Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 99 of 100
Found at i:17562356 original size:114 final size:112
Alignment explanation
Indices: 17562195--17562475 Score: 330
Period size: 114 Copynumber: 2.4 Consensus size: 112
17562185 GTCTTATTGA
* * * * *
17562195 TACCAGCTAAACTGGGCTTAAATTTGAGTACAAGCTAAACT-AGGTTTAAAATTTGTGTGCTAGC
1 TACCAGCTAAACT--GCTTAAATTTGTGTGCAAGCTAAACTGA-GTTTAAAATTTGGGTGCCAAC
* * *
17562259 TAAACTAGGTTTAAAATATGAATACCAGCTAAATTAGGCTTAAATTTGTG
63 TAAACTAGGCTTAAAATATGAATACCAACTAAATTAGGCTTAAATATGTG
*
17562309 TACCAGCTAAACTAGACTTAAATTTGTGTGCTAGCTAAACTGAGTTTAAAATTTGGGTGCCAACT
1 TACCAGCTAAACT-G-CTTAAATTTGTGTGCAAGCTAAACTGAGTTTAAAATTTGGGTGCCAACT
* * *
17562374 AAACTAGGCTTAAAATATGAGTGCTAACTAAATTAGGCTTAAATATGTG
64 AAACTAGGCTTAAAATATGAATACCAACTAAATTAGGCTTAAATATGTG
* * * * *
17562423 TACCAACTAAACTGCGTTTAAAATCTGTGCGCCAGCTAAACTGGGTTTAAAAT
1 TACCAGCTAAACTGC--TT-AAATTTGTGTGCAAGCTAAACTGAGTTTAAAAT
17562476 ATGAGTTGTA
Statistics
Matches: 144, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
112 1 0.01
113 2 0.01
114 111 0.77
115 30 0.21
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (112 bp):
TACCAGCTAAACTGCTTAAATTTGTGTGCAAGCTAAACTGAGTTTAAAATTTGGGTGCCAACTAA
ACTAGGCTTAAAATATGAATACCAACTAAATTAGGCTTAAATATGTG
Found at i:17562435 original size:86 final size:86
Alignment explanation
Indices: 17562315--17562481 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 86
17562305 TGTGTACCAG
* * * * * *
17562315 CTAAACTAGACTTAAATTTGTGTGCTAGCTAAACTGAGTTTAAAATTTGGGTGCCAACTAAACTA
1 CTAAACTAGACTTAAATATGTGTACCAACTAAACTGAGTTTAAAATCTGGGCGCCAACTAAACTA
17562380 GGCTTAAAATATGAGTGCTAA
66 GGCTTAAAATATGAGTGCTAA
* * * * * *
17562401 CTAAATTAGGCTTAAATATGTGTACCAACTAAACTGCGTTTAAAATCTGTGCGCCAGCTAAACTG
1 CTAAACTAGACTTAAATATGTGTACCAACTAAACTGAGTTTAAAATCTGGGCGCCAACTAAACTA
*
17562466 GGTTTAAAATATGAGT
66 GGCTTAAAATATGAGT
17562482 TGTATTGTAT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (86 bp):
CTAAACTAGACTTAAATATGTGTACCAACTAAACTGAGTTTAAAATCTGGGCGCCAACTAAACTA
GGCTTAAAATATGAGTGCTAA
Found at i:17562462 original size:57 final size:57
Alignment explanation
Indices: 17562227--17562462 Score: 178
Period size: 57 Copynumber: 4.1 Consensus size: 57
17562217 TTTGAGTACA
* * * * * ** *
17562227 AGCTAAACTAGGTTTAAAATTTGTGTGCTAGCTAAACTAG-GTTTAAAATATGAATACC
1 AGCTAAATTAGGCTT-AAATTTGTGTACCAACTAAACTAGCG-TTAAAATATGTGTGCC
* * *
17562285 AGCTAAATTAGGCTTAAATTTGTGTACCAGCTAAACTAGAC-TT-AAATTTGTGTGCT
1 AGCTAAATTAGGCTTAAATTTGTGTACCAACTAAACTAG-CGTTAAAATATGTGTGCC
* * * * * *
17562341 AGCTAAACT-GAGTTTAAAATTTGGGTGCCAACTAAACTAG-GCTTAAAATATGAGTGCT
1 AGCTAAATTAG-GCTT-AAATTTGTGTACCAACTAAACTAGCG-TTAAAATATGTGTGCC
* * * *
17562399 AACTAAATTAGGCTTAAATATGTGTACCAACTAAACT-GCGTTTAAAATCTGTGCGCC
1 AGCTAAATTAGGCTTAAATTTGTGTACCAACTAAACTAGCG-TTAAAATATGTGTGCC
17562456 AGCTAAA
1 AGCTAAA
17562463 CTGGGTTTAA
Statistics
Matches: 141, Mismatches: 28, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
55 1 0.01
56 20 0.14
57 85 0.60
58 34 0.24
59 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (57 bp):
AGCTAAATTAGGCTTAAATTTGTGTACCAACTAAACTAGCGTTAAAATATGTGTGCC
Found at i:17562678 original size:31 final size:32
Alignment explanation
Indices: 17562643--17562702 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
17562633 CATGATAGAC
*
17562643 TTCTTTATCTCTTTTT-GCTTTTTTTTTTGTA
1 TTCTTCATCTCTTTTTCGCTTTTTTTTTTGTA
* * *
17562674 TTCTTCCTTTCTTTTTCTCTTTTTTTTTT
1 TTCTTCATCTCTTTTTCGCTTTTTTTTTT
17562703 TATGTTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 13 0.54
32 11 0.46
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (32 bp):
TTCTTCATCTCTTTTTCGCTTTTTTTTTTGTA
Found at i:17566174 original size:18 final size:19
Alignment explanation
Indices: 17566139--17566181 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
17566129 TGAGAAAAAT
17566139 TTAAAAAAAATCCAAAA-C
1 TTAAAAAAAATCCAAAACC
*
17566157 TTAAAAAAAAT-TAGAAACC
1 TTAAAAAAAATCCA-AAACC
17566176 TTAAAA
1 TTAAAA
17566182 GACAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (19 bp):
TTAAAAAAAATCCAAAACC
Found at i:17567888 original size:16 final size:15
Alignment explanation
Indices: 17567869--17567911 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
17567859 AATATGTGAG
17567869 TGAATGAATAAATGAA
1 TGAATG-ATAAATGAA
17567885 TGAATGATCAAATGAA
1 TGAATGAT-AAATGAA
17567901 TGAATGATAAA
1 TGAATGATAAA
17567912 GCTTTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (15 bp):
TGAATGATAAATGAA
Found at i:17571909 original size:19 final size:19
Alignment explanation
Indices: 17571874--17571915 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
17571864 ATCTTCAAAG
17571874 ATTTTCATTGTTTTTA-TT
1 ATTTTCATTGTTTTTATTT
* *
17571892 ATTTTTATTTTTTATTATTT
1 ATTTTCATTGTTT-TTATTT
17571912 ATTT
1 ATTT
17571916 CTTTGGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTTCATTGTTTTTATTT
Found at i:17576739 original size:22 final size:22
Alignment explanation
Indices: 17576713--17576783 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
17576703 TTAGATAGCA
17576713 ATGTTTTAAAGTATCTAATGCT
1 ATGTTTTAAAGTATCTAATGCT
* * * **
17576735 ATGTTTT--TGTTTC-GATAGAG
1 ATGTTTTAAAGTATCTAAT-GCT
*
17576755 ATATTTTAAAGTATCTAATGCT
1 ATGTTTTAAAGTATCTAATGCT
17576777 ATGTTTT
1 ATGTTTT
17576784 CTTATATAAT
Statistics
Matches: 33, Mismatches: 12, Indels: 8
0.62 0.23 0.15
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
22 18 0.55
23 2 0.06
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.49
Consensus pattern (22 bp):
ATGTTTTAAAGTATCTAATGCT
Found at i:17576752 original size:42 final size:42
Alignment explanation
Indices: 17576696--17576783 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
17576686 AGCTCCTTTC
*
17576696 TTTTTATTTAGATAGCA-ATGTTTTAAAGTATCTAATGCTATG
1 TTTTTATTTAGATAG-AGATATTTTAAAGTATCTAATGCTATG
* *
17576738 TTTTTGTTTCGATAGAGATATTTTAAAGTATCTAATGCTATG
1 TTTTTATTTAGATAGAGATATTTTAAAGTATCTAATGCTATG
17576780 TTTT
1 TTTT
17576784 CTTATATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (42 bp):
TTTTTATTTAGATAGAGATATTTTAAAGTATCTAATGCTATG
Found at i:17579414 original size:23 final size:21
Alignment explanation
Indices: 17579388--17579452 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 21
17579378 TTAGTATTTT
17579388 TTTATTTTGATTTTTTGATTTAA
1 TTTATTTT-ATTTTTT-ATTTAA
*
17579411 TTTATTTTTAGTTTTCTT-TTTAT
1 TTTA-TTTTA-TTTT-TTATTTAA
17579434 TTTATTTTATTTTTTATTT
1 TTTATTTTATTTTTTATTT
17579453 TTTCTTTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 2 0.05
21 7 0.19
22 5 0.14
23 13 0.35
24 8 0.22
25 2 0.05
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTATTTTATTTTTTATTTAA
Found at i:17579432 original size:12 final size:11
Alignment explanation
Indices: 17579387--17579454 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 11
17579377 TTTAGTATTT
*
17579387 TTTTATTTTGA
1 TTTTATTTTTA
17579398 TTTT-TTGATTTA
1 TTTTATT--TTTA
*
17579410 ATTTATTTTTA
1 TTTTATTTTTA
*
17579421 GTTTTCTTTTTA
1 -TTTTATTTTTA
*
17579433 TTTTATTTTATT
1 TTTTATTTT-TA
17579445 TTTTATTTTT
1 TTTTATTTTT
17579455 TCTTTATCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
10 2 0.04
11 17 0.37
12 25 0.54
13 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.04, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:17579436 original size:17 final size:17
Alignment explanation
Indices: 17579411--17579453 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
17579401 TTTGATTTAA
17579411 TTTATTTTTAGTTTT-CTT
1 TTTA-TTTTA-TTTTACTT
*
17579429 TTTATTTTATTTTATTT
1 TTTATTTTATTTTACTT
17579446 TTTATTTT
1 TTTATTTT
17579454 TTCTTTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTATTTTATTTTACTT
Found at i:17579453 original size:28 final size:28
Alignment explanation
Indices: 17579406--17579461 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
17579396 GATTTTTTGA
17579406 TTTAATTTATTTTTAGTTTTCTT-TTTAT
1 TTTAATTTATTTTTAGTTTT-TTCTTTAT
*
17579434 TTTATTTTATTTTTTA-TTTTTTCTTTAT
1 TTTAATTTA-TTTTTAGTTTTTTCTTTAT
17579462 CGATTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 17 0.68
29 6 0.24
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (28 bp):
TTTAATTTATTTTTAGTTTTTTCTTTAT
Found at i:17583470 original size:121 final size:122
Alignment explanation
Indices: 17583345--17583580 Score: 307
Period size: 121 Copynumber: 1.9 Consensus size: 122
17583335 TTATGTTTAA
* * * * *
17583345 AAAATTCTAAAACATTTCCAACACTTTTAGAATATTTTAGAAATTTTCTTTGTATGAATAT-TTT
1 AAAATTCTAAAACATTTCCAACACTTTAAAAATATTTTAGAAAATTCCTTTGTATAAATATATTT
* * *
17583409 CAATAAAATTACCACTTGT-GCTTTTATTTTTTATTAATAATGTTTT-TTTAATACTTG
66 -AATAAAATCACCACTTCTAAC-TTTATTTTTTATTAATAATGTTTTATTTAATACTTG
* * ** *
17583466 AAAATTTTAAAATATTTTTAACACTTTAAAAATATTTTAGAAAATTCCTTTGTGTAAATATATTT
1 AAAATTCTAAAACATTTCCAACACTTTAAAAATATTTTAGAAAATTCCTTTGTATAAATATATTT
*
17583531 AATAAAATCACCACTTCTAACTTTATTTTTTATTAATGATGTTTTATTTA
66 AATAAAATCACCACTTCTAACTTTATTTTTTATTAATAATGTTTTATTTA
17583581 TTTTTCATTG
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
121 90 0.92
122 8 0.08
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (122 bp):
AAAATTCTAAAACATTTCCAACACTTTAAAAATATTTTAGAAAATTCCTTTGTATAAATATATTT
AATAAAATCACCACTTCTAACTTTATTTTTTATTAATAATGTTTTATTTAATACTTG
Found at i:17586390 original size:17 final size:17
Alignment explanation
Indices: 17586370--17586426 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
17586360 ACATGATTAT
17586370 TGTATTTTATTAGATTG
1 TGTATTTTATTAGATTG
* *
17586387 TGTA-TTT-TTA-TTTA
1 TGTATTTTATTAGATTG
*
17586401 TGTATTTTATTGGATTG
1 TGTATTTTATTAGATTG
*
17586418 TTTATTTTA
1 TGTATTTTA
17586427 CTATGTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 6 0.19
15 6 0.19
16 5 0.16
17 14 0.45
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (17 bp):
TGTATTTTATTAGATTG
Found at i:17591956 original size:44 final size:45
