Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 91 of 93
Found at i:15088352 original size:22 final size:22
Alignment explanation
Indices: 15088304--15088352 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
15088294 TTATTTTAAA
*
15088304 TTTTTTTTATTTCATATTTATC
1 TTTTTTTTATTTTATATTTATC
*
15088326 ATTTTTTTATTTTATGATTT-T-
1 TTTTTTTTATTTTAT-ATTTATC
15088347 TTTTTT
1 TTTTTT
15088353 CTTTCTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 5 0.22
22 14 0.61
23 4 0.17
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTTTTATTTTATATTTATC
Found at i:15088580 original size:31 final size:31
Alignment explanation
Indices: 15088545--15088614 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 31
15088535 GAAAAAAATG
* *
15088545 GAGAAAAGATAGAGGAGGAATCCGAATAGGA
1 GAGAAAAGATAGAAGAAGAATCCGAATAGGA
15088576 GAGAAAAGATAGAAGAAGAATCCGAATAGGA
1 GAGAAAAGATAGAAGAAGAATCCGAATAGGA
15088607 GAGGAAAA
1 GA-GAAAA
15088615 AGGTAGAGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 31 0.86
32 5 0.14
ACGTcount: A:0.53, C:0.06, G:0.33, T:0.09
Consensus pattern (31 bp):
GAGAAAAGATAGAAGAAGAATCCGAATAGGA
Found at i:15090540 original size:27 final size:27
Alignment explanation
Indices: 15090510--15090596 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
15090500 CAAAAAAAAT
15090510 ATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTGAGGAAAAGTTGAAAGTATCA
* * * * ** * *
15090537 ATTTTCCTTA-AAAAAATTAAAAAAAAACG
1 ATTTT--TGAGGAAAAGTT-GAAAGTATCA
15090566 ATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTGAGGAAAAGTTGAAAGTATCA
15090593 ATTT
1 ATTT
15090597 CCCTCGAAAT
Statistics
Matches: 40, Mismatches: 16, Indels: 8
0.62 0.25 0.12
Matches are distributed among these distances:
27 16 0.40
28 12 0.30
29 12 0.30
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (27 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:15090649 original size:58 final size:58
Alignment explanation
Indices: 15090503--15090833 Score: 386
Period size: 60 Copynumber: 5.7 Consensus size: 58
15090493 AAAATTTCAA
* * ***
15090503 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAA--AAAATTAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
* *
15090558 AAAAAACGATTTTTGAGGAAAAGTTGAAAGTATCAATTTCCCTCGAAATTAAAGTTTCC
1 AAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
*
15090617 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTCC
* ** * * *
15090676 AAAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAA
1 -AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC-C
* *
15090736 AAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCCAAATTAAAGTTT-C
1 AAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
* *
15090794 AAAGGAATATTTTTG-GAGAAAAGTTGAAAGCATCAATTTT
1 AAA-AAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTT
15090834 TTCTGCACAA
Statistics
Matches: 238, Mismatches: 26, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
55 6 0.03
56 34 0.14
57 4 0.02
58 73 0.31
59 38 0.16
60 77 0.32
61 6 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
Found at i:15090805 original size:178 final size:173
Alignment explanation
Indices: 15090492--15090833 Score: 501
Period size: 178 Copynumber: 1.9 Consensus size: 173
15090482 TTCCTTTAAA
15090492 TAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATTAA
1 TAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATTAA
* *
15090557 AAAAAAACGATTTTTGAGGAAAAGTTGAAAGTATCAATTTCCCTCGAAATTAAAGTTTCCAAAAA
66 AAAAAAACGATTTTTAAGGAAAAGTTGAAAGTATCAATTTCCCTCCAAATTAAAGTTTCCAAAAA
* *
15090622 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
131 ATATTTTTGGAGAAAAGTTGAAAGCATCAATTTTCCTCGAAAT
* *
15090665 TAAAAGTTTCCAAAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
1 TAAAA-TTTCAAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAA-AAA
* * *
15090729 TTTTCAAAAAAATA-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCCAAATTAAAGTTT
62 --TT-AAAAAAAAACGATTTTTAAGGAAAAGTTGAAAGTATCAATTTCCCTCCAAATTAAAGTTT
*
15090793 -CAAAGGAATATTTTTGGAGAAAAGTTGAAAGCATCAATTTT
124 CCAAA-AAATATTTTTGGAGAAAAGTTGAAAGCATCAATTTT
15090834 TTCTGCACAA
Statistics
Matches: 151, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
173 5 0.03
174 40 0.26
175 10 0.07
176 3 0.02
177 4 0.03
178 81 0.54
179 8 0.05
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (173 bp):
TAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATTAA
AAAAAAACGATTTTTAAGGAAAAGTTGAAAGTATCAATTTCCCTCCAAATTAAAGTTTCCAAAAA
ATATTTTTGGAGAAAAGTTGAAAGCATCAATTTTCCTCGAAAT
Found at i:15090870 original size:120 final size:119
Alignment explanation
Indices: 15090489--15090834 Score: 374
Period size: 118 Copynumber: 3.0 Consensus size: 119
15090479 TATTTCCTTT
* * *
15090489 AAATAAA-ATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAA--A
1 AAATAAATA-TTCAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCCAAATTA
** * * ** *
15090550 AAA--TTAAAAAAAAACGA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTCCCTCGA
65 AAAGTTTCCAAAAAAA-TATTTTTTG-GGAAAAGTTGAAAGCATCAATTTTTCTCAA
* * ** *
15090604 AATTAAAGT-TTCCAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTA
1 AAATAAA-TATTCAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCCAAATTA
* *
15090667 AAAGTTTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAA
65 AAAGTTTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGCATCAATTTTTCTCAA
*
15090722 AAATAAATTTTCAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCCAAATT-
1 AAATAAATATTC-AAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCCAAATTA
**
15090786 AAAGTTT-CAAAGGAATA-TTTTTGGAGAAAAGTTGAAAGCATCAATTTTT
65 AAAGTTTCCAAAAAAATATTTTTTGG-GAAAAGTTGAAAGCATCAATTTTT
15090835 TCTGCACAAA
Statistics
Matches: 200, Mismatches: 19, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
114 36 0.18
115 17 0.09
117 12 0.06
118 67 0.34
119 27 0.14
120 41 0.20
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (119 bp):
AAATAAATATTCAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCCAAATTAA
AAGTTTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGCATCAATTTTTCTCAA
Found at i:15094447 original size:8 final size:8
Alignment explanation
Indices: 15094434--15094460 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15094424 TTTGACTTAG
15094434 AAAATTTT
1 AAAATTTT
15094442 AAAATTTT
1 AAAATTTT
15094450 AAAATTTT
1 AAAATTTT
15094458 AAA
1 AAA
15094461 CAAAATGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:15096059 original size:240 final size:239
Alignment explanation
Indices: 15095481--15096297 Score: 845
Period size: 240 Copynumber: 3.5 Consensus size: 239
15095471 TAACATTATT
* * *
15095481 TAAAAGTTTGTGACATTTATATTATCGTCATATAACACCATATATTGACGTCACAAAATTGCAAT
1 TAAAAGTTTGTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAAT
* * *
15095546 GTCATTAATAGTTAATTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCATCTAAAATCTAT
66 GTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCTTT
*** * * * *
15095611 AAAAAAAATTTGCCACAAAT-AAATTTTAAATTGGTGACAAAATTATAACATCACC-----TAAA
