCACCGGATAAGAATAAT-GTTTTTGTTT
850582 TAACATATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
36 5 0.09
37 22 0.39
38 26 0.46
39 4 0.07
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (38 bp):
CGTGTCACCGGATAAGAATAATGTTTTTGTTTCGAACT
Found at i:850539 original size:37 final size:38
Alignment explanation
Indices: 850474--850558 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
850464 TGGTTTTTGC
*
850474 CGTGTCACCGGATAAGAATAATAGTTTTTGTTTC-AACT
1 CGTGTCACCGGATAAAAATAATAGTTTTT-TTTCGAACT
*
850512 CGTGTCACTGG-TAAAAATAAT-GATTTTTTTTCTGAACT
1 CGTGTCACCGGATAAAAATAATAG-TTTTTTTTC-GAACT
850550 -GTGTCACCG
1 CGTGTCACCG
850559 AATTAGAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
36 5 0.12
37 22 0.54
38 14 0.34
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (38 bp):
CGTGTCACCGGATAAAAATAATAGTTTTTTTTCGAACT
Found at i:851546 original size:11 final size:13
Alignment explanation
Indices: 851516--851554 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
851506 CATTTAAATA
851516 TATTATATCTTATT
1 TATTATAT-TTATT
851530 TATTATA-TTATT
1 TATTATATTTATT
851542 T-TTATATTTATT
1 TATTATATTTATT
851554 T
1 T
851555 GCATCGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.21
12 12 0.50
14 7 0.29
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTATATTTATT
Found at i:852502 original size:9 final size:9
Alignment explanation
Indices: 852488--852531 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
852478 AATTTAAATT
852488 TTAAATATA
1 TTAAATATA
852497 TTAAATATCA
1 TTAAATAT-A
*
852507 TTTAA-ATA
1 TTAAATATA
852515 TTAAATATA
1 TTAAATATA
852524 TTAAATAT
1 TTAAATAT
852532 CAACTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 5 0.16
9 21 0.68
10 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAAATATA
Found at i:852511 original size:27 final size:27
Alignment explanation
Indices: 852479--852533 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
852469 AAATACTAAA
*
852479 ATTTAAATTTTAAATATATTAAATATC
1 ATTTAAATATTAAATATATTAAATATC
852506 ATTTAAATATTAAATATATTAAATATC
1 ATTTAAATATTAAATATATTAAATATC
852533 A
1 A
852534 ACTTTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTTAAATATTAAATATATTAAATATC
Found at i:854747 original size:19 final size:19
Alignment explanation
Indices: 854707--854758 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
854697 ATAAAAATAA
*
854707 AAATAATTTAATTATAATT
1 AAATAATTTAATTATAAAT
*
854726 AAATAATTT-TTTATAAAAT
1 AAATAATTTAATTAT-AAAT
*
854745 AAA-ACTTTAATTAT
1 AAATAATTTAATTAT
854759 CATACCGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATTTAATTATAAAT
Found at i:856003 original size:2 final size:2
Alignment explanation
Indices: 855996--856036 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
855986 TTCAATTTGC
855996 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
856037 CCACCTATAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:856635 original size:28 final size:28
Alignment explanation
Indices: 856598--856660 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
856588 TAAATACCAC
* *
856598 TTTTTGTATTTGTCAAATATGATGATTT
1 TTTTTGTATTTATCAAATATGATGATTA
* *
856626 TTTTTGTATTTATCAAATATGGTGGTTA
1 TTTTTGTATTTATCAAATATGATGATTA
856654 TTTTTGT
1 TTTTTGT
856661 TTGTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (28 bp):
TTTTTGTATTTATCAAATATGATGATTA
Found at i:856687 original size:24 final size:24
Alignment explanation
Indices: 856657--856702 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
856647 GTGGTTATTT
856657 TTGTTTGTAAAAAATGGTGGCTTG
1 TTGTTTGTAAAAAATGGTGGCTTG
* *
856681 TTGTTTGTCAAAATTGGTGGCT
1 TTGTTTGTAAAAAATGGTGGCT
856703 AATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.28, T:0.43
Consensus pattern (24 bp):
TTGTTTGTAAAAAATGGTGGCTTG
Found at i:862218 original size:18 final size:18
Alignment explanation
Indices: 862184--862217 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
862174 TTAATTTTAA
862184 TATTATTTATTATAAAAT
1 TATTATTTATTATAAAAT
862202 TATTATTT-TTATAAAA
1 TATTATTTATTATAAAA
862218 AAATATATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATTTATTATAAAAT
Found at i:867689 original size:2 final size:2
Alignment explanation
Indices: 867682--867710 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
867672 ACTGCGCACT
867682 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
867711 GGAAGAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:873058 original size:17 final size:19
Alignment explanation
Indices: 873022--873058 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
873012 TTTAAATTCA
873022 ATAAAAATAATTCATTAATT
1 ATAAAAATAATT-ATTAATT
873042 ATAAAAA-AATT-TTAATT
1 ATAAAAATAATTATTAATT
873059 TTTAATCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAAATAATTATTAATT
Found at i:873114 original size:2 final size:2
Alignment explanation
Indices: 873107--873133 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
873097 GAAACACAAC
873107 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 A
873134 ACAATTACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:875018 original size:18 final size:18
Alignment explanation
Indices: 874991--875045 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
874981 TTATTGTTTA
874991 ATTT-ATATTTAATTATT
1 ATTTCATATTTAATTATT
*
875008 ATTTCATATTT-TTTATT
1 ATTTCATATTTAATTATT
* *
875025 TTTTCAATAATTAATT-TT
1 ATTTC-ATATTTAATTATT
875043 ATT
1 ATT
875046 GGCTATCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 13 0.43
18 15 0.50
19 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTCATATTTAATTATT
Found at i:882143 original size:21 final size:22
Alignment explanation
Indices: 882110--882153 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
882100 AAATTTTTAT
* *
882110 TTTATTTTTAAAAT-TAAAAAA