Alignment explanation
Indices: 17591929--17592023 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
17591919 CCTTTAGGTG
*
17591929 TAATCTCCAAGACTTCCAGGCATGATTTATAAAGACTTCTAAGCA
1 TAATCTCCAAGACTTCCAAGCATGATTTATAAAGACTTCTAAGCA
* * * **
17591974 TAATCTCCAAGACTTCCAAGCATAATCTAT-AAGACCTCTGGGCA
1 TAATCTCCAAGACTTCCAAGCATGATTTATAAAGACTTCTAAGCA
17592018 TAATCT
1 TAATCT
17592024 TAGAAAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (45 bp):
TAATCTCCAAGACTTCCAAGCATGATTTATAAAGACTTCTAAGCA
Found at i:17591988 original size:22 final size:22
Alignment explanation
Indices: 17591929--17592001 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
17591919 CCTTTAGGTG
*
17591929 TAATCTCCAAGACTTCCAGGCA
1 TAATCTCCAAGACTTCCAAGCA
* * ** *
17591951 TGATTTATAAAGACTTCTAAGCA
1 TAATCT-CCAAGACTTCCAAGCA
17591974 TAATCTCCAAGACTTCCAAGCA
1 TAATCTCCAAGACTTCCAAGCA
17591996 TAATCT
1 TAATCT
17592002 ATAAGACCTC
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 23 0.59
23 16 0.41
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.29
Consensus pattern (22 bp):
TAATCTCCAAGACTTCCAAGCA
Found at i:17593317 original size:46 final size:45
Alignment explanation
Indices: 17593212--17593402 Score: 178
Period size: 46 Copynumber: 4.3 Consensus size: 45
17593202 AATTCATTTC
* * *
17593212 AAAAGTTGTTGAGCCTCGATTGAAAGGAGCC-TTTTATATTTTTC
1 AAAAGTTATTGAGCCTCTATTGAAAGGAGCCTTTTTATATTTTTT
* * * *
17593256 AAAAGTTATTAAGCCTTTATTGAAATGAGCCTTTTGTACATTTTTT
1 AAAAGTTATTGAGCCTCTATTGAAAGGAGCCTTTT-TATATTTTTT
* * *
17593302 AAAAGTTATTGAGCCTCTGTTGATAGGA-ACTTTTATATATTTTTTT
1 AAAAGTTATTGAGCCTCTATTGAAAGGAGCCTTTT-TATA-TTTTTT
* *
17593348 AAAA-TTATTGAGCCTTTATT-AAGAGAAGCC-TTTTATA-TTTTT
1 AAAAGTTATTGAGCCTCTATTGAA-AGGAGCCTTTTTATATTTTTT
* *
17593390 CAAAGTTGTTGAG
1 AAAAGTTATTGAG
17593403 TCTTTGTTGT
Statistics
Matches: 119, Mismatches: 22, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
42 8 0.07
43 7 0.06
44 31 0.26
45 31 0.26
46 42 0.35
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.43
Consensus pattern (45 bp):
AAAAGTTATTGAGCCTCTATTGAAAGGAGCCTTTTTATATTTTTT
Found at i:17593435 original size:25 final size:25
Alignment explanation
Indices: 17593387--17593435 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17593377 CTTTTATATT
* * *
17593387 TTTCAAAGTTGTTGAGTCTTTGTTG
1 TTTCAAAATTGTTGAGCCTCTGTTG
17593412 TTTCAAAATTGTTGAGCCTCTGTT
1 TTTCAAAATTGTTGAGCCTCTGTT
17593436 AAAATGAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.12, G:0.20, T:0.49
Consensus pattern (25 bp):
TTTCAAAATTGTTGAGCCTCTGTTG
Found at i:17593457 original size:68 final size:68
Alignment explanation
Indices: 17593348--17593478 Score: 194
Period size: 68 Copynumber: 1.9 Consensus size: 68
17593338 ATATTTTTTT
* *
17593348 AAAATTATTGAGCCTTTATTAAGAGAAGCCTTTTATATTTTTCAAAGTTGTTGAGTCTT-TGTTG
1 AAAATTATTGAGCCTCTATTAAAAGAAGCCTTTTATATTTTTCAAAGTTGTTGAG-CTTCTGTTG
17593412 TTTC
65 TTTC
* *
17593416 AAAATTGTTGAGCCTCTGTTAAAATG-AGCCTTTTATATTTTTCAAAGTTGTTGAGCTTCTGTT
1 AAAATTATTGAGCCTCTATTAAAA-GAAGCCTTTTATATTTTTCAAAGTTGTTGAGCTTCTGTT
17593479 AAGAAGAGCC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
67 3 0.05
68 53 0.93
69 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (68 bp):
AAAATTATTGAGCCTCTATTAAAAGAAGCCTTTTATATTTTTCAAAGTTGTTGAGCTTCTGTTGT
TTC
Found at i:17593522 original size:44 final size:44
Alignment explanation
Indices: 17593412--17593579 Score: 179
Period size: 43 Copynumber: 3.9 Consensus size: 44
17593402 GTCTTTGTTG
*
17593412 TTTCAAAA-TTGTTGAGCCTCTGTTAA-AATGAGCCTTTTATATT
1 TTTCAAAAGTTGTTGAGTCTCTGTTAAGAA-GAGCCTTTTATATT
17593455 TTTC-AAAGTTGTTGAG-CTTCTGTTAAGAAGAGCCTTTTATATT
1 TTTCAAAAGTTGTTGAGTC-TCTGTTAAGAAGAGCCTTTTATATT
* * * *
17593498 TTTCAAAAGTTGTTGAGTCTCTGTTTAGAATAGCTTTTTACATT
1 TTTCAAAAGTTGTTGAGTCTCTGTTAAGAAGAGCCTTTTATATT
* * *
17593542 ATTCAAAAAG-T-TTGAGT-TCATGTTTAGAAGAGTCTTTT
1 TTTC-AAAAGTTGTTGAGTCTC-TGTTAAGAAGAGCCTTTT
17593580 CCAAAAAAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
42 6 0.05
43 59 0.54
44 39 0.35
45 6 0.05
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (44 bp):
TTTCAAAAGTTGTTGAGTCTCTGTTAAGAAGAGCCTTTTATATT
Found at i:17593557 original size:87 final size:86
Alignment explanation
Indices: 17593412--17593579 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 86
17593402 GTCTTTGTTG
* *
17593412 TTTCAAAATTGTTGAGCCTCTGTTAAAATGAGCCTTTTATATTTTTCAAAGTTGTTGAGCTTC-T
1 TTTCAAAATTGTTGAGCCTCTGTTAAAATGAGCCTTTTACATTATTCAAAGTTGTTGAG-TTCAT
17593476 GTTAAGAAGAGCCTTTTATATT
65 GTTAAGAAGAGCCTTTTATATT
* * *
17593498 TTTCAAAAGTTGTTGAGTCTCTGTTTAGAAT-AGCTTTTTACATTATTCAAAAAG-T-TTGAGTT
1 TTTCAAAA-TTGTTGAGCCTCTG-TTAAAATGAGCCTTTTACATTATTC--AAAGTTGTTGAGTT
* *
17593560 CATGTTTAGAAGAGTCTTTT
62 CATGTTAAGAAGAGCCTTTT
17593580 CCAAAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
86 11 0.16
87 48 0.69
88 7 0.10
89 4 0.06
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (86 bp):
TTTCAAAATTGTTGAGCCTCTGTTAAAATGAGCCTTTTACATTATTCAAAGTTGTTGAGTTCATG
TTAAGAAGAGCCTTTTATATT
Found at i:17594685 original size:17 final size:16
Alignment explanation
Indices: 17594665--17594729 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 16
17594655 TGTGATTACA
17594665 TGATTATTGTATTTTAT
1 TGATT-TTGTATTTTAT
17594682 TGA-TTTGTATATTT-T
1 TGATTTTGTAT-TTTAT
17594697 T-ATTTATGTATTTTAT
1 TGATTT-TGTATTTTAT
*
17594713 TAGATTGTGTATTTTAT
1 T-GATTTTGTATTTTAT
17594730 AATGTATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
14 1 0.02
15 13 0.32
16 11 0.27
17 13 0.32
18 3 0.07
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (16 bp):
TGATTTTGTATTTTAT
Found at i:17595411 original size:24 final size:23
Alignment explanation
Indices: 17595384--17595429 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
17595374 CGTAAATGAG
17595384 TTCAAATATCACCATCGAAGAAAA
1 TTCAAATATCACCATC-AAGAAAA
17595408 TTCAAATATCACCATCAAGAAA
1 TTCAAATATCACCATCAAGAAA
17595430 TCCAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.50, C:0.22, G:0.07, T:0.22
Consensus pattern (23 bp):
TTCAAATATCACCATCAAGAAAA
Found at i:17595435 original size:22 final size:24
Alignment explanation
Indices: 17595386--17595436 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
17595376 TAAATGAGTT
*
17595386 CAAATATCACCATCGAAGAAAATT
1 CAAATATCACCATCGAAGAAAATC
17595410 CAAATATCACCATC-AAG-AAATC
1 CAAATATCACCATCGAAGAAAATC
17595432 CAAAT
1 CAAAT
17595437 GAATTCAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 9 0.35
23 3 0.12
24 14 0.54
ACGTcount: A:0.51, C:0.24, G:0.06, T:0.20
Consensus pattern (24 bp):
CAAATATCACCATCGAAGAAAATC
Found at i:17595747 original size:42 final size:42
Alignment explanation
Indices: 17595688--17595865 Score: 186
Period size: 42 Copynumber: 4.2 Consensus size: 42
17595678 AGTTATCTCA
17595688 GATATCACCACTAAGAAAATGA-AATTCAAGCTTTAACACTTG
1 GATATCACCACTAAGAAAAT-ACAATTCAAGCTTTAACACTTG
**
17595730 GATATCACCACTAAGAAAATACAATTTTAGCTTTAACACTTG
1 GATATCACCACTAAGAAAATACAATTCAAGCTTTAACACTTG
* *
17595772 AATATCACCACTGAA-AAAATACAATTTC-AGCTTTAACACTCG
1 GATATCACCACT-AAGAAAATACAA-TTCAAGCTTTAACACTTG
* * * * *
17595814 AATATCACCACCGAAGAAAATGA-AATCCATA-TTTTAATACTTG
1 GATATCACCA-CTAAGAAAAT-ACAATTCA-AGCTTTAACACTTG
17595857 GATATCACC
1 GATATCACC
17595866 CTCGAATACT
Statistics
Matches: 117, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 85 0.73
43 29 0.25
44 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (42 bp):
GATATCACCACTAAGAAAATACAATTCAAGCTTTAACACTTG
Found at i:17601879 original size:14 final size:15
Alignment explanation
Indices: 17601847--17601881 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
17601837 TTAATGATGT
17601847 TTTATTTATTTTTCA
1 TTTATTTATTTTTCA
17601862 -TTATTTATTTTT-A
1 TTTATTTATTTTTCA
17601875 TTTATTT
1 TTTATTT
17601882 TTCTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTATTTTTCA
Found at i:17601891 original size:24 final size:24
Alignment explanation
Indices: 17601846--17601907 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
17601836 ATTAATGATG
*
17601846 TTTTATTTATTTTTCATTATTTAT
1 TTTTATTTATTTTTCATAATTTAT
*
17601870 TTTTATTTATTTTTC-TAAATTTTT
1 TTTTATTTATTTTTCAT-AATTTAT
*
17601894 TATTTTTTTATTTT
1 T-TTTATTTATTTT
17601908 AACATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 21 0.64
25 11 0.33
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTATTTATTTTTCATAATTTAT
Found at i:17604970 original size:50 final size:47
Alignment explanation
Indices: 17604819--17605052 Score: 245
Period size: 50 Copynumber: 4.8 Consensus size: 47
17604809 TTTGATAATG
* *
17604819 AAAGCTTCTCTAAGTAGAGGCTCAACAACTTTAAAGATTCATCTTAGAA
1 AAAGC-TCTTTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTAG-A
** * * *
17604868 AAAGCTCTTCTAAACAGAAGCTCAATAACTTTAAAAATTCATCTTGGA
1 AAAGCTCTT-TAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTAGA
*
17604916 AAAGCTCCTTTAAGTAGAGGCTCAACAACCTTAAAAATTTTCATCTTAGA
1 AAAGCT-CTTTAAGTAGAGGCTCAACAACTTTAAAAA--TTCATCTTAGA
* * *
17604966 AAAGCTCTTCTAAGCAGAAGCTCAACAATTTTAAAAATTTCATCTT-GA
1 AAAGCTCTT-TAAGTAGAGGCTCAACAACTTTAAAAA-TTCATCTTAGA
* *
17605014 AAAGGGCTCCTCTAAGTAGAGGCTTAACAACTTTAAAAA
1 AAA--GCT-CTTTAAGTAGAGGCTCAACAACTTTAAAAA
17605053 AAATTCATCT
Statistics
Matches: 155, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
48 37 0.24
49 51 0.33
50 65 0.42
51 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.29
Consensus pattern (47 bp):
AAAGCTCTTTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTAGA
Found at i:17604999 original size:98 final size:97
Alignment explanation
Indices: 17604819--17605052 Score: 337
Period size: 98 Copynumber: 2.4 Consensus size: 97
17604809 TTTGATAATG
* *
17604819 AAAGCTTCTCTAAGTAGAGGCTCAACAACTTTAAAGATTCATCTTAGAAAAAGCTCTTCTAAACA
1 AAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTAGAAAAAGCTCTTCTAAACA
*