131 TCGAAAAATTAGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCACCTAAAATAAA
* *
15095670 ATAAAAAACGCCACAAAAAATTTTTCCACCAAATAAATTTGGTGG
196 ATAAAAAACACCACAAAAAATTTTT-CACCAAATAAATTTGGAGG
* * * *
15095715 TAAAAGTTTATGAGATTTATGTTATCGTCATATAACAACAT-TATTGACATAACGAAATTGCAAT
1 TAAAAGTTTGTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAAT
* * * * *
15095779 GTCACTAGTAGTTAACTCAAGTGTTCAATTTGTGACAAAAATTAACAACGTCACCTAAAATCTTT
66 GTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCTTT
*
15095844 TCGAAAAATTAGTCACAGATAAAAATTTAAATTGGTGACAAAATTATAACGTCACCTAAAATAAA
131 TCGAAAAATTAGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCACCTAAAATAAA
* *
15095909 ATAAAAAAACATCACAAAAAATTTCTT-AGCAAATAAATTTGGAGG
196 AT-AAAAAACACCACAAAAAATTT-TTCACCAAATAAATTTGGAGG
* * * * * * *
15095954 TAATA-TTTGGTGACATTTGTGTTATCGTCACATAACACCATATATTAACATGACAAAATGGTAA
1 TAAAAGTTT-GTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAA
** * * *
15096018 AATCATTAATAGTTAACTAAAGTGTTTAATTTGTAACAAAAATTAATAACTTCACCTAAAATC-T
65 TGTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCTT
* ** *
15096082 ATCAGAAAAATTCTTCATAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCA-CTAAAAT-
130 TTC-GAAAAATTAGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCACCTAAAATA
* *
15096145 ---T-AAAAACATCACAAAAAA-ATTTC-CC------------A--
194 AAATAAAAAACACCACAAAAAATTTTTCACCAAATAAATTTGGAGG
* * * ** *
15096171 -CAAAGTTTGTGACATTTATGTTATTGTCATATAACACCATACATTGATGTGACAAAATTGCAAT
1 TAAAAGTTTGTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAAT
* * * ** *
15096235 GTCATTAATAGTTAATTAAAATGTTCAATTTGAGACAAAAATTAATAATGTCACCTACAATCT
66 GTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCT
15096298 ATCCAAAAAA
Statistics
Matches: 494, Mismatches: 75, Indels: 45
0.80 0.12 0.07
Matches are distributed among these distances:
216 101 0.20
217 3 0.01
219 1 0.00
231 3 0.01
232 1 0.00
233 108 0.22
234 70 0.14
235 1 0.00
238 3 0.01
239 63 0.13
240 138 0.28
241 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (239 bp):
TAAAAGTTTGTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAAT
GTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCTTT
TCGAAAAATTAGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCACCTAAAATAAA
ATAAAAAACACCACAAAAAATTTTTCACCAAATAAATTTGGAGG
Found at i:15098733 original size:18 final size:19
Alignment explanation
Indices: 15098693--15098737 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
15098683 TTAAAACTAG
*
15098693 ATAAATAAAAGGTTAAAAC
1 ATAAATAAAAGGTTAAAAA
15098712 ATAAA-AAAA-GTTAAATAA
1 ATAAATAAAAGGTTAAA-AA
15098730 ATAAATAA
1 ATAAATAA
15098738 GACAAACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 10 0.43
19 7 0.30
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
ATAAATAAAAGGTTAAAAA
Found at i:15099060 original size:24 final size:23
Alignment explanation
Indices: 15099033--15099079 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
15099023 TTTTTTTCCT
15099033 TTTTTTCGT-TTTGATTTTTTTTAG
1 TTTTTTC-TCTTT-ATTTTTTTTAG
15099057 TTTTTTCTCCTTTATTTTTTTTA
1 TTTTTTCT-CTTTATTTTTTTTA
15099080 TTATATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 17 0.81
25 3 0.14
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTTTTCTCTTTATTTTTTTTAG
Found at i:15099060 original size:25 final size:24
Alignment explanation
Indices: 15099022--15099079 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
15099012 ACAACTCAGC
* *
15099022 TTTTTTTTCCTTTTTT-TCGTTTTGA
1 TTTTTTTTACTTTTTTCTC-CTTT-A
*
15099047 TTTTTTTTAGTTTTTTCTCCTTTA
1 TTTTTTTTACTTTTTTCTCCTTTA
15099071 TTTTTTTTA
1 TTTTTTTTA
15099080 TTATATCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.34
25 17 0.59
26 2 0.07
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (24 bp):
TTTTTTTTACTTTTTTCTCCTTTA
Found at i:15099721 original size:25 final size:27
Alignment explanation
Indices: 15099685--15099748 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
15099675 CCTTATTAAG
* *
15099685 CTCTTTTTTTTTTGT-TTTTGT-TTTT
1 CTCTTTTATTTTGGTATTTTGTCTTTT
*
15099710 CTCTTTTATTTTGGTATTTTTTCTTTT
1 CTCTTTTATTTTGGTATTTTGTCTTTT
15099737 CATTCTTTTATT
1 C--TCTTTTATT
15099749 AGATTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 13 0.41
26 5 0.16
27 5 0.16
29 9 0.28
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (27 bp):
CTCTTTTATTTTGGTATTTTGTCTTTT
Found at i:15102164 original size:34 final size:34
Alignment explanation
Indices: 15102121--15102208 Score: 158
Period size: 34 Copynumber: 2.6 Consensus size: 34
15102111 GCTAAATAGC
*
15102121 AGCCTCCACTATCTTGTGTCGTAGTGATGATACT
1 AGCCTCCACTATCTTGTGTCGTAGTGATGATACA
15102155 AGCCTCCACTATCTTGTGTCGTAGTGATGATACA
1 AGCCTCCACTATCTTGTGTCGTAGTGATGATACA
*
15102189 AGCCTCCACTATCTTTTGTC
1 AGCCTCCACTATCTTGTGTC
15102209 CATTTTCCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.35
Consensus pattern (34 bp):
AGCCTCCACTATCTTGTGTCGTAGTGATGATACA
Found at i:15102261 original size:1 final size:1
Alignment explanation
Indices: 15102257--15102281 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
15102247 CAGTTTTTAG
15102257 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
15102282 GGTTGCCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15106187 original size:6 final size:6
Alignment explanation
Indices: 15106163--15106231 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
15106153 TTATTTGAAG
* * * *
15106163 AAAATA GAATAATA AAAATA TAAATA AATAATA AAAA-A TAAAGA AAAGT-
1 AAAATA -AA-AATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA
*
15106212 AAAACA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AA
15106232 CTAAGATAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
5 7 0.14
6 28 0.57
7 10 0.20
8 4 0.08
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:15106194 original size:19 final size:19
Alignment explanation
Indices: 15106164--15106204 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
15106154 TATTTGAAGA
15106164 AAATAGAATAATAAAAATAT
1 AAATAGAATAATAAAAA-AT
15106184 AAATA-AATAATAAAAAAT
1 AAATAGAATAATAAAAAAT
15106202 AAA
1 AAA
15106205 GAAAAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
AAATAGAATAATAAAAAAT
Found at i:15106283 original size:16 final size:16
Alignment explanation
Indices: 15106165--15106283 Score: 55
Period size: 16 Copynumber: 7.1 Consensus size: 16
15106155 ATTTGAAGAA
*
15106165 AATAGAATAATAAAAAT
1 AATA-AATAAAAAAAAT
*
15106182 -ATAAATAAATAATAAAA
1 AATAAATAAA-AA-AAAT
* *
15106199 AATAAAGAAAAGTAAAAC
1 AATAAATAAAA--AAAAT
*
15106217 AA-AAATAAAAATAA-
1 AATAAATAAAAAAAAT
* *
15106231 ACTAAGATAAAAAGAAT
1 AATAA-ATAAAAAAAAT
* * *
15106248 ATTAAATAAACCTAATAT
1 AATAAATAAA--AAAAAT
15106266 AATAAATAAAAAAAAT
1 AATAAATAAAAAAAAT
15106282 AA
1 AA
15106284 ACAAATAAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
14 1 0.01
15 10 0.13
16 25 0.32
17 15 0.19
18 25 0.32
19 1 0.01
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.20
Consensus pattern (16 bp):
AATAAATAAAAAAAAT
Found at i:15106297 original size:12 final size:12
Alignment explanation
Indices: 15106266--15106304 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
