Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009597.1 Hibiscus syriacus cultivar Beakdansim tig00116976_pilon, whole genome shotgun sequence
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: 1557931
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 7
Found at i:570659 original size:24 final size:24
Alignment explanation
Indices: 570597--570665 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
570587 AAGTACAAAA
* *
570597 CAGAGTCCATGTCAAGTATCATAT
1 CAGAATCCATGTCAAATATCATAT
* * *
570621 AAAAATTCA-GATCAAATATCATAT
1 CAGAATCCATG-TCAAATATCATAT
*
570645 CAGAATCCATGTCAAAAATCA
1 CAGAATCCATGTCAAATATCA
570666 GATAAACTAT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (24 bp):
CAGAATCCATGTCAAATATCATAT
Found at i:571394 original size:29 final size:29
Alignment explanation
Indices: 571375--571456 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
571365 GCACCATTTT
571375 CGAATTAATTCCCAGAATAGCACCAAAAC
1 CGAATTAATTCCCAGAATAGCACCAAAAC
*
571404 CAAATTAATTCCCAGAATAGCACCAAAAC
1 CGAATTAATTCCCAGAATAGCACCAAAAC
571433 CGAATTAATTCCCAGAATAGCACC
1 CGAATTAATTCCCAGAATAGCACC
571457 GGTCAACGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (29 bp):
CGAATTAATTCCCAGAATAGCACCAAAAC
Found at i:571503 original size:13 final size:12
Alignment explanation
Indices: 571457--571513 Score: 51
Period size: 14 Copynumber: 4.3 Consensus size: 12
571447 GAATAGCACC
*
571457 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
*
571471 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
571485 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
571498 GGTCAACGGTCG
1 GGTCAACGGTCG
571510 GGTC
1 GGTC
571514 GGGTAAACGG
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
12 9 0.22
13 7 0.17
14 21 0.51
15 4 0.10
ACGTcount: A:0.21, C:0.26, G:0.37, T:0.16
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:571508 original size:7 final size:7
Alignment explanation
Indices: 571456--571493 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
571446 AGAATAGCAC
571456 CGGTCAA
1 CGGTCAA
571463 CGGTCAA
1 CGGTCAA
571470 CGGTCAA
1 CGGTCAA
571477 CGGTCAA
1 CGGTCAA
571484 CGGTCAA
1 CGGTCAA
571491 CGG
1 CGG
571494 GTCGGGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.32, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:571513 original size:17 final size:17
Alignment explanation
Indices: 571491--571523 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
571481 CAACGGTCAA
*
571491 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTAAACGGT
571508 CGGGTCGGGTAAACGG
1 CGGGTCGGGTAAACGG
571524 GTAAACGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.15
Consensus pattern (17 bp):
CGGGTCGGGTAAACGGT
Found at i:571553 original size:19 final size:19
Alignment explanation
Indices: 571538--571578 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
571528 ACGGGTCGTG
571538 ACCGGTCAAACCGGTCAAA
1 ACCGGTCAAACCGGTCAAA
*
571557 ACCGGTTAAACCGGTCAAA
1 ACCGGTCAAACCGGTCAAA
571576 ACC
1 ACC
571579 AGTTTCCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.20, T:0.12
Consensus pattern (19 bp):
ACCGGTCAAACCGGTCAAA
Found at i:571558 original size:10 final size:10
Alignment explanation
Indices: 571538--571578 Score: 59
Period size: 9 Copynumber: 4.3 Consensus size: 10
571528 ACGGGTCGTG
571538 ACCGGTC-AA
1 ACCGGTCAAA
571547 ACCGGTCAAA
1 ACCGGTCAAA
*
571557 ACCGGT-TAA
1 ACCGGTCAAA
571566 ACCGGTCAAA
1 ACCGGTCAAA
571576 ACC
1 ACC
571579 AGTTTCCAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.37, C:0.32, G:0.20, T:0.12
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:576713 original size:22 final size:22
Alignment explanation
Indices: 576682--576769 Score: 104
Period size: 22 Copynumber: 3.9 Consensus size: 22
576672 ATATTTATCT
* *
576682 CGAAGCACCACATGATATGTCC
1 CGAAGGACCACTTGATATGTCC
*
576704 CGAAAGACCACTTGATATGTCC
1 CGAAGGACCACTTGATATGTCC
* * *
576726 CGTAGGACCACTTAAATATGTCT
1 CGAAGGACCACTT-GATATGTCC
576749 CGAAGGACCACTTGAATATGT
1 CGAAGGACCACTTG-ATATGT
576770 GACCATGTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
22 30 0.55
23 25 0.45
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (22 bp):
CGAAGGACCACTTGATATGTCC
Found at i:577423 original size:20 final size:21
Alignment explanation
Indices: 577392--577430 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
577382 TTTTTCCTTT
*
577392 AGGGGAAATCGATTCCCCCCC
1 AGGGGAAATCGATACCCCCCC
577413 AGGGG-AATCGATACCCCC
1 AGGGGAAATCGATACCCCC
577431 TAGACATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.36, G:0.26, T:0.13
Consensus pattern (21 bp):
AGGGGAAATCGATACCCCCCC
Found at i:578310 original size:14 final size:14
Alignment explanation
Indices: 578281--578317 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
578271 AGAAGAAGAA
578281 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
578296 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
578310 GAAGAAAA
1 GAAGAAAA
578318 TACCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:580690 original size:140 final size:140
Alignment explanation
Indices: 580438--580720 Score: 512
Period size: 140 Copynumber: 2.0 Consensus size: 140
580428 GCAAACGTTG
*
580438 TATTATGTGTATTTTATGTGTAAAATTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTAAGTGTAAAATTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
580503 TTGAACATTGCTATGATTTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACA
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGAAACA
*
580568 TGAATTTGAC
131 CGAATTTGAC
*
580578 TATTATGTGTATTTTAAGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTAAGTGTAAAATTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
580643 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGAAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGAAACA
580708 CGAATTTGAC
131 CGAATTTGAC
580718 TAT
1 TAT
580721 CGCAACGCGA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTAAGTGTAAAATTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGAAACA
CGAATTTGAC
Found at i:580716 original size:20 final size:20
Alignment explanation
Indices: 580691--580787 Score: 140
Period size: 20 Copynumber: 4.8 Consensus size: 20
580681 TTACACATTC
* *
580691 ATTTGAATATCGAAACGCGA
1 ATTTGACTATCGCAACGCGA
580711 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
580731 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
580751 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
580771 ATTTGACTATCCCAACG
1 ATTTGACTATCGCAACG
580788 AGAAAATCAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:580909 original size:20 final size:20
Alignment explanation
Indices: 580826--580923 Score: 142
Period size: 20 Copynumber: 4.9 Consensus size: 20
580816 GCAACGCGAA
*
580826 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
580846 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
*
580866 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
580886 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
580906 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
580924 AAGTGTACCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.12, C:0.18, G:0.26, T:0.44
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:581062 original size:14 final size:14
Alignment explanation
Indices: 581043--581079 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
581033 CATCAATTAA
581043 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
581057 ACAAATTAACTTTT
1 ACAAATCAACTTTT
581071 ACAAATCAA
1 ACAAATCAA
581080 TTAAACAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:582516 original size:21 final size:21
Alignment explanation
Indices: 582455--582549 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 21
582445 GTGAATCGGG
* * * *
582455 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGATGAGAGGGGC
* *
582476 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
582497 CTCTTGAACGATGAGAGGGGA
1 CTCTTGAACGATGAGAGGGGC
** * *
582518 CTCTTGAGGGATTATA-GGGC
1 CTCTTGAACGATGAGAGGGGC
582538 CTCTTGAACGAT
1 CTCTTGAACGAT
582550 AGGAGAGACA
Statistics
Matches: 58, Mismatches: 16, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
20 13 0.22
21 45 0.78
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:583089 original size:20 final size:20
Alignment explanation