17604884 GAAGCTCAATAACTTTAAAAA-TTCATCTTGGA
66 GAAGCTCAACAACTTTAAAAATTTCATCTT-GA
* * *
17604916 AAAGCTCCTTTAAGTAGAGGCTCAACAACCTTAAAAATTTTCATCTTAG-AAAAGCTCTTCTAAG
1 AAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAA--TTCATCTTAGAAAAAGCTCTTCTAAA
*
17604980 CAGAAGCTCAACAATTTTAAAAATTTCATCTTGA
64 CAGAAGCTCAACAACTTTAAAAATTTCATCTTGA
*
17605014 AAAGGGCTCCTCTAAGTAGAGGCTTAACAACTTTAAAAA
1 AAA--GCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAA
17605053 AAATTCATCT
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
97 33 0.27
98 40 0.33
99 18 0.15
100 31 0.25
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.29
Consensus pattern (97 bp):
AAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTAGAAAAAGCTCTTCTAAACA
GAAGCTCAACAACTTTAAAAATTTCATCTTGA
Found at i:17605839 original size:13 final size:13
Alignment explanation
Indices: 17605823--17605851 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17605813 TATTTTTTTA
17605823 TTTTTTT-TCATT
1 TTTTTTTCTCATT
17605835 TTTTTTTCTCATT
1 TTTTTTTCTCATT
17605848 TTTT
1 TTTT
17605852 CTCAAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTCTCATT
Found at i:17615506 original size:20 final size:20
Alignment explanation
Indices: 17615481--17615518 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17615471 TTTTAGATTA
*
17615481 ATTTTTTTTTTTGTTTTGAG
1 ATTTTTTGTTTTGTTTTGAG
17615501 ATTTTTTGTTTTGTTTTG
1 ATTTTTTGTTTTGTTTTG
17615519 TATTGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (20 bp):
ATTTTTTGTTTTGTTTTGAG
Found at i:17617166 original size:18 final size:19
Alignment explanation
Indices: 17617140--17617177 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
17617130 TTTTTCTTGC
*
17617140 ATTTTTTATTAT-TTTTAA
1 ATTTATTATTATATTTTAA
*
17617158 ATTTATTATTTTATTTTAA
1 ATTTATTATTATATTTTAA
17617177 A
1 A
17617178 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTATTATATTTTAA
Found at i:17617318 original size:25 final size:26
Alignment explanation
Indices: 17617290--17617341 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
17617280 CTAATAATAA
*
17617290 AATTTAAAATAA-AAAATAAAAAAAT
1 AATTCAAAATAACAAAATAAAAAAAT
17617315 AATTCAAAATAATCAAAATAAAAAAAT
1 AATTCAAAATAA-CAAAATAAAAAAAT
17617342 TACCTAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 11 0.46
27 13 0.54
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (26 bp):
AATTCAAAATAACAAAATAAAAAAAT
Found at i:17619855 original size:11 final size:11
Alignment explanation
Indices: 17619824--17619870 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
17619814 TTTTTTTTCT
17619824 TTTTTAATTTA
1 TTTTTAATTTA
*
17619835 -ATTTAATTTA
1 TTTTTAATTTA
*
17619845 TTTTTAGTTTA
1 TTTTTAATTTA
*
17619856 TTTATTTATTTA
1 TTT-TTAATTTA
17619868 TTT
1 TTT
17619871 ATTTTCTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 9 0.31
11 11 0.38
12 9 0.31
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTTTAATTTA
Found at i:17619859 original size:4 final size:4
Alignment explanation
Indices: 17619830--17619916 Score: 56
Period size: 4 Copynumber: 21.5 Consensus size: 4
17619820 TTCTTTTTTA
17619830 ATTT AATTT AATTT A-TT -TTT AGTTT ATTT ATTT ATTT ATTT ATTTT
1 ATTT -ATTT -ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT A-TTT
* * * * *
17619876 CTTT ATTG ATTT -TCAT ATTT ATTT GTTT AGTT -TTT ATTT AT
1 ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATTT AT
17619917 GTACATATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
3 7 0.11
4 41 0.63
5 17 0.26
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:17619871 original size:21 final size:20
Alignment explanation
Indices: 17619823--17619916 Score: 68
Period size: 21 Copynumber: 4.7 Consensus size: 20
17619813 ATTTTTTTTC
17619823 TTTTTTAATTTAATTTAATTTA
1 TTTTTTAATTT-ATTT-ATTTA
*
17619845 -TTTTTAGTTTATTTATTTA
1 TTTTTTAATTTATTTATTTA
* * *
17619864 TTTATTTATTTTCTTTATTGA
1 TTT-TTTAATTTATTTATTTA
* *
17619885 -TTTTCATATTTATTTGTTTA
1 TTTTTTA-ATTTATTTATTTA
*
17619905 GTTTTT-ATTTAT
1 TTTTTTAATTTAT
17619917 GTACATATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
19 14 0.24
20 17 0.29
21 27 0.47
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTTAATTTATTTATTTA
Found at i:17620857 original size:18 final size:18
Alignment explanation
Indices: 17620831--17620904 Score: 55
Period size: 18 Copynumber: 4.0 Consensus size: 18
17620821 TATTATTTAT
*
17620831 AATAAAATAAAATAAAAA
1 AATATAATAAAATAAAAA
* *
17620849 AATATAATAATAAT-GATA
1 AATATAATAA-AATAAAAA
17620867 AATATGAATATAAATATAAAA
1 AATAT-AATA-AAATA-AAAA
17620888 AGATAT-A-AAAATAAAAA
1 A-ATATAATAAAATAAAAA
17620905 TCATGTTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
17 4 0.09
18 21 0.47
19 11 0.24
20 2 0.04
21 3 0.07
22 4 0.09
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (18 bp):
AATATAATAAAATAAAAA
Found at i:17620893 original size:16 final size:16
Alignment explanation
Indices: 17620874--17620904 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17620864 ATAAATATGA
*
17620874 ATATAAATATAAAAAG
1 ATATAAAAATAAAAAG
17620890 ATATAAAAATAAAAA
1 ATATAAAAATAAAAA
17620905 TCATGTTACT
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:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
ATATAAAAATAAAAAG
Found at i:17621123 original size:23 final size:23
Alignment explanation
Indices: 17621081--17621124 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
17621071 TATGAAATAC
*
17621081 TATATATATTTTTTAAATTTTAA
1 TATATATATTTTATAAATTTTAA
17621104 TATATATA-TTTATAATATTTT
1 TATATATATTTTATAA-ATTTT
17621125 TTGTTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATATATATTTTATAAATTTTAA
Found at i:17622831 original size:1 final size:1
Alignment explanation
Indices: 17622825--17622855 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
17622815 TTTGTTTCTC
*
17622825 TTTTTTTTTTTTTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17622856 AATAATCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:17623307 original size:1 final size:1
Alignment explanation
Indices: 17623301--17623326 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
17623291 TCTTGATATG
17623301 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
17623327 GTGTATAGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17635919 original size:117 final size:118
Alignment explanation
Indices: 17635792--17636286 Score: 524
Period size: 117 Copynumber: 4.2 Consensus size: 118
17635782 AGCATTTTGA
* * * * * *
17635792 AATTTTTATTTTCAAGGTAAATTGATA-TTTCCAAATTTTCCTTAAAATGTCTTTTTTGAAATTT
1 AATTTTTATTTTTAAGGAAAATTGATACTTT-CAACTTTTCCTCAAAATATATTTTTTGAAATTT
*
17635856 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAG
65 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAG
* *
17635909 AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAGATATTTTTTGAAGTTTT
1 AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTGAAATTTT
*
17635974 TATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTCATTG
66 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTT-A--G
* * *** *
17636031 AAGTTTTTA-TTTTAAAGAAAATTGATACCTTT-AACTTGTCCTCAAGAATACCCTTATTGCAAA
1 AA-TTTTTATTTTTAAGGAAAATTGATA-CTTTCAACTTTTCCTCAA-AATATATTTTTTG-AAA
* * * *
17636094 ATTTCA-TTTCAATGGAAAATTGATACTTTCAACTTTTCCACAAAAATATTTTTTTTG
62 TTTTTATTTTCAA-GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAG
* * * * * * **
17636151 AAGTTTTGTTTTTAAGAAAAATTGATACTTTGAACTTTTCCTAAAAAAATATTTTTT-ATTGTTT
1 AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTGA-AATTT
* * * *
17636215 TTATTTTTAAGAAAAATTGGTACTTTCAATTTTTCCTCAAAAATA-TTTTTTA-
65 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAG
*
17636267 AAATTTTA-TTTTAA-GAAAAT
1 AATTTTTATTTTTAAGGAAAAT
17636287 CATTGGAAAT
Statistics
Matches: 316, Mismatches: 47, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
114 5 0.02
115 6 0.02
116 6 0.02
117 95 0.30
118 45 0.14
119 26 0.08
120 31 0.10
122 32 0.10
123 37 0.12
124 33 0.10
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (118 bp):
AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTGAAATTTT
TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAG
Found at i:17635926 original size:58 final size:58
Alignment explanation
Indices: 17635792--17636286 Score: 479
Period size: 59 Copynumber: 8.4 Consensus size: 58
17635782 AGCATTTTGA
* * * * * *
17635792 AATTTTTATTTTCAAGGTAAATTGATA-TTTCCAAATTTTCCT-TAAAATGTCTTTTTTG
1 AATTTTTATTTTTAAGGAAAATTGATACTTT-CAACTTTTCCTCAAAAATAT-TTTTTAG
* *
17635850 AAATTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAG
1 -AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG
17635909 AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAGATATTTTTT-G
1 AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTAG
17635967 AAGTTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTCATTG
1 AA-TTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTT-A--G
* * * * *
17636031 AAGTTTTTA-TTTTAAAGAAAATTGATACCTTT-AACTTGTCCTCAAGAATACCCTTATT-G
1 AA-TTTTTATTTTTAAGGAAAATTGATA-CTTTCAACTTTTCCTCAAAAATA--TTTTTTAG
* * * * *
17636090 CAAAATTTCA-TTTCAATGGAAAATTGATACTTTCAACTTTTCCACAAAAATATTTTTTTTG
1 --AATTTTTATTTTTAA-GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAG
* * * * * *
17636151 AAGTTTTGTTTTTAAGAAAAATTGATACTTTGAACTTTTCCTAAAAAAATATTTTTTAT
1 AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTAG
** * * *
17636210 TGTTTTTATTTTTAAGAAAAATTGGTACTTTCAATTTTTCCTCAAAAATATTTTTTA-
1 AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG
*
17636267 AAATTTTA-TTTTAA-GAAAAT
1 AATTTTTATTTTTAAGGAAAAT
17636287 CATTGGAAAT
Statistics
Matches: 371, Mismatches: 46, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
55 5 0.01
56 6 0.02
57 5 0.01
58 62 0.17
59 165 0.44
60 48 0.13
61 29 0.08
62 6 0.02
63 31 0.08
64 14 0.04
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (58 bp):
AATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG
Found at i:17636367 original size:4 final size:4
Alignment explanation
Indices: 17636358--17636392 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
17636348 AATAAGCAAA
17636358 AATT AATT AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AATT AAT
17636393 AGGATTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:17637657 original size:85 final size:85
Alignment explanation
Indices: 17637555--17637959 Score: 413
Period size: 85 Copynumber: 4.8 Consensus size: 85
17637545 AATGACCTAA
* * * *
17637555 ACTAAATTGAAGAAGGATCTGGCATAGGCCAAAATCCAAAATAAAATGACATGGACT-GAATCAA
1 ACTAAACTGAAGAAGGATCTGGCATAGGCCAAAATCCAAAATAAAATGACTTAGA-TGGAACCAA
*
17637619 AGTCTGAAATGAATAACTTAG
65 AGTCTGAAATGAATAACTTGG
* * * * *
17637640 ACTAAACTAAAGAAGGATTTGGTATAGGCCAAAATCCAAAACAAAATGACTTAGATGGAACCGAA
1 ACTAAACTGAAGAAGGATCTGGCATAGGCCAAAATCCAAAATAAAATGACTTAGATGGAACCAAA
*
17637705 GTCTGAAATGAATATCTTGG
66 GTCTGAAATGAATAACTTGG
* * *** * * * *
17637725 ACTAAACTGAAGAAAGATCTAGCATAGGTTGAAATCTAAAATAACATGACCTGGACT-GAACCAA
1 ACTAAACTGAAGAAGGATCTGGCATAGGCCAAAATCCAAAATAAAATGACTTAGA-TGGAACCAA
*
17637789 TGTCTGAAATGAATAACTTGG
65 AGTCTGAAATGAATAACTTGG
* * * ** * *
17637810 ACTGAATTGAAGAAAGATCTGGCATAGGCTGAAATCTAAAACAAAATGACTTAGATGGAACCAAA
1 ACTAAACTGAAGAAGGATCTGGCATAGGCCAAAATCCAAAATAAAATGACTTAGATGGAACCAAA
* * *
17637875 ATCT-AAAGTGGATATCTTGG
66 GTCTGAAA-TGAATAACTTGG
* * * * * * *
17637895 ACTAAACCGAAGAAGGATCTAGCATAGGTC-GAATCCAAAATAAAATAACTTGGATGGAACTAAA
1 ACTAAACTGAAGAAGGATCTGGCATAGGCCAAAATCCAAAATAAAATGACTTAGATGGAACCAAA
17637959 G
66 G
17637960 AAGGATCTGG
Statistics
Matches: 263, Mismatches: 53, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
84 33 0.13
85 229 0.87
86 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (85 bp):
ACTAAACTGAAGAAGGATCTGGCATAGGCCAAAATCCAAAATAAAATGACTTAGATGGAACCAAA
GTCTGAAATGAATAACTTGG
Found at i:17637782 original size:170 final size:170
Alignment explanation
Indices: 17637555--17637940 Score: 524
Period size: 170 Copynumber: 2.3 Consensus size: 170
17637545 AATGACCTAA
* * * * *
17637555 ACTAAATTGAAGAAGGATCTGGCATAGGCCAAAATCCAAAATAAAATGACATGGACTGAATCAAA
1 ACTAAACTGAAGAAGGATCTAGCATAGGTCGAAATCCAAAATAAAATGACATGGACTGAACCAAA
* * *
17637620 GTCTGAAATGAATAACTTAGACTAAACTAAAGAAGGATTTGGTATAGGCCAAAATCCAAAACAAA
66 GTCTGAAATGAATAACTTAGACTAAACTAAAGAAAGATCTGGCATAGGCCAAAATCCAAAACAAA
* *
17637685 ATGACTTAGATGGAACCGAAGTCTGAAA-TGAATATCTTGG
131 ATGACTTAGATGGAACCAAAATCT-AAAGTGAATATCTTGG
* * * * * *
17637725 ACTAAACTGAAGAAAGATCTAGCATAGGTTGAAATCTAAAATAACATGACCTGGACTGAACCAAT
1 ACTAAACTGAAGAAGGATCTAGCATAGGTCGAAATCCAAAATAAAATGACATGGACTGAACCAAA
* * * * ** *
17637790 GTCTGAAATGAATAACTTGGACTGAATTGAAGAAAGATCTGGCATAGGCTGAAATCTAAAACAAA
66 GTCTGAAATGAATAACTTAGACTAAACTAAAGAAAGATCTGGCATAGGCCAAAATCCAAAACAAA
*
17637855 ATGACTTAGATGGAACCAAAATCTAAAGTGGATATCTTGG
131 ATGACTTAGATGGAACCAAAATCTAAAGTGAATATCTTGG
*
17637895 ACTAAACCGAAGAAGGATCTAGCATAGGTCG-AATCCAAAATAAAAT
1 ACTAAACTGAAGAAGGATCTAGCATAGGTCGAAATCCAAAATAAAAT
17637941 AACTTGGATG
Statistics
Matches: 186, Mismatches: 29, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
169 16 0.09
170 170 0.91
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (170 bp):
ACTAAACTGAAGAAGGATCTAGCATAGGTCGAAATCCAAAATAAAATGACATGGACTGAACCAAA
GTCTGAAATGAATAACTTAGACTAAACTAAAGAAAGATCTGGCATAGGCCAAAATCCAAAACAAA
ATGACTTAGATGGAACCAAAATCTAAAGTGAATATCTTGG
Found at i:17638218 original size:84 final size:84
Alignment explanation
Indices: 17638017--17638230 Score: 229
Period size: 84 Copynumber: 2.5 Consensus size: 84
17638007 AGTATGAAAC
* * *
17638017 AATTGAAAAAGGATCTAGCATAGGTTAAA-ACACAAACAAAATGACTTAAATGGAATCGAAGTCT
1 AATTGAAAAAGGATCTAGCATAGGCTAAATCCA-AAACAAAATGACTTAAATGGAATCAAAGTCT
17638081 AAAATAAATAACTTAGACTA
65 AAAATAAATAACTTAGACTA
** * * * * *
17638101 AA-CCAAAGATGGATCTAGCATAGGTCGAAATCCAAAATAAAATGACTTTGACT-GAATCAAAGT
1 AATTGAAA-AAGGATCTAGCATAGG-CTAAATCCAAAACAAAATGAC-TTAAATGGAATCAAAGT
* *
17638164 CTAAAA-AATTGACTTAGACTA
63 CTAAAATAAATAACTTAGACTA
* *
17638185 AATTGAAAAAGGATCTAGCATAAGCTAAGATCCAAAACAAGATGAC
1 AATTGAAAAAGGATCTAGCATAGGCTAA-ATCCAAAACAAAATGAC
17638231 CTGGGTGGAA
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
83 6 0.06
84 61 0.58
85 32 0.30
86 6 0.06
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.22
Consensus pattern (84 bp):
AATTGAAAAAGGATCTAGCATAGGCTAAATCCAAAACAAAATGACTTAAATGGAATCAAAGTCTA
AAATAAATAACTTAGACTA
Found at i:17639229 original size:67 final size:66
Alignment explanation
Indices: 17639126--17639275 Score: 221
Period size: 67 Copynumber: 2.3 Consensus size: 66
17639116 CAATTTGAGC
* * *
17639126 TTTTTTTTTCTTTTTTTATTTTTTTAACTCAAACCACATTTTACGAGTTTTCAATTTAAGCTCTT
1 TTTTTTTTTTTTTTTTTATTTTTTTAACTCAAACCACACTTTACGAGTTTTCAACTTAAGCTCTT
17639191 T
66 T
* * *
17639192 TTTTTGTTTTTGTTTTTTT-TTTTTTTAACTCAAACCACCCTTTACGGGTTTTCAACTTGAGCTC
1 TTTTT-TTTTT-TTTTTTTATTTTTTTAACTCAAACCACACTTTACGAGTTTTCAACTTAAGCTC
17639256 TTT
64 TTT
17639259 TTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTT
17639276 GAACTAAAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
65 7 0.09
66 10 0.13
67 52 0.68
68 7 0.09
ACGTcount: A:0.16, C:0.15, G:0.07, T:0.63
Consensus pattern (66 bp):
TTTTTTTTTTTTTTTTTATTTTTTTAACTCAAACCACACTTTACGAGTTTTCAACTTAAGCTCTT
T
Found at i:17639300 original size:59 final size:59
Alignment explanation
Indices: 17639198--17639384 Score: 250
Period size: 59 Copynumber: 3.2 Consensus size: 59
17639188 CTTTTTTTTG
* ** * *
17639198 TTTTTGTTTTTTTTTTTTTT-AACTCAAACCACCCTTTACGGGTTTTCAACTTGAGCTC
1 TTTTTTTTTTTTTTTTTTTTGAACTCAAACCGTCATTTACGGGTTTTCAATTTGAGCTC
* * *
17639256 TTTTTTTTTTTTTTTTTTTTGAACTAAAACCGTCTTTTATGGGTTTTCAATTTGAGCTC
1 TTTTTTTTTTTTTTTTTTTTGAACTCAAACCGTCATTTACGGGTTTTCAATTTGAGCTC
* * **
17639315 TTTTTTCTTTTTTTTTTTTTGAACTCAAACTGTCATTTACAAGTTTTCAATTTGAGCTC
1 TTTTTTTTTTTTTTTTTTTTGAACTCAAACCGTCATTTACGGGTTTTCAATTTGAGCTC
*
17639374 TTTTTCTTTTT
1 TTTTTTTTTTT
17639385 GTTAAAAAAA
Statistics
Matches: 112, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 19 0.17
59 93 0.83
ACGTcount: A:0.17, C:0.16, G:0.10, T:0.58
Consensus pattern (59 bp):
TTTTTTTTTTTTTTTTTTTTGAACTCAAACCGTCATTTACGGGTTTTCAATTTGAGCTC
Found at i:17650092 original size:61 final size:58
Alignment explanation
Indices: 17649911--17650244 Score: 325
Period size: 61 Copynumber: 5.5 Consensus size: 58
17649901 CCTTAAAGCA
*
17649911 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAAATATTTTTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAAATA----TT
* * * * *
17649974 TCTTTGAAGTTTTTATTGTTAAGGAAAATTGATACCTTCAATTCAACTTGTGCTCAAAAATATCC
1 T-TTTGAAATTTTTATTTTTAAGAAAAATTGATA-C-T---TTCAACTTTTCCTCAAAAATAT--
17650039 T
58 T
* * *
17650040 TTTTGAAAATTTCATTTTCAAGAAAGAATTGATACTTTCAACTTTTCCTCAAAAATATTTT
1 TTTTGAAATTTTTATTTTTAAGAAA-AATTGATACTTTCAACTTTTCCTCAAAAATA--TT
* *
17650101 GTTTTGAAGTTTTTATTTTTAAGAAAAATTGATACTTTCAGCTTTTCCTCAAAAAATATT
1 -TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATT
* * *
17650161 TTTT-TATTCTTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
1 TTTTGAAAT-TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
**
17650219 TTTT-AAAAATTTA-TTTTAA-AAAAATT
1 TTTTGAAATTTTTATTTTTAAGAAAAATT
17650245 ATTGGAAATT
Statistics
Matches: 230, Mismatches: 27, Indels: 36
0.78 0.09 0.12
Matches are distributed among these distances:
55 7 0.03
56 6 0.03
57 4 0.02
58 16 0.07
59 42 0.18
60 2 0.01
61 43 0.19
62 28 0.12
63 2 0.01
64 31 0.13
65 20 0.09
66 11 0.05
68 7 0.03
69 11 0.05
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (58 bp):
TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
Found at i:17656956 original size:12 final size:12
Alignment explanation
Indices: 17656939--17656972 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
17656929 TGGTTTGTTT
17656939 ATTTATTTATTC
1 ATTTATTTATTC
17656951 ATTTATGTTA-TC
1 ATTTAT-TTATTC
17656963 ATTTATTTAT
1 ATTTATTTAT
17656973 CTCTGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.15
12 14 0.70
13 3 0.15
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (12 bp):
ATTTATTTATTC
Found at i:17657051 original size:21 final size:21
Alignment explanation
Indices: 17657027--17657074 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17657017 AGAAATAATT
17657027 ATAAAAC-ATAAAAAATATAAA
1 ATAAAACTATAAAAAA-ATAAA
* *
17657048 ATAAAACTTTAATAAAATAAA
1 ATAAAACTATAAAAAAATAAA
17657069 ATAAAA
1 ATAAAA
17657075 ATTTAAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAAACTATAAAAAAATAAA
Found at i:17660429 original size:11 final size:10
Alignment explanation
Indices: 17660408--17660446 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17660398 TAGTTAGTAG
*
17660408 TTAGTTTATT
1 TTAGTTAATT
17660418 TTAGTTACATT
1 TTAGTTA-ATT
17660429 TTAGTTAATT
1 TTAGTTAATT
*
17660439 TTGGTTAA
1 TTAGTTAA
17660447 AAGTTGTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.59
Consensus pattern (10 bp):
TTAGTTAATT
Found at i:17672655 original size:15 final size:15
Alignment explanation
Indices: 17672631--17672676 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
17672621 TGGAAATAAT
*
17672631 AAAAAGTAAATTAAA
1 AAAAAATAAATTAAA
17672646 AAAAAATAAA--AAA
1 AAAAAATAAATTAAA
*
17672659 AAAAACTCAAATTAAA
1 AAAAAAT-AAATTAAA
17672675 AA
1 AA
17672677 CCTGAACGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.35
14 3 0.12
15 9 0.35
16 5 0.19
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAAAATAAATTAAA
Found at i:17673844 original size:48 final size:48
Alignment explanation
Indices: 17673790--17673882 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
17673780 CAAATCTTTG
* *
17673790 AATCTTTTATGAATATTTGAAACCCTTTTACGAATCTTTGAACTTTTT
1 AATCTTTTACGAATATTTGAAACCCTTTTACAAATCTTTGAACTTTTT
* * * *
17673838 AATCTTTTGCGCATCTTTGAAACCTTTTTACAAATCTTTGAACTT
1 AATCTTTTACGAATATTTGAAACCCTTTTACAAATCTTTGAACTT
