Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 143 of 216
Found at i:45204603 original size:20 final size:20
Alignment explanation
Indices: 45204576--45204628 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
45204566 AAAAATACAT
45204576 AAAT-AAAACAAAAAAATTA
1 AAATCAAAACAAAAAAATTA
****
45204595 AAATCAAAATTTTAAAATTA
1 AAATCAAAACAAAAAAATTA
45204615 AAATCAAAATCAAA
1 AAATCAAAA-CAAA
45204629 TTTTCATTAA
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATCAAAACAAAAAAATTA
Found at i:45205574 original size:31 final size:31
Alignment explanation
Indices: 45205520--45205600 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
45205510 CTTAATTAAA
* * * * *
45205520 AAAAG-TTACATTTTAGTCTTTAAATTATTT
1 AAAAGTTTTCATTTAAGTCATTAAACTATTC
45205550 AAAAGTTTTCATTTAAGTCATTAAACTATTC
1 AAAAGTTTTCATTTAAGTCATTAAACTATTC
*
45205581 AAAAGTTTTTATTTAAGTCA
1 AAAAGTTTTCATTTAAGTCA
45205601 CTGAACTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 5 0.11
31 39 0.89
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (31 bp):
AAAAGTTTTCATTTAAGTCATTAAACTATTC
Found at i:45208195 original size:3 final size:3
Alignment explanation
Indices: 45208189--45208243 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
45208179 ATCATTACAT
* *
45208189 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA CTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
45208235 TTA TTA TTA
1 TTA TTA TTA
45208244 GTTTTATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:45210100 original size:23 final size:24
Alignment explanation
Indices: 45210055--45210124 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
45210045 TTAATATTTA
* **
45210055 AATTTTTTAGTTCAATTCGGTACCC
1 AATTTTTTACTT-AATTTAGTACCC
* **
45210080 ACTTTTTT-CTTAATTTAGTACTT
1 AATTTTTTACTTAATTTAGTACCC
*
45210103 AATTTTTTATTTAATTTAGTAC
1 AATTTTTTACTTAATTTAGTAC
45210125 TTAAACTTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 15 0.42
24 14 0.39
25 7 0.19
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (24 bp):
AATTTTTTACTTAATTTAGTACCC
Found at i:45210105 original size:12 final size:12
Alignment explanation
Indices: 45210088--45210128 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
45210078 CCACTTTTTT
45210088 CTTAATTTAGTA
1 CTTAATTTAGTA
**
45210100 CTTAATTTTTTA
1 CTTAATTTAGTA
*
45210112 TTTAATTTAGTA
1 CTTAATTTAGTA
45210124 CTTAA
1 CTTAA
45210129 ACTTGTCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (12 bp):
CTTAATTTAGTA
Found at i:45214800 original size:58 final size:60
Alignment explanation
Indices: 45214688--45214801 Score: 137
Period size: 58 Copynumber: 1.9 Consensus size: 60
45214678 TTTAATTCTC
* * * *
45214688 TCTTGAAATTTTTAAATAAATTTAATTAGGTCCCTTCAAAATTTTGAGATAATTTCCTTTT
1 TCTTAAAATTTTTAAATAAATTTAATTA-GACCCCTCAAAATTTTGAGAAAATTTCCTTTT
45214749 TCTTAAAATTTTT-AA-AAATTGTAATT-GACCCCTCAAAATTTTTG-GAAAATTTC
1 TCTTAAAATTTTTAAATAAATT-TAATTAGACCCCTCAAAA-TTTTGAGAAAATTTC
45214802 ATTATATCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
58 18 0.38
59 10 0.21
60 7 0.15
61 12 0.26
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (60 bp):
TCTTAAAATTTTTAAATAAATTTAATTAGACCCCTCAAAATTTTGAGAAAATTTCCTTTT
Found at i:45221315 original size:34 final size:34
Alignment explanation
Indices: 45221238--45221391 Score: 209
Period size: 34 Copynumber: 4.5 Consensus size: 34
45221228 TTATTTTACA
* * *
45221238 TGAACAAGAGAGATTTCCTGCAACAACATAATGCG
1 TGAACAGGAGAGATTCCCTGCAAGAA-ATAATGCG
* *
45221273 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTG
1 TGAACAGGAGAGATTCCCTGCAAGAAATAATGCG
*
45221307 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACAGGAGAGATTCCCTGCAA-GAAATAATGCG
* * *
45221342 TGAACAGGAGAGATTCCCTACAAGAAATGATGTG
1 TGAACAGGAGAGATTCCCTGCAAGAAATAATGCG
45221376 TGAACAGGAGAGATTC
1 TGAACAGGAGAGATTC
45221392 TATAAAATAA
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
34 53 0.50
35 53 0.50
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (34 bp):
TGAACAGGAGAGATTCCCTGCAAGAAATAATGCG
Found at i:45221321 original size:69 final size:69
Alignment explanation
Indices: 45221238--45221391 Score: 272
Period size: 69 Copynumber: 2.2 Consensus size: 69
45221228 TTATTTTACA
* * * *
45221238 TGAACAAGAGAGATTTCCTGCAACAACATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGA
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTACAAGAAATGA
45221303 TGTG
66 TGTG
45221307 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTACAAGAAATGA
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTACAAGAAATGA
45221372 TGTG
66 TGTG
45221376 TGAACAGGAGAGATTC
1 TGAACAGGAGAGATTC
45221392 TATAAAATAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 81 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (69 bp):
TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTACAAGAAATGA
TGTG
Found at i:45235847 original size:27 final size:27
Alignment explanation
Indices: 45235725--45235884 Score: 136
Period size: 27 Copynumber: 6.0 Consensus size: 27
45235715 ATATCTGCAG
45235725 CGAAATACCCCCATA-AGATAAAATGAC
1 CGAAATA-CCCCATAGAGATAAAATGAC
45235752 CGAAATACCCCCATAG-GATAAAATGAC
1 CGAAATA-CCCCATAGAGATAAAATGAC
* * * *
45235779 CAAAATACCCGATAGCG-TAAAATAAC
1 CGAAATACCCCATAGAGATAAAATGAC
*
45235805 CAAAATACCCCTATAGAG-TAAAATGAC
1 CGAAATACCCC-ATAGAGATAAAATGAC
* *
45235832 TGAAATACCTCCATAG-GGT-AAATGAC
1 CGAAATACC-CCATAGAGATAAAATGAC
* **
45235858 TGTTATACCCC-TAGGAGATAAAATGAC
1 CGAAATACCCCATA-GAGATAAAATGAC
45235885 TGTTATGGCC
Statistics
Matches: 114, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
24 2 0.02
25 3 0.03
26 42 0.37
27 65 0.57
28 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.19
Consensus pattern (27 bp):
CGAAATACCCCATAGAGATAAAATGAC
Found at i:45237494 original size:20 final size:21
Alignment explanation
Indices: 45237464--45237503 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
45237454 GCTAGGTTGG
45237464 GTAGTAAAAGAAAAAGAAAAC
1 GTAGTAAAAGAAAAAGAAAAC
*
45237485 GTAG-AAAAGAAGAAGAAAA
1 GTAGTAAAAGAAAAAGAAAA
45237504 GAAGAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.68, C:0.03, G:0.23, T:0.07
Consensus pattern (21 bp):
GTAGTAAAAGAAAAAGAAAAC
Found at i:45237501 original size:11 final size:10
Alignment explanation
Indices: 45237489--45237522 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
45237479 GAAAACGTAG
45237489 AAAAGAAGAA
1 AAAAGAAGAA
45237499 GAAAAGAAG-A
1 -AAAAGAAGAA
45237509 AAAAGAAGAA
1 AAAAGAAGAA
45237519 AAAA
1 AAAA
45237523 TTTCCAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.36
10 6 0.27
11 8 0.36
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAGAAGAA
Found at i:45237512 original size:20 final size:20
Alignment explanation
Indices: 45237469--45237522 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
45237459 GTTGGGTAGT
* *
45237469 AAAAGAAAAAGAAAACGTAG
1 AAAAGAAGAAGAAAACGAAG
45237489 AAAAGAAGAAGAAAA-GAAG
1 AAAAGAAGAAGAAAACGAAG
45237508 AAAAAGAAGAA-AAAA
1 -AAAAGAAGAAGAAAA
45237523 TTTCCAAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAGAAGAAGAAAACGAAG
Found at i:45240719 original size:21 final size:20
Alignment explanation
Indices: 45240695--45240733 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45240685 GGACTAATTT
*
45240695 AAAACAATTAGAAATTTTGGG
1 AAAA-AATTAAAAATTTTGGG
*
45240716 AAAAAGTTAAAAATTTTG
1 AAAAAATTAAAAATTTTG
45240734 AAAATAGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAAAATTAAAAATTTTGGG
Found at i:45241328 original size:86 final size:86
Alignment explanation
Indices: 45241229--45241397 Score: 329
Period size: 86 Copynumber: 2.0 Consensus size: 86
45241219 AATAAATCCA
45241229 ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
1 ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
45241294 CTTCATTCTCAATTTATAGCT
66 CTTCATTCTCAATTTATAGCT
45241315 ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
1 ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
*
45241380 CTTCTTTCTCAATTTATA
66 CTTCATTCTCAATTTATA
45241398 CCTAGCCTAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.30
Consensus pattern (86 bp):
ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
CTTCATTCTCAATTTATAGCT
Found at i:45244311 original size:23 final size:23
Alignment explanation
Indices: 45244281--45244327 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
45244271 TTGTGTGAAC
45244281 TTAGTAAAAGGTTAGGATACGTA
1 TTAGTAAAAGGTTAGGATACGTA
45244304 TTAGTAAAAGGTTAGGATACGTA
1 TTAGTAAAAGGTTAGGATACGTA
45244327 T
1 T
45244328 AGCATGCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (23 bp):
TTAGTAAAAGGTTAGGATACGTA
Found at i:45244487 original size:30 final size:29
Alignment explanation
Indices: 45244451--45244539 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
45244441 GGTAACATTG
45244451 ATATAATGTCAACTTGTGTGAGCAATCTTA