Indices: 583066--583133 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
583056 GAAACTTAAA
**
583066 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAATTTGACT
583086 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
583106 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
583126 ATCGCAAC
1 ATCGCAAC
583134 AAGATAATCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:583163 original size:33 final size:34
Alignment explanation
Indices: 583126--583191 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
583116 GAATTTGACT
* * *
583126 ATCGCAACAAGATAATCGTAATGCGAAA-TAAAA
1 ATCGCAACAAGAAAATCGCAACGCGAAACTAAAA
583159 ATCGCAACAAGAAAATCGCAACGCGAAACTAAA
1 ATCGCAACAAGAAAATCGCAACGCGAAACTAAA
583192 TTTGCGTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.52, C:0.20, G:0.15, T:0.14
Consensus pattern (34 bp):
ATCGCAACAAGAAAATCGCAACGCGAAACTAAAA
Found at i:583257 original size:33 final size:34
Alignment explanation
Indices: 583195--583271 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 34
583185 AACTAAATTT
* *
583195 GCGTTGCGATTTTCATTTTTGCATTGCGATTTTC
1 GCGTTGCGATTTTCATTTTCGCATTGCGATTATC
*
583229 GCGTTGCGATTTTTA-TTTCGCATTGCGATTATC
1 GCGTTGCGATTTTCATTTTCGCATTGCGATTATC
*
583262 CCGTTGCGAT
1 GCGTTGCGAT
583272 AGTCAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 25 0.64
34 14 0.36
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.45
Consensus pattern (34 bp):
GCGTTGCGATTTTCATTTTCGCATTGCGATTATC
Found at i:583288 original size:20 final size:20
Alignment explanation
Indices: 583263--583331 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
583253 GCGATTATCC
583263 CGTTGCGATAGTCAAATTT-G
1 CGTTGCGATAGTC-AATTTCG
583283 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
*
583303 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
583323 CGTTGCGAT
1 CGTTGCGAT
583332 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
18 4 0.09
20 38 0.84
21 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:585270 original size:20 final size:20
Alignment explanation
Indices: 585241--585307 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
585231 TCTAAAACTT
*
585241 AAAATTGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
585261 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
585281 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
585300 AAAATCGC
1 AAAATCGC
585308 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 6 0.15
20 34 0.85
ACGTcount: A:0.49, C:0.22, G:0.15, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:585752 original size:22 final size:22
Alignment explanation
Indices: 585690--585754 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
585680 TCTGAGAGAT
*
585690 GGAGAT-A-GACGGATTTCGCC
1 GGAGATGAGGACGGATTTCGTC
*
585710 GGAGATGGGGACGGATTTCGTC
1 GGAGATGAGGACGGATTTCGTC
*
585732 GGAGATGAGGACGGATGTCGTC
1 GGAGATGAGGACGGATTTCGTC
585754 G
1 G
585755 TAGAGAGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.15
22 33 0.85
ACGTcount: A:0.22, C:0.15, G:0.43, T:0.20
Consensus pattern (22 bp):
GGAGATGAGGACGGATTTCGTC
Found at i:586042 original size:20 final size:19
Alignment explanation
Indices: 586019--586064 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
586009 GGAAACTGAT
* *
586019 TTGCGATACTAGAGATCGCG
1 TTGCGAT-CTAGAAATCGCA
*
586039 TTGCGATTTAGAAATCGCA
1 TTGCGATCTAGAAATCGCA
586058 TTGCGAT
1 TTGCGAT
586065 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAAATCGCA
Found at i:586055 original size:19 final size:19
Alignment explanation
Indices: 586028--586066 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
586018 TTTGCGATAC
* *
586028 TAGAGATCGCGTTGCGATT
1 TAGAAATCGCATTGCGATT
586047 TAGAAATCGCATTGCGATT
1 TAGAAATCGCATTGCGATT
586066 T
1 T
586067 TGTTGGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (19 bp):
TAGAAATCGCATTGCGATT
Found at i:586577 original size:2 final size:2
Alignment explanation
Indices: 586570--586598 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
586560 ATAAAACATT
586570 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
586599 TAGGCTTAAA
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:592552 original size:29 final size:30
Alignment explanation
Indices: 592515--592603 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
592505 TTACTTTGTT
*
592515 TTAACTTATTAAATAT-TTTTATTTTTATC
1 TTAATTTATTAAATATATTTTATTTTTATC
* *
592544 TTAATTTATTAAATATATTTTGTTTTTATT
1 TTAATTTATTAAATATATTTTATTTTTATC
* * *
592574 TTAATATA-AAATATATATTTTATCTTTATC
1 TTAATTTATTAA-ATATATTTTATTTTTATC
592604 ATCACTTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 17 0.34
30 33 0.66
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (30 bp):
TTAATTTATTAAATATATTTTATTTTTATC
Found at i:592673 original size:26 final size:26
Alignment explanation
Indices: 592637--592690 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
592627 ATATCTTAAC
592637 TTGAAAAATATTTAAATATTTTACTA
1 TTGAAAAATATTTAAATATTTTACTA
592663 TTGAAAAATATTTAAATATTTTACTA
1 TTGAAAAATATTTAAATATTTTACTA
592689 TT
1 TT
592691 AATTTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (26 bp):
TTGAAAAATATTTAAATATTTTACTA
Found at i:618936 original size:2 final size:2
Alignment explanation
Indices: 618931--618957 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
618921 ACAGTGTGTG
618931 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 T
618958 GTACCTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:618942 original size:21 final size:19
Alignment explanation
Indices: 618898--618940 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
618888 ATTCAAGTGA
618898 ATATACAGTGTGTGTATAT
1 ATATACAGTGTGTGTATAT
618917 ATATACAGTGTGTGTATAT
1 ATATACAGTGTGTGTATAT
618936 ATATA
1 ATATA
618941 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.42
Consensus pattern (19 bp):
ATATACAGTGTGTGTATAT
Found at i:626267 original size:2 final size:2
Alignment explanation
Indices: 626260--626299 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
626250 AAACATTTTA
626260 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
626300 TTCCATCGCT
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
Found at i:627592 original size:14 final size:15
Alignment explanation
Indices: 627573--627601 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
627563 AAAAATTTCA
627573 ATTCAAA-TTAAATT
1 ATTCAAATTTAAATT
627587 ATTCAAATTTAAATT
1 ATTCAAATTTAAATT
627602 TAAATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTCAAATTTAAATT
Found at i:627594 original size:26 final size:26
Alignment explanation
Indices: 627565--627615 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
627555 TTTATTTAAA
*
627565 AAATTTCAATTCAAAT-TAAATTATTC
1 AAATTTAAATTCAAATAT-AATTATTC
*
627591 AAATTTAAATTTAAATATAATTATT
1 AAATTTAAATTCAAATATAATTATT
627616 TATAATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATTTAAATTCAAATATAATTATTC
Found at i:649065 original size:19 final size:19
Alignment explanation
Indices: 649037--649074 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
649027 TTTGGATTAT
* *
649037 ATTACTCTTGAGATAAGAA
1 ATTACCCTTGAAATAAGAA
649056 ATTACCCTTGAAATAAGAA
1 ATTACCCTTGAAATAAGAA
649075 GTTTTGTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (19 bp):
ATTACCCTTGAAATAAGAA
Found at i:649589 original size:21 final size:21
Alignment explanation
Indices: 649543--649589 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
649533 GTCCGAGTTA
* * *
649543 CCCGCGACGGCCGTAATTGCG
1 CCCGCGACGACCGCAATAGCG
*
649564 TCCGCGACGACCGCAATAGCG
1 CCCGCGACGACCGCAATAGCG
649585 CCCGC
1 CCCGC
649590 AATCACGGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.43, G:0.30, T:0.11
Consensus pattern (21 bp):
CCCGCGACGACCGCAATAGCG
Found at i:657831 original size:14 final size:15
Alignment explanation
Indices: 657801--657830 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
657791 GTATTAGTTG
*
657801 ATAAATTTTAAAAAA
1 ATAAATGTTAAAAAA
657816 ATAAATGTTAAAAAA
1 ATAAATGTTAAAAAA
657831 TTAAGTATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
ATAAATGTTAAAAAA
Found at i:659022 original size:3 final size:3
Alignment explanation
Indices: 659014--659060 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
659004 CTATTTAATT
659014 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
659059 TT
1 TT