17673883 CTATAAACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (48 bp):
AATCTTTTACGAATATTTGAAACCCTTTTACAAATCTTTGAACTTTTT
Found at i:17673853 original size:27 final size:29
Alignment explanation
Indices: 17673814--17673867 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
17673804 ATTTGAAACC
17673814 CTTTTACGAATCTTTG-AA-CTTTTTAAT
1 CTTTTACGAATCTTTGAAACCTTTTTAAT
* *
17673841 CTTTTGCGCATCTTTGAAACCTTTTTA
1 CTTTTACGAATCTTTGAAACCTTTTTA
17673868 CAAATCTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
28 2 0.09
29 7 0.30
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (29 bp):
CTTTTACGAATCTTTGAAACCTTTTTAAT
Found at i:17674016 original size:20 final size:21
Alignment explanation
Indices: 17673947--17674017 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 21
17673937 CAAACCATTG
* * *
17673947 ATGTGAATCT-TACACCATCA
1 ATGTGAATCTCTAAATCTTCA
*
17673967 ATGTGAATTTCTAAATCTTCA
1 ATGTGAATCTCTAAATCTTCA
* *
17673988 ATTTAAATCTC-AAA-CTCTCA
1 ATGTGAATCTCTAAATCT-TCA
17674008 ATGTGAATCT
1 ATGTGAATCT
17674018 TGAACATTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.05
20 23 0.57
21 15 0.38
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (21 bp):
ATGTGAATCTCTAAATCTTCA
Found at i:17674215 original size:38 final size:38
Alignment explanation
Indices: 17674171--17674347 Score: 206
Period size: 38 Copynumber: 4.8 Consensus size: 38
17674161 TTTTAACATT
*
17674171 CGAATCTTTTCAAATGTGAATCTTTGACTTTTAAGTTA
1 CGAATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTA
*
17674209 CAAATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTA
1 CGAATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTA
*
17674247 CGAATCTCTTCAAATGTGAATCTTTG-------AGATA
1 CGAATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTA
* * *
17674278 TGAATCTCTTCAAATGTGAATTTTTTACTTTTAAGTTA
1 CGAATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTA
* * * * *
17674316 TGAATATTTTCAAATGAGAATCTTTGATTTTT
1 CGAATCTCTTCAAATGTGAATCTTTGACTTTT
17674348 TAGATGTGAA
Statistics
Matches: 118, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
31 27 0.23
38 91 0.77
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (38 bp):
CGAATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTA
Found at i:17674269 original size:16 final size:16
Alignment explanation
Indices: 17674248--17674298 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
17674238 TTTAAGTTAC
17674248 GAATCTCTTCAAATGT
1 GAATCTCTTCAAATGT
* * *
17674264 GAATCT-TTGAGATAT
1 GAATCTCTTCAAATGT
17674279 GAATCTCTTCAAATGT
1 GAATCTCTTCAAATGT
17674295 GAAT
1 GAAT
17674299 TTTTTACTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (16 bp):
GAATCTCTTCAAATGT
Found at i:17674328 original size:69 final size:69
Alignment explanation
Indices: 17674211--17674342 Score: 210
Period size: 69 Copynumber: 1.9 Consensus size: 69
17674201 TTAAGTTACA
* *
17674211 AATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTACGAATCTCTTCAAATGTGAATCTTTGAGA
1 AATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTACGAATATCTTCAAATGAGAATCTTTGAGA
17674276 TATG
66 TATG
* * * *
17674280 AATCTCTTCAAATGTGAATTTTTTACTTTTAAGTTATGAATATTTTCAAATGAGAATCTTTGA
1 AATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTACGAATATCTTCAAATGAGAATCTTTGA
17674343 TTTTTTAGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (69 bp):
AATCTCTTCAAATGTGAATCTTTGACTTTTAAGTTACGAATATCTTCAAATGAGAATCTTTGAGA
TATG
Found at i:17674456 original size:21 final size:21
Alignment explanation
Indices: 17674422--17674549 Score: 98
Period size: 22 Copynumber: 6.0 Consensus size: 21
17674412 GAGAATATCT
*
17674422 AATGCGAATCTTTGATTTTTA
1 AATGTGAATCTTTGATTTTTA
* *
17674443 GATGTGAATATTTGAATTTTTCA
1 AATGTGAATCTTTG-ATTTTT-A
** *
17674466 AATAAGAATCTTTAATTTTT-
1 AATGTGAATCTTTGATTTTTA
17674486 AATGTGAATCTTTGATTTTTA
1 AATGTGAATCTTTGATTTTTA
** *
17674507 GGTGTGAAT-TTCTAAATTTTTCA
1 AATGTGAATCTT-T-GATTTTT-A
* *
17674530 AATGAGAATATTTGATTTTT
1 AATGTGAATCTTTGATTTTT
17674550 GAATCTCTTG
Statistics
Matches: 82, Mismatches: 18, Indels: 13
0.73 0.16 0.12
Matches are distributed among these distances:
20 19 0.23
21 19 0.23
22 24 0.29
23 18 0.22
24 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
AATGTGAATCTTTGATTTTTA
Found at i:17674477 original size:44 final size:44
Alignment explanation
Indices: 17674427--17674724 Score: 174
Period size: 44 Copynumber: 6.6 Consensus size: 44
17674417 TATCTAATGC
*
17674427 GAATCTTTGATTTTTAGATGTGAATATTTGAATTTTTCAAATAA
1 GAATCTTTGATTTTTAGATGTGAATCTTTGAATTTTTCAAATAA
* ** **
17674471 GAATCTTTAATTTTTA-ATGTGAATCTTTG-ATTTTT-AGGTGT
1 GAATCTTTGATTTTTAGATGTGAATCTTTGAATTTTTCAAATAA
* * * * * *
17674512 GAAT-TTCTAAATTTTTCAAATGAGAATATTTG-ATTTTTGAATCTCTTGAAA
1 GAATCTT-T-GATTTTT-AGATGTGAATCTTTGAATTTTTCAA----AT--AA
* * * * *
17674563 TGTCAACCTTTAATTGTTAGATGTGAATCTTTGAACTTTTCCAATAA
1 -G--AATCTTTGATTTTTAGATGTGAATCTTTGAATTTTTCAAATAA
* * * ** * *
17674610 GAATCTTTGACTTTTATATGTGAATCTTTGGACCTTTGAAATAT
1 GAATCTTTGATTTTTAGATGTGAATCTTTGAATTTTTCAAATAA
* * * *
17674654 GAATATTTGATTTTTAGGTGTGAATTTTTGAATTTTTCAAATGA
1 GAATCTTTGATTTTTAGATGTGAATCTTTGAATTTTTCAAATAA
* * *
17674698 GAATATTTGATTTTCATATGTGAATCT
1 GAATCTTTGATTTTTAGATGTGAATCT
17674725 CTAAAATTTT
Statistics
Matches: 192, Mismatches: 46, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.01
41 7 0.04
42 13 0.07
43 13 0.07
44 121 0.63
45 1 0.01
46 1 0.01
47 2 0.01
49 2 0.01
52 13 0.07
53 12 0.06
54 3 0.02
55 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (44 bp):
GAATCTTTGATTTTTAGATGTGAATCTTTGAATTTTTCAAATAA
Found at i:17674496 original size:20 final size:20
Alignment explanation
Indices: 17674421--17674506 Score: 82
Period size: 20 Copynumber: 4.1 Consensus size: 20
17674411 TGAGAATATC
* *
17674421 TAATGCGAATCTTTGATTTT
1 TAATGTGAATCTTTAATTTT
*
17674441 TAGATGTGAATATTTGAATTTT
1 TA-ATGTGAATCTTT-AATTTT
**
17674463 TCAAATAAGAATCTTTAATTTT
1 T--AATGTGAATCTTTAATTTT
*
17674485 TAATGTGAATCTTTGATTTT
1 TAATGTGAATCTTTAATTTT
17674505 TA
1 TA
17674507 GGTGTGAATT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
20 20 0.38
21 10 0.19
22 13 0.25
23 9 0.17
24 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (20 bp):
TAATGTGAATCTTTAATTTT
Found at i:17674525 original size:64 final size:64
Alignment explanation
Indices: 17674421--17674549 Score: 188
Period size: 64 Copynumber: 2.0 Consensus size: 64
17674411 TGAGAATATC
* *
17674421 TAATGCGAATCTTTGATTTTTAGATGTGAATATTTGAATTTTTCAAATAAGAATCTTTAATTTT
1 TAATGCGAATCTTTGATTTTTAGATGTGAATATTTAAATTTTTCAAATAAGAATATTTAATTTT
* * * *
17674485 TAATGTGAATCTTTGATTTTTAGGTGTGAAT-TTCTAAATTTTTCAAATGAGAATATTTGATTTT
1 TAATGCGAATCTTTGATTTTTAGATGTGAATATT-TAAATTTTTCAAATAAGAATATTTAATTTT
17674549 T
1 T
17674550 GAATCTCTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 2 0.03
64 56 0.97
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (64 bp):
TAATGCGAATCTTTGATTTTTAGATGTGAATATTTAAATTTTTCAAATAAGAATATTTAATTTT
Found at i:17674656 original size:23 final size:23
Alignment explanation
Indices: 17674586--17674662 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 23
17674576 TTGTTAGATG
* * *
17674586 TGAATCTTTGAACTTTTCCAATA
1 TGAATCTTTGGACCTTTCAAATA
* * * *
17674609 AGAATCTTT-GA-CTTTTATATG
1 TGAATCTTTGGACCTTTCAAATA
*
17674630 TGAATCTTTGGACCTTTGAAATA
1 TGAATCTTTGGACCTTTCAAATA
*
17674653 TGAATATTTG
1 TGAATCTTTG
17674663 ATTTTTAGGT
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
21 13 0.32
22 3 0.08
23 24 0.60
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (23 bp):
TGAATCTTTGGACCTTTCAAATA
Found at i:17675743 original size:43 final size:42
Alignment explanation
Indices: 17675643--17675746 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 42
17675633 AATACCTTTG
*
17675643 GTTGGAGGAGCTTTTTTAATTTTTAAAGTTTTACTACCCCTA
1 GTTGGAGGAGCTTTTTCAATTTTTAAAGTTTTACTACCCCTA
* * * * *
17675685 ATTAGAGGAGTTTTTTCAATCTTTTAAAGTTTCT-TTACCTCTA
1 GTTGGAGGAGCTTTTTCAAT-TTTTAAAGTTT-TACTACCCCTA
*
17675728 GTTGGAAGAGCTTTTTCAA
1 GTTGGAGGAGCTTTTTCAA
17675747 AAAAAAAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 16 0.32
43 33 0.66
44 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (42 bp):
GTTGGAGGAGCTTTTTCAATTTTTAAAGTTTTACTACCCCTA
Found at i:17675919 original size:21 final size:21
Alignment explanation
Indices: 17675895--17675938 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
17675885 AGTAGAAAAC
* **
17675895 AAAACATAAAAAATGAAGGAA
1 AAAACAAAAAAAAAAAAGGAA
*
17675916 AAAATAAAAAAAAAAAAGGAA
1 AAAACAAAAAAAAAAAAGGAA
17675937 AA
1 AA
17675939 GGGAAAAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (21 bp):
AAAACAAAAAAAAAAAAGGAA
Found at i:17676133 original size:30 final size:30
Alignment explanation
Indices: 17676093--17676173 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
17676083 ATATTAAAAT
* *
17676093 TAAATATGTAAAGGTAAATTTGGAATTAAA
1 TAAATATGTAAAGATAAAATTGGAATTAAA
* *
17676123 TAAATGTGTAAAGATAAAATTGGAATTAAG
1 TAAATATGTAAAGATAAAATTGGAATTAAA
* * *
17676153 TAAATATATAAGGACAAAATT
1 TAAATATGTAAAGATAAAATT
17676174 ATCCATAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.52, C:0.01, G:0.16, T:0.31
Consensus pattern (30 bp):
TAAATATGTAAAGATAAAATTGGAATTAAA
Found at i:17679763 original size:15 final size:15
Alignment explanation
Indices: 17679725--17679766 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
17679715 ATTTTGCTTT
* *
17679725 TTTTTTAAATTGTAA
1 TTTTTTATATTATAA
17679740 TTATTTTATATTATAA
1 TT-TTTTATATTATAA
17679756 TTTTTTATATT
1 TTTTTTATATT
17679767 TTCAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTTTATATTATAA
Found at i:17681215 original size:27 final size:28
Alignment explanation
Indices: 17681159--17681216 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
17681149 TTTACAATTT
* *
17681159 AATAAACTTGACATATTAATAATATAAA