1 TTTATTATCAAAATATAAAAAA
*
882131 TTTATTATCAAAATATTAAAAA
1 TTTATTATCAAAATATAAAAAA
882153 T
1 T
882154 AAATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTATTATCAAAATATAAAAAA
Found at i:884970 original size:3 final size:3
Alignment explanation
Indices: 884962--884989 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
884952 AGTAAAAGCA
884962 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
884990 CCTGGTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:885337 original size:5 final size:5
Alignment explanation
Indices: 885327--885363 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
885317 GGGTGAGAGT
* *
885327 TTAGC TTAGC TTAGC CTAGC CTAGC TTAGC TTAGC TT
1 TTAGC TTAGC TTAGC TTAGC TTAGC TTAGC TTAGC TT
885364 TGGACCCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (5 bp):
TTAGC
Found at i:885481 original size:2 final size:2
Alignment explanation
Indices: 885476--885511 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
885466 TATATATATA
*
885476 TG TG TG TG TG TG TG TG TG TG TG TG TG TG GG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
885512 CATGTGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.53, T:0.47
Consensus pattern (2 bp):
TG
Found at i:887979 original size:6 final size:6
Alignment explanation
Indices: 887963--888003 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
887953 TGAAGTAGCA
* * *
887963 GTCAGG CTCAGG GTCAGG GACAGG GTGAGG GTCAGG GTCAG
1 GTCAGG GTCAGG GTCAGG GTCAGG GTCAGG GTCAGG GTCAG
888004 TTAGATGATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.49, T:0.15
Consensus pattern (6 bp):
GTCAGG
Found at i:888533 original size:13 final size:13
Alignment explanation
Indices: 888515--888544 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
888505 ACACTACTTA
888515 ACAAAATATATAT
1 ACAAAATATATAT
888528 ACAAAATATATAT
1 ACAAAATATATAT
888541 ACAA
1 ACAA
888545 GATCACATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (13 bp):
ACAAAATATATAT
Found at i:891262 original size:22 final size:19
Alignment explanation
Indices: 891231--891272 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
891221 TATTTTTATT
891231 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAA-ATA
891252 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
891272 T
1 T
891273 TTTAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:898621 original size:5 final size:5
Alignment explanation
Indices: 898611--898640 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
898601 ATTTTTCATT
898611 ATTTA ATTTA ATTTA ATTTA ATATTA ATTT
1 ATTTA ATTTA ATTTA ATTTA AT-TTA ATTT
898641 TTATATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:898663 original size:26 final size:26
Alignment explanation
Indices: 898634--898706 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
898624 TAATTTAATA
898634 TTAATTTTTATATAAATTATA-AATTT
1 TTAATTTTTA-ATAAATTATATAATTT
*
898660 TTAATTTTATCAAATTAAATAATATAATTT
1 TTAATTTT-T--AA-TAAATTATATAATTT
*
898690 TT-ATTATTAATAAATTA
1 TTAATTTTTAATAAATTA
898707 AATCACTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
25 6 0.15
26 10 0.26
27 1 0.03
28 2 0.05
29 13 0.33
30 7 0.18
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (26 bp):
TTAATTTTTAATAAATTATATAATTT
Found at i:898691 original size:30 final size:29
Alignment explanation
Indices: 898646--898709 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
898636 AATTTTTATA
*
898646 TAAATTATAAATTTTTAATT-TT-ATCAAAT
1 TAAATAATAAATTTTT-ATTATTAAT-AAAT
898675 TAAATAATATAATTTTTATTATTAATAAAT
1 TAAATAATA-AATTTTTATTATTAATAAAT
898705 TAAAT
1 TAAAT
898710 CACTTACATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 11 0.35
30 18 0.58
31 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TAAATAATAAATTTTTATTATTAATAAAT
Found at i:898885 original size:24 final size:25
Alignment explanation
Indices: 898846--898922 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 25
898836 TATACTACTT
*
898846 AATTTATAA-ATAATAAAAATTAAA
1 AATTTATAATTTAATAAAAATTAAA
*
898870 TA-TTATAATTTAAT-AAAATTAAA
1 AATTTATAATTTAATAAAAATTAAA
898893 AATTTATAATTTATATAAAAATTAATA
1 AATTTATAATTTA-ATAAAAATTAA-A
898920 AAT
1 AAT
898923 AAATTTAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
23 16 0.36
24 15 0.33
25 2 0.04
26 8 0.18
27 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTTATAATTTAATAAAAATTAAA
Found at i:898927 original size:24 final size:23
Alignment explanation
Indices: 898856--898940 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 23
898846 AATTTATAAA
*
898856 TAATAAAAATTAAATATTATAATT
1 TAATAAAAATTAAA-AATATAATT
898880 TAAT-AAAATTAAAAATTTATAATT
1 TAATAAAAATTAAAAA--TATAATT
898904 TATATAAAAATTAATAAATA-AATT
1 TA-ATAAAAATTAA-AAATATAATT
*
898928 TAAATATAAATTA
1 T-AATAAAAATTA
898941 CTCAAGATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.02
23 9 0.17
24 27 0.51
25 5 0.09
26 8 0.15
27 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATAAAAATTAAAAATATAATT
Found at i:899578 original size:22 final size:22
Alignment explanation
Indices: 899526--899572 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
899516 GATCATTTAT
**
899526 ATATATAATTAAATTTTAATAA
1 ATATATAATCGAATTTTAATAA
899548 ATATATAATCGAATTTTAATAA
1 ATATATAATCGAATTTTAATAA
899570 ATA
1 ATA
899573 ACTAATGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATATAATCGAATTTTAATAA
Found at i:900269 original size:3 final size:3
Alignment explanation
Indices: 900255--900310 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
900245 AATGTCATTT
*
900255 ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
900303 ATA GTA AT
1 ATA ATA AT
900311 TTAACTTATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:902089 original size:20 final size:19
Alignment explanation
Indices: 902002--902089 Score: 54