659061 TTGTTTATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:659040 original size:17 final size:17
Alignment explanation
Indices: 659018--659060 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
659008 TTAATTTTAT
659018 TATTATTATTATTATTA
1 TATTATTATTATTATTA
659035 TATTATTATTATTATTA
1 TATTATTATTATTATTA
659052 T-TTATTATT
1 TATTATTATT
659061 TTGTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:659040 original size:20 final size:19
Alignment explanation
Indices: 659013--659060 Score: 87
Period size: 20 Copynumber: 2.5 Consensus size: 19
659003 TCTATTTAAT
659013 TTTATTATTATTATTATTA
1 TTTATTATTATTATTATTA
659032 TTATATTATTATTATTATTA
1 TT-TATTATTATTATTATTA
659052 TTTATTATT
1 TTTATTATT
659061 TTGTTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTATTATTATTATTA
Found at i:666908 original size:105 final size:106
Alignment explanation
Indices: 666746--666944 Score: 267
Period size: 105 Copynumber: 1.9 Consensus size: 106
666736 CTTGAGACAA
* * * * ** **
666746 TTTCTCTCAAAATAAATTTCGTCTCGCTTTAAACATTTTTTTCTTTGAGATACAAATTTTGAATT
1 TTTCTCTCAAAACAAATTCCGTCTCGCTTGAAACACTTTTCCCTTTGAGATACAAATTTCAAATT
666811 TGTTTCAC-TTGAAACAAAATTAATCTCACCTTAGATTGTTG
66 TGTTTCACATT-AAACAAAATTAATCTCACCTTAGATTGTTG
* *
666852 TTTCTTTCAAAACAAATTCCGTCTCGCTTGAGAC-CTTTTCCCTTTGAGATACAAATTTCAAATT
1 TTTCTCTCAAAACAAATTCCGTCTCGCTTGAAACACTTTTCCCTTTGAGATACAAATTTCAAATT
* *
666916 TGTTTCACATTAAACAAAGTTGATCTCAC
66 TGTTTCACATTAAACAAAATTAATCTCAC
666945 TTGAAATCGT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
105 49 0.61
106 31 0.39
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (106 bp):
TTTCTCTCAAAACAAATTCCGTCTCGCTTGAAACACTTTTCCCTTTGAGATACAAATTTCAAATT
TGTTTCACATTAAACAAAATTAATCTCACCTTAGATTGTTG
Found at i:667007 original size:36 final size:35
Alignment explanation
Indices: 666955--667060 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 35
666945 TTGAAATCGT
* *
666955 TTTCTCAAAAATAAATTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAATAAATTTTGTCTCACTTGAGACAA
*
666990 TTTCTCTAAAATCAAATTTTGTCT-ATTTTGAGACAA
1 TTTCTCTAAAAT-AAATTTTGTCTCA-CTTGAGACAA
* * *
667026 TTTATCTCAAAGTAAATTTCGTCTCACTTGAGACA
1 TTTCTCT-AAAATAAATTTTGTCTCACTTGAGACA
667061 TTTTTTTCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
35 11 0.18
36 44 0.73
37 5 0.08
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (35 bp):
TTTCTCTAAAATAAATTTTGTCTCACTTGAGACAA
Found at i:667326 original size:28 final size:27
Alignment explanation
Indices: 667295--667390 Score: 96
Period size: 29 Copynumber: 3.6 Consensus size: 27
667285 CTTGAGACAT
667295 TTTCTCTTGAAACAAATCTTTGAGTCTG
1 TTTCTCTTGAAACAAATCTTTGAGT-TG
667323 TTTCT-TTAGAAACAAA--TTT---TTG
1 TTTCTCTT-GAAACAAATCTTTGAGTTG
* *
667345 TTTCTCTTGAGATAATATCTTTGAGTTTG
1 TTTCTCTTGAAACAA-ATCTTTGAG-TTG
667374 TTTCTCTTGAAACAAAT
1 TTTCTCTTGAAACAAAT
667391 TTTATTTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
22 12 0.22
23 4 0.07
25 3 0.05
26 3 0.05
27 2 0.04
28 15 0.27
29 16 0.29
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (27 bp):
TTTCTCTTGAAACAAATCTTTGAGTTG
Found at i:667370 original size:51 final size:50
Alignment explanation
Indices: 667295--667393 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 50
667285 CTTGAGACAT
667295 TTTCTCTTGAAACAAATCTTTGAGTCTGTTTCT-TTAGAAACAAATTTTTG
1 TTTCTCTTGAAACAAATCTTTGAGTCTGTTTCTCTT-GAAACAAATTTTTG
* * *
667345 TTTCTCTTGAGATAATATCTTTGAGTTTGTTTCTCTTGAAACAAATTTT
1 TTTCTCTTGAAACAA-ATCTTTGAGTCTGTTTCTCTTGAAACAAATTTT
667394 ATTTTCCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 13 0.30
51 29 0.66
52 2 0.05
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.48
Consensus pattern (50 bp):
TTTCTCTTGAAACAAATCTTTGAGTCTGTTTCTCTTGAAACAAATTTTTG
Found at i:667480 original size:66 final size:66
Alignment explanation
Indices: 667364--667487 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 66
667354 AGATAATATC
* * * * * *
667364 TTTGAGTTTGTTTCTCTTGAAACAAATTTTATTTTCCTAGAGATTGTTTCTTATGAAATAACCAT
1 TTTGAGATCGTTTCTCTTAAAACAAATCTTATTTTCCTAGAGACTGTTTCTCATGAAATAACCAT
667429 T
66 T
667430 TTTGAGATCGTTTCTCTTAAAACAAATCTTATTTTCC-ATGAGACCT-TTTCTCATGAAA
1 TTTGAGATCGTTTCTCTTAAAACAAATCTTATTTTCCTA-GAGA-CTGTTTCTCATGAAA
667488 CAACAAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
65 1 0.02
66 48 0.96
67 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.45
Consensus pattern (66 bp):
TTTGAGATCGTTTCTCTTAAAACAAATCTTATTTTCCTAGAGACTGTTTCTCATGAAATAACCAT
T
Found at i:667899 original size:29 final size:29
Alignment explanation
Indices: 667849--667933 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
667839 TTTAAACGTC
**
667849 ATCTTTGAGTTATTTCTTTTTGAAACAAAA
1 ATCTTTGAGTCGTTTC-TTTTGAAACAAAA
667879 ATCTTTGAGTCGTTTCTTTTGAAACAAAA
1 ATCTTTGAGTCGTTTCTTTTGAAACAAAA
667908 ATCTTTGAGTCGTTTCTTTTGAAACA
1 ATCTTTGAGTCGTTTCTTTTGAAACA
667934 CCATCATCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
29 39 0.74
30 14 0.26
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (29 bp):
ATCTTTGAGTCGTTTCTTTTGAAACAAAA
Found at i:668820 original size:21 final size:21
Alignment explanation
Indices: 668791--668843 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
668781 ATTCTAACTA
668791 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
668812 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
668833 TCGCAATGCGA
1 TCGCATTGCGA
668844 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:668858 original size:20 final size:20
Alignment explanation
Indices: 668833--668987 Score: 202
Period size: 20 Copynumber: 7.7 Consensus size: 20
668823 TTTTCCTAAT
668833 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
668853 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
668873 TCGCAATGTGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
668894 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
668914 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
668934 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
668955 TCCCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
668975 TCGCAATGCGAAT
1 TCGCAATGCGAAT
668988 CTGACTATCG
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
20 80 0.71
21 33 0.29
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:668909 original size:61 final size:61
Alignment explanation
Indices: 668836--668985 Score: 264
Period size: 61 Copynumber: 2.5 Consensus size: 61
668826 TCCTAATTCG
* * *
668836 CAATGCGAATACGTAAATCGCAACGCGATTACGTAAATCGCAATGTGAATTAGGAAAATCG
1 CAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCC
*
668897 TAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCC
1 CAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCC
668958 CAATGCGAATACGTAAATCGCAATGCGA
1 CAATGCGAATACGTAAATCGCAATGCGA
668986 ATCTGACTAT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 84 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (61 bp):
CAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCC
Found at i:668986 original size:41 final size:41
Alignment explanation
Indices: 668833--668987 Score: 206
Period size: 41 Copynumber: 3.8 Consensus size: 41
668823 TTTTCCTAAT
*
668833 TCGCAATGCGAATACGTAAATCGCAACGCG-ATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTACGTAAA
* * * *
668873 TCGCAATGTGAATTAGGAAAATCGTAATGCGAA-TACGTAAA
1 TCGCAATGCGAA-TACGTAAATCGCAATGCGAATTACGTAAA
* * *
668914 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTACGTAAA
*
668955 TCCCAATGCGAATACGTAAATCGCAATGCGAAT
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT
668988 CTGACTATCG
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 28 0.29
41 69 0.70
42 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.22
Consensus pattern (41 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTACGTAAA
Found at i:669276 original size:27 final size:27
Alignment explanation
Indices: 669219--669271 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
669209 CATCTCCGGC
* *
669219 GAAATCCCTCACAACCATTCACAGTCA
1 GAAATCCCTCACAACCATTCAAAATCA
*
669246 GAAATCCCTCACAATCATTCAGAAAT
1 GAAATCCCTCACAACCATTCA-AAAT
669272 GGAAAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.21
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCAAAATCA
Found at i:669564 original size:20 final size:20
Alignment explanation