1 AATAAACTTGACATATTAAAAAAATAAA
*
17681187 AATATACTTG-CATATTAAAAAGAATAAA
1 AATAAACTTGACATATTAAAAA-AATAAA
17681215 AA
1 AA
17681217 ATTTTGATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (28 bp):
AATAAACTTGACATATTAAAAAAATAAA
Found at i:17682326 original size:21 final size:22
Alignment explanation
Indices: 17682302--17682344 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
17682292 AACCGAAGAT
*
17682302 TGATAAAAATAAAT-TTTTTAA
1 TGATAAAAACAAATATTTTTAA
*
17682323 TGATTAAAACAAATATTTTTAA
1 TGATAAAAACAAATATTTTTAA
17682345 ATTTATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (22 bp):
TGATAAAAACAAATATTTTTAA
Found at i:17685940 original size:32 final size:31
Alignment explanation
Indices: 17685886--17686006 Score: 100
Period size: 31 Copynumber: 3.8 Consensus size: 31
17685876 AATCCTTTTG
* *
17685886 AAAAAATTCCATATCATTTTTAAAAAATTAAGT
1 AAAAATTTCTATATCA--TTTAAAAAATTAAGT
* *
17685919 AAAAATTTGTATATCAGTTT-AAAAATTAAAT
1 AAAAATTTCTATATCA-TTTAAAAAATTAAGT
* * * *
17685950 AAAAAATTCTACATCTTTTCAAAATATTAAGT
1 AAAAATTTCTATATCATTT-AAAAAATTAAGT
* * *
17685982 CAAAATTTTTATCTCATTTAAAAAA
1 AAAAATTTCTATATCATTTAAAAAA
17686007 AATTAATTTA
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
30 3 0.04
31 27 0.40
32 25 0.37
33 13 0.19
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAAATTTCTATATCATTTAAAAAATTAAGT
Found at i:17686006 original size:63 final size:64
Alignment explanation
Indices: 17685886--17686005 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 64
17685876 AATCCTTTTG
* *
17685886 AAAAAATTCCATATCATTTTTAAAAAATTAAGTAAAAATTTGTATATCAGTTTAAAAATTAAAT
1 AAAAAATTCCACATCATTTTCAAAAAATTAAGTAAAAATTTGTATATCAGTTTAAAAATTAAAT
* * * * *
17685950 AAAAAATTCTACATC-TTTTCAAAATATTAAGTCAAAATTTTTATCTCA-TTTAAAAA
1 AAAAAATTCCACATCATTTTCAAAAAATTAAGTAAAAATTTGTATATCAGTTTAAAAA
17686006 AAATTAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
62 8 0.16
63 28 0.57
64 13 0.27
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.38
Consensus pattern (64 bp):
AAAAAATTCCACATCATTTTCAAAAAATTAAGTAAAAATTTGTATATCAGTTTAAAAATTAAAT
Found at i:17686426 original size:18 final size:16
Alignment explanation
Indices: 17686379--17686427 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 16
17686369 CTTAATTTTA
17686379 TTTTTTAAAAATCTAT
1 TTTTTTAAAAATCTAT
*
17686395 TTTCTATTAAAAATATTAT
1 TTT-T-TTAAAAAT-CTAT
17686414 TTTTTTAATAAATC
1 TTTTTTAA-AAATC
17686428 ATATCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 13 0.48
19 6 0.22
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTTTAAAAATCTAT
Found at i:17695108 original size:15 final size:15
Alignment explanation
Indices: 17695088--17695116 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17695078 TAAACCAAAA
17695088 TTTATATTTTATTAT
1 TTTATATTTTATTAT
17695103 TTTATATTTTATTA
1 TTTATATTTTATTA
17695117 GCTTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATATTTTATTAT
Found at i:17695122 original size:15 final size:15
Alignment explanation
Indices: 17695089--17695124 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
17695079 AAACCAAAAT
**
17695089 TTATATTTTATTATT
1 TTATATTTTATTAGC
17695104 TTATATTTTATTAGC
1 TTATATTTTATTAGC
17695119 TTATAT
1 TTATAT
17695125 ATATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (15 bp):
TTATATTTTATTAGC
Found at i:17699544 original size:27 final size:30
Alignment explanation
Indices: 17699489--17699545 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
17699479 AAAATTAATA
*
17699489 TATTTCATTTAAAAAATTATATATTAATATT
1 TATTTCATTTAAAAAATTACATA-TAATATT
17699520 TATTT-ATTT-AAAAATTACATA-AATAT
1 TATTTCATTTAAAAAATTACATATAATAT
17699546 AAAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
29 11 0.44
30 4 0.16
31 5 0.20
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTTCATTTAAAAAATTACATATAATATT
Found at i:17699656 original size:17 final size:18
Alignment explanation
Indices: 17699622--17699682 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
17699612 TATCCACAAG
17699622 ATAAAAATA-AAATAAAT
1 ATAAAAATATAAATAAAT
*
17699639 ATAAAAATATATAT-AAT
1 ATAAAAATATAAATAAAT
* *
17699656 ACAAAAATATAAAATTAAT
1 ATAAAAATAT-AAATAAAT
17699675 AATAAAAA
1 -ATAAAAA
17699683 ATATTTTACC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 21 0.58
18 6 0.17
19 3 0.08
20 6 0.17
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAATATAAATAAAT
Found at i:17699666 original size:25 final size:21
Alignment explanation
Indices: 17699627--17699686 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 21
17699617 ACAAGATAAA
*
17699627 AATAA-AATAAATATAAAAATAT
1 AATAATAAAAAATAT-AAAAT-T
17699649 ATATAATACAAAAATATAAAATT
1 A-ATAATA-AAAAATATAAAATT
17699672 AATAATAAAAAATAT
1 AATAATAAAAAATAT
17699687 TTTACCCATC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
21 8 0.24
22 7 0.21
23 6 0.18
24 6 0.18
25 7 0.21
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAATAAAAAATATAAAATT
Found at i:17705482 original size:25 final size:25
Alignment explanation
Indices: 17705454--17705501 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
17705444 AGAAACATAG
17705454 TAAT-TTTTATAAAATATTATAAAAA
1 TAATATTTT-TAAAATATTATAAAAA
* *
17705479 TAATATTTTTAATATATTTTAAA
1 TAATATTTTTAAAATATTATAAA
17705502 TAAAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TAATATTTTTAAAATATTATAAAAA
Found at i:17705716 original size:20 final size:21
Alignment explanation
Indices: 17705693--17705737 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
17705683 CAAAAACAAC
17705693 ATTTTTG-AGATAAAA-ATAAA
1 ATTTTTGTAGA-AAAAGATAAA
*
17705713 ATTTTTGTAGAAAAAGATAAC
1 ATTTTTGTAGAAAAAGATAAA
17705734 ATTT
1 ATTT
17705738 CTAAGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (21 bp):
ATTTTTGTAGAAAAAGATAAA
Found at i:17705726 original size:73 final size:74
Alignment explanation
Indices: 17705556--17705726 Score: 184
Period size: 74 Copynumber: 2.3 Consensus size: 74
17705546 AAATTATGAT
* * * * *
17705556 TAAAAACACAATCCTTGTTGAAAAGATGAAAAGAATTATTTTTTTATAATTCAACAAAAAATAAT
1 TAAAAACAAAAT-TTTGTTGAAAAGATGAAAAGAATTATTTTTTTAGAATTCAACAAAAAACAAC
*
17705621 GTTTTTAAAA
65 ATTTTTAAAA
** * *
17705631 TAAAAACGTAATTTTGTTGAAAATATGAAAAGAATTATTTTTTT-GAATTTAAC-AAAAACAACA
1 TAAAAACAAAATTTTGTTGAAAAGATGAAAAGAATTATTTTTTTAGAATTCAACAAAAAACAACA
* *
17705694 TTTTTGAGA
66 TTTTTAAAA
* *
17705703 TAAAAATAAAATTTTTGTAGAAAA
1 TAAAAACAAAA-TTTTGTTGAAAA
17705727 AGATAACATT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
72 22 0.28
73 18 0.22
74 30 0.38
75 10 0.12
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (74 bp):
TAAAAACAAAATTTTGTTGAAAAGATGAAAAGAATTATTTTTTTAGAATTCAACAAAAAACAACA
TTTTTAAAA
Found at i:17706078 original size:40 final size:40
Alignment explanation
Indices: 17706017--17706133 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
17706007 GAATTCAATA
* * * * *
17706017 AAGATGATATTTCTAAAATAAAAGCATAATCTTTATTGAG
1 AAGATGATGTTTTTAAGATAAAAACATAGTCTTTATTGAG
* * *
17706057 AAGATGATGTTTTTAAGATAAAAATATAGTTTTTGTTGAG
1 AAGATGATGTTTTTAAGATAAAAACATAGTCTTTATTGAG
* *
17706097 AAAATGACGTTTTTAAGATAAAAACATAGTCTTTATT
1 AAGATGATGTTTTTAAGATAAAAACATAGTCTTTATT
17706134 TAAAAAAATA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (40 bp):
AAGATGATGTTTTTAAGATAAAAACATAGTCTTTATTGAG
Found at i:17706172 original size:149 final size:147
Alignment explanation
Indices: 17705915--17706226 Score: 378
Period size: 149 Copynumber: 2.1 Consensus size: 147
17705905 GAAAATAATT
*
17705915 TTTTTAAGATAAAAAATGTAGTATCTATTGAAAAGATGACATTCTTAAAATAAAAACGCATAGTT
1 TTTTTAAGAT-AAAAATATAGTATCTATTGAAAAGATGACATTCTTAAAATAAAAAC-CATAGTT
* * * * * *
17705980 TTTGTTGAAAACATCATATATGTTTTAGAATTCAATAAAGATGATATTTCTAAAATAAAAGCATA
64 TTTGTTAAAAAAATAATATATGTTTCAAAATTCAATAAAGATGACATTTCTAAAATAAAA--ATA
* *
17706045 ATCTTTATTGAGAAGATGATG
127 ATCTTTATTGAAAAGATGAAG
* * * * * *
17706066 TTTTTAAGATAAAAATATAGTTTTTGTTGAGAAA-ATGACGTTTTTAAGATAAAAA-CATAGTCT
1 TTTTTAAGATAAAAATATAGTATCTATTGA-AAAGATGACATTCTTAAAATAAAAACCATAGT-T
*
17706129 TTAT-TTAAAAAAATAATATATGTTTCAAAATTCAATAAAGATGACATTTCTAAAATAAAAATAG
64 TT-TGTTAAAAAAATAATATATGTTTCAAAATTCAATAAAGATGACATTTCTAAAATAAAAATAA
* *
17706193 TGTTTGTTGAAAAGATGAAG
128 TCTTTATTGAAAAGATGAAG
17706213 TTTTTAAGATAAAA
1 TTTTTAAGATAAAA
17706227 TACAGTCTTA
Statistics
Matches: 140, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
147 33 0.24
148 6 0.04
149 53 0.38
150 35 0.25
151 13 0.09
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.37
Consensus pattern (147 bp):
TTTTTAAGATAAAAATATAGTATCTATTGAAAAGATGACATTCTTAAAATAAAAACCATAGTTTT
TGTTAAAAAAATAATATATGTTTCAAAATTCAATAAAGATGACATTTCTAAAATAAAAATAATCT
TTATTGAAAAGATGAAG
Found at i:17713125 original size:22 final size:22
Alignment explanation
Indices: 17713099--17713142 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17713089 TGTATATTTA
17713099 TATTTGTAT-CTCTAGAATTAAG
1 TATTTGTATCCT-TAGAATTAAG
17713121 TATTTGTATCCTTAGAATTAAG
1 TATTTGTATCCTTAGAATTAAG
17713143 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCTTAGAATTAAG
Found at i:17718614 original size:14 final size:14
Alignment explanation
Indices: 17718607--17718664 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
17718597 AATATTATTT
17718607 TAAAAATATAAATA
1 TAAAAATATAAATA
17718621 TAAAAATATATAATTA
1 TAAAAATATA-AA-TA
*
17718637 TATATAAATAAAAAT-
1 TA-A-AAATATAAATA
*
17718652 TAAAAAAATAAAT
1 TAAAAATATAAAT
17718665 TTTAATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 8 0.22
14 11 0.30
15 4 0.11
16 5 0.14
17 3 0.08
18 6 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAATATAAATA
Found at i:17718633 original size:16 final size:15
Alignment explanation
Indices: 17718608--17718664 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
17718598 ATATTATTTT
17718608 AAAAATATAAATATA
1 AAAAATATAAATATA
*
17718623 AAAATATATAATTATA
1 AAAA-ATATAAATATA
* *
17718639 TATAAATAAAAAT-TA