Period size: 20 Copynumber: 4.5 Consensus size: 19
901992 TATATTAAAT
*
902002 TTATATTTTATAATTTATA
1 TTATATTATATAATTTATA
** * *
902021 AAATATATATCTTATTT-TA
1 TTATAT-TATATAATTTATA
* *
902040 TTTTAATTATATTATTTATA
1 TTAT-ATTATATAATTTATA
902060 TTATATTTATATAATTT-TAA
1 TTATA-TTATATAATTTAT-A
902080 TTAGTATTAT
1 TTA-TATTAT
902090 CATGTTATGT
Statistics
Matches: 52, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
19 18 0.35
20 32 0.62
21 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
TTATATTATATAATTTATA
Found at i:903856 original size:11 final size:11
Alignment explanation
Indices: 903840--903871 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
903830 CCAATTCTCC
903840 TTTTCTTTTTT
1 TTTTCTTTTTT
903851 TTTTCTTTTTT
1 TTTTCTTTTTT
903862 TTTT-TTTTTT
1 TTTTCTTTTTT
903872 GCAGTCTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:903870 original size:16 final size:16
Alignment explanation
Indices: 903839--903869 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
903829 ACCAATTCTC
903839 CTTTTCTTTTTTTTTT
1 CTTTTCTTTTTTTTTT
903855 CTTTT-TTTTTTTTTT
1 CTTTTCTTTTTTTTTT
903870 TTGCAGTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
CTTTTCTTTTTTTTTT
Found at i:905196 original size:13 final size:13
Alignment explanation
Indices: 905178--905203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
905168 ATAACCTTTT
905178 AAATATATAAAAA
1 AAATATATAAAAA
905191 AAATATATAAAAA
1 AAATATATAAAAA
905204 TTAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATATATAAAAA
Found at i:906682 original size:2 final size:2
Alignment explanation
Indices: 906675--906707 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
906665 TTTAAAACCA
906675 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
906708 GAAAATAAAA
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:906828 original size:40 final size:38
Alignment explanation
Indices: 906766--906841 Score: 91
Period size: 42 Copynumber: 1.9 Consensus size: 38
906756 GCATCATTTA
*
906766 AAATTTTTTAAAAAAATTTACATTTAATTTATTATATTTATT
1 AAATTTTATAAAAAAA-TTACA-TTAA-TTA-TATATTTATT
*
906808 AAATTTTATAAAATAA-TACATTAATTATATATTT
1 AAATTTTATAAAAAAATTACATTAATTATATATTT
906842 TCTAACATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 7 0.22
38 3 0.09
39 4 0.12
40 4 0.12
42 14 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (38 bp):
AAATTTTATAAAAAAATTACATTAATTATATATTTATT
Found at i:913329 original size:16 final size:16
Alignment explanation
Indices: 913308--913339 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
913298 TATACGTGAT
913308 TGATTCGAAGGTAAAG
1 TGATTCGAAGGTAAAG
913324 TGATTCGAAGGTAAAG
1 TGATTCGAAGGTAAAG
913340 ATTTGCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
TGATTCGAAGGTAAAG
Found at i:914973 original size:204 final size:203
Alignment explanation
Indices: 914632--915117 Score: 630
Period size: 210 Copynumber: 2.4 Consensus size: 203
914622 TGGTGGTGAG
* * * ** ** *
914632 TTTTGTTTTCTTTGTTTGTTTCTTGAGAAACTGTAGGAAAA-A--AAT-TTT-AACTTTCCAAT-
1 TTTTGTTTCCTTTGTTTGTTTCTTGTGAAACTGTAAGAAAACATTTTTCTTTCTTCTTTTCAATC
* * * *
914691 TTGTAACTGTTTATTTCCAGGAATTCAAAATCAGGGAAAGAAGTTAATTTTTCGAAATGGGTTAT
66 TTG-AACTATTTATTTCCAGGAAATCAAAATCAAGGAAAGAACTTAATTTTTCGAAATGGGTTAT
* *
914756 AATCAAAATGA-TTTTC-CTTTTTTTTT-TGTTCTGCAAGTTTTATTGATCACATGCTTCATTTA
130 AATCAAAATGATTTTTCTCTTTTTTTTTGTGTTCTGCAAGTTTTATTGATCACACGCTTCATTCA
914818 CCTGAACAT
195 CCTGAACAT
* *
914827 TTTTGTTTCCTTTGTTTGTTTCTTGTGAAACTGTAGGAAAAACTTTATTTTTTTTTCTTCTTTTC
1 TTTTGTTTCCTTTGTTTGTTTCTTGTGAAACTGTAAG-AAAAC---ATTTTTCTTTCTTCTTTTC
914892 AATCTTGAACTATTTATTTCCAGGAAATCAAAATCAAGGAAAGAACTTAATTTTTCGAAATGGGT
62 AATCTTGAACTATTTATTTCCAGGAAATCAAAATCAAGGAAAGAACTTAATTTTTCGAAATGGGT
* * * *
914957 TATTATCAAAATGATTTTTCTTTTTTTTTTTTTTGTGTTCTGTAAGTTTTATTGATCATACGCTT
127 TATAATCAAAATGATTTTTC---TCTTTTTTTTTGTGTTCTGCAAGTTTTATTGATCACACGCTT
915022 CATTCACCTGAACAT
189 CATTCACCTGAACAT
*
915037 TTTTGTTTCCTTTGTTTGTTTCTTGTGAAACTGTAAGAAAACCTTTTTCTTTCTTCTTTTCAATC
1 TTTTGTTTCCTTTGTTTGTTTCTTGTGAAACTGTAAGAAAACATTTTTCTTTCTTCTTTTCAATC
* *
915102 TTGAACTCTTTCTTTC
66 TTGAACTATTTATTTC
915118 TAAAAATCAA
Statistics
Matches: 253, Mismatches: 22, Indels: 21
0.85 0.07 0.07
Matches are distributed among these distances:
195 35 0.14
196 4 0.02
200 1 0.00
202 1 0.00
203 3 0.01
204 75 0.30
205 8 0.03
206 35 0.14
209 14 0.06
210 77 0.30
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.48
Consensus pattern (203 bp):
TTTTGTTTCCTTTGTTTGTTTCTTGTGAAACTGTAAGAAAACATTTTTCTTTCTTCTTTTCAATC
TTGAACTATTTATTTCCAGGAAATCAAAATCAAGGAAAGAACTTAATTTTTCGAAATGGGTTATA
ATCAAAATGATTTTTCTCTTTTTTTTTGTGTTCTGCAAGTTTTATTGATCACACGCTTCATTCAC
CTGAACAT
Found at i:915363 original size:2 final size:2
Alignment explanation
Indices: 915351--915391 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
915341 ATTTGAGTGT
* *
915351 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TT 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 TA T
915392 GCGCTTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:919437 original size:2 final size:2
Alignment explanation
Indices: 919430--919464 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
919420 TGAATGGCTT
919430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
919465 TTGTTATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:923481 original size:43 final size:43
Alignment explanation
Indices: 923420--923502 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
923410 CCTGGTTGTT
*
923420 AAAGAAATACTATCAAATTTATATTTCAAAGTGAATCAATGCC
1 AAAGAAATACTATCAAATTTATATATCAAAGTGAATCAATGCC
* * *
923463 AAAGAAATGCTGTCAAATTTATATATCGAAGTGAATCAAT
1 AAAGAAATACTATCAAATTTATATATCAAAGTGAATCAAT
923503 TTAATTTCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (43 bp):