Indices: 669539--669655 Score: 94
Period size: 20 Copynumber: 5.8 Consensus size: 20
669529 TTCTAAACTT
*
669539 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
669559 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
669579 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
* * **
669600 ATAATTGCAATGCGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
669620 ACTATCACAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
669639 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
669656 CCAAAATCGC
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
19 16 0.21
20 46 0.60
21 15 0.19
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:669661 original size:19 final size:19
Alignment explanation
Indices: 669627--669666 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
669617 ATGACTATCA
**
669627 CAACGCGAAATGAAAATCG
1 CAACGCGAAACCAAAATCG
669646 CAACGCGAAACCAAAATCG
1 CAACGCGAAACCAAAATCG
669665 CA
1 CA
669667 TTGCGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.07
Consensus pattern (19 bp):
CAACGCGAAACCAAAATCG
Found at i:669684 original size:19 final size:19
Alignment explanation
Indices: 669662--669754 Score: 63
Period size: 19 Copynumber: 5.1 Consensus size: 19
669652 GAAACCAAAA
669662 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
669681 TCGCGTTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
* *
669697 TCG--TTGTGATTTTAATT
1 TCGCATTGCGATTTTCATT
**
669714 TCG-AGTTGCGATAGTCATT
1 TCGCA-TTGCGATTTTCATT
*
669733 TCCGCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT
669753 TC
1 TC
669755 AACCAAAAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.09
16 6 0.11
17 7 0.13
19 22 0.40
20 15 0.27
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:669754 original size:39 final size:33
Alignment explanation
Indices: 669662--669754 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 33
669652 GAAACCAAAA
* *
669662 TCGCATTGCGATTTTCATTTCGCGTTGCGATTC
1 TCGCGTTGCGATTTTCATTTCGAGTTGCGATTC
* * *
669695 TCTCGTTGTGATTTTAATTTCGAGTTGCGATAGTC
1 TCGCGTTGCGATTTTCATTTCGAGTTGCGAT--TC
669730 ATTTCCGCGTTGCGATTTTCATTTC
1 ---T-CGCGTTGCGATTTTCATTTC
669755 AACCAAAAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
33 26 0.57
35 2 0.04
38 1 0.02
39 17 0.37
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (33 bp):
TCGCGTTGCGATTTTCATTTCGAGTTGCGATTC
Found at i:670419 original size:93 final size:93
Alignment explanation
Indices: 670166--670520 Score: 551
Period size: 93 Copynumber: 3.9 Consensus size: 93
670156 TGCTTAATCA
* * *
670166 CTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGTATTTGTCTTT-TGTTGTC
1 CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTC
* *
670226 TTTTGGTTGAAGTAAATTTATTCTGTTG
66 TTTTGGTTGAAGTAAATTTGTTCGGTTG
670254 CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTC
1 CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTC
670319 TTTTGGTTGAAAGTAAATTTGTTCGGTTG
66 TTTTGGTTG-AAGTAAATTTGTTCGGTTG
670348 CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGT-TTTGTTTTGTC
1 CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTC
*
670412 TTTTGGTTGAAAGTAAATTTGTTCGTTTG
66 TTTTGGTTG-AAGTAAATTTGTTCGGTTG
* * * * *
670441 CTGCCAGTTCTGCTAAACTGTATATTCTTTAATACTCTAAAGTTAGTATTTGTCTTTGTTTTGTC
1 CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTC
670506 TTTTGGTTGAAGTAA
66 TTTTGGTTGAAGTAA
670521 TGCAATCCAT
Statistics
Matches: 249, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
88 17 0.07
90 3 0.01
91 2 0.01
92 29 0.12
93 108 0.43
94 90 0.36
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (93 bp):
CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTC
TTTTGGTTGAAGTAAATTTGTTCGGTTG
Found at i:670486 original size:187 final size:181
Alignment explanation
Indices: 670166--670520 Score: 543
Period size: 187 Copynumber: 1.9 Consensus size: 181
670156 TGCTTAATCA
670166 CTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTGTCTTTTGTTGTCTTTTG
1 CTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTGTCTTTTGTTGTCTTTTG
* * *
670231 GTTGAAGTAAATTTATTCTGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAG
66 GTTGAAGTAAATTTATTCTGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTCTAAAG
670296 TTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTG
131 TTAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTG
* * *
670348 CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGT-TTTGTTTTGTC
1 CTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGTATTTGTCTTT-TGTTGTC
* * *
670412 TTTTGGTTGAAAGTAAATTTGTTC-GTTTGCTGCCAGTTCTGCTAAACTGTATATTCTTTAATAC
61 TTTTGGTTG-AAGTAAATTTATTCTG-TTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACAC
670476 TCTAAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAA
124 TCTAAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAA
670521 TGCAATCCAT
Statistics
Matches: 157, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
182 17 0.11
184 3 0.02
185 5 0.03
186 47 0.30
187 85 0.54
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (181 bp):
CTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTGTCTTTTGTTGTCTTTTG
GTTGAAGTAAATTTATTCTGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTCTAAAG
TTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTG
Found at i:670638 original size:20 final size:19
Alignment explanation
Indices: 670611--670712 Score: 96
Period size: 20 Copynumber: 5.2 Consensus size: 19
670601 TCTTTTGGTT
670611 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
670630 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGA
* *
670650 GAAACGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
670669 GAAACCAAAAATCGCAACGC
1 GAAA-TGAAAATCGCAACGA
** *
670689 GAAACCAAAAATCGCAACGC
1 GAAA-TGAAAATCGCAACGA
670709 GAAA
1 GAAA
670713 CTATAATCGC
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
19 22 0.28
20 56 0.72
ACGTcount: A:0.50, C:0.24, G:0.20, T:0.07
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:670713 original size:20 final size:20
Alignment explanation
Indices: 670637--670713 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
670627 CGAGAGAATG
*
670637 AAAATCGCAACGCGAAA-CG
1 AAAATCGCAACGCGAAACCA
670656 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
670676 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
670696 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
670714 TATAATCGCA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
19 17 0.30
20 39 0.70
ACGTcount: A:0.49, C:0.29, G:0.17, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:670721 original size:39 final size:38
Alignment explanation
Indices: 670617--670723 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 38
670607 GGTTGAAATG
* *
670617 AAAATCGCAACGAGAGAA-TGAAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGA-AACT-AAAATCGCAACGCGAAACA
*
670656 AAAATCGCAACGCGAAACCAAAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAA-CTAAAATCGCAACGCGAAA-CA
*
670696 AAAATCGCAACGCGAAACTATAATCGCA
1 AAAATCGCAACGCGAAACTAAAATCGCA
670724 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.03
39 40 0.67
40 18 0.30
ACGTcount: A:0.49, C:0.25, G:0.18, T:0.08
Consensus pattern (38 bp):
AAAATCGCAACGCGAAACTAAAATCGCAACGCGAAACA
Found at i:670741 original size:19 final size:19
Alignment explanation
Indices: 670719--670782 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
670709 GAAACTATAA
670719 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
670738 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
670754 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
670771 TCGCGTTGCGAT
1 TCGCATTGCGAT
670783 AGTCATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 6 0.16
16 7 0.18
17 7 0.18
19 18 0.47
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:672695 original size:14 final size:14
Alignment explanation
Indices: 672676--672711 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
672666 ATTGTTTAAT
672676 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
672690 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
672704 TGATTTGT
1 TGATTTGT
672712 TTAATTGATG
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:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:672949 original size:33 final size:33
Alignment explanation
Indices: 672907--673029 Score: 192