1 -AAAAATATAAATATA
17718654 AAAAA-ATAAAT
1 AAAAATATAAAT
17718665 TTTAATATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 5 0.15
14 4 0.12
15 6 0.18
16 16 0.47
17 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATATAAATATA
Found at i:17722675 original size:18 final size:17
Alignment explanation
Indices: 17722654--17722694 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
17722644 AAAAATAGAT
*
17722654 AATAAATTAAATGAATAA
1 AATAAATTAAATAAAT-A
17722672 AATAAATTAAATAAATA
1 AATAAATTAAATAAATA
17722689 AATAAA
1 AATAAA
17722695 AAATTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AATAAATTAAATAAATA
Found at i:17722721 original size:18 final size:19
Alignment explanation
Indices: 17722694--17722729 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17722684 AAATAAATAA
*
17722694 AAAATTGAAAAA-GAAAAT
1 AAAATAGAAAAAGGAAAAT
17722712 AAAATAGAAAAAGGAAAA
1 AAAATAGAAAAAGGAAAA
17722730 CAAGTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (19 bp):
AAAATAGAAAAAGGAAAAT
Found at i:17726452 original size:3 final size:3
Alignment explanation
Indices: 17726446--17726483 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17726436 AAAAAAAGGG
17726446 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
17726484 CAAAGAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:17733510 original size:20 final size:20
Alignment explanation
Indices: 17733485--17733525 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17733475 GTAGCATGTA
17733485 ATCCTTCTTGGAAGAGATAT
1 ATCCTTCTTGGAAGAGATAT
17733505 ATCCTTCTTGGAAGAGATAT
1 ATCCTTCTTGGAAGAGATAT
17733525 A
1 A
17733526 GCCAAAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (20 bp):
ATCCTTCTTGGAAGAGATAT
Found at i:17735331 original size:21 final size:21
Alignment explanation
Indices: 17735303--17735353 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
17735293 ACAAAATATA
*
17735303 ATAC-TAAAAAAATTCATAAC
1 ATACATAAAAAAATCCATAAC
**
17735323 ATACATAAAAATGTCCATAAC
1 ATACATAAAAAAATCCATAAC
*
17735344 ATCCATAAAA
1 ATACATAAAA
17735354 GTCCTCAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.57, C:0.18, G:0.02, T:0.24
Consensus pattern (21 bp):
ATACATAAAAAAATCCATAAC
Found at i:17735332 original size:20 final size:22
Alignment explanation
Indices: 17735309--17735353 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
17735299 TATAATACTA
17735309 AAAAAAT-T-CATAACATACAT
1 AAAAAATGTCCATAACATACAT
*
17735329 -AAAAATGTCCATAACATCCAT
1 AAAAAATGTCCATAACATACAT
17735350 AAAA
1 AAAA
17735354 GTCCTCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 11 0.52
22 3 0.14
ACGTcount: A:0.58, C:0.18, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAAATGTCCATAACATACAT
Found at i:17736263 original size:158 final size:157
Alignment explanation
Indices: 17735832--17736282 Score: 452
Period size: 159 Copynumber: 2.8 Consensus size: 157
17735822 TCCAATGACA
* * * * *
17735832 TAGTTCAATA-TCATTTGTCCTACAATGTTTAGGTTTTCAATTACTACATTATCTACTTCATTAA
1 TAGTTCAATATTAAATT-TCCTACAATGTTTAGGCTTTCAATTACTACA-TATCTATTTCATCAA
* * * *
17735896 CAATCATAATACACAACCGAATTACAAAGCAAAATATGCAATAGTTTTCACCTTTCACATCATTG
64 CAATCATAATACCCAACAGAATCACAAAGCAAAATATGCAATAGTTTTCACCTTTCACAACATTG
*
17735961 ATCTCTCTTAAATATGCACAAAACACTATC
129 ATCTCTCTTAAATA-GCACAAAACACAATC
* *
17735991 TAGTTCAATATTAAATTTCCTATAATGTTTAGTCTTTCAATTACTACACTATCTACTTT--TCAA
1 TAGTTCAATATTAAATTTCCTACAATGTTTAGGCTTTCAATTACTACA-TATCTA-TTTCATCAA
* * ** * *
17736054 CAATCATAATACACCACCAAAATCACAAAGTGAAATATGCAATAGTATTCACCTTTCATAACATT
64 CAATCATAATAC-CCAACAGAATCACAAAGCAAAATATGCAATAGTTTTCACCTTTCACAACATT
* *
17736119 TATCTCATC-TCAATA-CACATAAAGCACAATC
128 GATCTC-TCTTAAATAGCACA-AAA-CACAATC
* **
17736150 -AGTTCAATATTGAATTTCCTACAATGACTAGGCTTTCAATTACTACATAATCTATTTCATCAAC
1 TAGTTCAATATTAAATTTCCTACAATGTTTAGGCTTTCAATTACTACAT-ATCTATTTCATCAAC
* * * * * * *
17736214 AATTACAATACCCAACTAGAATCATATCA-CAAAATAAGTAATA-TTTTCACCTTTAACAA-ATG
65 AATCATAATACCCAAC-AGAATCACA-AAGCAAAATATGCAATAGTTTTCACCTTTCACAACAT-
17736276 TGATCTC
127 TGATCTC
17736283 ATCGCAATAT
Statistics
Matches: 240, Mismatches: 40, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
157 10 0.04
158 88 0.37
159 133 0.55
160 9 0.04
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.34
Consensus pattern (157 bp):
TAGTTCAATATTAAATTTCCTACAATGTTTAGGCTTTCAATTACTACATATCTATTTCATCAACA
ATCATAATACCCAACAGAATCACAAAGCAAAATATGCAATAGTTTTCACCTTTCACAACATTGAT
CTCTCTTAAATAGCACAAAACACAATC
Found at i:17739510 original size:17 final size:17
Alignment explanation
Indices: 17739476--17739509 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17739466 TTTATTCAAA
17739476 TCAAGTATTCTTTCTTT
1 TCAAGTATTCTTTCTTT
*
17739493 TCAAGT-TTCTTTGTTT
1 TCAAGTATTCTTTCTTT
17739509 T
1 T
17739510 TGGTTTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.62
Consensus pattern (17 bp):
TCAAGTATTCTTTCTTT
Found at i:17742355 original size:25 final size:25
Alignment explanation
Indices: 17742321--17742373 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
17742311 CCAAAATGCC
17742321 TTTAGAAATTTTTTTGTAATTTGAT
1 TTTAGAAATTTTTTTGTAATTTGAT
17742346 TTTAGAAATTTTTTTGTAATTTGAT
1 TTTAGAAATTTTTTTGTAATTTGAT
17742371 TTT
1 TTT
17742374 CTCGAAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.62
Consensus pattern (25 bp):
TTTAGAAATTTTTTTGTAATTTGAT
Found at i:17744292 original size:14 final size:14
Alignment explanation
Indices: 17744273--17744306 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17744263 TAAAAAAAAA
* *
17744273 TTGAAACCCTAAAT
1 TTGAAACCCCAAAC
17744287 TTGAAACCCCAAAC
1 TTGAAACCCCAAAC
17744301 TTGAAA
1 TTGAAA
17744307 TACTAAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.24
Consensus pattern (14 bp):
TTGAAACCCCAAAC
Found at i:17744417 original size:46 final size:46
Alignment explanation
Indices: 17744367--17744462 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
17744357 ACTTTATCCC
*
17744367 TAAATCCTAAATCATAACATTAAACTCTAAACCTGAACCCTAACCT
1 TAAATCCTAAATCATAACATTAAACTCTAAACCTAAACCCTAACCT
*
17744413 TAAATCCTAAATCATAACCTTAAACTCTAAACCTAAACCCTAACCT
1 TAAATCCTAAATCATAACATTAAACTCTAAACCTAAACCCTAACCT
17744459 TAAA
1 TAAA
17744463 CCCTGAAACC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.26
Consensus pattern (46 bp):
TAAATCCTAAATCATAACATTAAACTCTAAACCTAAACCCTAACCT
Found at i:17744510 original size:13 final size:13
Alignment explanation
Indices: 17744428--17744575 Score: 117
Period size: 13 Copynumber: 11.3 Consensus size: 13
17744418 CCTAAATCAT
*
17744428 AACCTTAAACTCTA
1 AACC-TAAACCCTA
17744442 AACCTAAACCCT-
1 AACCTAAACCCTA
17744454 AACCTTAAACCCTGA
1 AACC-TAAACCCT-A
17744469 AACCCTAAA-CCTA
1 AA-CCTAAACCCTA
* * *
17744482 AGCCTTAACCCCA
1 AACCTAAACCCTA
*
17744495 AACCAAAACCCTA
1 AACCTAAACCCTA
17744508 AACCTAAACCCTA
1 AACCTAAACCCTA
**
17744521 GCCCTAAACCCTA
1 AACCTAAACCCTA
* *
17744534 AACTTTAACCC--
1 AACCTAAACCCTA
17744545 AACTCTAAACCCTAA
1 AAC-CTAAACCCT-A
*
17744560 AACCT-AGCCCTA
1 AACCTAAACCCTA
17744572 AACC
1 AACC
17744576 CTAAGCTAGA
Statistics
Matches: 107, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
11 3 0.03
12 20 0.19
13 64 0.60
14 9 0.08
15 9 0.08
16 2 0.02
ACGTcount: A:0.41, C:0.39, G:0.03, T:0.18
Consensus pattern (13 bp):
AACCTAAACCCTA
Found at i:17744520 original size:7 final size:7
Alignment explanation
Indices: 17744387--17744579 Score: 108
Period size: 7 Copynumber: 29.4 Consensus size: 7
17744377 ATCATAACAT
*
17744387 TAAACTC
1 TAAACCC
17744394 TAAA-CC
1 TAAACCC
*
17744400 TGAACCC
1 TAAACCC
*
17744407 T-AACCT
1 TAAACCC
*
17744413 TAAATCC
1 TAAACCC
* *
17744420 TAAATCA
1 TAAACCC
*
17744427 T-AACCT
1 TAAACCC
*
17744433 TAAACTC
1 TAAACCC
17744440 TAAA-CC
1 TAAACCC
17744446 TAAACCC
1 TAAACCC
*
17744453 T-AACCT
1 TAAACCC
17744459 TAAACCC
1 TAAACCC
17744466 TGAAACCC
1 T-AAACCC
17744474 TAAA-CC
1 TAAACCC
*
17744480 T-AAGCC
1 TAAACCC
*
17744486 TTAACCC
1 TAAACCC
*
17744493 CAAA-CC
1 TAAACCC
*
17744499 AAAACCC
1 TAAACCC
17744506 TAAA-CC
1 TAAACCC
17744512 TAAACCC
1 TAAACCC
*
17744519 T-AGCCC
1 TAAACCC
17744525 TAAACCC
1 TAAACCC
*
17744532 TAAA-CT
1 TAAACCC
*
17744538 TTAACCC
1 TAAACCC
*
17744545 --AACTC
1 TAAACCC
17744550 TAAACCC
1 TAAACCC
*
17744557 TAAAACC
1 TAAACCC
*
17744564 T-AGCCC
1 TAAACCC
17744570 TAAACCC
1 TAAACCC
17744577 TAA
1 TAA
17744580 GCTAGACCTT
Statistics
Matches: 142, Mismatches: 29, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
5 6 0.04
6 53 0.37
7 76 0.54
8 7 0.05
ACGTcount: A:0.41, C:0.36, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:17745501 original size:24 final size:25
Alignment explanation
Indices: 17745463--17745525 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
17745453 TTATTTTCAT
*
17745463 GCATATTTTTAATTAT-ACATTTTAC
1 GCATA-TTTTAATTATGACATTTGAC
* *
17745488 GCATATTTTAATTATGCCATTTGAT
1 GCATATTTTAATTATGACATTTGAC
17745513 GCATATTTTAATT
1 GCATATTTTAATT
17745526 TTCTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 10 0.29
25 24 0.71
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (25 bp):
GCATATTTTAATTATGACATTTGAC
Found at i:17746190 original size:16 final size:16
Alignment explanation
Indices: 17746166--17746204 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
17746156 TAAAATTGGC
17746166 AAAAA-AAAAGAAAAA
1 AAAAAGAAAAGAAAAA
*
17746181 GAAAAGAAAAGAAAAA
1 AAAAAGAAAAGAAAAA
17746197 AAAAAGAA
1 AAAAAGAA
17746205 TGAAGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAA
Found at i:17746351 original size:17 final size:17
Alignment explanation
Indices: 17746329--17746385 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
17746319 TCCTAGTTCT
17746329 AAAAAAAACCAAAAATA
1 AAAAAAAACCAAAAATA
17746346 AAAAAAAACCAAAAGA-A
1 AAAAAAAACCAAAA-ATA
17746363 ACAAAAATAA--AAAAATA
1 A-AAAAA-AACCAAAAATA
17746380 AAAAAA
1 AAAAAA