15106256 AACCTAATAT
15106266 AATAAAT-AA-A
1 AATAAATAAACA
15106276 AA-AAATAAACA
1 AATAAATAAACA
15106287 AATAAATAAACA
1 AATAAATAAACA
15106299 AATAAA
1 AATAAA
15106305 GAAATTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 3 0.12
12 15 0.58
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAATAAACA
Found at i:15106685 original size:19 final size:20
Alignment explanation
Indices: 15106642--15106688 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15106632 AGAACACCGG
*
15106642 TGCCGGATTCTGGAAAATGT
1 TGCCGGAATCTGGAAAATGT
* *
15106662 CGCCGGAATCTGG-AAATTT
1 TGCCGGAATCTGGAAAATGT
15106681 TGCCGGAA
1 TGCCGGAA
15106689 GTTGGTCGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (20 bp):
TGCCGGAATCTGGAAAATGT
Found at i:15106786 original size:31 final size:32
Alignment explanation
Indices: 15106743--15106804 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
15106733 TGGGCAGGTT
*
15106743 GCCGAAAAAATTCAACGTTCGCCGGAATTTTA
1 GCCGAAAAAATTCAAAGTTCGCCGGAATTTTA
*
15106775 GCCG-AAAAATTCAAATTTCGCCGGAATTTT
1 GCCGAAAAAATTCAAAGTTCGCCGGAATTTT
15106805 CGTCGGAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (32 bp):
GCCGAAAAAATTCAAAGTTCGCCGGAATTTTA
Found at i:15107244 original size:38 final size:37
Alignment explanation
Indices: 15107201--15107277 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
15107191 CGAAAAGAAA
*
15107201 AACAGATATATTA-TAGGATAAATAAATAAATA-AAAAAT
1 AACAGATATATAATTA-GATAAAT-AA-AAATACAAAAAT
15107239 AACAGATATATAATTAGATAAATAAAAATACAAAAAT
1 AACAGATATATAATTAGATAAATAAAAATACAAAAAT
15107276 AA
1 AA
15107278 ATAAAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 5 0.14
37 10 0.28
38 19 0.53
39 2 0.06
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (37 bp):
AACAGATATATAATTAGATAAATAAAAATACAAAAAT
Found at i:15107285 original size:17 final size:18
Alignment explanation
Indices: 15107256--15107304 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
15107246 ATATAATTAG
15107256 ATAAATAAAAATACAAAA
1 ATAAATAAAAATACAAAA
*
15107274 ATAAAT-AAAATATAAAA
1 ATAAATAAAAATACAAAA
15107291 ATAATAATAAAAAT
1 AT-A-AATAAAAAT
15107305 GATAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 12 0.44
18 7 0.26
19 3 0.11
20 5 0.19
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAAATAAAAATACAAAA
Found at i:15107352 original size:15 final size:16
Alignment explanation
Indices: 15107318--15107354 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15107308 AATAATAATA
15107318 ATAAATATATAACTAT
1 ATAAATATATAACTAT
15107334 ATAAATA-ATATAC-AT
1 ATAAATATATA-ACTAT
15107349 ATAAAT
1 ATAAAT
15107355 CTATTCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATATATAACTAT
Found at i:15110678 original size:8 final size:8
Alignment explanation
Indices: 15110665--15110691 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15110655 TTTGACTTAG
15110665 AAAATTTT
1 AAAATTTT
15110673 AAAATTTT
1 AAAATTTT
15110681 AAAATTTT
1 AAAATTTT
15110689 AAA
1 AAA
15110692 CAAAATGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:15112124 original size:234 final size:235
Alignment explanation
Indices: 15111714--15112532 Score: 867
Period size: 234 Copynumber: 3.5 Consensus size: 235
15111704 TAACATTATT
* * *
15111714 TAAAAGTTTGTGACATTTATATTATCGTCATATAACACCATATATTGACGTCACAAAATTGCAAT
1 TAAAAGTTTGTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAAT
* * *
15111779 GTCATTAATAGTTAATTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCATCTAAAATCTAT
66 GTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCTTT
*** * * * *
15111844 AAAAAAAATTTGCCACAAATAAAATTTTAAATTGGTGACAAAATTATAACATCACCTAAAATAAA
131 TCGAAAAATTAGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCACCTAAAATAAA
** *
15111909 AAACGCCACAAAAAATTTTTCCACCAAATAAATTTGGTGG
196 AAACATCACAAAAAATTTTTCCACCAAATAAATTTGGAGG
* * * *
15111949 TAAAAGTTTATGAGATTTATGTTATCGTCATATAACAACAT-TATTGACATAACGAAATTGCAAT
1 TAAAAGTTTGTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAAT
* * * * *
15112013 GTCACTAGTAGTTAACTCAAGTGTTCAATTTGTGACAAAAATTAACAACGTCACCTAAAATCTTT
66 GTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCTTT
*
15112078 TCGAAAAATTAGTCACAGATAAAAATTTAAATTGGTGACAAAATTATAACGTCACCTAAAATAAA
131 TCGAAAAATTAGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCACC-----TAAA
*
15112143 ATAAAAAAACATCACAAAAAAATTTCTT--AGCAAATAAATTTGGAGG
191 AT-AAAAAACATCAC-AAAAAATTT-TTCCACCAAATAAATTTGGAGG
* * * * * * *
15112189 TAATA-TTTGGTGACATTTGTGTTATCGTCACATAACACCATATATTAACATGACAAAATGGTAA
1 TAAAAGTTT-GTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAA
** * * *
15112253 AATCATTAATAGTTAACTAAAGTGTTTAATTTGTAACAAAAATTAATAACTTCACCTAAAATC-T
65 TGTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCTT
* ** * *
15112317 ATCAGAAAAATTCTTCATAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCA-CTAAAATT
130 TTC-GAAAAATTAGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCACCTAAAATA
*
15112381 AAAAACATCACAAAAAA-ATTT-C-CC------------A--
194 AAAAACATCACAAAAAATTTTTCCACCAAATAAATTTGGAGG
* * * ** *
15112406 -CAAAGTTTGTGACATTTATGTTATTGTCATATAACACCATACATTGATGTGACAAAATTGCAAT
1 TAAAAGTTTGTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAAT
* * * ** *
15112470 GTCATTAATAGTTAATTAAAATGTTCAATTTGAGACAAAAATTAATAATGTCACCTACAATCT
66 GTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCT
15112533 ATCCAAAAAA
Statistics
Matches: 494, Mismatches: 76, Indels: 46
0.80 0.12 0.07
Matches are distributed among these distances:
216 101 0.20
217 3 0.01
219 1 0.00
231 3 0.01
232 1 0.00
233 6 0.01
234 136 0.28
235 43 0.09
239 9 0.02
240 61 0.12
241 128 0.26
242 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (235 bp):
TAAAAGTTTGTGACATTTATGTTATCGTCATATAACACCATATATTGACATAACAAAATTGCAAT
GTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAACATCACCTAAAATCTTT
TCGAAAAATTAGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCACCTAAAATAAA
AAACATCACAAAAAATTTTTCCACCAAATAAATTTGGAGG
Found at i:15114974 original size:18 final size:19
Alignment explanation
Indices: 15114934--15114978 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
15114924 TTAAAACTAG
*
15114934 ATAAATAAAAGGTTAAAAC
1 ATAAATAAAAGGTTAAAAA
15114953 ATAAA-AAAA-GTTAAATAA
1 ATAAATAAAAGGTTAAA-AA
15114971 ATAAATAA
1 ATAAATAA
15114979 GACAAACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 10 0.43
19 7 0.30
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
ATAAATAAAAGGTTAAAAA
Found at i:15115964 original size:25 final size:27
Alignment explanation
Indices: 15115928--15115991 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
15115918 CCTTATTAAG
* *
15115928 CTCTTTTTTTTTTGT-TTTTGT-TTTT
1 CTCTTTTATTTTGGTATTTTGTCTTTT
*
15115953 CTCTTTTATTTTGGTATTTTTTCTTTT
1 CTCTTTTATTTTGGTATTTTGTCTTTT
15115980 CATTCTTTTATT
1 C--TCTTTTATT
15115992 AGATTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 13 0.41
26 5 0.16
27 5 0.16
29 9 0.28
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (27 bp):
CTCTTTTATTTTGGTATTTTGTCTTTT
Found at i:15118403 original size:34 final size:34