Period size: 33 Copynumber: 3.7 Consensus size: 33
672897 ACTAAATTCG
* *
672907 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
672940 CGTTGCGATTTTCATTTCACATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
672973 CGTTGCAATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
673006 CGTTGCGATTTTCATTTCGCATTG
1 CGTTGCGATTTTCATTTCGCATTG
673030 TGATAGTCAT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:673060 original size:20 final size:19
Alignment explanation
Indices: 673018--673060 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
673008 TTGCGATTTT
* *
673018 CATTTCGCATTGTGATAGT
1 CATTTCGCATTGCGATAGA
*
673037 CATTTCCGCGTTGCGATAGA
1 CATTT-CGCATTGCGATAGA
673057 CATT
1 CATT
673061 AAGATGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGA
Found at i:676499 original size:21 final size:21
Alignment explanation
Indices: 676475--676530 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
676465 GCGATTACGT
676475 AAATCGCAATGCGAA-TTAGG
1 AAATCGCAATGCGAATTTAGG
* *
676495 AAAATCGCAACGCGAATTTTGG
1 -AAATCGCAATGCGAATTTAGG
676517 AAATCGCAATGCGA
1 AAATCGCAATGCGA
676531 TAGTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (21 bp):
AAATCGCAATGCGAATTTAGG
Found at i:676724 original size:17 final size:16
Alignment explanation
Indices: 676702--676733 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
676692 TCTCTTAATT
676702 TTATTATTATATTATTA
1 TTATTATTAT-TTATTA
676719 TTATTATTATTTATT
1 TTATTATTATTTATT
676734 TTGTTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTATTTATTA
Found at i:680471 original size:17 final size:17
Alignment explanation
Indices: 680449--680489 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
680439 GGAAATAAAA
680449 AAGAAAAGCCTTAAACC
1 AAGAAAAGCCTTAAACC
680466 AAGAAAAGCCTTAAACC
1 AAGAAAAGCCTTAAACC
680483 AAGAAAA
1 AAGAAAA
680490 CCCTCGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.10
Consensus pattern (17 bp):
AAGAAAAGCCTTAAACC
Found at i:684158 original size:17 final size:17
Alignment explanation
Indices: 684133--684166 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
684123 AAGGCGCGCC
684133 TTCAATCGTGCTTTATA
1 TTCAATCGTGCTTTATA
*
684150 TTCATTCGTGCTTTATA
1 TTCAATCGTGCTTTATA
684167 CATTCCGCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (17 bp):
TTCAATCGTGCTTTATA
Found at i:684210 original size:3 final size:3
Alignment explanation
Indices: 684202--684312 Score: 109
Period size: 3 Copynumber: 37.3 Consensus size: 3
684192 AATTTTTCGT
** * * * *
684202 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA CTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
684250 -TA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA ATA -TA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
684296 TTA TTA TTTA TTA TTA T
1 TTA TTA -TTA TTA TTA T
684313 ATATATATAT
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
2 4 0.04
3 82 0.92
4 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:684262 original size:35 final size:35
Alignment explanation
Indices: 684206--684302 Score: 162
Period size: 35 Copynumber: 2.8 Consensus size: 35
684196 TTTCGTTTAT
684206 TATTATTAA-A-ATTATTATTATTATTATAAATAC
1 TATTATTAATATATTATTATTATTATTATAAATAC
*
684239 TATTATTAATATATTATTATTATTATTATAAATAT
1 TATTATTAATATATTATTATTATTATTATAAATAC
*
684274 TATTATTAATATAATATTATTATTATTAT
1 TATTATTAATATATTATTATTATTATTAT
684303 TTATTATTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 9 0.15
34 1 0.02
35 50 0.83
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (35 bp):
TATTATTAATATATTATTATTATTATTATAAATAC
Found at i:684317 original size:2 final size:2
Alignment explanation
Indices: 684310--684348 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
684300 TATTTATTAT
684310 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 T
684349 TACAAATTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:684321 original size:35 final size:34
Alignment explanation
Indices: 684203--684350 Score: 149
Period size: 35 Copynumber: 4.1 Consensus size: 34
684193 ATTTTTCGTT
*
684203 TATTATTATTAA-A-ATTATTATTATTATTATAAA
1 TATTATTATTAATATAATATTATTATTATTAT-AA
* *
684236 TACTATTATTAATATATTATTATTATTATTATAAA
1 TATTATTATTAATATAATATTATTATTATTAT-AA
*
684271 TATTATTATTAATATAATATTATTATTATTAT-T
1 TATTATTATTAATATAATATTATTATTATTATAA
684304 TATTATTATATATATATATATATATATATATATATATATATA
1 TATTATTAT-TA-ATATA-ATAT-TAT-TAT-TAT-TATA-A
684346 TATTA
1 TATTA
684351 CAAATTACAT
Statistics
Matches: 99, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
33 20 0.20
34 3 0.03
35 55 0.56
36 4 0.04
37 3 0.03
38 3 0.03
39 3 0.03
40 3 0.03
42 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (34 bp):
TATTATTATTAATATAATATTATTATTATTATAA
Found at i:685810 original size:138 final size:139
Alignment explanation
Indices: 685667--685922 Score: 347
Period size: 138 Copynumber: 1.8 Consensus size: 139
685657 AAAAATTACA
* *
685667 TTTTTA-ATATTTATTTTATTTATTAATATC-AAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTT
1 TTTTTAGATATTTA-TTTATTTATTAATATCGAAGAAAAGAGCTATCTTAAAGCACCTAGAAG-C
** * * *
685730 TTTTTTTTGATATTCATAAATAAATAAATATCCTGTTTTTATAAATT-ATATATTAATTATTTTT
64 CCTTTTCTGATATTCATAAATAAATAAATATCCTATTTTTACAAATTAATATATTAATTATTTTT
685794 AGAAAAAATGT
129 AGAAAAAATGT
* * *
685805 TTTTTAGTTATTTATTTATTTTTTAATATCGAAGAAATGAGCTATCTTAAAGCACCTAGAAGCCC
1 TTTTTAGATATTTATTTATTTATTAATATCGAAGAAAAGAGCTATCTTAAAGCACCTAGAAGCCC
** * *
685870 TTTTCTGATATTTTTAAATAAATAAATATCTTATTTTTACATATTAATATATT
66 TTTTCTGATATTCATAAATAAATAAATATCCTATTTTTACAAATTAATATATT
685923 TTCTTAAAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 59 0.58
139 42 0.42
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (139 bp):
TTTTTAGATATTTATTTATTTATTAATATCGAAGAAAAGAGCTATCTTAAAGCACCTAGAAGCCC
TTTTCTGATATTCATAAATAAATAAATATCCTATTTTTACAAATTAATATATTAATTATTTTTAG
AAAAAATGT
Found at i:688780 original size:15 final size:13
Alignment explanation
Indices: 688742--688785 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
688732 AGTAAACACC
*
688742 TTTTCATATATGCA
1 TTTTCAT-TTTGCA
688756 TTTTCATTTTGCA
1 TTTTCATTTTGCA
688769 TCTTTGCATTTTGCA
1 T-TTT-CATTTTGCA
688784 TT
1 TT
688786 CATACTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 6 0.22
14 11 0.41
15 10 0.37
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.57
Consensus pattern (13 bp):
TTTTCATTTTGCA
Found at i:688783 original size:7 final size:7
Alignment explanation
Indices: 688752--688785 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
688742 TTTTCATATA
688752 TGCATTT
1 TGCATTT
688759 T-CATTT
1 TGCATTT
688765 TGCATCTT
1 TGCAT-TT
688773 TGCATTT
1 TGCATTT
688780 TGCATT
1 TGCATT
688786 CATACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:693030 original size:115 final size:115
Alignment explanation
Indices: 692870--693441 Score: 939
Period size: 115 Copynumber: 5.0 Consensus size: 115
692860 AAGTTCCATG
* * * * *
692870 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATC
1 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
692935 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
* * *
692985 TGCTCATAGTATAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTAAGTTATCTGATC
1 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
693050 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
693100 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
* * *
693165 TGGTTTGGTATGAACCCCAAAAACTAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
*
693215 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATATGATC
1 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
* *
693280 TGGTTTGGTATGAACCCCAAAAATCTATCATTAGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
*
693330 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
693395 TGGTTCGGTAGGAACCAC-AGAACCAATCATTGGAATTAAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAA
693442 CTGCATGATC
Statistics
Matches: 428, Mismatches: 29, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
114 23 0.05
115 405 0.95
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (115 bp):
TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
Found at i:694448 original size:75 final size:75
Alignment explanation
Indices: 694324--694499 Score: 187
Period size: 75 Copynumber: 2.3 Consensus size: 75