1 ATATAATGTCAACTTGTGTGAGCAA-CTTA
* * * *
45244481 ATATAATGTCAACTTGTATGAGCAGCCCTG
1 ATATAATGTCAACTTGTGTGAGCA-ACTTA
* *
45244511 ATATAATGTCAGCTTGTGTAAGCAACTTA
1 ATATAATGTCAACTTGTGTGAGCAACTTA
45244540 TTCTCGTGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 2 0.04
30 46 0.96
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (29 bp):
ATATAATGTCAACTTGTGTGAGCAACTTA
Found at i:45249415 original size:14 final size:14
Alignment explanation
Indices: 45249396--45249424 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45249386 GGACTTAATT
45249396 AATAATAAACTTAA
1 AATAATAAACTTAA
45249410 AATAATAAACTTAA
1 AATAATAAACTTAA
45249424 A
1 A
45249425 GACCTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAATAAACTTAA
Found at i:45254346 original size:27 final size:27
Alignment explanation
Indices: 45254311--45254724 Score: 467
Period size: 27 Copynumber: 15.4 Consensus size: 27
45254301 CCTAAAATAT
*
45254311 GTAAAATGACCAAAATACCCCTATAAG
1 GTAAAATGACCAAAATACCCCTATAGG
* * *
45254338 GTAGAATGATCGAAATACCTCC-ATAGG
1 GTAAAATGACCAAAATACC-CCTATAGG
*
45254365 GTAAAATGACCAAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
* * *
45254392 GTAAAAGGACCAAAATACCCCCACAGG
1 GTAAAATGACCAAAATACCCCTATAGG
*
45254419 GTAAAATAACCAAAATATCCCC-ATAGG
1 GTAAAATGACCAAAATA-CCCCTATAGG
* * *
45254446 ATAAAATAACCGAAATACCCCTATATGG
1 GTAAAATGACCAAAATACCCCTATA-GG
*
45254474 GTAAAATGAACAAAATACCCC-ATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
* * *
45254500 ATAAAATGATCAAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
* **
45254527 GTAGAATGACTGAAATACCCC-ATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
* ** *
45254553 ATAAAATGACTGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
*
45254580 GTAGAATGACCAAAATACCCCTATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
* *
45254607 GTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
** *
45254634 GTAAAATGACTGAAATACTCCTATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
* * *
45254661 GTAGAATAACCAAAATACCCTTATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
* *
45254688 GTAAAATGACCGAAATACCCTTATAGG
1 GTAAAATGACCAAAATACCCCTATAGG
45254715 GTAAAATGAC
1 GTAAAATGAC
45254725 TGTTATACCC
Statistics
Matches: 333, Mismatches: 47, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
26 51 0.15
27 257 0.77
28 25 0.08
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
GTAAAATGACCAAAATACCCCTATAGG
Found at i:45255188 original size:31 final size:29
Alignment explanation
Indices: 45255118--45255188 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
45255108 AACTGCATAT
**
45255118 CTGCACTGATTAATGATTTTGTACTGTTA
1 CTGCACTGATTAATGATTTCATACTGTTA
*
45255147 CTGCATTGATTAATGATATTACATACTGTTCA
1 CTGCACTGATTAATGAT-TT-CATACTGTT-A
45255179 CTGCA-TGATT
1 CTGCACTGATT
45255189 GATATCTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 16 0.44
30 2 0.06
31 12 0.33
32 6 0.17
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (29 bp):
CTGCACTGATTAATGATTTCATACTGTTA
Found at i:45255234 original size:33 final size:35
Alignment explanation
Indices: 45255188--45255259 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
45255178 ACTGCATGAT
* ** *
45255188 TGATATCTGTTACTGTTA-TGGGCTAAGGCCCCAC
1 TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
*
45255222 TGATA-CTATTACTGAAATTGGGCAAAGGCCCTAC
1 TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
45255256 TGAT
1 TGAT
45255260 TACTGGCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 9 0.28
34 23 0.72
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (35 bp):
TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
Found at i:45256855 original size:3 final size:3
Alignment explanation
Indices: 45256849--45256885 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
45256839 AAAGAAACGG
45256849 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
45256886 TTTTTAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:45257826 original size:50 final size:47
Alignment explanation
Indices: 45257719--45257826 Score: 105
Period size: 50 Copynumber: 2.3 Consensus size: 47
45257709 TCCATATAGA
* *
45257719 ACTACACTTCT-TTTATTTTATTTTAGAATAAGGTTTTTTAAACCTT
1 ACTACACTTCTATCTATTTTATTTTAGAATAAGGTTGTTTAAACCTT
* * * *
45257765 ATTAGAC-TCTATCTATTTGATATTGATTAGAATAAGG-TGTTTCAATCTT
1 ACTACACTTCTATCTATTT--TATT--TTAGAATAAGGTTGTTTAAACCTT
45257814 ACTACACTTCTAT
1 ACTACACTTCTAT
45257827 TAGAATATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
45 3 0.06
46 11 0.23
48 4 0.08
49 14 0.29
50 16 0.33
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (47 bp):
ACTACACTTCTATCTATTTTATTTTAGAATAAGGTTGTTTAAACCTT
Found at i:45260155 original size:14 final size:14
Alignment explanation
Indices: 45260147--45260185 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
45260137 AAATATATAT
45260147 AATATAATAAAGTA
1 AATATAATAAAGTA
45260161 AATATAATAAAAG-A
1 AATATAAT-AAAGTA
45260175 AATA-AATAAAG
1 AATATAATAAAG
45260186 AAAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.17
13 3 0.12
14 13 0.54
15 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (14 bp):
AATATAATAAAGTA
Found at i:45260167 original size:19 final size:18
Alignment explanation
Indices: 45260137--45260193 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 18
45260127 ATATTTAAGT
* * *
45260137 AAATATATATAATATAAT
1 AAATAAATATAATAAAAG
45260155 AAAGTAAATATAATAAAAG
1 AAA-TAAATATAATAAAAG
*
45260174 AAATAAATA-AAGAAAAG
1 AAATAAATATAATAAAAG
45260191 AAA
1 AAA
45260194 AAGAATAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.29
18 9 0.26
19 15 0.44
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATAAATATAATAAAAG
Found at i:45260178 original size:23 final size:23
Alignment explanation
Indices: 45260133--45260184 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
45260123 CTTAATATTT
* *
45260133 AAGTAAATATATATAATATAATA
1 AAGTAAATATATATAAAAAAATA
45260156 AAGTAAATATA-ATAAAAGAAATA
1 AAGTAAATATATATAAAA-AAATA
45260179 AA-TAAA
1 AAGTAAA
45260185 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (23 bp):
AAGTAAATATATATAAAAAAATA
Found at i:45264309 original size:20 final size:20
Alignment explanation
Indices: 45264284--45264336 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
45264274 GCGTGTGTGA
*
45264284 CCACACGGGCGTGTCCCAAG
1 CCACACGGGCATGTCCCAAG
* *
45264304 CCACACAGCCATGTCCCAAG
1 CCACACGGGCATGTCCCAAG
45264324 CCACACGGGCATG
1 CCACACGGGCATG
45264337 CGACCCCTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.42, G:0.25, T:0.09
Consensus pattern (20 bp):
CCACACGGGCATGTCCCAAG
Found at i:45265115 original size:5 final size:5
Alignment explanation
Indices: 45265105--45265170 Score: 87
Period size: 5 Copynumber: 12.4 Consensus size: 5
45265095 TTATTAAACA
*
45265105 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATTCAA TATAAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-T-AT TAT-AT
45265158 TATAT TAATAT TA
1 TATAT T-ATAT TA
45265171 ATTGTAAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
5 41 0.75
6 11 0.20
7 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:45268852 original size:26 final size:26
Alignment explanation
Indices: 45268800--45268852 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
45268790 TAAACCAAAC
* * *
45268800 TTTTCAAAAGCACTTTTTCACAGCAT
1 TTTTCAAAAGCACTTTTTAAAAACAT
*
45268826 TTTTCAAAAGCGCTTTTTAAAAACAT
1 TTTTCAAAAGCACTTTTTAAAAACAT
45268852 T
1 T
45268853 GCCAACCTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.40
Consensus pattern (26 bp):
TTTTCAAAAGCACTTTTTAAAAACAT
Found at i:45269340 original size:39 final size:39
Alignment explanation
Indices: 45269277--45269354 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
45269267 AAGTTCATAA
* *
45269277 ATTAGAATATCTAAATTCGTATAATACATGGACAAAAAT
1 ATTAAAATATCTAAATTCGAATAATACATGGACAAAAAT
*
45269316 ATTAAAATATCTAAATTTGAATAATACATGGACAAAAAT
1 ATTAAAATATCTAAATTCGAATAATACATGGACAAAAAT
45269355 TATAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (39 bp):
ATTAAAATATCTAAATTCGAATAATACATGGACAAAAAT
Found at i:45271953 original size:20 final size:20
Alignment explanation
Indices: 45271928--45271965 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
45271918 AATGTGTAAC
45271928 AGAGGCACCGAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAT
45271948 AGAGGCACCGAAGTGCAA
1 AGAGGCACCGAAGTGCAA
45271966 TCCCGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.32, T:0.08
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAT
Found at i:45277638 original size:20 final size:18
Alignment explanation
Indices: 45277597--45277638 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
45277587 TGAAAATAAG
*
45277597 CATTATTATTAGGTTTTA
1 CATTATTATTAGGCTTTA
45277615 -ATTATTATTAGGACTTTA