AAAGAAATACTATCAAATTTATATATCAAAGTGAATCAATGCC
Found at i:929896 original size:2 final size:2
Alignment explanation
Indices: 929891--929922 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
929881 TGTGTGTGTG
929891 TA TA 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 TA TA
929923 GATACACTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:930109 original size:4 final size:4
Alignment explanation
Indices: 930100--930124 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
930090 CGGGGCTCCC
930100 TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA T
930125 TTTTATGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:932179 original size:2 final size:2
Alignment explanation
Indices: 932174--932283 Score: 166
Period size: 2 Copynumber: 55.0 Consensus size: 2
932164 AAAAACATAC
* *
932174 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
932216 AT AT AT AT AT AT AT GT AT AT AT GT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
932258 AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
932284 GGAGAAAAGG
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 96 1.00
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:935647 original size:18 final size:19
Alignment explanation
Indices: 935624--935680 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
935614 CGAAAAAATT
* *
935624 TATTAAAATATGATAT-AA
1 TATTAAAAAATAATATAAA
935642 TATTAAAAAATAATATAAA
1 TATTAAAAAATAATATAAA
*
935661 TATTTTAAAAATTAATATAA
1 TA--TTAAAAAATAATATAA
935681 TATAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.42
19 4 0.12
21 15 0.45
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TATTAAAAAATAATATAAA
Found at i:935651 original size:20 final size:19
Alignment explanation
Indices: 935628--935683 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
935618 AAAATTTATT
935628 AAAATATGATATAATATTAA
1 AAAATAT-ATATAATATTAA
*
935648 AAAATA-ATATAAATATTTTA
1 AAAATATATAT-AATA-TTAA
935668 AAAAT-TAATATAATAT
1 AAAATAT-ATATAATAT
935684 AAATATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 4 0.13
19 5 0.16
20 18 0.58
21 4 0.13
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATATATATAATATTAA
Found at i:935680 original size:39 final size:37
Alignment explanation
Indices: 935626--935736 Score: 124
Period size: 39 Copynumber: 3.0 Consensus size: 37
935616 AAAAAATTTA
*
935626 TTAAAATATGATATAATATTAAAAAATAATATAAATATT
1 TTAAAATATAATATAATA-TAAAAAAT-ATATAAATATT
935665 TTAAAA-ATTAATATAATAT---AAATATA-AAATATT
1 TTAAAATA-TAATATAATATAAAAAATATATAAATATT
*
935698 TTTAAATATAATTATAATATAATAAAATATATAAATATT
1 TTAAAATATAA-TATAATATAA-AAAATATATAAATATT
935737 ACTTGAATAC
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
33 15 0.24
34 12 0.19
35 4 0.06
38 9 0.15
39 22 0.35
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.41
Consensus pattern (37 bp):
TTAAAATATAATATAATATAAAAAATATATAAATATT
Found at i:935701 original size:34 final size:32
Alignment explanation
Indices: 935653--935727 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 32
935643 ATTAAAAAAT
935653 AATATAAATATTTTAAAAATTAA-TATAATATA
1 AATATAAATATTTTAAAAA-TAATTATAATATA
*
935685 AATATAAAATATTTTTAAATATAATTATAATAT-
1 AATAT-AAATA-TTTTAAAAATAATTATAATATA
935718 AATA-AAATAT
1 AATATAAATAT
935728 ATAAATATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 1 0.03
31 5 0.13
32 5 0.13
33 12 0.31
34 16 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
AATATAAATATTTTAAAAATAATTATAATATA
Found at i:936193 original size:2 final size:2
Alignment explanation
Indices: 936186--936223 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
936176 TCATCATCAA
936186 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
936224 GTTCAATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:936306 original size:2 final size:2
Alignment explanation
Indices: 936299--936323 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
936289 TTTCCTCACC
936299 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
936324 GTGCATATCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:937266 original size:28 final size:27
Alignment explanation
Indices: 937224--937303 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 27
937214 TTATTAGTAT
*
937224 TATTTTTTTAATATAATTATTTTTAAAA
1 TATTTATTT-ATATAATTATTTTTAAAA
937252 TATTATATATTTATATAA--A-TTTTAAAA
1 TA-T-T-TATTTATATAATTATTTTTAAAA
*
937279 TATTTATTTATATATATTATATTTA
1 TATTTATTTATATA-ATTATTTTTA
937304 TATTTTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
24 10 0.23
25 2 0.05
26 1 0.02
27 11 0.26
28 7 0.16
29 1 0.02
30 7 0.16
31 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTTATTTATATAATTATTTTTAAAA
Found at i:937313 original size:15 final size:15
Alignment explanation
Indices: 937209--937306 Score: 57
Period size: 15 Copynumber: 6.7 Consensus size: 15
937199 CATTAATTTA
937209 TATATTTAT-TAGTAT
1 TATATTTATATA-TAT
* *
937224 TATTTTTTTAATATAAT
1 TATATTTAT-ATAT-AT
* *
937241 TATTTTTA-AAATAT
1 TATATTTATATATAT
937255 TATATATT-TATATA-
1 TATAT-TTATATATAT
* *
937269 AAT-TTTA-AAATAT
1 TATATTTATATATAT
937282 T-TATTTATATATAT
1 TATATTTATATATAT
937296 TATATTTATAT
1 TATATTTATAT
937307 TTTTTATTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
12 7 0.11
13 5 0.08
14 14 0.22
15 25 0.40
16 1 0.02
17 11 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (15 bp):
TATATTTATATATAT
Found at i:939518 original size:3 final size:3
Alignment explanation
Indices: 939510--939541 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
939500 ATTTATTTAT
939510 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
939542 CGATACACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:948473 original size:2 final size:2
Alignment explanation
Indices: 948466--948497 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