694314 TCAGAAACAG
* *
694324 ATATTGGGGTA-GACTGAAAGCCCATTTCAATTAGAATCAGAAATATTGATGTA-TTCTGAACAT
1 ATATTGGGGCATG-CTGAAAGCCCATTTCAATCAGAATCAGAAATATTGATGTATTTCTGAACAT
*
694387 TTATATCAGCAA
65 TCATATCAGC-A
* * * * *
694399 ATATTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-AGGACTGTTGATGTATTTTTTGAACG
1 ATATTGGGGCATGCTGAAAGCCCATTTCAATCAG-AATCAGAAATATTGATGTA-TTTCTGAACA
*
694463 TTCGTATCAGCA
64 TTCATATCAGCA
* * *
694475 ATGTTGGGACATGCTGAAGGCCCAT
1 ATATTGGGGCATGCTGAAAGCCCAT
694500 ATCATCATGT
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
75 42 0.49
76 27 0.32
77 16 0.19
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (75 bp):
ATATTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGAAATATTGATGTATTTCTGAACATT
CATATCAGCA
Found at i:695770 original size:22 final size:22
Alignment explanation
Indices: 695745--695821 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
695735 ATCTACATTC
*
695745 TTCAAATATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
695767 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
695789 TTTAAATATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
695811 TTCAAAGATGA
1 TTCAAAGATGA
695822 AAGCTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:696598 original size:76 final size:76
Alignment explanation
Indices: 696499--697364 Score: 1633
Period size: 76 Copynumber: 11.4 Consensus size: 76
696489 CTATTTCCCA
*
696499 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
696564 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
696575 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAACGCCTTCGGGAGCTTTTTGACGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
696640 AGCCTTAGGGT
66 AGCCTTAGGGT
696651 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
696716 AACCTTAGGGT
66 AGCCTTAGGGT
696727 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
696792 AGCCTTAGGGT
66 AGCCTTAGGGT
696803 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
696868 AGCCTTAGGGT
66 AGCCTTAGGGT
*
696879 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
696944 AGCCTTAGGGT
66 AGCCTTAGGGT
*
696955 CATCTGTAAGTCCTACAGTGCTTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
697020 AGCCTTAGGGT
66 AGCCTTAGGGT
*
697031 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
697096 AGCCTTAGGGT
66 AGCCTTAGGGT
697107 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
697172 AGCCTTAGGGT
66 AGCCTTAGGGT
697183 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
697248 CGCCTTAGGGT
66 AGCCTTAGGGT
697259 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
697324 AGCCTTAGGAT
66 AGCCTTAGGGT
* *
697335 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
697365 TTAAGACCTC
Statistics
Matches: 772, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 772 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:697518 original size:3 final size:3
Alignment explanation
Indices: 697510--697668 Score: 135
Period size: 3 Copynumber: 53.7 Consensus size: 3
697500 AATTTTTCGT
* ** * * *
697510 TTA TTA TTA TGA AAA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
697558 -TA ATA ATA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA ATA -TA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
697604 ATA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA ATA -TA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
697651 TTA TTA TTTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TT
697669 TATATATATA
Statistics
Matches: 129, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
2 6 0.05
3 120 0.93
4 3 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:697579 original size:41 final size:41
Alignment explanation
Indices: 697524--697664 Score: 264
Period size: 41 Copynumber: 3.4 Consensus size: 41
697514 TATTATGAAA
697524 ATTATTATTATTATTATAAATATTATTATTAATATAATAAT
1 ATTATTATTATTATTATAAATATTATTATTAATATAATAAT
697565 ATTATTATTATTATTATAAATATTATTATTAATATAATAAT
1 ATTATTATTATTATTATAAATATTATTATTAATATAATAAT
*
697606 ATTATTATTATTATTATAAATATTATTATTAATATAATATT
1 ATTATTATTATTATTATAAATATTATTATTAATATAATAAT
697647 ATTATTATTATTTATTAT
1 ATTATTATTA-TTATTAT
697665 TATTTATATA
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 91 0.93
42 7 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (41 bp):
ATTATTATTATTATTATAAATATTATTATTAATATAATAAT
Found at i:710889 original size:16 final size:16
Alignment explanation
Indices: 710868--710899 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
710858 AAATCAAAGT
710868 GTTATTTTTTTATGCA
1 GTTATTTTTTTATGCA
710884 GTTATTTTTTTATGCA
1 GTTATTTTTTTATGCA
710900 AGTGTGGGAG
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:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (16 bp):
GTTATTTTTTTATGCA
Found at i:720171 original size:2 final size:2
Alignment explanation
Indices: 720164--720188 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
720154 TGCCTTCTCT
720164 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
720189 CCTCACGATT
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:720373 original size:22 final size:22
Alignment explanation
Indices: 720329--720370 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
720319 TAAATCAATT
*
720329 TCATATAACTCCTATAATCTTC
1 TCATATAACTCCTATAACCTTC
*
720351 TCATATAACTTC-ATAACCTT
1 TCATATAACTCCTATAACCTT
720371 TCTTATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TCATATAACTCCTATAACCTTC
Found at i:720845 original size:21 final size:21
Alignment explanation
Indices: 720815--720859 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
720805 ATTCTGTCGT
* *
720815 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
720836 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
720857 TTG
1 TTG
720860 TCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:723836 original size:22 final size:22
Alignment explanation
Indices: 723792--723833 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
723782 TAAATCAATT
*
723792 TCATATAACTCCTATAATCTTC
1 TCATATAACTCCTATAACCTTC
*
723814 TCATATAACTTC-ATAACCTT
1 TCATATAACTCCTATAACCTT
723834 TCTTATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TCATATAACTCCTATAACCTTC
Found at i:724308 original size:21 final size:21
Alignment explanation
Indices: 724278--724322 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
724268 ATTCTGTCGT
* *
724278 TTGAAAGGGTATCGGTTCCCC
1 TTGAAAGGGTACCGATTCCCC
*
724299 TTGAATGGGTACCGATTCCCC
1 TTGAAAGGGTACCGATTCCCC
724320 TTG
1 TTG
724323 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
TTGAAAGGGTACCGATTCCCC
Found at i:748079 original size:63 final size:63
Alignment explanation
Indices: 747960--748101 Score: 173
Period size: 63 Copynumber: 2.2 Consensus size: 63
747950 ATGCATTGGT
* *
747960 AGTGCATCGATGCACTCTTTTAATAAGGAAACATCGAATGCAATTAGTGCATCGATGCATAAGGC
1 AGTGCATCGATGCA-TCTTATAATAAGGAAACATCGAATGCAATTAGTGCACCGATGCATAA-GC
* * * *
748025 A-TGCATCGATGCATCTTATAATAA-TACAACATCGAATGCATTTTA-TGCACCGATGCATCAGT
1 AGTGCATCGATGCATCTTATAATAAGGA-AACATCGAATGCA-ATTAGTGCACCGATGCATAAGC
748087 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
748102 ACCTTCATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
62 3 0.04
63 49 0.72
64 15 0.22
65 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (63 bp):
AGTGCATCGATGCATCTTATAATAAGGAAACATCGAATGCAATTAGTGCACCGATGCATAAGC
Found at i:749100 original size:24 final size:22
Alignment explanation
Indices: 749058--749120 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 22
749048 ATTATTATAT
749058 GGCACTACGGTGCAATTCTACG
1 GGCACTACGGTGCAATTCTACG
*
749080 CGGCACTCCGGTTGCAATTCTACG
1 -GGCACTACGG-TGCAATTCTACG
*
749104 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
749121 ATAGAGCTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 7 0.19
23 18 0.49
24 12 0.32
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (22 bp):
GGCACTACGGTGCAATTCTACG
Found at i:751586 original size:103 final size:103
Alignment explanation
Indices: 751407--751613 Score: 398
Period size: 103 Copynumber: 2.0 Consensus size: 103
751397 GAGGAAGGAA
751407 GTGAGGATTCAAATGTTTGAGTAAAACTAAGGATTGATAAGAAGAGTTAAGTATGGTTCTTAAGG
1 GTGAGGATTCAAATGTTTGAGTAAAACTAAGGATTGATAAGAAGAGTTAAGTATGGTTCTTAAGG
751472 AATGATATGTGGTCATTCGGGACATATATGTATTCTTT