Alignment explanation
Indices: 15118360--15118447 Score: 158
Period size: 34 Copynumber: 2.6 Consensus size: 34
15118350 GCTAAATAGC
*
15118360 AGCCTCCACTATCTTGTGTCGTAGTGATGATACT
1 AGCCTCCACTATCTTGTGTCGTAGTGATGATACA
15118394 AGCCTCCACTATCTTGTGTCGTAGTGATGATACA
1 AGCCTCCACTATCTTGTGTCGTAGTGATGATACA
*
15118428 AGCCTCCACTATCTTTTGTC
1 AGCCTCCACTATCTTGTGTC
15118448 CATTTTCCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.35
Consensus pattern (34 bp):
AGCCTCCACTATCTTGTGTCGTAGTGATGATACA
Found at i:15120081 original size:2 final size:2
Alignment explanation
Indices: 15120074--15120100 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15120064 GCATTTAAAT
15120074 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15120101 CTGCTTTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15122846 original size:31 final size:30
Alignment explanation
Indices: 15122803--15122860 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
15122793 GATTCTATTC
*
15122803 ATTTTGTTTTTTTTTTTTTCACTTTTTTCCA
1 ATTTTGTTTTTTTTGTTTT-ACTTTTTTCCA
*
15122834 ATTTT-TTATTTTTTGTTTTATTTTTTT
1 ATTTTGTT-TTTTTTGTTTTACTTTTTT
15122861 ATTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.79
Consensus pattern (30 bp):
ATTTTGTTTTTTTTGTTTTACTTTTTTCCA
Found at i:15123342 original size:20 final size:20
Alignment explanation
Indices: 15123322--15123358 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15123312 TTTTTTATTA
15123322 AAAAAT-TAAAAAATAATTT
1 AAAAATATAAAAAATAATTT
*
15123341 AAAAATATGAAAAATAAT
1 AAAAATATAAAAAATAAT
15123359 ATTTAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (20 bp):
AAAAATATAAAAAATAATTT
Found at i:15123643 original size:12 final size:12
Alignment explanation
Indices: 15123626--15123650 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15123616 TAATAACATC
15123626 CTCATGATGACA
1 CTCATGATGACA
15123638 CTCATGATGACA
1 CTCATGATGACA
15123650 C
1 C
15123651 GCAAACAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (12 bp):
CTCATGATGACA
Found at i:15123845 original size:29 final size:29
Alignment explanation
Indices: 15123813--15123872 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
15123803 GAGAAAACAC
* *
15123813 ATTTAATTTAATTTAACAAATTAAAATAA
1 ATTTAATTCAATTAAACAAATTAAAATAA
* *
15123842 ATTTAATTCAATTAAACTAATTAACATAA
1 ATTTAATTCAATTAAACAAATTAAAATAA
15123871 AT
1 AT
15123873 ACATTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (29 bp):
ATTTAATTCAATTAAACAAATTAAAATAA
Found at i:15127461 original size:13 final size:12
Alignment explanation
Indices: 15127453--15127494 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
15127443 GGAATGAAGC
15127453 AAAAAAATGAAA
1 AAAAAAATGAAA
*
15127465 AAAAAAATAAAA
1 AAAAAAATGAAA
15127477 AATAAGAAATGAAA
1 AA-AA-AAATGAAA
15127491 AAAA
1 AAAA
15127495 TGATAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 13 0.50
13 4 0.15
14 9 0.35
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAAATGAAA
Found at i:15127494 original size:16 final size:16
Alignment explanation
Indices: 15127473--15127507 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15127463 AAAAAAAAAT
15127473 AAAAAATAAGAAATGA
1 AAAAAATAAGAAATGA
* *
15127489 AAAAAATGATAAATGA
1 AAAAAATAAGAAATGA
15127505 AAA
1 AAA
15127508 TGAGGAAAAA
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:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAAAATAAGAAATGA
Found at i:15127502 original size:23 final size:22
Alignment explanation
Indices: 15127465--15127510 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
15127455 AAAAATGAAA
15127465 AAAAAAATAAAAAATAAGAAATG
1 AAAAAAATAAAAAATAA-AAATG
* * *
15127488 AAAAAAATGATAAATGAAAATG
1 AAAAAAATAAAAAATAAAAATG
15127510 A
1 A
15127511 GGAAAAAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (22 bp):
AAAAAAATAAAAAATAAAAATG
Found at i:15128607 original size:32 final size:32
Alignment explanation
Indices: 15128530--15128643 Score: 101
Period size: 32 Copynumber: 3.5 Consensus size: 32
15128520 TTAGACCTAG
*
15128530 TCATTTTCAACTCTTG-TTTAGTTCAATCACCTTTA
1 TCATTTTCAAC-CTTGATTTAGTCCAATCA-C--TA
15128565 T-ATTTTCAACCTTGATTTAGTCCAATCACTA
1 TCATTTTCAACCTTGATTTAGTCCAATCACTA
* *
15128596 TCATTTTCAACCCT-AGTTTAGTCCAACCAC-A
1 TCATTTTCAACCTTGA-TTTAGTCCAATCACTA
*
15128627 TTCATTTTTCAATCTTG
1 -TCA-TTTTCAACCTTG
15128644 GATCAGTTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
31 5 0.07
32 27 0.40
33 14 0.21
34 21 0.31
35 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
TCATTTTCAACCTTGATTTAGTCCAATCACTA
Found at i:15128691 original size:32 final size:32
Alignment explanation
Indices: 15128632--15128712 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
15128622 CCACATTCAT
* * *
15128632 TTTTCAATCTTGGATCAGTTTCGTCACT-TCCA
1 TTTTCAACCTTGGTTCAATTTCGTCACTGT-CA
15128664 TTTTCAACCTTGGTTCAATTT-GATCACTGTCA
1 TTTTCAACCTTGGTTCAATTTCG-TCACTGTCA
**
15128696 TTTTTTACCTTGGTTCA
1 TTTTCAACCTTGGTTCA
15128713 GTCCGATCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 1 0.02
32 40 0.95
33 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (32 bp):
TTTTCAACCTTGGTTCAATTTCGTCACTGTCA
Found at i:15128721 original size:32 final size:32
Alignment explanation
Indices: 15128655--15128986 Score: 194
Period size: 32 Copynumber: 10.5 Consensus size: 32
15128645 ATCAGTTTCG
* ** * **
15128655 TCACTTCCATTTTCAACCTTGGTTCAATTTGA
1 TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
*
15128687 TCACTGTCATTTTTTACCTTGGTTCAGTCCGA
1 TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
* * * * *
15128719 TCATTTTCATTTTTGACATTGGCTCAATCCGA
1 TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
* * * * *
15128751 TTATTTTCATTTTTTGACCTTGGCTCAGTCTGG
1 TCACTTTCATTTTTT-ACCTTGGTTCAGTCCGA
* * *
15128784 TTACTTTCATTTTTTACCTTGGTTCAAT-CTA
1 TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
* * * * **
15128815 GTTACTTTTATTTTTAATCTTAATTCAGTCCGA
1 -TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
* *
15128848 TCACTTCCATTTTTTACC-----TC-GTCCGG
1 TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
* * * *
15128874 TCA-TTGTCATTTTTTGCCTTGGTTTAGTTCAA
1 TCACTT-TCATTTTTTACCTTGGTTCAGTCCGA
* * * *
15128906 TCATTTTCATTTTTTATCTTGGCTCAGTTCGA
1 TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
* ** * * * *
15128938 TCATTTTCATTTTCGACATTGGCTCAATCCAA
1 TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
15128970 TCACTTTCATTTTTTAC
1 TCACTTTCATTTTTTAC
15128987 TTCGATTTAG
Statistics
Matches: 230, Mismatches: 59, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
25 2 0.01
26 18 0.08
27 2 0.01
31 1 0.00
32 176 0.77
33 31 0.13
ACGTcount: A:0.18, C:0.22, G:0.11, T:0.48
Consensus pattern (32 bp):
TCACTTTCATTTTTTACCTTGGTTCAGTCCGA
Found at i:15128828 original size:65 final size:64
Alignment explanation
Indices: 15128693--15128861 Score: 162
Period size: 65 Copynumber: 2.6 Consensus size: 64
15128683 TTGATCACTG
* * *
15128693 TCATTTTTTACCTTGGTTCAGTCCGATCATTTTCATTTTTGACATTGGCTCAATCCGATTATTT
1 TCATTTTTTACCTTGGCTCAGTCCGATCACTTTCATTTTTGACATTGGCTCAATCAGATTATTT
* * * * * *