948456 CACATACAGG
948466 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
948498 GACTGTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:949672 original size:76 final size:76
Alignment explanation
Indices: 949546--949698 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
949536 TACCGCAAAA
*
949546 TCTTCCCTTGTCTCGAATTCGATCTAACAAAGCAAAAGATAATTTCTAACACCAATTTAGATACT
1 TCTTCCCTTGTCTCGAATTCGATCTAACAAAGCAAAAGATAATTTCTAACACCAAATTAGATACT
949611 AGAATTTGAGC
66 AGAATTTGAGC
949622 TCTTCCCTTGTCTCGAATTCGATCTAACAAAGCAAAAGATAATTTCTAACACCAAATTAGATACT
1 TCTTCCCTTGTCTCGAATTCGATCTAACAAAGCAAAAGATAATTTCTAACACCAAATTAGATACT
949687 AGAATTTGAGC
66 AGAATTTGAGC
949698 T
1 T
949699 ACTAGCGCAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (76 bp):
TCTTCCCTTGTCTCGAATTCGATCTAACAAAGCAAAAGATAATTTCTAACACCAAATTAGATACT
AGAATTTGAGC
Found at i:951987 original size:2 final size:2
Alignment explanation
Indices: 951982--952016 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
951972 AGGTCATATA
* *
951982 TG TG TG TG TG TC TG TG TG TG TG TG TC TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
952017 AATATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.06, G:0.43, T:0.51
Consensus pattern (2 bp):
TG
Found at i:952001 original size:14 final size:14
Alignment explanation
Indices: 951982--952016 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
951972 AGGTCATATA
951982 TGTGTGTGTGTCTG
1 TGTGTGTGTGTCTG
951996 TGTGTGTGTGTCTG
1 TGTGTGTGTGTCTG
952010 TGTGTGT
1 TGTGTGT
952017 AATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.06, G:0.43, T:0.51
Consensus pattern (14 bp):
TGTGTGTGTGTCTG
Found at i:957866 original size:88 final size:89
Alignment explanation
Indices: 957717--957893 Score: 338
Period size: 88 Copynumber: 2.0 Consensus size: 89
957707 GAATGTTGAA
*
957717 ATCCACCAAACTGACCAAAGAACAAAGTGGTCATTGAAACAGCCAAAATACAG-AAAAAAAAATT
1 ATCCACCAAACTGACCAAAGAACAAACTGGTCATTGAAACAGCCAAAATACAGAAAAAAAAAATT
957781 ACTTGAAAGGACAACAAATATGAT
66 ACTTGAAAGGACAACAAATATGAT
957805 ATCCACCAAACTGACCAAAGAACAAACTGGTCATTGAAACAGCCAAAATACAGAAAAAAAAAATT
1 ATCCACCAAACTGACCAAAGAACAAACTGGTCATTGAAACAGCCAAAATACAGAAAAAAAAAATT
957870 ACTTGAAAGGACAACAAATATGAT
66 ACTTGAAAGGACAACAAATATGAT
957894 CAAGTAGTTA
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 52 0.60
89 35 0.40
ACGTcount: A:0.53, C:0.19, G:0.13, T:0.16
Consensus pattern (89 bp):
ATCCACCAAACTGACCAAAGAACAAACTGGTCATTGAAACAGCCAAAATACAGAAAAAAAAAATT
ACTTGAAAGGACAACAAATATGAT
Found at i:963673 original size:11 final size:10
Alignment explanation
Indices: 963631--963684 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
963621 TTAACATATT
*
963631 TATTTAAT-T
1 TATTTAATAA
963640 TATATTAA-AA
1 TAT-TTAATAA
963650 T-TTTAAT-A
1 TATTTAATAA
963658 TATTTAATAAA
1 TATTTAAT-AA
963669 TATTTAATAA
1 TATTTAATAA
963679 TATTTA
1 TATTTA
963685 CGTAAATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
8 6 0.16
9 10 0.26
10 13 0.34
11 9 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TATTTAATAA
Found at i:963681 original size:21 final size:21
Alignment explanation
Indices: 963647--963693 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
963637 ATTTATATTA
963647 AAAT-TTTAATATATTTA-AT
1 AAATATTTAATATATTTACAT
*
963666 AAATATTTAATAATATTTACGT
1 AAATATTTAAT-ATATTTACAT
963688 AAATAT
1 AAATAT
963694 AAAATACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 6 0.25
21 7 0.29
22 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATATTTAATATATTTACAT
Found at i:963699 original size:22 final size:21
Alignment explanation
Indices: 963657--963699 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
963647 AAATTTTAAT
**
963657 ATATTTAATAAATATTTAATA
1 ATATTTAATAAATATAAAATA
*
963678 ATATTTACGTAAATATAAAATA
1 ATATTTA-ATAAATATAAAATA
963700 CTTATCTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATTTAATAAATATAAAATA
Found at i:964362 original size:2 final size:2
Alignment explanation
Indices: 964355--964385 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
964345 TCTCTAAAGA
964355 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 A
964386 CATACTTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:965397 original size:30 final size:31
Alignment explanation
Indices: 965319--965397 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
965309 AATCTATTTT
* * *
965319 TATTA-TATAAAAATAATATAAATATATTAA
1 TATTATTATAAAAATATTAAAAATATATCAA
*
965349 TATT-TT-TAAAAAGTATTAAAAATTTATCAA
1 TATTATTATAAAAA-TATTAAAAATATATCAA
965379 -ATTATTATAAAAATATTAA
1 TATTATTATAAAAATATTAA
965398 CTAATATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 9 0.22
30 26 0.63
31 6 0.15
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (31 bp):
TATTATTATAAAAATATTAAAAATATATCAA
Found at i:965440 original size:22 final size:22
Alignment explanation
Indices: 965383--965460 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 22
965373 TATCAAATTA
* * **
965383 TTATAAAAATATTAACTAATAT
1 TTATAAAAATAATAAATTTTAT
* *
965405 TTAATAACACTAATAAATTTTAT
1 TT-ATAAAAATAATAAATTTTAT
*
965428 TTATAAAAATAATAAA-TTAAT
1 TTATAAAAATAATAAATTTTAT
*
965449 TAATAAAAATAA
1 TTATAAAAATAA
965461 AACATTAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 15 0.33
22 14 0.31
23 16 0.36
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTATAAAAATAATAAATTTTAT
Found at i:965456 original size:21 final size:21
Alignment explanation
Indices: 965405--965468 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
965395 TAACTAATAT
* * *
965405 TTAATAACACTAATAAATTTTA
1 TTAATAAAAATAATAAA-TTAA
*
965427 TTTATAAAAATAATAAATTAA
1 TTAATAAAAATAATAAATTAA
965448 TTAATAAAAATAA-AACATTAA
1 TTAATAAAAATAATAA-ATTAA
965469 ATAAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.06
21 20 0.56
22 14 0.39