1 CATTATTATTAGG-CTTTA
45277633 CCATTA
1 -CATTA
45277639 ACCAGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
20 4 0.20
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (18 bp):
CATTATTATTAGGCTTTA
Found at i:45297101 original size:9 final size:9
Alignment explanation
Indices: 45297087--45297113 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
45297077 AATTCGGTTT
45297087 ATTTCTAAC
1 ATTTCTAAC
45297096 ATTTCTAAC
1 ATTTCTAAC
45297105 ATTTCTAAC
1 ATTTCTAAC
45297114 TTATTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTCTAAC
Found at i:45301502 original size:11 final size:11
Alignment explanation
Indices: 45301494--45301518 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45301484 GCTATGGTTC
45301494 TTATATGGTAA
1 TTATATGGTAA
45301505 TTATATGGTAA
1 TTATATGGTAA
45301516 TTA
1 TTA
45301519 GACCATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (11 bp):
TTATATGGTAA
Found at i:45313654 original size:43 final size:42
Alignment explanation
Indices: 45313504--45313660 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 42
45313494 ACATTGGGTT
* *
45313504 ATCGATATGTGATTACATGTAAGACCATGTATGGGACATCGGC
1 ATCGATATATGATTACATGTAAGACCATGTCTGGGACAT-GGC
* * * * *
45313547 ATTG-TATTATAATTACGTGTAAGACAATGTCTGGGACATTGTC
1 ATCGATA-TATGATTACATGTAAGACCATGTCTGGGACA-TGGC
* * * * *
45313590 ATCGTTATATGATTTCGTGTAAGACCCTCTCTGGGACAGTGGC
1 ATCGATATATGATTACATGTAAGACCATGTCTGGGACA-TGGC
* *
45313633 ATCGATATGTGATAACATGTAAGACCAT
1 ATCGATATATGATTACATGTAAGACCAT
45313661 ATTCGGGATA
Statistics
Matches: 90, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 2 0.02
43 85 0.94
44 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
ATCGATATATGATTACATGTAAGACCATGTCTGGGACATGGC
Found at i:45327702 original size:82 final size:82
Alignment explanation
Indices: 45327565--45327731 Score: 298
Period size: 82 Copynumber: 2.0 Consensus size: 82
45327555 ATCATCATAA
45327565 CAATTCCTCACCACATATTATAGTTGATCAAGATTTGGCATATTAGTACATTTATGAAGAACCAT
1 CAATTCCTCACCACATATTATAGTTGATCAAGATTTGGCATATTAGTACATTTATGAAGAACCAT
* *
45327630 ACCATCACGACATTTTC
66 ACCATCAAGACAATTTC
* *
45327647 CAATTCCTCACCACATATTATAGTTGATTAAGATTTGGCATATTAGTACATTTATGAAGAACTAT
1 CAATTCCTCACCACATATTATAGTTGATCAAGATTTGGCATATTAGTACATTTATGAAGAACCAT
45327712 ACCATCAAGACAATTTC
66 ACCATCAAGACAATTTC
45327729 CAA
1 CAA
45327732 ACCAAAGTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (82 bp):
CAATTCCTCACCACATATTATAGTTGATCAAGATTTGGCATATTAGTACATTTATGAAGAACCAT
ACCATCAAGACAATTTC
Found at i:45328005 original size:16 final size:16
Alignment explanation
Indices: 45327984--45328040 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
45327974 GTTTGGTTCA
* *
45327984 CTGTAATGGAATAGAG
1 CTGTAATAGAATAAAG
*
45328000 CTGTAATTGAATAAAG
1 CTGTAATAGAATAAAG
45328016 CTGTAATAGAATAAAG
1 CTGTAATAGAATAAAG
45328032 CTGTAATAG
1 CTGTAATAG
45328041 TAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAATAAAG
Found at i:45328112 original size:44 final size:45
Alignment explanation
Indices: 45328024--45328112 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 45
45328014 AGCTGTAATA
*
45328024 GAATAAAGCTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATG
1 GAATAAAACTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATG
* *
45328069 GAATAAAACTGTAATAGT-ATTC-TTGTGTTTGGTTGCATGGAATG
1 GAATAAAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGGAATG
45328113 ATGTTGTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 22 0.55
45 17 0.43
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (45 bp):
GAATAAAACTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATG
Found at i:45328295 original size:58 final size:59
Alignment explanation
Indices: 45328216--45328371 Score: 176
Period size: 58 Copynumber: 2.7 Consensus size: 59
45328206 TTTTAATAAG
* * * * *
45328216 ATTATTATTAAAAATGATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAAATTCTTAACATA
** *
45328274 ATTATTATTAAATATAATTTAAT-AAAATTTTATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAAATTCTTAACATA
*
45328332 ATTATTATT--ATATGAATTTACTAAAATCATAATATATAAT
1 ATTATTATTAAATAT-AATTTAATAAAA--ATAATATATAAT
45328372 ACTATAAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
56 4 0.05
57 28 0.34
58 40 0.49
60 10 0.12
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAAATTCTTAACATA
Found at i:45328302 original size:10 final size:10
Alignment explanation
Indices: 45328284--45328322 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
45328274 ATTATTATTA
*
45328284 AATATAATTT
1 AATAAAATTT
45328294 AATAAAATTT
1 AATAAAATTT
* *
45328304 TATATAATTT
1 AATAAAATTT
45328314 AATAAAATT
1 AATAAAATT
45328323 CTTAATATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATAAAATTT
Found at i:45328310 original size:20 final size:22
Alignment explanation
Indices: 45328284--45328334 Score: 88
Period size: 20 Copynumber: 2.4 Consensus size: 22
45328274 ATTATTATTA
45328284 AATATAATTTAATAAAATT-TT
1 AATATAATTTAATAAAATTCTT
45328305 -ATATAATTTAATAAAATTCTT
1 AATATAATTTAATAAAATTCTT
45328326 AATATAATT
1 AATATAATT
45328335 ATTATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.64
21 2 0.07
22 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATAATTTAATAAAATTCTT
Found at i:45328600 original size:14 final size:14
Alignment explanation
Indices: 45328581--45328619 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
45328571 TCATTAGTTT
45328581 ATATGTCATAAACC
1 ATATGTCATAAACC
* * *
45328595 ATATGTTATTAAGC
1 ATATGTCATAAACC
45328609 ATATGTCATAA
1 ATATGTCATAA
45328620 TTTATTAAGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (14 bp):
ATATGTCATAAACC
Found at i:45332548 original size:111 final size:109
Alignment explanation
Indices: 45332235--45332711 Score: 493
Period size: 111 Copynumber: 4.4 Consensus size: 109
45332225 AGTACAAATA
* * * * * *
45332235 AAAATTTTAAGAAAATCATTTAAAATTTTAATAAAATTATAAAAATATAAAAAAGTTCCAAAAAT
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACTATAAATATAT-AAAAA-CTCCAAAAAT
* *
45332300 TCAAAAAAAAAAAGTGTGTTATTTACTTT-TTCAATGGTAAAATGTCTATCT
64 T---AAAAAAAAA--GTGTTATTT-GTTTCTTGAATGGTAAAATGTCTATCT
*
45332351 AAAATTTTAAAAAATTCATTTAAAAATTC-----AA-TA-AAAT-TAT-AAAACTCCAAAAATTA
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACTATAAATATATAAAAACTCCAAAAATTA
*
45332407 AAAAAAAA-T-TTATTT-TTTCTTGAATGGTAAAATATCTATCT
66 AAAAAAAAGTGTTATTTGTTTCTTGAATGGTAAAATGTCTATCT
* * *
45332448 AAATTTTTAAGAAATTCATTTAAAAATTCAAT-AAAGTCATACAA-ATATAAAAACTCCAAAAGT
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACT-ATA-AATATATAAAAACTCCAAAA-A
*
45332511 TTAAAAAAAAACGTGTTATTTGTTTCTTGAATAGTAAAATGTCTATCT
63 TTAAAAAAAAA-GTGTTATTTGTTTCTTGAATGGTAAAATGTCTATCT
* *
45332559 AAAATTTTAAGAAACTT-ATTT-AAAATTCAATAAAACTATAAATATATAAAAAGTTTCAAAAAC
1 AAAATTTTAAGAAA-TTCATTTAAAAATTCAATAAAACTATAAATATATAAAAA-CTCCAAAAA-
* * * * *
45332622 TCAAAAAAAATGTGTTATTTGCTTCTTGAAGGGTAAATTGTCTATCT
63 TTAAAAAAAAAGTGTTATTTGTTTCTTGAATGGTAAAATGTCTATCT
* *
45332669 AAAATTTTAAGAAATTCATTTAAAAGTTCAATAAAATTATAAA
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACTATAAA
45332712 AAGTTCCAAA
Statistics
Matches: 312, Mismatches: 26, Indels: 51
0.80 0.07 0.13
Matches are distributed among these distances:
96 3 0.01
97 47 0.15
98 6 0.02
99 1 0.00
101 2 0.01
102 10 0.03
103 1 0.00
104 1 0.00
105 15 0.05
106 16 0.05
107 11 0.04
108 3 0.01
109 8 0.03
110 80 0.26
111 81 0.26
112 2 0.01
116 25 0.08
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (109 bp):
AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACTATAAATATATAAAAACTCCAAAAATTA
AAAAAAAAGTGTTATTTGTTTCTTGAATGGTAAAATGTCTATCT
Found at i:45337637 original size:20 final size:22
Alignment explanation
Indices: 45337597--45337638 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
45337587 GTTCCTCGTC
*
45337597 CGTTATGGAGTCGAAGTCAACT
1 CGTTATGGAGTCGAAGGCAACT
45337619 CGTT-TGGAG-CGAAGGCAACT
1 CGTTATGGAGTCGAAGGCAACT
45337639 TGGTCATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (22 bp):
CGTTATGGAGTCGAAGGCAACT
Found at i:45338371 original size:21 final size:19
Alignment explanation
Indices: 45338345--45338384 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
45338335 TTATTTTTTT
45338345 CAATTAAATTATATATTATAA
1 CAATT-AATT-TATATTATAA
*
45338366 CAATTAATTTTTATTATAA
1 CAATTAATTTATATTATAA
45338385 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
CAATTAATTTATATTATAA
Found at i:45339018 original size:16 final size:16
Alignment explanation
Indices: 45338999--45339033 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45338989 ATATTTTACG
45338999 TTAAAAATTAATTAAT
1 TTAAAAATTAATTAAT
* *
45339015 TTAAAATTTAATTTAT
1 TTAAAAATTAATTAAT
45339031 TTA
1 TTA
45339034 TCATTGATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAAATTAATTAAT
Found at i:45340028 original size:15 final size:15
Alignment explanation
Indices: 45340008--45340041 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45339998 TTTGGTAAGT
45340008 AATATTCATCAATCA
1 AATATTCATCAATCA
* *
45340023 AATATTTATGAATCA
1 AATATTCATCAATCA
45340038 AATA
1 AATA
45340042 AAAAAGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (15 bp):
AATATTCATCAATCA
Found at i:45355383 original size:30 final size:30
Alignment explanation
Indices: 45355349--45355411 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
45355339 AATTATTTTA
45355349 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
45355379 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
45355409 TTG
1 TTG
45355412 CTTATTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:45356982 original size:47 final size:46
Alignment explanation
Indices: 45356866--45357243 Score: 179
Period size: 47 Copynumber: 7.6 Consensus size: 46
45356856 ATATATATAA
* *
45356866 ATATATTTGTTATGCATGAAAATGAATTAATCTATAGCTGAATGTAT
1 ATATATTTGTTATGCATG-AAATGAATTAAACTATAGCCGAATGTAT
* * * *
45356913 ATGTAATTGTTATGCAGAGAAATGAATTAAACTATGGCCGAATGTAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATAGCCGAATGTAT
* * *
45356960 ATATATTTGTTATGCATTGAAATAAATTATTTGAAATTACATAG--GTTATGGCTGAAT
1 ATATATTTGTTATGCA-TGAAAT-GA--A-TT-AAACT--ATAGCCG-AAT-G-T--AT
* * * * * *
45357017 GTATATCTATATT-TGTTAT-ACATTGAAATGAATTAATCTATAGCTGAATGTAT
1 ATATAT-T-TGTTATG-CATGA-AATGAA-----TTAAACTATAGCCGAATGTAT
* * * * * *
45357070 ATGTAATTGTTATGTAGAGAAATAAATTAAACTATGGCCGAATGTATAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATAGCCGAATG--TAT
* * *
45357119 ATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATAGCCGAATGTAT
* * * *
45357166 ATGTAATTGTTATGCAGAGAAATGAATTAAACTATGGCCGAATGTATAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATAGCCGAATG--TAT
*
45357215 ATATATTTGTTATGCATTGAAATAAATTA
1 ATATATTTGTTATGCA-TGAAATGAATTA
45357244 TTTGAAGTTA
Statistics
Matches: 245, Mismatches: 56, Indels: 58
0.68 0.16 0.16
Matches are distributed among these distances:
47 112 0.46
48 2 0.01
49 64 0.26
50 1 0.00
51 7 0.03
52 12 0.05
53 8 0.03
54 4 0.02
55 3 0.01
56 5 0.02
57 11 0.04
58 10 0.04
59 6 0.02
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (46 bp):
ATATATTTGTTATGCATGAAATGAATTAAACTATAGCCGAATGTAT
Found at i:45357063 original size:49 final size:49
Alignment explanation
Indices: 45357010--45357243 Score: 278
Period size: 47 Copynumber: 4.9 Consensus size: 49
45357000 ATAGGTTATG
* * *
45357010 GCTGAATGTATATCTATATTTGTTATACATTGAAATGAATTAATCTATA
1 GCTGAATGTATATATATATTTGTTATGCATTGAAATGAATTAAACTATA
* * ** * *
45357059 GCTGAATGTATATGTA-A-TTGTTATGTAGAGAAATAAATTAAACTATG
1 GCTGAATGTATATATATATTTGTTATGCATTGAAATGAATTAAACTATA
* * *
45357106 GCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATA
1 GCTGAATGTATATATATATTTGTTATGCATTGAAATGAATTAAACTATA
* ** *
45357155 GCTGAATGTATATGTA-A-TTGTTATGCAGAGAAATGAATTAAACTATG
1 GCTGAATGTATATATATATTTGTTATGCATTGAAATGAATTAAACTATA
* *
45357202 GCCGAATGTATATATATATTTGTTATGCATTGAAATAAATTA
1 GCTGAATGTATATATATATTTGTTATGCATTGAAATGAATTA
45357244 TTTGAAGTTA
Statistics
Matches: 152, Mismatches: 29, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
47 76 0.50
48 4 0.03
49 72 0.47
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (49 bp):
GCTGAATGTATATATATATTTGTTATGCATTGAAATGAATTAAACTATA
Found at i:45357156 original size:96 final size:96
Alignment explanation
Indices: 45357006--45357243 Score: 422
Period size: 96 Copynumber: 2.5 Consensus size: 96
45356996 TTACATAGGT
* *
45357006 TATGGCTGAATGTATATCTATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
1 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
*
45357071 TGTAATTGTTATGTAGAGAAATAAATTAAAC
66 TGTAATTGTTATGCAGAGAAATAAATTAAAC
45357102 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
1 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
*
45357167 TGTAATTGTTATGCAGAGAAATGAATTAAAC
66 TGTAATTGTTATGCAGAGAAATAAATTAAAC
* *
45357198 TATGGCCGAATGTATATATATATTTGTTATGCATTGAAATAAATTA
1 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTA
45357244 TTTGAAGTTA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 136 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (96 bp):
TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
TGTAATTGTTATGCAGAGAAATAAATTAAAC
Found at i:45357407 original size:41 final size:41
Alignment explanation
Indices: 45357348--45357463 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 41
45357338 TTTTGTAAGT
*
45357348 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATGTA
* *
45357389 TTGGGCTTTATGCCTAGCAGGCTCTATGCTGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATGTA
* * * * *
45357430 TCGGCCTTTGTGTCTAGTAGGCTTTATGCCGGTG
1 TCGGGCTTTATGCCTAGCAGGCTCTATGCCGGTG
45357464 TTTTATATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.34
Consensus pattern (41 bp):
TCGGGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATGTA
Found at i:45360207 original size:21 final size:21
Alignment explanation
Indices: 45360182--45360221 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45360172 AAACCTGGTA
45360182 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
45360203 AAAGGTATCGATACTTTTT
1 AAAGGTATCAATACTTTTT
45360222 ATGTAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:45362689 original size:21 final size:21
Alignment explanation
Indices: 45362663--45362704 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
45362653 AAACTTGGTA
45362663 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
45362684 AAAGGTATCGATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
45362705 GTAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:45365208 original size:45 final size:45
Alignment explanation
Indices: 45365143--45365262 Score: 168
Period size: 45 Copynumber: 2.7 Consensus size: 45
45365133 TGCAAACAAG
*
45365143 CTGCTAGTACGGTGTGGATAAACCATTCATTGGTGCAGATAAAAA
1 CTGCTAGTACGGTGTGGATAAACCATTCATTGATGCAGATAAAAA
* * * **
45365188 TTGCTAGTACGGTGTGGATAAACCACTCATTGATGTAGATAAATG
1 CTGCTAGTACGGTGTGGATAAACCATTCATTGATGCAGATAAAAA
* *
45365233 CTGCTAATATGGTGTGGATAAACCATTCAT
1 CTGCTAGTACGGTGTGGATAAACCATTCAT
45365263 CCGTACAGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (45 bp):
CTGCTAGTACGGTGTGGATAAACCATTCATTGATGCAGATAAAAA
Found at i:45365273 original size:45 final size:43
Alignment explanation
Indices: 45365140--45365297 Score: 156
Period size: 45 Copynumber: 3.6 Consensus size: 43
45365130 TTTTGCAAAC
* *
45365140 AAGCTGCTAGTACGGTGTGGATAAACCATTCATTGGTGCAGATAA
1 AAGCTGCTAATACGGTGTGGATAAACCATTCA-TCGTGCAGAT-A
** * * * *
45365185 AAATTGCTAGTACGGTGTGGATAAACCACTCATTGATGTAGATA
1 AAGCTGCTAATACGGTGTGGATAAACCATTCATCG-TGCAGATA
* *
45365229 AATGCTGCTAATATGGTGTGGATAAACCATTCATCCGTACAGATA
1 AA-GCTGCTAATACGGTGTGGATAAACCATTCAT-CGTGCAGATA
* *
45365274 AA-CTGCTTATACGGTGTGCATAAA
1 AAGCTGCTAATACGGTGTGGATAAA
45365298 GCACTTAACG
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
43 19 0.20
44 5 0.05
45 69 0.73
46 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (43 bp):
AAGCTGCTAATACGGTGTGGATAAACCATTCATCGTGCAGATA
Found at i:45365413 original size:34 final size:34
Alignment explanation
Indices: 45365370--45365452 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 34
45365360 ATGCAATATG
* *
45365370 ACATGCTTATAGCAAATCAATAC-GATAGTAATAA
1 ACATGCTTATAACAAATCAATACAG-TAGCAATAA
*
45365404 ACATGCTTATAACATATCAATACAGTAGCAATAA
1 ACATGCTTATAACAAATCAATACAGTAGCAATAA
45365438 ACATGCTTATAACAA
1 ACATGCTTATAACAA
45365453 GTCCGTACGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 43 0.98
35 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (34 bp):
ACATGCTTATAACAAATCAATACAGTAGCAATAA
Found at i:45365467 original size:34 final size:33
Alignment explanation
Indices: 45365370--45365468 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 33
45365360 ATGCAATATG
* *
45365370 ACATGCTTATAGCAAATCAATACGATAGTAATAA
1 ACATGCTTATAAC-AATCAATACGATAGCAATAA
45365404 ACATGCTTATAACATATCAATAC-AGTAGCAATAA
1 ACATGCTTATAACA-ATCAATACGA-TAGCAATAA
**
45365438 ACATGCTTATAACAAGTCCGTACGATAGCAA
1 ACATGCTTATAACAA-TCAATACGATAGCAA
45365469 AGTCATGCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
33 3 0.05
34 53 0.93
35 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.25
Consensus pattern (33 bp):
ACATGCTTATAACAATCAATACGATAGCAATAA
Found at i:45378638 original size:11 final size:11
Alignment explanation
Indices: 45378622--45378652 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
45378612 TATAGTGAGA
*
45378622 TTTTATTTTAT
1 TTTTATTTTAC
45378633 TTTTATTTTAC
1 TTTTATTTTAC
45378644 TTTTATTTT
1 TTTTATTTT
45378653 TTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAC
Found at i:45385262 original size:14 final size:14