15128757 TCATTTTTTGACCTTGGCTCAGTCTGGTTACTTTCATTTTTTACCTTGGTTCAATCTAG-TTACT
1 TCATTTTTT-ACCTTGGCTCAGTCCGATCACTTTCATTTTTGACATTGGCTCAATC-AGATTA-T
15128821 TT
63 TT
* * *** *
15128823 T-ATTTTTAATCTTAATTCAGTCCGATCACTTCCATTTTT
1 TCATTTTTTACCTTGGCTCAGTCCGATCACTTTCATTTTT
15128862 TACCTCGTCC
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
64 32 0.38
65 47 0.56
66 5 0.06
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.50
Consensus pattern (64 bp):
TCATTTTTTACCTTGGCTCAGTCCGATCACTTTCATTTTTGACATTGGCTCAATCAGATTATTT
Found at i:15129496 original size:21 final size:21
Alignment explanation
Indices: 15129470--15129513 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15129460 CAAATTTTTA
*
15129470 TTTTTACTTTCTT-TCTTTATT
1 TTTTTA-TTTATTCTCTTTATT
*
15129491 TTTTTATTTATTCTTTTTATT
1 TTTTTATTTATTCTCTTTATT
15129512 TT
1 TT
15129514 ATTTTATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTATTTATTCTCTTTATT
Found at i:15129504 original size:19 final size:20
Alignment explanation
Indices: 15129482--15129530 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
15129472 TTTACTTTCT
15129482 TTCTTTATTTTTTTA-TTTA
1 TTCTTTATTTTTTTATTTTA
*
15129501 TTCTTT-TTATTTTATTTTA
1 TTCTTTATTTTTTTATTTTA
15129520 TTAC-TTATTTT
1 TT-CTTTATTTT
15129531 ATCTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.28
19 14 0.56
20 4 0.16
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTATTTTTTTATTTTA
Found at i:15129507 original size:13 final size:12
Alignment explanation
Indices: 15129463--15129530 Score: 57
Period size: 12 Copynumber: 5.4 Consensus size: 12
15129453 TAATTGTCAA
15129463 ATTTTTATT-TTT
1 ATTTTT-TTATTT
* *
15129475 ACTTTCTTTCTTT
1 A-TTTTTTTATTT
15129488 ATTTTTTTATTT
1 ATTTTTTTATTT
15129500 ATTCTTTTTATTTT
1 ATT-TTTTTA-TTT
* *
15129514 ATTTTATTACTT
1 ATTTTTTTATTT
15129526 ATTTT
1 ATTTT
15129531 ATCTTACTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
12 22 0.47
13 19 0.40
14 6 0.13
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:15129514 original size:26 final size:28
Alignment explanation
Indices: 15129477--15129528 Score: 56
Period size: 26 Copynumber: 1.9 Consensus size: 28
15129467 TTATTTTTAC
15129477 TTTCTTTCTTTATTTTTTTATTTATT-C
1 TTTCTTTCTTTATTTTTTTATTTATTAC
* *
15129504 TTT-TTAT-TTTATTTTATTACTTATT
1 TTTCTT-TCTTTATTTTTTTATTTATT
15129529 TTATCTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTCTTTCTTTATTTTTTTATTTATTAC
Found at i:15129592 original size:19 final size:19
Alignment explanation
Indices: 15129564--15129608 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
15129554 TTTAGTTGTT
* *
15129564 TTTATTTAATTTCCTTATA
1 TTTATCTAATTTCCTTAAA
**
15129583 TTTATCTAATTTTTTTAAA
1 TTTATCTAATTTCCTTAAA
15129602 TTTATCT
1 TTTATCT
15129609 TGTTATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATCTAATTTCCTTAAA
Found at i:15131087 original size:53 final size:53
Alignment explanation
Indices: 15130994--15131101 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
15130984 GATTTTAGGA
* * *
15130994 AAGATATTTCTAAATTTGGCCAAAACGATGGAAAAGTTAGAAATGAAACTTGT
1 AAGATATTTCTAAATTAGGCCAAAACGAAGGAAAAGTTAGAAATAAAACTTGT
* * * * **
15131047 AAGATATTTCTAAATTAGGTCTAAATGAAGGGAATTTTAGAAATAAAACTTGT
1 AAGATATTTCTAAATTAGGCCAAAACGAAGGAAAAGTTAGAAATAAAACTTGT
15131100 AA
1 AA
15131102 AATAAAAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (53 bp):
AAGATATTTCTAAATTAGGCCAAAACGAAGGAAAAGTTAGAAATAAAACTTGT
Found at i:15132234 original size:53 final size:53
Alignment explanation
Indices: 15132166--15132273 Score: 162
Period size: 53 Copynumber: 2.0 Consensus size: 53
15132156 ATTTTTTACT
* * *
15132166 TTACAAGTTTTATTTCTAAATTTTCCATCATTTGGGCTAAATTTAGAAATATC
1 TTACAAGTTTCATTTCTAAATTTTCCACCATTTAGGCTAAATTTAGAAATATC
* * *
15132219 TTACAAGTTTCATTTCTAACTTTTCCACCATTTATGCTAAATTTGGAAATATC
1 TTACAAGTTTCATTTCTAAATTTTCCACCATTTAGGCTAAATTTAGAAATATC
15132272 TT
1 TT
15132274 TTCTAAAGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (53 bp):
TTACAAGTTTCATTTCTAAATTTTCCACCATTTAGGCTAAATTTAGAAATATC
Found at i:15133672 original size:18 final size:19
Alignment explanation
Indices: 15133636--15133672 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15133626 AATTATCTTT
15133636 TTTTAAAATAATAAGATAA
1 TTTTAAAATAATAAGATAA
*
15133655 TTTTAAAA-AATTAGATAA
1 TTTTAAAATAATAAGATAA
15133673 ATATAATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTTAAAATAATAAGATAA
Found at i:15135971 original size:59 final size:58
Alignment explanation
Indices: 15135780--15135993 Score: 279
Period size: 59 Copynumber: 3.7 Consensus size: 58
15135770 TTGTGCAGAA
* * * *
15135780 AAAATTGATACTTTCAACTTTTCCCTAAAAAT-TTTTTTTGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTATTTTCAAGG
* * *
15135837 AAAATTGATACTTTCAACTTTTCCTCTAAAATTTATTTTTTTGAAAATTTATATTT-AAGG
1 AAAATTGATACTTTCAACTTTTCC-CCAAAA-ATATTTTTTTGAAACTTTAT-TTTCAAGG
* * *
15135897 AAAATCGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTT-ATTTTCAAGG
*
15135956 AAAATTGATACTTTCAACTTATCCCCAAAAATATTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT
15135994 CTTTTTTTGG
Statistics
Matches: 137, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
57 24 0.18
58 24 0.18
59 47 0.34
60 39 0.28
61 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTATTTTCAAGG
Found at i:15136063 original size:17 final size:17
Alignment explanation
Indices: 15136042--15136081 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15136032 AAAAAATTAA
15136042 AAAAAGTAAAACAAAAAT
1 AAAAA-TAAAACAAAAAT
* *
15136060 AAAAATAAAATAAAGAT
1 AAAAATAAAACAAAAAT
15136077 AAAAA
1 AAAAA
15136082 GAATATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAATAAAACAAAAAT
Found at i:15136078 original size:11 final size:11
Alignment explanation
Indices: 15136017--15136080 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
15136007 TTATTTAAAG
*
15136017 AAAATAGAATA
1 AAAATAAAATA
* *
15136028 ATAAAAAAAATT
1 A-AAATAAAATA
*
15136040 AAAA-AAAGTA
1 AAAATAAAATA
15136050 AAACA-AAAATA
1 AAA-ATAAAATA
15136061 AAAATAAAATA
1 AAAATAAAATA
*
15136072 AAGATAAAA
1 AAAATAAAA
15136081 AGAATATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
10 8 0.19
11 27 0.63
12 8 0.19
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:15137051 original size:22 final size:21
Alignment explanation
Indices: 15137026--15137093 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 21
15137016 AGATAATTAG
15137026 AAAAATAATAATAAGATAAAT
1 AAAAATAATAATAAGATAAAT
15137047 CAAAAATAATATTATAAGATAAA-
1 -AAAAATAATA--ATAAGATAAAT
*
15137070 AAAAATAAAAATAACAGATAAAT
1 AAAAATAATAAT-A-AGATAAAT
15137093 A
1 A
15137094 TGAGATAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 2 0.05
21 1 0.03
22 26 0.65
23 1 0.03
24 10 0.25
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAATAATAATAAGATAAAT
Found at i:15137151 original size:4 final size:4
Alignment explanation
Indices: 15137144--15137207 Score: 62
Period size: 4 Copynumber: 16.2 Consensus size: 4
15137134 GAAAGAAAAA
* * *
15137144 AAAT AAAT AAAT AAAT AAAT AAAT ATAT ATAT TAAT AAAT AGTAAT -AA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A--AAT AAAT