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAATAAAAATAATAAATTAA
Found at i:966721 original size:11 final size:11
Alignment explanation
Indices: 966705--966731 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
966695 TCGAACATAA
966705 TTTTAATAATT
1 TTTTAATAATT
966716 TTTTAATAATT
1 TTTTAATAATT
966727 TTTTA
1 TTTTA
966732 TTTTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:966858 original size:66 final size:66
Alignment explanation
Indices: 966786--966986 Score: 312
Period size: 66 Copynumber: 3.0 Consensus size: 66
966776 TTTGCCATTT
* *
966786 AAAAAATCATAAAATTTATTTTATAAAAATTTAAATTTTAAACCTTAAGTCTAAATTTTAATATG
1 AAAAAATCATAAAAATTATTTTATAAAAATTTAAATTCTAAACCTTAAGTCTAAATTTTAATATG
966851 C
66 C
* * *
966852 AAAAAATCATAAAAAATATTTTATAAAAATTTAAATTCTAAACCTTAAGTTTAAATTTTAATACG
1 AAAAAATCATAAAAATTATTTTATAAAAATTTAAATTCTAAACCTTAAGTCTAAATTTTAATATG
*
966917 T
66 C
* * * *
966918 AAAAAGTCATAAAAATTATTTTATAAAAATTTAAATTCTAAACTTTAAATCTAACTTTTAATATG
1 AAAAAATCATAAAAATTATTTTATAAAAATTTAAATTCTAAACCTTAAGTCTAAATTTTAATATG
966983 C
66 C
966984 AAA
1 AAA
966987 CTTTTTTACT
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 121 1.00
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (66 bp):
AAAAAATCATAAAAATTATTTTATAAAAATTTAAATTCTAAACCTTAAGTCTAAATTTTAATATG
C
Found at i:967709 original size:25 final size:23
Alignment explanation
Indices: 967681--967728 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
967671 GTTAATAGAT
967681 ATTTATAAGTATTAATTAAAAATTA
1 ATTTATAAGTATTAA--AAAAATTA
* *
967706 ATTTATTATTATTAAAAAAATTA
1 ATTTATAAGTATTAAAAAAATTA
967729 TGTTTAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTTATAAGTATTAAAAAAATTA
Found at i:968662 original size:20 final size:20
Alignment explanation
Indices: 968626--968664 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
968616 TTTTTCATAT
*
968626 ATATTTTTAATATAAAAAAC
1 ATATTTTAAATATAAAAAAC
968646 ATATTTTAAAGTA-AAAAAA
1 ATATTTTAAA-TATAAAAAA
968665 TTATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
ATATTTTAAATATAAAAAAC
Found at i:968687 original size:14 final size:14
Alignment explanation
Indices: 968650--968696 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
968640 AAAAACATAT
*
968650 TTTAAAGTAAAAAAA
1 TTTAAA-TAATAAAA
*
968665 TTATAAATATTAAAA
1 TT-TAAATAATAAAA
968680 TTTAAATAAT-AAA
1 TTTAAATAATAAAA
968693 TTTA
1 TTTA
968697 TTATATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 7 0.25
14 7 0.25
15 10 0.36
16 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
TTTAAATAATAAAA
Found at i:969465 original size:14 final size:13
Alignment explanation
Indices: 969447--969472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
969437 CTAACCTTTT
969447 TTTTTTTAAATAA
1 TTTTTTTAAATAA
969460 TTTTTTTAAATAA
1 TTTTTTTAAATAA
969473 AATATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTTTAAATAA
Found at i:969677 original size:27 final size:27
Alignment explanation
Indices: 969632--969690 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
969622 TGTATTGAAA
969632 ATTA-TTAATAAAAATTTATTAATTATT
1 ATTATTTAATAAAAATTTATT-ATTATT
969659 -TTATTTAATATAAAA-TTATTATTATT
1 ATTATTTAATA-AAAATTTATTATTATT
969685 ATTATT
1 ATTATT
969691 ATATTATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 9 0.31
27 16 0.55
28 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTATTTAATAAAAATTTATTATTATT
Found at i:969696 original size:20 final size:20
Alignment explanation
Indices: 969647--969699 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
969637 TAATAAAAAT
969647 TTATTAATTATT-TTATTTA
1 TTATTAATTATTATTATTTA
* *
969666 ATATAAAATTATTATTA-TTA
1 TTAT-TAATTATTATTATTTA
969686 TTATTATATTATTA
1 TTATTA-ATTATTA
969700 ATTTTGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTAATTATTATTATTTA
Found at i:970361 original size:18 final size:18
Alignment explanation
Indices: 970319--970361 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
970309 TTACGTAATG
*
970319 TAATATTTTATATAATAT
1 TAATATTTTATAAAATAT
970337 TATATATTTATATAAAAT-T
1 TA-ATATTT-TATAAAATAT
970356 TAATAT
1 TAATAT
970362 ATTAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATATTTTATAAAATAT
Found at i:970361 original size:20 final size:19
Alignment explanation
Indices: 970319--970364 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
970309 TTACGTAATG
*
970319 TAATAT-TTTATATAATAT
1 TAATATATTTATATAAAAT
970337 T-ATATATTTATATAAAATT
1 TAATATATTTATATAAAA-T
970356 TAATATATT
1 TAATATATT
970365 AATAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 2 0.08
20 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATATTTATATAAAAT
Found at i:970372 original size:27 final size:28
Alignment explanation
Indices: 970333--970400 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
970323 ATTTTATATA
970333 ATATTATATATTTA-TATAAAATTTAAT
1 ATATTATATATTTAGTATAAAATTTAAT
* *
970360 ATATTA-ATAATTTATGTATAAATTTTGAT
1 ATATTATAT-ATTTA-GTATAAAATTTAAT
970389 ATATT-TAT-TTTA
1 ATATTATATATTTA
970401 TATCATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
26 2 0.06
27 15 0.43
29 18 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (28 bp):
ATATTATATATTTAGTATAAAATTTAAT
Found at i:970401 original size:27 final size:28
Alignment explanation
Indices: 970333--970401 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
970323 ATTTTATATA
970333 ATATTATATATTTA--TATAAAATTTAAT
1 ATATTATA-ATTTATGTATAAAATTTAAT
* *
970360 ATATTAATAATTTATGTATAAATTTTGAT
1 ATATT-ATAATTTATGTATAAAATTTAAT
*
970389 ATATT-TATTTTAT
1 ATATTATAATTTAT
970402 ATCATATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 17 0.47
28 3 0.08
29 16 0.44
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
ATATTATAATTTATGTATAAAATTTAAT
Found at i:970874 original size:25 final size:26
Alignment explanation