66 AATGATATGTGGTCATTCGGGACATATATGTATTCTTT
751510 GTGAGGATTCAAATGTTTGAGTAAAACTAAGGA-TGATAAGAAGAGTTTAAGTATGGTTCTTAAG
1 GTGAGGATTCAAATGTTTGAGTAAAACTAAGGATTGATAAGAAGAG-TTAAGTATGGTTCTTAAG
751574 GAATGATATGTGGTCATTCGGGACATATATGTATTCTTT
65 GAATGATATGTGGTCATTCGGGACATATATGTATTCTTT
751613 G
1 G
751614 GAACATGTGT
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 12 0.12
103 91 0.88
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.35
Consensus pattern (103 bp):
GTGAGGATTCAAATGTTTGAGTAAAACTAAGGATTGATAAGAAGAGTTAAGTATGGTTCTTAAGG
AATGATATGTGGTCATTCGGGACATATATGTATTCTTT
Found at i:751746 original size:23 final size:23
Alignment explanation
Indices: 751711--751773 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
751701 ATTATTATAT
751711 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
751734 GGCACTCCAGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
751757 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
751774 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:756353 original size:15 final size:15
Alignment explanation
Indices: 756333--756362 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
756323 TAAATGGCTC
*
756333 CTATGATCCGCCATT
1 CTATGATCCACCATT
756348 CTATGATCCACCATT
1 CTATGATCCACCATT
756363 GAAGCTGGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.33
Consensus pattern (15 bp):
CTATGATCCACCATT
Found at i:761537 original size:13 final size:13
Alignment explanation
Indices: 761519--761549 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
761509 CGAGGCACTT
761519 GATTTAAGTGTGA
1 GATTTAAGTGTGA
761532 GATTTAAGTGTGA
1 GATTTAAGTGTGA
*
761545 CATTT
1 GATTT
761550 TAACTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (13 bp):
GATTTAAGTGTGA
Found at i:770346 original size:23 final size:23
Alignment explanation
Indices: 770287--770357 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
770277 ATTATAAATT
*
770287 AATAATTATTTCAAAATTAATTATTA
1 AATAATTATTT--AAATT-ATTATAA
*
770313 AAT--TTA-CTAAATTATTATAA
1 AATAATTATTTAAATTATTATAA
* *
770333 AATAATTATTTAAAATGTTATAA
1 AATAATTATTTAAATTATTATAA
770356 AA
1 AA
770358 CAACCATTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
20 9 0.24
21 5 0.14
22 3 0.08
23 14 0.38
24 3 0.08
26 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (23 bp):
AATAATTATTTAAATTATTATAA
Found at i:777009 original size:3 final size:3
Alignment explanation
Indices: 777001--777033 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
776991 GAATAGGGTT
777001 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
777034 ATTATAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:778212 original size:2 final size:2
Alignment explanation
Indices: 778205--778235 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
778195 TTGATATTGC
778205 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 T
778236 CAGGATATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:778549 original size:4 final size:4
Alignment explanation
Indices: 778530--778631 Score: 141
Period size: 4 Copynumber: 25.5 Consensus size: 4
778520 TGTATTCACA
* * *
778530 ATAT ATAC ATAC ATAT ATAT ATAT ATAT ATAT ATAT ATAT GTAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * *
778578 ATAC ATAC ATAT ATAT ACAT ATAT ATAT ATGT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
778626 ATAT AT
1 ATAT AT
778632 TCATATGCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 88 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (4 bp):
ATAT
Found at i:778549 original size:14 final size:14
Alignment explanation
Indices: 778530--778631 Score: 127
Period size: 14 Copynumber: 7.4 Consensus size: 14
778520 TGTATTCACA
*
778530 ATATATACATACAT
1 ATATATATATACAT
778544 ATATATATAT--AT
1 ATATATATATACAT
*
778556 ATATATATATATAT
1 ATATATATATACAT
*
778570 GTATATATATACAT
1 ATATATATATACAT
*
778584 ACATATATATACAT
1 ATATATATATACAT
**
778598 ATATATATATGTAT
1 ATATATATATACAT
*
778612 ATATATATATATAT
1 ATATATATATACAT
778626 ATATAT
1 ATATAT
778632 TCATATGCGA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
12 12 0.16
14 65 0.84
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (14 bp):
ATATATATATACAT
Found at i:778637 original size:10 final size:10
Alignment explanation
Indices: 778530--778631 Score: 141
Period size: 10 Copynumber: 10.2 Consensus size: 10
778520 TGTATTCACA
*
778530 ATATATACAT
1 ATATATATAT
*
778540 ACATATATAT
1 ATATATATAT
778550 ATATATATAT
1 ATATATATAT
778560 ATATATATAT
1 ATATATATAT
*
778570 GTATATATAT
1 ATATATATAT
* *
778580 ACATACATAT
1 ATATATATAT
*
778590 ATATACATAT
1 ATATATATAT
*
778600 ATATATATGT
1 ATATATATAT
778610 ATATATATAT
1 ATATATATAT
778620 ATATATATAT
1 ATATATATAT
778630 AT
1 AT
778632 TCATATGCGA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 81 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (10 bp):
ATATATATAT
Found at i:781245 original size:22 final size:22
Alignment explanation
Indices: 781205--781247 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
781195 TCATGTCTTT
* *
781205 TTTTTCGAACAGTTTTTTTTTC
1 TTTTTCGAACAGCTATTTTTTC
*
781227 TTTTTCGAACTGCTATTTTTT
1 TTTTTCGAACAGCTATTTTTT
781248 TTTCAACATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.63
Consensus pattern (22 bp):
TTTTTCGAACAGCTATTTTTTC
Found at i:792946 original size:21 final size:20
Alignment explanation
Indices: 792906--792947 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
792896 CCAACTTACA
*
792906 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
792926 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
792947 A
1 A
792948 GTTGCATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:792974 original size:20 final size:21
Alignment explanation
Indices: 792949--792991 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
792939 CTATTATTAG
*
792949 TTGCATGATAACTAATA-ATT
1 TTGCATGACAACTAATAGATT
792969 TTGCATGACAACTAATAGATT
1 TTGCATGACAACTAATAGATT
792990 TT
1 TT
792992 TAAACAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (21 bp):
TTGCATGACAACTAATAGATT
Found at i:796273 original size:2 final size:2
Alignment explanation
Indices: 796266--796298 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
796256 TCCCCTACAA
796266 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
796299 AACAGTTCAA
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:798884 original size:2 final size:2
Alignment explanation
Indices: 798877--798918 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
798867 GTAGGTATTA
798877 AT 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 AT
798919 GCAAACAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:806221 original size:2 final size:2
Alignment explanation
Indices: 806214--806240 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
806204 CCATTGACTC
806214 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
806241 GAGCCACCCA
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:818195 original size:8 final size:8
Alignment explanation
Indices: 818182--818222 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
818172 CTCATTTTCA
818182 GAGAATTT
1 GAGAATTT
818190 GAGAATTT
1 GAGAATTT
*
818198 -AGAGTTT
1 GAGAATTT
*
818205 GGGAATTT
1 GAGAATTT
818213 GAGAATTT
1 GAGAATTT
818221 GA
1 GA
818223 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:818531 original size:128 final size:128
Alignment explanation
Indices: 818303--818781 Score: 850
Period size: 128 Copynumber: 3.7 Consensus size: 128
818293 ACTATTCATA
* * *
818303 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATATTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
818368 TTATGCCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
818431 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
818496 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
818559 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTTCCCTA
1 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
818624 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
** * *
818687 TGAAGGCGCACTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* **
818752 TTATGTCACTCATATCCCTAAGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
818782 GATGGATTGT
Statistics
Matches: 338, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 338 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:819215 original size:28 final size:28