17746386 TATTTGAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.17
17 22 0.61
18 6 0.17
19 2 0.06
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAACCAAAAATA
Found at i:17746385 original size:26 final size:24
Alignment explanation
Indices: 17746329--17746385 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
17746319 TCCTAGTTCT
*
17746329 AAAAAAAACCAAAAATAAAAAAAA
1 AAAAAAAAACAAAAATAAAAAAAA
* *
17746353 ACCAAAAGAAACAAAAATAAAAAAAT
1 A--AAAAAAAACAAAAATAAAAAAAA
17746379 AAAAAAA
1 AAAAAAA
17746386 TATTTGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 6 0.22
26 21 0.78
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (24 bp):
AAAAAAAAACAAAAATAAAAAAAA
Found at i:17747183 original size:37 final size:37
Alignment explanation
Indices: 17747077--17747183 Score: 105
Period size: 35 Copynumber: 3.0 Consensus size: 37
17747067 ATAGTACCCA
* * * **
17747077 CATTTCATTTCATGCA-ATCTTAATGGATAATACATG
1 CATTCCATTTCATGCACATATTAATAGATGGTACATG
** *
17747113 CATTCCATCACAT-CTAC--ATCAATAGATGGTACATG
1 CATTCCATTTCATGC-ACATATTAATAGATGGTACATG
17747148 CATTCCATTTCATGCACATATTAATAGATGGTACAT
1 CATTCCATTTCATGCACATATTAATAGATGGTACAT
17747184 ATATTTCATT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
35 27 0.49
36 12 0.22
37 16 0.29
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.35
Consensus pattern (37 bp):
CATTCCATTTCATGCACATATTAATAGATGGTACATG
Found at i:17747203 original size:37 final size:35
Alignment explanation
Indices: 17747107--17747211 Score: 104
Period size: 35 Copynumber: 2.9 Consensus size: 35
17747097 TAATGGATAA
* * *
17747107 TACATGCATTCCA-TCACATCTACATCAATAGATGG
1 TACATACATTCCATTC-CATCCACATTAATAGATGG
* * *
17747142 TACATGCATTCCATTTCATGCACATATTAATAGATGG
1 TACATACATTCCATTCCAT-C-CACATTAATAGATGG
* *
17747179 TACATATATTTCATTCCATCCACATTAATAGAT
1 TACATACATTCCATTCCATCCACATTAATAGAT
17747212 AAGAAAAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
35 28 0.48
36 3 0.05
37 27 0.47
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (35 bp):
TACATACATTCCATTCCATCCACATTAATAGATGG
Found at i:17750545 original size:13 final size:13
Alignment explanation
Indices: 17750521--17750553 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17750511 ACAAAAGGAA
17750521 AGAAAGAAAAAGAG
1 AGAAA-AAAAAGAG
17750535 AGAAAAAAAAGAG
1 AGAAAAAAAAGAG
17750548 -GAAAAA
1 AGAAAAA
17750554 TCTTGGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 8 0.42
14 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAGAG
Found at i:17753229 original size:18 final size:18
Alignment explanation
Indices: 17753208--17753242 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17753198 AAATAACAAA
17753208 ATAAAAAAAAGAAAGAAC
1 ATAAAAAAAAGAAAGAAC
* *
17753226 ATAAGAAAAGGAAAGAA
1 ATAAAAAAAAGAAAGAA
17753243 AAAAGAAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.06
Consensus pattern (18 bp):
ATAAAAAAAAGAAAGAAC
Found at i:17754026 original size:28 final size:31
Alignment explanation
Indices: 17753967--17754030 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
17753957 TATTTGAGTC
*
17753967 TTTTTTTATGGTGATATTTGAAGTTATCTCA
1 TTTTTTGATGGTGATATTTGAAGTTATCTCA
17753998 TTTTTTGATGGT-ATTATTT-AAGTT-T-TCA
1 TTTTTTGATGGTGA-TATTTGAAGTTATCTCA
17754026 TTTTT
1 TTTTT
17754031 AATAAGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 8 0.26
29 1 0.03
30 6 0.19
31 16 0.52
ACGTcount: A:0.20, C:0.05, G:0.14, T:0.61
Consensus pattern (31 bp):
TTTTTTGATGGTGATATTTGAAGTTATCTCA
Found at i:17756676 original size:20 final size:19
Alignment explanation
Indices: 17756651--17756702 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
17756641 CCAAAATCCC
17756651 AAATCCAAACCTTAAAACCT
1 AAATCCAAACCTT-AAACCT
* *
17756671 AAATCCAAACCCTAAGCCT
1 AAATCCAAACCTTAAACCT
17756690 AAATCCTAAACCT
1 AAATCC-AAACCT
17756703 ACGCCTTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATCCAAACCTTAAACCT
Found at i:17756703 original size:6 final size:6
Alignment explanation
Indices: 17756665--17756825 Score: 72
Period size: 6 Copynumber: 25.0 Consensus size: 6
17756655 CCAAACCTTA
* ** * *
17756665 AAACCT AAATCC- AAACCCT AAGCCT AAATCCT AAACCT ACGCCTT AACCCC
1 AAACCT AAA-CCT AAA-CCT AAACCT AAA-CCT AAACCT AAACC-T AAACCT
* * * **
17756716 AAACCA AAACTGT AAACCT AAATCCT AATCCT AAACCT GAAACCT ATTCCT
1 AAACCT AAAC-CT AAACCT AAA-CCT AAACCT AAACCT -AAACCT AAACCT
* ** *
17756767 AACCCT AAACCCT AAAACCT AGCCCT AAATCCT AAATCCTT AAACCT TAACCT
1 AAACCT AAA-CCT -AAACCT AAACCT AAA-CCT AAA-CC-T AAACCT AAACCT
*
17756820 AGACCT
1 AAACCT
17756826 TACACCAAAT
Statistics
Matches: 117, Mismatches: 27, Indels: 22
0.70 0.16 0.13
Matches are distributed among these distances:
6 64 0.55
7 46 0.39
8 7 0.06
ACGTcount: A:0.40, C:0.35, G:0.04, T:0.21
Consensus pattern (6 bp):
AAACCT
Found at i:17756703 original size:19 final size:18
Alignment explanation
Indices: 17756668--17756777 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
17756658 AACCTTAAAA
17756668 CCTAAATCC-AAACCCTAAG
1 CCTAAA-CCTAAA-CCTAAG
*
17756687 CCTAAATCCTAAACCTACG
1 CCTAAA-CCTAAACCTAAG
* * * *
17756706 CCTTAACCCCAAACCAAAA
1 CC-TAAACCTAAACCTAAG
* *
17756725 CTGTAAACCTAAATCCTAAT
1 C-CTAAACCTAAA-CCTAAG
**
17756745 CCTAAACCTGAAACCTATT
1 CCTAAACCT-AAACCTAAG
*
17756764 CCTAACCCTAAACC
1 CCTAAACCTAAACC
17756778 CTAAAACCTA
Statistics
Matches: 72, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
18 5 0.07
19 53 0.74
20 14 0.19
ACGTcount: A:0.40, C:0.36, G:0.04, T:0.20
Consensus pattern (18 bp):
CCTAAACCTAAACCTAAG
Found at i:17756778 original size:64 final size:65
Alignment explanation
Indices: 17756648--17756778 Score: 144
Period size: 64 Copynumber: 2.0 Consensus size: 65
17756638 AATCCAAAAT
* * *
17756648 CCCAAATCCAAACCTTAAAACCTAAATCCAAACCCTAAGCCTAAATCCTAAACCTACGCCTTAAC
1 CCCAAATCCAAAACTTAAAACCTAAATCCAAACCCTAAACCTAAATCCTAAACCTACGCCTAAAC
* * **
17756713 CCCAAA-CCAAAACTGT-AAACCTAAATCCTAATCCTAAACCTGAAA-CCTATTCCTAAC-CCTA
1 CCCAAATCCAAAACT-TAAAACCTAAATCCAAACCCTAAACCT-AAATCCTAAACCT-ACGCCTA
17756774 AAC
63 AAC
17756777 CC
1 CC
17756779 TAAAACCTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
64 44 0.79
65 12 0.21
ACGTcount: A:0.41, C:0.37, G:0.03, T:0.19
Consensus pattern (65 bp):
CCCAAATCCAAAACTTAAAACCTAAATCCAAACCCTAAACCTAAATCCTAAACCTACGCCTAAAC
Found at i:17756780 original size:19 final size:18
Alignment explanation
Indices: 17756728--17756820 Score: 69
Period size: 20 Copynumber: 4.8 Consensus size: 18
17756718 ACCAAAACTG
17756728 TAAACCTAAATCCTAATCC
1 TAAACCTAAA-CCTAATCC
*
17756747 TAAACCTGAAACCTATTCC
1 TAAACCT-AAACCTAATCC
* *
17756766 TAACCCTAAACCCTAAAACC
1 TAAACCTAAA-CCT-AATCC
**
17756786 TAGCCCTAAATCCTAAATCC
1 TAAACCTAAA-CCT-AATCC
*
17756806 TTAAACCTTAACCTA
1 -TAAACCTAAACCTA
17756821 GACCTTACAC
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.05
19 24 0.40
20 26 0.43
21 7 0.12
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (18 bp):
TAAACCTAAACCTAATCC
Found at i:17756986 original size:13 final size:13
Alignment explanation
Indices: 17756968--17756997 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17756958 GCATTGTTTT
*
17756968 TTTTTTTAAATTA
1 TTTTTTTAAAATA
17756981 TTTTTTTAAAATA
1 TTTTTTTAAAATA
17756994 TTTT
1 TTTT
17756998 AAACTAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTTTAAAATA
Found at i:17757275 original size:7 final size:7
Alignment explanation
Indices: 17757263--17757298 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
17757253 TCAATAAATA
17757263 AAAAGAG
1 AAAAGAG
17757270 AAAAGAG
1 AAAAGAG
17757277 AAAA-A-
1 AAAAGAG
17757282 AAAAGAG
1 AAAAGAG
17757289 AAAAG-G
1 AAAAGAG
17757295 AAAA
1 AAAA
17757299 AGGAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.15
6 7 0.26
7 16 0.59
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:17757286 original size:19 final size:18
Alignment explanation
Indices: 17757262--17757299 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
17757252 TTCAATAAAT
17757262 AAAAAGAGAAAAGAGAAAA
1 AAAAAGAGAAAAG-GAAAA
17757281 AAAAAGAGAAAAGGAAAA
1 AAAAAGAGAAAAGGAAAA
17757299 A
1 A
17757300 GGAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAAAAGGAAAA
Found at i:17759421 original size:56 final size:55
Alignment explanation
Indices: 17759301--17759501 Score: 132
Period size: 56 Copynumber: 3.7 Consensus size: 55
17759291 GCTTAAAGCT
* * * ***
17759301 CGTTAGTATAGATTTGTATATTTTAATTTTCTCACCTATGCTGACAGCTAGTGCC
1 CGTTAGTATAGATTTATATATTTTAATTTTCTCACCTATACCGACAGCTAACACC
* * * * *
17759356 CGTCAGTATAGATTTATATGTTTTAATTTTTTTGACCTATACCGACAGTTAACACC
1 CGTTAGTATAGATTTATATATTTTAA-TTTTCTCACCTATACCGACAGCTAACACC
* * * * *
17759412 TGTTAGTATAGACTTGTA-A-TTT--TTTT-T-ACCTATACCGAC-GCTTACCATC
1 CGTTAGTATAGATTTATATATTTTAATTTTCTCACCTATACCGACAGC-TAACACC
* *
17759461 CGTCAGTATAGACTTGTAT-TTTTTTAATTTTCAT-ACCTATA
1 CGTTAGTATAGA-TT-TATATATTTTAATTTTC-TCACCTATA
17759502 TCGATTGTTA
Statistics
Matches: 112, Mismatches: 24, Indels: 19
0.72 0.15 0.12
Matches are distributed among these distances:
48 1 0.01
49 27 0.24
50 2 0.02
51 6 0.05
52 3 0.03
54 7 0.06
55 23 0.21
56 43 0.38
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (55 bp):
CGTTAGTATAGATTTATATATTTTAATTTTCTCACCTATACCGACAGCTAACACC
Found at i:17759469 original size:49 final size:49
Alignment explanation
Indices: 17759379--17759485 Score: 148
Period size: 49 Copynumber: 2.2 Consensus size: 49
17759369 TTATATGTTT
*
17759379 TAATTTTTTTGACCTATACCGACAGTTAACACCTGTTAGTATAGACTTG
1 TAATTTTTTTGACCTATACCGACAGTTAACACCTGTCAGTATAGACTTG
* *
17759428 TAATTTTTTTTACCTATACCGAC-GCTTACCATCC-GTCAGTATAGACTTG
1 TAATTTTTTTGACCTATACCGACAG-TTAACA-CCTGTCAGTATAGACTTG
17759477 T-ATTTTTTT
1 TAATTTTTTT
17759486 AATTTTCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 9 0.17
49 42 0.79
50 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (49 bp):
TAATTTTTTTGACCTATACCGACAGTTAACACCTGTCAGTATAGACTTG
Done.