Indices: 970843--970910 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 26
970833 AAATTAAAAA
970843 AATTAAATAATAAAAAATTATTTTAT
1 AATTAAATAATAAAAAATTATTTTAT
* * *
970869 -ATTAAAAAAT-ATATA-T-TTTTAT
1 AATTAAATAATAAAAAATTATTTTAT
970891 AATTAAAT--TAAAAAATTATT
1 AATTAAATAATAAAAAATTATT
970911 ATTAAATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
21 1 0.03
22 9 0.28
23 8 0.25
24 5 0.16
25 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTAAATAATAAAAAATTATTTTAT
Found at i:970912 original size:22 final size:22
Alignment explanation
Indices: 970843--970912 Score: 54
Period size: 24 Copynumber: 3.0 Consensus size: 22
970833 AAATTAAAAA
*
970843 AATTAAATAATAAAAAATTATTTT
1 AATTAAAT--TAAAAAATTATTAT
*
970867 ATATTAAA--AAATATATATTTTTAT
1 A-ATTAAATTAAA-A-A-ATTATTAT
970891 AATTAAATTAAAAAATTATTAT
1 AATTAAATTAAAAAATTATTAT
970913 TAAATAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
21 3 0.08
22 8 0.22
23 8 0.22
24 9 0.24
25 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTAAATTAAAAAATTATTAT
Found at i:971355 original size:2 final size:2
Alignment explanation
Indices: 971348--971382 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
971338 AAACTACATG
* *
971348 AT AT AT AT AT AT AT AT AT AT AT AT CT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
971383 GACCAAGTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:972473 original size:21 final size:20
Alignment explanation
Indices: 972444--972483 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
972434 TAAAAATATT
* *
972444 TTTATATTAATATGTAATAG
1 TTTATATTAAAATGAAATAG
972464 TTTATAATTAAAATGAAATA
1 TTTAT-ATTAAAATGAAATA
972484 AAACATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TTTATATTAAAATGAAATAG
Found at i:973129 original size:4 final size:4
Alignment explanation
Indices: 973099--973157 Score: 75
Period size: 4 Copynumber: 14.2 Consensus size: 4
973089 TTTCGACTTT
*
973099 AAAG AAAAG AAA- AAAG AAAAGG AAAG AAAG AAAG AGAG AAAG AAAG AAAG
1 AAAG -AAAG AAAG AAAG -AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG
973149 AAAG AAAG A
1 AAAG AAAG A
973158 CGATGAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
3 3 0.06
4 35 0.71
5 10 0.20
6 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:981859 original size:35 final size:34
Alignment explanation
Indices: 981803--981894 Score: 84
Period size: 34 Copynumber: 2.7 Consensus size: 34
981793 TATTAATTTT
*
981803 AATATATTAATAATT-TATATATTTAAATTTTAAA
1 AATATATTTATAATTAT-TATATTTAAATTTTAAA
* * *
981837 AATATATTTATAGATTATTATA-TTATATTTTTAT
1 AATATATTTATA-ATTATTATATTTAAATTTTAAA
*
981871 AAT-TATATAT-ATATATTATATTTA
1 AATATATTTATAAT-TATTATATTTA
981895 TATAATTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
31 2 0.04
32 7 0.14
33 9 0.18
34 23 0.47
35 7 0.14
36 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (34 bp):
AATATATTTATAATTATTATATTTAAATTTTAAA
Found at i:981898 original size:19 final size:20
Alignment explanation
Indices: 981853--981898 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
981843 TTTATAGATT
*
981853 ATTATAT-TATATTTTTATA
1 ATTATATATATATTATTATA
981872 ATTATATATATA-TATTATA
1 ATTATATATATATTATTATA
*
981891 TTTATATA
1 ATTATATA
981899 ATTATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTATATATATATTATTATA
Found at i:981914 original size:12 final size:13
Alignment explanation
Indices: 981856--981915 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
981846 ATAGATTATT
**
981856 ATATTATATTTTT
1 ATATTATATTTAA
* *
981869 ATAATTATATATAT
1 AT-ATTATATTTAA
*
981883 ATATTATATTTAT
1 ATATTATATTTAA
981896 ATAATTAT-TTTAA
1 AT-ATTATATTTAA
981909 ATATTAT
1 ATATTAT
981916 GTGCTTTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 5 0.12
13 20 0.49
14 16 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTATATTTAA
Found at i:982018 original size:17 final size:17
Alignment explanation
Indices: 981980--982035 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
981970 AATATAGTAA
*
981980 AAAATTTTAAATATACT
1 AAAATTTTAAATATAAT
981997 AAAATTTTAAATATGAAT
1 AAAATTTTAAATAT-AAT
982015 AAATATTTATTAAATA-AAT
1 AAA-A-TT-TTAAATATAAT
982034 AA
1 AA
982036 TGTTGATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 14 0.41
18 5 0.15
19 6 0.18
20 2 0.06
21 7 0.21
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATTTTAAATATAAT
Found at i:982122 original size:35 final size:38
Alignment explanation
Indices: 982044--982129 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 38
982034 AATGTTGATG
*
982044 ATATTTATTATATTATTTATTATGTTTATTAAATATATA
1 ATATTTA-TATATTATATATTATGTTTATTAAATATATA
*
982083 ATATTTATATATT-TATATTATTTTTATTTAAATATAT-
1 ATATTTATATATTATATATTATGTTTA-TTAAATATATA
*
982120 ATTTTTATAT
1 ATATTTATAT
982130 GTTTAGTGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 20 0.47
38 16 0.37
39 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (38 bp):
ATATTTATATATTATATATTATGTTTATTAAATATATA
Found at i:988362 original size:13 final size:13
Alignment explanation
Indices: 988346--988372 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
988336 TTCTTGTTCA
988346 TTTTTAAGTATGT
1 TTTTTAAGTATGT
988359 TTTTTAAGTATGT
1 TTTTTAAGTATGT
988372 T
1 T
988373 ACATCATCAG
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:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (13 bp):
TTTTTAAGTATGT
Found at i:989140 original size:43 final size:41
Alignment explanation
Indices: 989043--989149 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 41
989033 AAAATATTAA
* *
989043 TAAATTAAATTATAATTTA-AAAAATTTTTATTTTATAAATT
1 TAAATTAAATTA-AATTTATTAAAATTGTTATTTTATAAATT
*
989084 TAAATTAATTTAAA-TTATTAAAATTGTTATTTTAAATTAAA-T
1 TAAATTAAATTAAATTTATTAAAATTGTTATTTT--A-TAAATT
989126 TAAATATAAATTAAATTTATTAAA