Alignment explanation
Indices: 819206--819278 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
819196 TACTATAAAT
* *
819206 TATATTTTA-ATTTTAAATTTTGAATAA
1 TATAATTTATATTTTAAATTTCGAATAA
* *
819233 TATTATTTTTATTTTAAATTTCGAATAA
1 TATAATTTATATTTTAAATTTCGAATAA
819261 TATAATTTATATTTTAAA
1 TATAATTTATATTTTAAA
819279 AATATTTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 6 0.15
28 33 0.85
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (28 bp):
TATAATTTATATTTTAAATTTCGAATAA
Found at i:819216 original size:34 final size:33
Alignment explanation
Indices: 819177--819277 Score: 122
Period size: 34 Copynumber: 3.2 Consensus size: 33
819167 TAAGTTGAAA
*
819177 TTTAATGTTAAATTTCGAATACTATAAATTATAT
1 TTTAATTTTAAATTTCGAATA-TATAAATTATAT
*
819211 TTTAATTTTAAATTTTGAATA-AT--ATTAT-T
1 TTTAATTTTAAATTTCGAATATATAAATTATAT
*
819240 TTT-ATTTTAAATTTCGAATAATATAATTTATAT
1 TTTAATTTTAAATTTCGAAT-ATATAAATTATAT
819273 TTTAA
1 TTTAA
819278 AAATATTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
28 15 0.26
29 5 0.09
30 7 0.12
32 6 0.11
33 4 0.07
34 20 0.35
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (33 bp):
TTTAATTTTAAATTTCGAATATATAAATTATAT
Found at i:819861 original size:42 final size:42
Alignment explanation
Indices: 819798--819906 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
819788 TATGGTATAA
* *
819798 AACCCTGCGGGCTAGGCATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
*
819840 AACCCTGCGGGCTCGGAATGTAACATGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
*
819882 AACCCTACGGGCTCGGAATGTAACC
1 AACCCTGCGGGCTCGGAATGTAACC
819907 CTGCGGAGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.24, C:0.25, G:0.33, T:0.18
Consensus pattern (42 bp):
AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
Found at i:819907 original size:21 final size:21
Alignment explanation
Indices: 819798--819912 Score: 153
Period size: 21 Copynumber: 5.5 Consensus size: 21
819788 TATGGTATAA
*
819798 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
819819 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
819840 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
819861 AA-CATGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
* *
819882 AACCCTACGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
819903 AACCCTGCGG
1 AACCCTGCGG
819913 AGATGGCATA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.06
21 72 0.88
22 5 0.06
ACGTcount: A:0.23, C:0.25, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:819962 original size:21 final size:21
Alignment explanation
Indices: 819917--819963 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
819907 CTGCGGAGAT
*
819917 GGCATATGAACTGGTAGGCTT
1 GGCATATGAACTGGTAGGCTG
*
819938 GGCATATGAAGTGG-AGGGCTG
1 GGCATATGAACTGGTA-GGCTG
819959 GGCAT
1 GGCAT
819964 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.23, C:0.13, G:0.40, T:0.23
Consensus pattern (21 bp):
GGCATATGAACTGGTAGGCTG
Found at i:821710 original size:19 final size:19
Alignment explanation
Indices: 821686--821767 Score: 52
Period size: 19 Copynumber: 4.6 Consensus size: 19
821676 TTAATAATTC
821686 TAAATAAATAATAATTATA
1 TAAATAAATAATAATTATA
*
821705 TAAAT--AT--TATTTA-A
1 TAAATAAATAATAATTATA
* *
821719 TAAAAAATATAATATTTATA
1 TAAATAA-ATAATAATTATA
* *
821739 TAAATATATATTAA-TATA
1 TAAATAAATAATAATTATA
821757 -AAATATAATAA
1 TAAATA-AATAA
821768 CTATTTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
14 5 0.10
15 5 0.10
17 9 0.19
18 7 0.15
19 16 0.33
20 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATAAATAATAATTATA
Found at i:821738 original size:34 final size:34
Alignment explanation
Indices: 821693--821776 Score: 116
Period size: 34 Copynumber: 2.5 Consensus size: 34
821683 TTCTAAATAA
821693 ATAATAATTATATAAATAT-TATTTAATAAAAAAT
1 ATAATAATTATATAAATATATA-TTAATAAAAAAT
* *
821727 ATAATATTTATATAAATATATATTAATATAAAAT
1 ATAATAATTATATAAATATATATTAATAAAAAAT
* *
821761 ATAATAACTATTTAAA
1 ATAATAATTATATAAA
821777 AAATACTAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 42 0.95
35 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (34 bp):
ATAATAATTATATAAATATATATTAATAAAAAAT
Found at i:821794 original size:34 final size:35
Alignment explanation
Indices: 821721--821795 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 35
821711 TTATTTAATA
** * * *
821721 AAAAATATAATATTTATATAAATATATATTAATAT
1 AAAAATATAATAACTATATAAATAAATACTAACAT
*
821756 -AAAATATAATAACTATTTAAA-AAATACTAACAT
1 AAAAATATAATAACTATATAAATAAATACTAACAT
821789 AAAAATA
1 AAAAATA
821796 AATTTCTTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 9 0.27
34 24 0.73
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (35 bp):
AAAAATATAATAACTATATAAATAAATACTAACAT
Found at i:822927 original size:34 final size:34
Alignment explanation
Indices: 822889--822985 Score: 131
Period size: 34 Copynumber: 2.9 Consensus size: 34
822879 AAATTTAATG
*
822889 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
822923 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* *
822957 TTAAATTTTGAATAATATAATTTGTATTT
1 TTAAATTTCGAATAATATAATTTATATTT
822986 AAAAAACATT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:823559 original size:21 final size:21
Alignment explanation
Indices: 823512--823580 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
823502 GTATAAAACC
*
823512 CTGCGGGCTAGGCATGTAACAT
1 CTGCGGGCTAGGAATGTAAC-T
*
823534 -GGCGGGCTAGGAATGTAACT
1 CTGCGGGCTAGGAATGTAACT
* *
823554 CTGCGGGCTCGGAATGTAACC
1 CTGCGGGCTAGGAATGTAACT
823575 CTGCGG
1 CTGCGG
823581 AGATGGCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.02
21 40 0.98
ACGTcount: A:0.20, C:0.23, G:0.36, T:0.20
Consensus pattern (21 bp):
CTGCGGGCTAGGAATGTAACT
Found at i:823610 original size:21 final size:21
Alignment explanation
Indices: 823584--823631 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
823574 CCTGCGGAGA
*
823584 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
823605 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
823626 GGGCAT
1 TGGCAT
823632 GTACCCCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:825398 original size:31 final size:33
Alignment explanation
Indices: 825356--825430 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
825346 ATAATTCTAA
* * *
825356 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
825388 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
825419 ATAAAAAATAAT
1 ATAAAAAATAAT
825431 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:825398 original size:34 final size:31
Alignment explanation
Indices: 825353--825441 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
825343 TTAATAATTC
*
825353 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
825387 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
825418 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
825442 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:829814 original size:2 final size:2
Alignment explanation
Indices: 829809--829855 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
829799 TATAAATTGT
829809 TA TA TA TA TA 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 TA TA TA TA TA
829851 TA TA T
1 TA TA T
829856 TCATCGACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:832685 original size:49 final size:48
Alignment explanation
Indices: 832607--832706 Score: 128
Period size: 49 Copynumber: 2.1 Consensus size: 48
832597 GTATCAGGTG
* **
832607 CTCACCAGGGGCGAACCTCCATGGAGCCCGGGGTATCCCGGGCAACCC
1 CTCACCAGGGGCGAACCTCCATGGAGCCCGGGATATCCCAAGCAACCC
* * * *
832655 CTCATCCAGGGGTGGACCTCCATGGTGCCCGGGATATTCCAAGCAACCC
1 CTCA-CCAGGGGCGAACCTCCATGGAGCCCGGGATATCCCAAGCAACCC
832704 CTC
1 CTC
832707 CATAAGTGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 4 0.09
49 40 0.91
ACGTcount: A:0.19, C:0.38, G:0.28, T:0.15
Consensus pattern (48 bp):
CTCACCAGGGGCGAACCTCCATGGAGCCCGGGATATCCCAAGCAACCC
Found at i:833165 original size:19 final size:18
Alignment explanation
Indices: 833130--833165 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
833120 TATAACAAGT
*
833130 ATATAAAAATTAGGTTTA
1 ATATAAAAATAAGGTTTA
833148 ATATAAAAATAAGTGTTT
1 ATATAAAAATAAG-GTTT
833166 GAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
ATATAAAAATAAGGTTTA
Done.