15137192 AAAT AAAT -AAT AAAT A
1 AAAT AAAT AAAT AAAT A
15137208 CATAGGATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
3 7 0.14
4 41 0.80
6 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:15137241 original size:13 final size:12
Alignment explanation
Indices: 15137223--15137266 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
15137213 GATATAAAGG
15137223 AAAATATATACAT
1 AAAATATA-ACAT
*
15137236 AAAATATAAAAT
1 AAAATATAACAT
15137248 AAAA-ATAACA-
1 AAAATATAACAT
15137258 AAAATATAA
1 AAAATATAA
15137267 AACAAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 4 0.14
11 9 0.32
12 7 0.25
13 8 0.29
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATATAACAT
Found at i:15137592 original size:42 final size:41
Alignment explanation
Indices: 15137411--15137627 Score: 245
Period size: 41 Copynumber: 5.1 Consensus size: 41
15137401 TTTGACCAAA
* * * * *
15137411 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
* *** * *
15137454 GCTCCTCTAATCAGAGGCTTAACGACTTTAAAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT---GAAAAGTAAATT
* *
15137498 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
15137539 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
15137581 GCTCTTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
15137622 GCTCCT
1 GCTCCT
15137628 TGACAATCAT
Statistics
Matches: 156, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
41 57 0.37
42 37 0.24
43 27 0.17
44 31 0.20
45 3 0.02
46 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:15137606 original size:83 final size:84
Alignment explanation
Indices: 15137411--15137627 Score: 256
Period size: 83 Copynumber: 2.6 Consensus size: 84
15137401 TTTGACCAAA
* * * * * * **
15137411 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTTAA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-A-AAAAATAAATTGCTCCTCTAAACAGAGGCACAA
15137476 CGACTTTAAAAAAAAATAAATT
64 CGACTTT-AAAAAAAATAAATT
*
15137498 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAATAAATTGCTCCTCTAAACAGAGGCACAACG
*** *
15137563 ACTTT-GGGAAAGTAAATT
66 ACTTTAAAAAAAATAAATT
* * *
15137581 GCTCTTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAATAAATTGCTCCT
15137628 TGACAATCAT
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
83 53 0.46
85 34 0.30
86 1 0.01
87 26 0.23
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAATAAATTGCTCCTCTAAACAGAGGCACAACG
ACTTTAAAAAAAATAAATT
Found at i:15138691 original size:8 final size:9
Alignment explanation
Indices: 15138623--15138689 Score: 91
Period size: 9 Copynumber: 7.1 Consensus size: 9
15138613 TCTTTTTTCA
15138623 TTCACTTTTT
1 TTCA-TTTTT
15138633 TTCATTTTTTT
1 TTCA--TTTTT
15138644 TTCATTTTTT
1 TTCA-TTTTT
15138654 TTCATTTTT
1 TTCATTTTT
15138663 TTCATTTTT
1 TTCATTTTT
15138672 TTCA-TTTT
1 TTCATTTTT
15138680 TTCATTTTT
1 TTCATTTTT
15138689 T
1 T
15138690 CAAGCATAGT
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
8 8 0.15
9 23 0.43
10 14 0.26
11 9 0.17
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCATTTTT
Found at i:15139036 original size:15 final size:15
Alignment explanation
Indices: 15139012--15139041 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15139002 TCTCGAATCC
*
15139012 ATTCAGCTTCTTTCA
1 ATTCAACTTCTTTCA
15139027 ATTCAACTTCTTTCA
1 ATTCAACTTCTTTCA
15139042 GAACTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.47
Consensus pattern (15 bp):
ATTCAACTTCTTTCA
Found at i:15145919 original size:15 final size:16
Alignment explanation
Indices: 15145899--15145931 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15145889 TGTTAAGTGT
15145899 AATGAATG-AAAATGC
1 AATGAATGAAAAATGC
15145914 AATGAATGAAAAATGC
1 AATGAATGAAAAATGC
15145930 AA
1 AA
15145932 GTATGCAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (16 bp):
AATGAATGAAAAATGC
Found at i:15149147 original size:59 final size:57
Alignment explanation
Indices: 15149087--15149476 Score: 449
Period size: 59 Copynumber: 6.7 Consensus size: 57
15149077 TTGTGCAGAA
* * *
15149087 AAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGAAAATTTAATTTCAAGG
* * *
15149144 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-AT-TTTTTTTGAAAATTTAATTTCAAGG
* * * * *
15149204 AAAATCGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAAT-TTTTTTTGAAAATTT-AATTTCAAGG
* * * * *
15149263 AAAATTAATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAA-TTTTTTTTGAAAATTTAATTTCAAGG
* * *
15149322 AAAATTGATACTTTCAACTTTTTCCC-AAAAATATTCTTTGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATTTTTTTTGAAAA-TTT-AATTTCAAGG
* * * *
15149381 AAAATTGATACTTTCAACTTTTCCCAAAAAATCTTTTTTGAAAATTTATTTTTAAGAA
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGAAAATTTAATTTCAAG-G
* *
15149439 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTT
15149477 CTTTTTTTGG
Statistics
Matches: 290, Mismatches: 32, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
57 42 0.14
58 74 0.26
59 105 0.36
60 69 0.24
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGAAAATTTAATTTCAAGG
Found at i:15149332 original size:118 final size:118
Alignment explanation
Indices: 15149086--15149476 Score: 619
Period size: 118 Copynumber: 3.3 Consensus size: 118
15149076 TTTGTGCAGA
* * * *
15149086 AAAAATTGATACTTTCAACTTTTCCCTAAAAAT-TTTTTTTGAAACTTT-AATTTCGAGGAAAAT
1 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAAT
* *
15149149 TGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAG
66 TGATACTTTCAACTTTTCCTCAAAAA-ATCTTTTTTTGAAAATTTATTTTTAAG
* *
15149203 GAAAATCGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAAT
1 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAAT
* *
15149268 TAATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTGAAAATTTATTTTTAAG
66 TGATACTTTCAACTTTTCCTCAAAAAATCTTTTTTTGAAAATTTATTTTTAAG
* * *
15149321 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTCTTTGAAAACTTTGATTTTCAAGGAAAAT
1 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAAT
15149386 TGATACTTTCAACTTTTCC-CAAAAAATC-TTTTTTGAAAATTTATTTTTAAG
66 TGATACTTTCAACTTTTCCTCAAAAAATCTTTTTTTGAAAATTTATTTTTAAG
15149437 AAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT
1 -AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT
15149477 CTTTTTTTGG
Statistics
Matches: 252, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
116 23 0.09
117 75 0.30
118 116 0.46
119 38 0.15
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (118 bp):
AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAAATCTTTTTTTGAAAATTTATTTTTAAG
Found at i:15149527 original size:5 final size:5
Alignment explanation
Indices: 15149510--15149569 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
15149500 AAAATAGAAT
* * *
15149510 AATAA AACAA AATAA AATAA AGA-AA AGTAA AACAAA AATAAA AATAA
1 AATAA AATAA AATAA AATAA A-ATAA AATAA AA-TAA AAT-AA AATAA
15149557 AATAA AGATAA AA
1 AATAA A-ATAA AA
15149570 AGAATATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
5 29 0.66
6 15 0.34
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.13
Consensus pattern (5 bp):