Alignment explanation
Indices: 45385239--45385268 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45385229 CATCCCTCAT
*
45385239 TCACATCTCTTCTC
1 TCACAACTCTTCTC
45385253 TCACAACTCTTCTC
1 TCACAACTCTTCTC
45385267 TC
1 TC
45385269 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:45387898 original size:38 final size:38
Alignment explanation
Indices: 45387856--45387931 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
45387846 AAGCCTACTG
45387856 ACCAAAGATAGAGCCTATTCATAAAAATACCAAAATTT
1 ACCAAAGATAGAGCCTATTCATAAAAATACCAAAATTT
*
45387894 ACCAAAGATAGGGCCTATTCATAAAAATACCAAAATTT
1 ACCAAAGATAGAGCCTATTCATAAAAATACCAAAATTT
45387932 TCCCAAGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (38 bp):
ACCAAAGATAGAGCCTATTCATAAAAATACCAAAATTT
Found at i:45390345 original size:11 final size:11
Alignment explanation
Indices: 45390329--45390364 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
45390319 TATAGTGAGA
45390329 TTTTATTTTAT
1 TTTTATTTTAT
*
45390340 TTTTATTTTAC
1 TTTTATTTTAT
*
45390351 TTTTATTTTGT
1 TTTTATTTTAT
45390362 TTT
1 TTT
45390365 CAAAAATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:45390616 original size:50 final size:50
Alignment explanation
Indices: 45390557--45390656 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
45390547 CCCGAGTTAG
45390557 AGAGTTTTTCCTTTAAATTCATTTAGAACGATGGGGTTTTTCGGTTGGTA
1 AGAGTTTTTCCTTTAAATTCATTTAGAACGATGGGGTTTTTCGGTTGGTA
45390607 AGAGTTTTTCCTTTAAATTCATTTAGAACGATGGGGTTTTTCGGTTGGTA
1 AGAGTTTTTCCTTTAAATTCATTTAGAACGATGGGGTTTTTCGGTTGGTA
45390657 GTGAAATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (50 bp):
AGAGTTTTTCCTTTAAATTCATTTAGAACGATGGGGTTTTTCGGTTGGTA
Found at i:45395520 original size:16 final size:16
Alignment explanation
Indices: 45395473--45395525 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
45395463 TTTGGTTCGC
* *
45395473 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
45395489 CGTAATGGAA-AGAGG
1 TGTAATGGAATAGAGG
45395504 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
45395520 TGTAAT
1 TGTAAT
45395526 AGCAAATCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 14 0.44
16 18 0.56
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:45395570 original size:45 final size:44
Alignment explanation
Indices: 45395504--45395594 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
45395494 TGGAAAGAGG
*
45395504 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
45395549 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
45395593 TG
1 TG
45395595 GAATAGATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:45395786 original size:14 final size:15
Alignment explanation
Indices: 45395747--45395788 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45395737 TTTAAGCATA
*
45395747 ATTATTATTAAATAT
1 ATTATAATTAAATAT
45395762 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
45395776 A-TATAATTTAATA
1 ATTATAATTAAATA
45395789 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:45395906 original size:14 final size:15
Alignment explanation
Indices: 45395857--45395908 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45395847 ATAAAATATA
45395857 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
45395872 TATTAAATATATTAT
1 AATTAAATATATTAT
45395887 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
45395900 AATTTAATA
1 AATTAAATA
45395909 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:45395956 original size:120 final size:120
Alignment explanation
Indices: 45395736--45396152 Score: 721
Period size: 120 Copynumber: 3.5 Consensus size: 120
45395726 ATTTAATCAT
45395736 ATTTAAGCATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAA-CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
45395801 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
45395857 AATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
45395922 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
45395977 ATTTAATATAATTATTATTAAATATATTTTAATTAAAATAAATAATTT-ATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
45396041 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
45396096 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
45396153 TAAAATAATT
Statistics
Matches: 284, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
119 113 0.40
120 166 0.58
121 5 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:45396206 original size:101 final size:93
Alignment explanation
Indices: 45396093--45396374 Score: 313
Period size: 91 Copynumber: 3.0 Consensus size: 93
45396083 ACTATAAAAG
* * * *
45396093 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
45396157 ATAATTATAACTAATAAATTTTCTTATATAAATTTGT
62 -T--CT-TAA-TAATAAATTTTCTTATATAAATTTAT
* *
45396194 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
45396257 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTTTCTTATATAAATTTAT
* *
45396285 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
45396348 AATAATAAAATGTTCTTATATGAAATT
66 AATAAT-AAATTTTCTTATAT-AAATT
45396375 ACTAAAATCA
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
91 88 0.55
92 15 0.09
93 5 0.03
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.30
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTTTCTTATATAAATTTAT
Found at i:45396223 original size:26 final size:28
Alignment explanation
Indices: 45396193--45396253 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
45396183 TATAAATTTG
*
45396193 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
45396219 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
45396247 TAAAATT
1 TATAATT
45396254 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:45396251 original size:47 final size:46
Alignment explanation
Indices: 45396200--45396343 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
45396190 TTGTATAATT
45396200 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
45396247 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
45396291 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
45396338 TAAAAT
1 TAAAAT
45396344 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:45396263 original size:91 final size:91
Alignment explanation
Indices: 45396168--45396374 Score: 324
Period size: 91 Copynumber: 2.3 Consensus size: 91
45396158 TAATTATAAC
* * * *
45396168 TAATAAATTTTCTTATATAAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATAAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
45396233 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
*
45396259 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATAAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
45396324 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
45396350 TAATAAAATGTTCTTATATGAAATT
1 TAAT-AAATTTTCTTATAT-AAATT
45396375 ACTAAAATCA
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
91 88 0.84
92 13 0.12
93 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATAAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:45396335 original size:44 final size:43
Alignment explanation
Indices: 45396193--45396335 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
45396183 TATAAATTTG
* *
45396193 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
45396237 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
45396284 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
45396328 TATAATTT
1 TATAATTT
45396336 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:45396350 original size:47 final size:47
Alignment explanation
Indices: 45396218--45396356 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
45396208 TTATTATTAC
* *
45396218 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
45396265 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
45396309 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
45396356 A
1 A
45396357 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:45400042 original size:19 final size:19
Alignment explanation
Indices: 45400018--45400056 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
45400008 CTAGAAGGAA
45400018 GGAACAGAAGAGGCAAAGG
1 GGAACAGAAGAGGCAAAGG
*
45400037 GGAACAGAAGAGGCAGAGG
1 GGAACAGAAGAGGCAAAGG
45400056 G
1 G
45400057 TAAAACAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.46, T:0.00
Consensus pattern (19 bp):
GGAACAGAAGAGGCAAAGG
Found at i:45419949 original size:20 final size:20
Alignment explanation
Indices: 45419911--45419949 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45419901 TAACTTTTCC
**
45419911 AAATATAATATTATTTTAAT
1 AAATATAATATTAAATTAAT
*
45419931 AAATTTAATATTAAATTAA
1 AAATATAATATTAAATTAA
45419950 ATTAAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATAATATTAAATTAAT
Found at i:45419990 original size:16 final size:16
Alignment explanation