1 TAAAT-TAAATTAAATTTATTAAA
989150 TCAGAATCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
39 3 0.05
40 15 0.27
41 11 0.20
42 7 0.12
43 12 0.21
44 8 0.14
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (41 bp):
TAAATTAAATTAAATTTATTAAAATTGTTATTTTATAAATT
Found at i:990972 original size:25 final size:25
Alignment explanation
Indices: 990944--990991 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
990934 TTGAATTATA
* **
990944 TTTATGAGATAAATTTTAAATTTTT
1 TTTATGAAATAAATAATAAATTTTT
*
990969 TTTATTAAATAAATAATAAATTT
1 TTTATGAAATAAATAATAAATTT
990992 ACAAAGGAGA
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:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTATGAAATAAATAATAAATTTTT
Found at i:991925 original size:21 final size:23
Alignment explanation
Indices: 991892--991948 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
991882 TTCAAATGTA
*
991892 TAAAATT-TATTTAT-TAATTAT
1 TAAAATTATATTTATATAATAAT
991913 TAAAATTAT-TTTATAAATAATAAT
1 TAAAATTATATTTAT--ATAATAAT
991937 TAAAATTATATT
1 TAAAATTATATT
991949 AAATAGTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 12 0.40
22 1 0.03
24 15 0.50
25 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAATTATATTTATATAATAAT
Found at i:991958 original size:22 final size:24
Alignment explanation
Indices: 991906--991958 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
991896 ATTTATTTAT
* *
991906 TAATTATTAAAATTATTTTATAAA
1 TAATAATTAAAATTATTATATAAA
991930 TAATAATTAAAATTA-TAT-TAAA
1 TAATAATTAAAATTATTATATAAA
*
991952 TAGTAAT
1 TAATAAT
991959 ATGGAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 10 0.38
23 2 0.08
24 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TAATAATTAAAATTATTATATAAA
Found at i:992368 original size:17 final size:17
Alignment explanation
Indices: 992346--992406 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 17
992336 ATATATTTAA
*
992346 TAAATATTATTAAAT-AT
1 TAAATA-TAATAAATAAT
992363 TAAATATAATAAATAAT
1 TAAATATAATAAATAAT
* * *
992380 T-AATAAAATATATATT
1 TAAATATAATAAATAAT
*
992396 TAATTATAATA
1 TAAATATAATA
992407 TTAAAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATATAATAAATAAT
Found at i:993084 original size:18 final size:18
Alignment explanation
Indices: 993063--993120 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
993053 ATTTAATATT
993063 TATAATATACTTCATAAA
1 TATAATATACTTCATAAA
*
993081 TATAA-A-ACTTTACGT-AA
1 TATAATATAC-TT-CATAAA
* *
993098 TAAAATATACTTCACAAA
1 TATAATATACTTCATAAA
993116 TATAA
1 TATAA
993121 AAAATAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
16 2 0.07
17 10 0.33
18 16 0.53
19 2 0.07
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (18 bp):
TATAATATACTTCATAAA
Found at i:995315 original size:19 final size:18
Alignment explanation
Indices: 995284--995337 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
995274 ATTATTGATA
995284 AATATAAAATATATAAAATGT
1 AATAT-AAATATATAAAA--T
995305 AATAT-AATATA-AAAAT
1 AATATAAATATATAAAAT
995321 AATATAAATATATAAAA
1 AATATAAATATATAAAA
995338 AAATTACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 8 0.26
19 6 0.19
21 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AATATAAATATATAAAAT
Found at i:995338 original size:19 final size:19
Alignment explanation
Indices: 995284--995338 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
995274 ATTATTGATA
*
995284 AATATAAAATATATAAAATGT
1 AATAT-AAATATATAAAA-AT
995305 AATAT--A-ATATAAAAAT
1 AATATAAATATATAAAAAT
995321 AATATAAATATATAAAAA
1 AATATAAATATATAAAAA
995339 AATTACATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 6 0.20
17 8 0.27
18 2 0.07
19 9 0.30
21 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AATATAAATATATAAAAAT
Found at i:995366 original size:11 final size:11
Alignment explanation
Indices: 995311--995366 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
995301 ATGTAATATA
*
995311 ATATAAAAATA
1 ATATAAAAATT
*
995322 ATATAAATA-T
1 ATATAAAAATT
*
995332 ATAAAAAAATT
1 ATATAAAAATT
*
995343 ACATAAAAATT
1 ATATAAAAATT
995354 ATATAAAAATT
1 ATATAAAAATT
995365 AT
1 AT
995367 TACGTAACAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
10 7 0.19
11 30 0.81
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATAAAAATT
Found at i:997056 original size:6 final size:6
Alignment explanation
Indices: 997036--997072 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
997026 TTCAGTATGT
997036 CTACAA CTA-AA CTACAA CTACAA CTTACAA CTACAA C
1 CTACAA CTACAA CTACAA CTACAA C-TACAA CTACAA C
997073 AATATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (6 bp):
CTACAA
Found at i:997066 original size:13 final size:12
Alignment explanation
Indices: 997036--997072 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
997026 TTCAGTATGT
997036 CTACAACTA-AA
1 CTACAACTACAA
997047 CTACAACTACAA
1 CTACAACTACAA
997059 CTTACAACTACAA
1 C-TACAACTACAA
997072 C
1 C
997073 AATATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.38
12 3 0.12
13 12 0.50
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (12 bp):
CTACAACTACAA
Found at i:997069 original size:19 final size:17
Alignment explanation
Indices: 997036--997072 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
997026 TTCAGTATGT
997036 CTACAACTAAACTACAA
1 CTACAACTAAACTACAA
997053 CTACAACTTACAACTACAA
1 CTACAAC-TA-AACTACAA
997072 C
1 C
997073 AATATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
19 9 0.50
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (17 bp):
CTACAACTAAACTACAA
Found at i:997341 original size:2 final size:2
Alignment explanation
Indices: 997334--997373 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
997324 TGCAAATTGA
997334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
997374 TGATAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.