AATAA
Found at i:15149532 original size:32 final size:32
Alignment explanation
Indices: 15149495--15149584 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
15149485 GGTTTTTATT
15149495 TAAAGAAAATAGAATAATAAA-ACAAAATAAAA
1 TAAAGAAAATAGAATAATAAATA-AAAATAAAA
* *
15149527 TAAAGAAAAGTAAAACAA-AAATAAAAATAAAA
1 TAAAGAAAA-TAGAATAATAAATAAAAATAAAA
* *
15149559 TAAAGATAAAAAGAATATTAAATAAA
1 TAAAGA-AAATAGAATAATAAATAAA
15149585 CCTAATATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
32 31 0.65
33 17 0.35
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (32 bp):
TAAAGAAAATAGAATAATAAATAAAAATAAAA
Found at i:15149557 original size:17 final size:17
Alignment explanation
Indices: 15149532--15149570 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15149522 TAAAATAAAG
*
15149532 AAAAGTAAAACAAAAAT
1 AAAAATAAAACAAAAAT
* *
15149549 AAAAATAAAATAAAGAT
1 AAAAATAAAACAAAAAT
15149566 AAAAA
1 AAAAA
15149571 GAATATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAATAAAACAAAAAT
Found at i:15149600 original size:4 final size:4
Alignment explanation
Indices: 15149588--15149638 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
15149578 AAATAAACCT
* *
15149588 AATA TAATA AAT- AA-A AATAA AATA AACA AATA AACA AATA AATA AATA
1 AATA -AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AATA
15149636 AAT
1 AAT
15149639 TCAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
3 4 0.10
4 27 0.69
5 8 0.21
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:15150538 original size:26 final size:26
Alignment explanation
Indices: 15150509--15150594 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
15150499 AAAAAATATT
* *
15150509 AGATAATTAGAAAAATAATAATAATA
1 AGATAAATAAAAAAATAATAATAATA
* * *
15150535 AGATAAAT-CAACAATAATATTATATA
1 AGATAAATAAAAAAATAATAATA-ATA
* *
15150561 AGATAAATAAAAAAATAAAAATAA-C
1 AGATAAATAAAAAAATAATAATAATA
15150586 AGATAAATA
1 AGATAAATA
15150595 TGAGATAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 20 0.41
26 19 0.39
27 10 0.20
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.24
Consensus pattern (26 bp):
AGATAAATAAAAAAATAATAATAATA
Found at i:15150652 original size:4 final size:4
Alignment explanation
Indices: 15150645--15150715 Score: 56
Period size: 4 Copynumber: 17.2 Consensus size: 4
15150635 GAAAGAAAGA
* * * *
15150645 AAAT AAAT AAAT AAAT AAAT ATATAT ATAT ATAT ATAT TAAT AAAT AGTAAT
1 AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT AAAT AAAT AAAT A--AAT
15150697 -AAT AAAT AAAT -AAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT A
15150716 CATAGGATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
3 6 0.11
4 44 0.77
5 1 0.02
6 6 0.11
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (4 bp):
AAAT
Found at i:15150749 original size:13 final size:12
Alignment explanation
Indices: 15150731--15150782 Score: 63
Period size: 11 Copynumber: 4.4 Consensus size: 12
15150721 GATATAAAGG
*
15150731 AAAATATATACAT
1 AAAATATA-AAAT
15150744 AAAATATAAAAT
1 AAAATATAAAAT
*
15150756 -AAATATAACA-
1 AAAATATAAAAT
15150766 AAAATATAAAAT
1 AAAATATAAAAT
15150778 AAAAT
1 AAAAT
15150783 TGGGCTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 18 0.53
12 8 0.24
13 8 0.24
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAATATAAAAT
Found at i:15150769 original size:22 final size:24
Alignment explanation
Indices: 15150657--15150780 Score: 84
Period size: 25 Copynumber: 5.3 Consensus size: 24
15150647 ATAAATAAAT
* *
15150657 AAATAAATATATATATATATATATA
1 AAATAAATATATACATA-AAATATA
* *
15150682 TTAATAAATA-GTA-ATAATAA-AT-
1 -AAATAAATATATACATAA-AATATA
* **
15150704 AAAT-AATAAATACATAGGATATA
1 AAATAAATATATACATAAAATATA
15150727 AAGGA-AAATATATACATAAAATATA
1 AA--ATAAATATATACATAAAATATA
15150752 AAATAAATATA-ACA-AAAATATA
1 AAATAAATATATACATAAAATATA
15150774 AAATAAA
1 AAATAAA
15150781 ATTGGGCTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
20 4 0.05
21 6 0.08
22 20 0.25
23 9 0.11
24 11 0.14
25 21 0.27
26 8 0.10
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATAAATATATACATAAAATATA
Found at i:15155921 original size:2 final size:2
Alignment explanation
Indices: 15155910--15155942 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
15155900 GCTGTAATAC
15155910 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15155943 TTAAATTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:15157056 original size:2 final size:2
Alignment explanation
Indices: 15157049--15157078 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15157039 ACATCCATAA
*
15157049 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15157079 TCCTCCAAAT
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:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15164991 original size:5 final size:5
Alignment explanation
Indices: 15164983--15165008 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15164973 CATTCAAAAC
15164983 CTAAT CTAAT CTAAT CTAAT CTAAT C
1 CTAAT CTAAT CTAAT CTAAT CTAAT C
15165009 AAAGAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CTAAT
Found at i:15169709 original size:22 final size:24
Alignment explanation
Indices: 15169681--15169724 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
15169671 CACACATTAC
15169681 TTTTTTTAAATA-AAAA-AATACT
1 TTTTTTTAAATATAAAAGAATACT
15169703 TTTTTTTAAATATAAAAGAATA
1 TTTTTTTAAATATAAAAGAATA
15169725 ATCATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 4 0.20
24 4 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTTTTTAAATATAAAAGAATACT
Found at i:15176889 original size:31 final size:30
Alignment explanation
Indices: 15176824--15176890 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
15176814 TTAATATATT
*
15176824 TATTTAAACAAAAAATATCATTTAAATTAG
1 TATTTAAACAAAAAATATCATTTAAATTAA
15176854 TATTTAAACAAAAAAT-T-ATTTAAGAATTGAA
1 TATTTAAACAAAAAATATCATTT-A-AATT-AA
15176885 TATTTA
1 TATTTA
15176891 TAATTTACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 4 0.12
29 2 0.06
30 20 0.61
31 7 0.21
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (30 bp):
TATTTAAACAAAAAATATCATTTAAATTAA
Found at i:15181082 original size:2 final size:2
Alignment explanation
Indices: 15181075--15181114 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
15181065 TCCAAGGGCC
15181075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15181115 CACCATTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:15182083 original size:15 final size:15
Alignment explanation
Indices: 15182065--15182094 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15182055 AAAAAAGAAC
*
15182065 TTGATATTAAAGTAA
1 TTGATATAAAAGTAA
15182080 TTGATATAAAAGTAA
1 TTGATATAAAAGTAA
15182095 GTGTTTATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (15 bp):
TTGATATAAAAGTAA
Found at i:15184591 original size:2 final size:2
Alignment explanation
Indices: 15184584--15184616 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15184574 CAAGGGCCTC
15184584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15184617 TGTGTCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15186268 original size:42 final size:41