Indices: 45419922--45419990 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
45419912 AATATAATAT
*
45419922 TATTTTAATAAATTTAA
1 TATTTTATTAAA-TTAA
**
45419939 TATTAAATTAAATTAA
1 TATTTTATTAAATTAA
* *
45419955 -ATATTTATTTAGA-TAG
1 TAT-TTTA-TTAAATTAA
45419971 TATTTTATTAAATTAA
1 TATTTTATTAAATTAA
45419987 TATT
1 TATT
45419991 AATATGAGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
15 6 0.15
16 18 0.46
17 15 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TATTTTATTAAATTAA
Found at i:45420019 original size:61 final size:61
Alignment explanation
Indices: 45419938--45420054 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
45419928 AATAAATTTA
*
45419938 ATATTAAATTAAATTAAATATTTAT-TTAGATAGTATTTTATTAAATTAATATTAATATGAG
1 ATATTAAATTAAATTAAATATTTATCTT-GATAATATTTTATTAAATTAATATTAATATGAG
* * * *
45419999 ATATTAAATTTAATTTAATATTTATCTTGTTAATATTTTATTAATTTAATATTAAT
1 ATATTAAATTAAATTAAATATTTATCTTGATAATATTTTATTAAATTAATATTAAT
45420055 GTGATTAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 48 0.96
62 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
ATATTAAATTAAATTAAATATTTATCTTGATAATATTTTATTAAATTAATATTAATATGAG
Found at i:45420075 original size:21 final size:20
Alignment explanation
Indices: 45420038--45420076 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
45420028 TTAATATTTT
*
45420038 ATTAATTTAATATTAATGTG
1 ATTAATTTAATACTAATGTG
*
45420058 ATTAATTCTAATCCTAATG
1 ATTAATT-TAATACTAATG
45420077 GAACTCTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
ATTAATTTAATACTAATGTG
Found at i:45420208 original size:25 final size:26
Alignment explanation
Indices: 45420158--45420208 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
45420148 AGTTTTAGAG
*
45420158 AGAAAATTCTCTAAAGAATTTGTTTT
1 AGAAAATTCTCTAAAGAATTTCTTTT
*
45420184 AGAAAATT-TCTAGAG-ATATTCTTTT
1 AGAAAATTCTCTAAAGAAT-TTCTTTT
45420209 TATTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 12 0.55
26 8 0.36
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAATTTCTTTT
Found at i:45422810 original size:12 final size:12
Alignment explanation
Indices: 45422793--45422831 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
45422783 TACCAGTGGT
45422793 AAAGTAAATAAA
1 AAAGTAAATAAA
*
45422805 AAAGTAAATAAT
1 AAAGTAAATAAA
45422817 AAA-TAAAGTAAA
1 AAAGTAAA-TAAA
45422829 AAA
1 AAA
45422832 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (12 bp):
AAAGTAAATAAA
Found at i:45422826 original size:16 final size:16
Alignment explanation
Indices: 45422799--45422855 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
45422789 TGGTAAAGTA
45422799 AATAAA-AAAGTAAAT
1 AATAAATAAAGTAAAT
*
45422814 AATAAATAAAGTAAAA
1 AATAAATAAAGTAAAT
*
45422830 AATATATAAA-TATAAT
1 AATAAATAAAGTA-AAT
*
45422846 AATAATTAAA
1 AATAAATAAA
45422856 TCGCACTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 8 0.23
16 27 0.77
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (16 bp):
AATAAATAAAGTAAAT
Found at i:45422832 original size:12 final size:11
Alignment explanation
Indices: 45422797--45422839 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
45422787 AGTGGTAAAG
45422797 TAAATAAAAAA
1 TAAATAAAAAA
*
45422808 GTAAATAATAAA
1 -TAAATAAAAAA
45422820 TAAAGTAAAAAA
1 TAAA-TAAAAAA
*
45422832 TATATAAA
1 TAAATAAA
45422840 TATAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (11 bp):
TAAATAAAAAA
Found at i:45443077 original size:14 final size:16
Alignment explanation
Indices: 45443058--45443101 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
45443048 AGCAACCCAT
45443058 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
45443072 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
45443088 ATTAAGTTTAATTT
1 ATTTA-TTTAATTT
45443102 ATGTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:45448138 original size:14 final size:14
Alignment explanation
Indices: 45448119--45448164 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
45448109 TAAGTAAAAA
45448119 ATAATATAAAATTT
1 ATAATATAAAATTT
45448133 ATAATATATAAACTTT
1 ATAATATA-AAA-TTT
*
45448149 ATAA-A-AAAATCT
1 ATAATATAAAATTT
45448161 ATAA
1 ATAA
45448165 ATTATTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 9 0.31
15 4 0.14
16 7 0.24
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATATAAAATTT
Found at i:45448143 original size:16 final size:16
Alignment explanation
Indices: 45448122--45448152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45448112 GTAAAAAATA
45448122 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
45448138 ATATAAACTTTATAA
1 ATATAAAATTTATAA
45448153 AAAAATCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:45448276 original size:22 final size:25
Alignment explanation
Indices: 45448248--45448303 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
45448238 TATAAATAAG
45448248 TTATAATAA-AAA-ATAAAATATTT
1 TTATAATAATAAATATAAAATATTT
* *
45448271 TT-TAATGAATAAATATATATTATTT
1 TTATAAT-AATAAATATAAAATATTT
45448296 TTATAATA
1 TTATAATA
45448304 TATATCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 4 0.15
23 4 0.15
24 3 0.11
25 12 0.44
26 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTATAATAATAAATATAAAATATTT
Found at i:45451857 original size:13 final size:13
Alignment explanation
Indices: 45451839--45451864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45451829 GTGGAATTCG
45451839 AATAAGGACACAA
1 AATAAGGACACAA
45451852 AATAAGGACACAA
1 AATAAGGACACAA
45451865 GGCCCCTTTA
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:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (13 bp):
AATAAGGACACAA
Found at i:45456176 original size:5 final size:4
Alignment explanation
Indices: 45456148--45456212 Score: 55
Period size: 4 Copynumber: 15.8 Consensus size: 4
45456138 TAGACTCTTT
*
45456148 TTTA TTTA -TTA TTTTA TTTA TTTA CTTTAA CTTA TTTA TTTTCA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTT-A TTTA TTTA -TTT-A TTTA
45456196 -TTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTT
45456213 CAAATTTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
3 9 0.18
4 26 0.51
5 14 0.27
6 2 0.04
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:45456196 original size:14 final size:12
Alignment explanation
Indices: 45456147--45456212 Score: 71
Period size: 14 Copynumber: 5.2 Consensus size: 12
45456137 TTAGACTCTT
45456147 TTTTATTTATTA
1 TTTTATTTATTA
45456159 TTTTATTTATTTA
1 TTTTATTTA-TTA
* *
45456172 CTTTAACTTATTTA
1 -TTTTATTTA-TTA
45456186 TTTTCATTTATTA
1 TTTT-ATTTATTA
45456199 -TTTATTTATTA
1 TTTTATTTATTA
45456210 TTT
1 TTT
45456213 CAAATTTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 8 0.17
12 14 0.30
13 9 0.20
14 15 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:45467640 original size:44 final size:45
Alignment explanation
Indices: 45467562--45467782 Score: 160
Period size: 44 Copynumber: 4.8 Consensus size: 45
45467552 AGTGAAACCA
* * * *
45467562 CAAATCTTATC-CCCTTAAAATTGCAGTGGGGCAGATTGAATATA-
1 CAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * *
45467606 CAAGTCTTATCTCTCTTAAGTTGCGGTGGAGCAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
45467651 CAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAGCTATAAATTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--G
* *
45467702 CAAATCTTATCTCCCTGAAGTGGCAGTGGAGCAGATTGAAGCTA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * *
45467746 CTAATCATATTTCCCTAAAGTTGCAGTGAAGCGGATT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
45467783 AAAACGATAA
Statistics
Matches: 138, Mismatches: 31, Indels: 16
0.75 0.17 0.09
Matches are distributed among these distances:
44 62 0.45
45 34 0.25
47 3 0.02
49 2 0.01
51 37 0.27
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
Found at i:45468415 original size:23 final size:23
Alignment explanation
Indices: 45468372--45468418 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
45468362 CTTTAGCAGA
* *
45468372 AACCCTAGCCCCCTGTTGCACCT
1 AACCCTAGCCCCCTATCGCACCT
45468395 AACCCTAGCCTCCC-ATCGCACCT
1 AACCCTAGCC-CCCTATCGCACCT
45468418 A
1 A
45468419 GCCCCTGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.21, C:0.49, G:0.11, T:0.19
Consensus pattern (23 bp):
AACCCTAGCCCCCTATCGCACCT
Found at i:45468807 original size:27 final size:27
Alignment explanation
Indices: 45468757--45468808 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
45468747 ATTTTCCTTA
* *
45468757 AAATATATATAAATACAGATATATAGC
1 AAATATATATAAATACAAAAATATAGC
*
45468784 AAATATATATAAATATAAAAATATA
1 AAATATATATAAATACAAAAATATA
45468809 CCTTTTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
AAATATATATAAATACAAAAATATAGC
Found at i:45469411 original size:8 final size:9
Alignment explanation
Indices: 45469390--45469461 Score: 53
Period size: 10 Copynumber: 7.9 Consensus size: 9
45469380 ATTTAGACTC
45469390 TTTT-TTTA
1 TTTTATTTA
45469398 -TTTA-TTA
1 TTTTATTTA
45469405 TTTTATTTA
1 TTTTATTTA
45469414 -TTTACTTTA
1 TTTTA-TTTA
**
45469423 ACTTATTTA
1 TTTTATTTA
45469432 TTTTCATTTA
1 TTTT-ATTTA
45469442 TTATTTATTTA
1 -T-TTTATTTA
45469453 TTATTATTT
1 TT-TTATTT
45469462 CAACTTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
7 6 0.12
8 8 0.15
9 14 0.27
10 15 0.29
11 6 0.12
12 3 0.06
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:45469422 original size:5 final size:4
Alignment explanation
Indices: 45469394--45469454 Score: 54
Period size: 4 Copynumber: 14.5 Consensus size: 4
45469384 AGACTCTTTT
*
45469394 TTTA TTTA -TTA TTTTA TTTA TTTA CTTTAA CTTA TTTA TTTTCA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTT-A TTTA TTTA -TTT-A TTTA
45469442 -TTA TTTA TTTA TT
1 TTTA TTTA TTTA TT
45469455 ATTATTTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
3 6 0.12
4 26 0.54
5 14 0.29
6 2 0.04
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:45469456 original size:14 final size:15
Alignment explanation
Indices: 45469394--45469461 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 15
45469384 AGACTCTTTT
*
45469394 TTTATTTATTATTTTA
1 TTTATTTATT-TATTA
45469410 TTTATTTACTTTAACTTA
1 TTTATTTA-TTT-A-TTA
45469428 TTTATTTTCATTTATTA
1 TTTA-TTT-ATTTATTA
45469445 TTTATTTA-TTATTA
1 TTTATTTATTTATTA
45469459 TTT
1 TTT
45469462 CAACTTTTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.20
15 1 0.02
16 12 0.26
17 9 0.20
18 8 0.17
19 6 0.13
20 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTATTTATTA
Found at i:45469636 original size:10 final size:9
Alignment explanation
Indices: 45469621--45469654 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
45469611 TCCTATTTTC
45469621 ATTTTATTCT
1 ATTTTATT-T
45469631 ATTTTATGTT
1 ATTTTAT-TT
45469641 ATTTTATTT
1 ATTTTATTT
45469650 ATTTT
1 ATTTT
45469655 GTTGTTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 15 0.65
11 1 0.04
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (9 bp):
ATTTTATTT
Found at i:45476700 original size:12 final size:12
Alignment explanation
Indices: 45476683--45476720 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
45476673 TGGCCCGCTC
45476683 ATATTAATTTTT
1 ATATTAATTTTT
45476695 ATATT-ATTTTT
1 ATATTAATTTTT
*
45476706 ATA-TAATTTTA
1 ATATTAATTTTT
45476717 ATAT
1 ATAT
45476721 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:45476862 original size:30 final size:30
Alignment explanation
Indices: 45476818--45476877 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
45476808 ACTTAATAAG
45476818 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
45476848 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
45476878 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:45483581 original size:9 final size:9
Alignment explanation
Indices: 45483567--45483597 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45483557 GTTAAACGAA
45483567 TCGAGTTAT
1 TCGAGTTAT
*
45483576 TCGAGTTAA
1 TCGAGTTAT
45483585 TCGAGTTAT
1 TCGAGTTAT
45483594 TCGA
1 TCGA
45483598 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:45483669 original size:9 final size:9
Alignment explanation
Indices: 45483650--45483686 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
45483640 TGAGTTTTCG
45483650 AATTCGAAT
1 AATTCGAAT
45483659 AACTT-GAAT
1 AA-TTCGAAT
45483668 AATTCGAAT
1 AATTCGAAT
45483677 AATTCGAAT
1 AATTCGAAT
45483686 A
1 A
45483687 TCAAACTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45486025 original size:22 final size:19
Alignment explanation
Indices: 45485994--45486040 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
45485984 AAAGATGATA
45485994 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
45486017 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
45486036 ATTAT
1 ATTAT
45486041 CAGCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:45486036 original size:16 final size:15
Alignment explanation
Indices: 45485996--45486037 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
45485986 AGATGATAAT
45485996 TATTAATATATAATTA
1 TATTAAT-TATAATTA
45486012 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
45486028 TATTAATTAT
1 TATTAATTAT
45486038 TATCAGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:45497328 original size:45 final size:45
Alignment explanation
Indices: 45497277--45497400 Score: 140
Period size: 45 Copynumber: 2.8 Consensus size: 45
45497267 TTGTTTATTT
* * * * *
45497277 AGTCTGCCCCACTGCAATTTCAGGGGGATGAGACTTACTTCCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
* * * * * *
45497322 AGTCTGCTCCACTACAACTTCAAGGAAATCAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
*
45497367 GGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
45497401 CCGATGTGAT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
Found at i:45497940 original size:44 final size:44
Alignment explanation
Indices: 45497879--45498384 Score: 486
Period size: 44 Copynumber: 11.8 Consensus size: 44
45497869 ATCTGCTATT
* * *
45497879 TTCAACCTACTCTACTGCTGCTCCA-GGAGATAGGATTCACGATC
1 TTCAACCTATTCCACTGCTG-TCCAGGGAGATAGGATTCACAATC
* *
45497923 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTC-ACAATC
* * * *
45497967 TTCAATCTATTCCACTACTG-CACAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGTC-CAGGGAGATAGGATTCACAATC
* * *
45498011 TTCAACCTATTCCACTGCTGACCAGTGAGATAGGATTTACAATCC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAAT-C
*
45498056 TT-AACCTATTTCACTGCTGTCCAGGGAGATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
* * * * * *
45498094 TT-AATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATT
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
* *
45498137 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
* * * *
45498181 TTTAACATATTCCACTGCTGTCTAGGGAGATAGGATTCACAGTC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
* * ** * *
45498225 TTTAACATATTCCACTATTGTCTAGAGAGATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
* * * * *
45498264 TT-AATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
* *
45498307 TTCAATCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
* * * *
45498351 TTTAACCTATTCCACTGCTGACTAAGGAGATAGG
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGG
45498385 GCTGGGGTCA
Statistics
Matches: 389, Mismatches: 55, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
38 58 0.15
39 2 0.01
40 4 0.01
42 4 0.01
43 9 0.02
44 307 0.79
45 5 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATC
Found at i:45498182 original size:170 final size:170
Alignment explanation
Indices: 45497929--45498384 Score: 646
Period size: 170 Copynumber: 2.7 Consensus size: 170
45497919 GATCTTCAAC
* * * * *
45497929 CTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCACTACTG-CACAG
1 CTATTCCACTACTGCCCAGGGAGATAGAATTCT-CAATCTTCAATCTATTCCACTGCTGAC-CAG
* * * * *
45497992 GGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGTGAGATAGGATTTACAATCCT
64 GGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCCT
* * * *
45498057 TAACCTATTTCACTGCTGTCCAGGGAGATAGGATTCTTTAAT
129 TAACATATTCCACTACTGTCCAGAGAGATAGGATTCTTTAAT
* *
45498099 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATTTTCAACCTATTCCACTGCTGACCAGGG
1 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTGACCAGGG
* * * * * *
45498164 AGATAGGACTCACAATCTTTAACATATTCCACTGCTGTCTAGGGAGATAGGATTCACAGTCTTTA
66 AGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCCTTA
* *
45498229 ACATATTCCACTATTGTCTAGAGAGATAGGATTCTTTAAT
131 ACATATTCCACTACTGTCCAGAGAGATAGGATTCTTTAAT
45498269 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTGACCAGGG
1 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTGACCAGGG
* *
45498334 AGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACTAAGGAGATAGG
66 AGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
45498385 GCTGGGGTCA
Statistics
Matches: 254, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
170 251 0.99
171 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (170 bp):
CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTGACCAGGG
AGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCCTTA
ACATATTCCACTACTGTCCAGAGAGATAGGATTCTTTAAT
Found at i:45498384 original size:126 final size:129
Alignment explanation
Indices: 45497878--45498383 Score: 525
Period size: 126 Copynumber: 3.9 Consensus size: 129
45497868 GATCTGCTAT
* * * *
45497878 TTTCAACCTACTCTACTGCTGCTCCA-GGAGATAGGATTCACGATCTTCAACCTATTCCACTGCT
1 TTTCAACCTATTCCACTGCTG-ACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCT
* * * *
45497942 GACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTACTGCAC-AGGGAGATAGAATTCT
65 GACCAGGGAGATAGGATC-ACAATCTTTAACCTATTCCACTACTG-ACTAAGGAGATAGAATTCT
45498006 CAA
128 C-A
* * *
45498009 TCTTCAACCTATTCCACTGCTGACCAGTGAGATAGGATTTACAATCCTT-AACCTATTTCACTGC
1 T-TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAAT-CTTCAACCTATTCCACTGC
* * * * *
45498073 TGTCCAGGGAGATAGGAT-----TCTTTAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTC
64 TGACCAGGGAGATAGGATCACAATCTTTAACCTATTCCACTACTGACTAAGGAGATAGAATTCTC
45498133 AA
129 -A
* * *
45498135 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTTAACATATTCCACTGCT
1 -TTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCT
* * * * * * *
45498200 GTCTAGGGAGATAGGATTCACAGTCTTTAACATATTCCACTATTGTCT-AGAGAGATAGGA-T-T
65 GACCAGGGAGATAGGA-TCACAATCTTTAACCTATTCCACTACTGACTAAG-GAGATAGAATTCT
45498262 C-
128 CA
* * * * * *
45498263 TTT-AATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTG
1 TTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTG
*
45498327 ACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACTAAGGAGATAG
66 ACCAGGGAGATAGGA-TCACAATCTTTAACCTATTCCACTACTGACTAAGGAGATAG
45498384 GGCTGGGGTC
Statistics
Matches: 321, Mismatches: 40, Indels: 33
0.81 0.10 0.08
Matches are distributed among these distances:
125 4 0.01
126 208 0.65
127 7 0.02
130 2 0.01
131 6 0.02
132 91 0.28
133 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (129 bp):
TTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTG
ACCAGGGAGATAGGATCACAATCTTTAACCTATTCCACTACTGACTAAGGAGATAGAATTCTCA
Found at i:45498533 original size:88 final size:88
Alignment explanation
Indices: 45498384--45498613 Score: 325
Period size: 88 Copynumber: 2.6 Consensus size: 88
45498374 AAGGAGATAG
* * *
45498384 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* ** * * *
45498449 TTCGTTATAACCTAGAGAGTCAA
66 TCCAATACAACCCAGAGAGGCAA
*
45498472 GGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
45498537 TCCAATGCAACCCAGAGAGGCAA
66 TCCAATACAACCCAGAGAGGCAA
* * * *
45498560 GGCTAGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAACGCAAAATCTGCTAT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
45498614 CTTCGATCTA
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 126 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCAATACAACCCAGAGAGGCAA
Found at i:45498661 original size:44 final size:45
Alignment explanation
Indices: 45498605--45498882 Score: 284
Period size: 44 Copynumber: 6.3 Consensus size: 45
45498595 GGAACGCAAA
* * *
45498605 ATCTGCTATCTTCGATCTACTTC-ACGCTAATATATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
* * * *
45498649 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
* * *
45498694 ATCTGC-ATCTTTGATCCACTTC--CTACCAATATAGGAAGACAGG
1 ATCTGCTATCTTCGATCTACTTCGAC-ACCAATATAGGAAGACAAG
* * * * *
45498737 ACCTGCTATCTTCGATCTACTTC-ACGCTAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
* * * *
45498781 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
*
45498826 ATCTGC-ATCTTCGATCCACTTC-ACTACCAATATAGGAAGAC-AG
1 ATCTGCTATCTTCGATCTACTTCGAC-ACCAATATAGGAAGACAAG
*
45498869 AATTTGCTATCTTC
1 -ATCTGCTATCTTC
45498883 ACTGATCTGC
Statistics
Matches: 190, Mismatches: 36, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.01
43 24 0.13
44 117 0.62
45 48 0.25
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
Found at i:45498774 original size:132 final size:133
Alignment explanation
Indices: 45498607--45498882 Score: 500
Period size: 132 Copynumber: 2.1 Consensus size: 133
45498597 AACGCAAAAT
*
45498607 CTGCTATCTTCGATCTACTTCACGCTAATATATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
*
45498672 GCCACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCACTTC-CTACCAATATAGGAAGACAG
66 GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAATATAGGAAGACAG
*
45498736 GAC
131 AAC
45498739 CTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
45498804 GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAATATAGGAAGACAG
66 GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAATATAGGAAGACAG
*
45498869 AAT
131 AAC
*
45498872 TTGCTATCTTC
1 CTGCTATCTTC
45498883 ACTGATCTGC
Statistics
Matches: 138, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
132 107 0.78
133 31 0.22
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (133 bp):
CTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAATATAGGAAGACAG
AAC
Found at i:45500114 original size:10 final size:10
Alignment explanation
Indices: 45500099--45500123 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45500089 TTGGCCTCTC
45500099 TTTTTTCTTT
1 TTTTTTCTTT
45500109 TTTTTTCTTT
1 TTTTTTCTTT
45500119 TTTTT
1 TTTTT
45500124 GAAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:45507831 original size:3 final size:3
Alignment explanation
Indices: 45507823--45507869 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
45507813 TTTGACTTTT
45507823 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
45507870 CTTTAAAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:45508906 original size:19 final size:19
Alignment explanation
Indices: 45508860--45508907 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
45508850 GTATATATTT
*
45508860 TAAA-TTTATTTAGTTAGA
1 TAAATTTTATTTAGGTAGA
* *
45508878 TAAATCTTATTTAGGTCGA
1 TAAATTTTATTTAGGTAGA
*
45508897 TAAGTTTTATT
1 TAAATTTTATT
45508908 CATATTCTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:45510519 original size:42 final size:42
Alignment explanation
Indices: 45510438--45510521 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
45510428 ATATTTTATT
45510438 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
* *
45510480 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTTTTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
45510522 AATTAGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
Found at i:45511703 original size:13 final size:13
Alignment explanation
Indices: 45511685--45511712 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45511675 AATGTATCAA
45511685 CTCCTTTGGCCAG
1 CTCCTTTGGCCAG
45511698 CTCCTTTGGCCAG
1 CTCCTTTGGCCAG
45511711 CT
1 CT
45511713 TTTAATAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.39, G:0.21, T:0.32
Consensus pattern (13 bp):
CTCCTTTGGCCAG
Found at i:45512203 original size:31 final size:31
Alignment explanation
Indices: 45512165--45512224 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
45512155 TTGCATGGTC
45512165 AATTTTGTTTTTGAGATTTCAATATCAATGG
1 AATTTTGTTTTTGAGATTTCAATATCAATGG
*
45512196 AATTTTGTTTTTGAGATTTTAATATCAAT
1 AATTTTGTTTTTGAGATTTCAATATCAAT
45512225 TACAGGTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (31 bp):
AATTTTGTTTTTGAGATTTCAATATCAATGG
Found at i:45515485 original size:59 final size:60
Alignment explanation
Indices: 45515389--45515515 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 60
45515379 AATAAAAATT
45515389 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATT-TCAACAAGAG-ATGACAA
1 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGT-AACAAGAGAATGACAA
* *
45515448 TTCAAGCACAAATACTTAAACAAGACATAAGCGTATTGAATTGTAACAAGAGATATGACAA
1 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGTAACAAGAGA-ATGACAA
45515509 TT-AAGCA
1 TTCAAGCA
45515516 TTGGAGAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
59 48 0.76
60 6 0.10
61 9 0.14
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.23
Consensus pattern (60 bp):
TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGTAACAAGAGAATGACAA
Found at i:45516596 original size:25 final size:25
Alignment explanation
Indices: 45516547--45516599 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
45516537 ATCCTAAGAC
*
45516547 TAAATCTAATCCTAACTTATTAACT
1 TAAATCTAATCCTAACTTATAAACT
* * *
45516572 TAAATTTAATCCTAAGTTCTAAACT
1 TAAATCTAATCCTAACTTATAAACT
45516597 TAA
1 TAA
45516600 GTTCTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATCTAATCCTAACTTATAAACT
Found at i:45530044 original size:16 final size:15
Alignment explanation
Indices: 45530023--45530052 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45530013 TGGAAGTATG
45530023 TTTCAGTTTGCTTTAT
1 TTTCAGTTT-CTTTAT
45530039 TTTCAGTTTCTTTA
1 TTTCAGTTTCTTTA
45530053 CAAATCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.63
Consensus pattern (15 bp):
TTTCAGTTTCTTTAT
Found at i:45530598 original size:2 final size:2
Alignment explanation
Indices: 45530591--45530620 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
45530581 ATCTTAGTCT
*
45530591 TA TA TA TA TT 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
45530621 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:45530657 original size:2 final size:2
Alignment explanation
Indices: 45530620--45530644 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45530610 ATATATATAT
45530620 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
45530645 AGCGAAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Done.