Alignment explanation
Indices: 15186222--15186300 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 41
15186212 TAAATTTAGT
* *
15186222 GACATTTTTACGCACAAA-CGTCGCTAAATTATAAAAATTAAC
1 GACATTTGTACGCA-AAAGCGTCACTAAATT-TAAAAATTAAC
* *
15186264 GACATTTGTACGTAAAAGTGTCACTAAATTTAAAAAT
1 GACATTTGTACGCAAAAGCGTCACTAAATTTAAAAAT
15186301 ATTTTTGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 10 0.31
42 22 0.69
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (41 bp):
GACATTTGTACGCAAAAGCGTCACTAAATTTAAAAATTAAC
Found at i:15186378 original size:41 final size:41
Alignment explanation
Indices: 15186298--15186397 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
15186288 TAAATTTAAA
* * *
15186298 AATATTTTTGAATACAAACATTGCTAATTTAGTCATTTAGC
1 AATATTTTTCACTACAAACATTGCTAATTTAGTAATTTAGC
* *
15186339 GATATTTTTCACTACAAACATTGCTAATTTGGTAATTTAGC
1 AATATTTTTCACTACAAACATTGCTAATTTAGTAATTTAGC
**
15186380 AACGTTTTTCACTACAAA
1 AATATTTTTCACTACAAA
15186398 TGCAGCTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (41 bp):
AATATTTTTCACTACAAACATTGCTAATTTAGTAATTTAGC
Found at i:15189861 original size:25 final size:25
Alignment explanation
Indices: 15189821--15189869 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
15189811 CAAAGTAAAA
*
15189821 GAAAGAAGAGAAGAGAATGGGATTC
1 GAAAGAAGAGAAGAGAATGAGATTC
15189846 GAAAGAAGA-AAGGAGAATGAGATT
1 GAAAGAAGAGAA-GAGAATGAGATT
15189870 TGAGAATGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.51, C:0.02, G:0.35, T:0.12
Consensus pattern (25 bp):
GAAAGAAGAGAAGAGAATGAGATTC
Found at i:15190958 original size:15 final size:15
Alignment explanation
Indices: 15190935--15190996 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
15190925 TTTGAAATAT
*
15190935 AATATAATAATATAA
1 AATAAAATAATATAA
*
15190950 AATAAAATAACAT-A
1 AATAAAATAATATAA
15190964 AATAAAA-AATATAAA
1 AATAAAATAATAT-AA
* *
15190979 AATAATATAATTTAA
1 AATAAAATAATATAA
15190994 AAT
1 AAT
15190997 TTTAATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 4 0.10
14 8 0.21
15 23 0.59
16 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAAATAATATAA
Found at i:15191016 original size:13 final size:13
Alignment explanation
Indices: 15190961--15191018 Score: 50
Period size: 12 Copynumber: 4.7 Consensus size: 13
15190951 ATAAAATAAC
*
15190961 ATAAATAAAAAAT
1 ATAAATAAAAATT
*
15190974 ATAAA-AATAA-T
1 ATAAATAAAAATT
* *
15190985 ATAATTTAAAATT
1 ATAAATAAAAATT
*
15190998 -TTAATAAAAATT
1 ATAAATAAAAATT
15191010 ATAAATAAA
1 ATAAATAAA
15191019 TTTATTAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 5 0.15
12 16 0.47
13 13 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAATAAAAATT
Found at i:15191027 original size:22 final size:20
Alignment explanation
Indices: 15190997--15191036 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15190987 AATTTAAAAT
15190997 TTTAATAAAAATTATAAATAAA
1 TTTAAT-AAAATT-TAAATAAA
*
15191019 TTTATTAAAATTTAAATA
1 TTTAATAAAATTTAAATA
15191037 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAATAAAATTTAAATAAA
Found at i:15191043 original size:19 final size:19
Alignment explanation
Indices: 15190987--15191043 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
15190977 AAAATAATAT
*
15190987 AATTTAAA-ATTTTAATAAA
1 AATTTAAATATTTT-ATTAA
*
15191006 AATTATAAATAAATTTATTAA
1 AATT-TAAAT-ATTTTATTAA
15191027 AATTTAAATATTTTATT
1 AATTTAAATATTTTATT
15191044 TTATATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 11 0.34
20 9 0.28
21 8 0.25
22 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTAAATATTTTATTAA
Found at i:15203538 original size:32 final size:33
Alignment explanation
Indices: 15203497--15203565 Score: 131
Period size: 32 Copynumber: 2.1 Consensus size: 33
15203487 TGAAAATTCC
15203497 AAATGGCTAGCTAGCTGTTG-TTAACAAGCCTG
1 AAATGGCTAGCTAGCTGTTGATTAACAAGCCTG
15203529 AAATGGCTAGCTAGCTGTTGATTAACAAGCCTG
1 AAATGGCTAGCTAGCTGTTGATTAACAAGCCTG
15203562 AAAT
1 AAAT
15203566 AGAATTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 20 0.56
33 16 0.44
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (33 bp):
AAATGGCTAGCTAGCTGTTGATTAACAAGCCTG
Found at i:15205374 original size:12 final size:12
Alignment explanation
Indices: 15205357--15205384 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15205347 AAATGCCAAT
15205357 TATATATATTTA
1 TATATATATTTA
15205369 TATATATATTTA
1 TATATATATTTA
15205381 TATA
1 TATA
15205385 AAATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATATATTTA
Found at i:15205505 original size:21 final size:21
Alignment explanation
Indices: 15205481--15205527 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
15205471 TGTAATTTTG
15205481 ATTTTGATAACTATTTATATA
1 ATTTTGATAACTATTTATATA
* *
15205502 ATTTTGATAATTTTTTATATA
1 ATTTTGATAACTATTTATATA
15205523 ATTTT
1 ATTTT
15205528 AATTATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTTGATAACTATTTATATA
Found at i:15205535 original size:21 final size:21
Alignment explanation
Indices: 15205494--15205554 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
15205484 TTGATAACTA
*
15205494 TTTATATAATTTTGATAATTT
1 TTTATATAATTTTAATAATTT
*
15205515 TTTATATAATTTTAATTATTT
1 TTTATATAATTTTAATAATTT
* *
15205536 ATGATAT-ATTTTCAATAAT
1 TTTATATAATTTT-AATAAT
15205555 CATTGATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTATATAATTTTAATAATTT
Found at i:15207578 original size:49 final size:49
Alignment explanation
Indices: 15207519--15207620 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 49
15207509 TATATTACGA
* * ** *
15207519 CAAACTTATTACACTTCTTAGTTAGCAATGGGTAACTATTCACTATAGG
1 CAAACATATTAAACTTCTTAGTTAGCAACAGGCAACTATTCACTATAGG
*
15207568 CAAACATATTAAACTTCTTGGTTAGCAACAGGCAACTATTCACTATAGG
1 CAAACATATTAAACTTCTTAGTTAGCAACAGGCAACTATTCACTATAGG
15207617 CAAA
1 CAAA
15207621 ATGTCAAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (49 bp):
CAAACATATTAAACTTCTTAGTTAGCAACAGGCAACTATTCACTATAGG
Found at i:15208568 original size:62 final size:64
Alignment explanation
Indices: 15208457--15208584 Score: 170
Period size: 62 Copynumber: 2.0 Consensus size: 64
15208447 TATCTCATGT
* * * * *
15208457 TTATTGTGTTTGTAATTGAATTAGCTAGTTGATTAATTTTTAAGAATATTTCTAAAGTGAAATTA
1 TTATTATGTTTGTAATTGAATTA--TAGTTAATTAAATTTTAAGAATATTTATAAAATGAAATTA
15208522 C
64 C
*
15208523 TTATTATGTTTGTAATTGAA-T-TAGTTAATTAAATTTTAAGAATATTTATAAAATGAAGTTAC
1 TTATTATGTTTGTAATTGAATTATAGTTAATTAAATTTTAAGAATATTTATAAAATGAAATTAC
15208585 AACTATAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
62 36 0.64
65 1 0.02
66 19 0.34
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (64 bp):
TTATTATGTTTGTAATTGAATTATAGTTAATTAAATTTTAAGAATATTTATAAAATGAAATTAC
Found at i:15209072 original size:22 final size:22
Alignment explanation
Indices: 15208995--15209287 Score: 152
Period size: 22 Copynumber: 13.4 Consensus size: 22
15208985 TTAATAAATG
*
15208995 ATAATTTAATTAT-AATTCATGA
1 ATAATTTAATAATAAATT-ATGA
15209017 ATAATTTAAT-ATAAA-TATGTA
1 ATAATTTAATAATAAATTATG-A
** *
15209038 ATAATTTGGTAGTAAATTATGA
1 ATAATTTAATAATAAATTATGA
*
15209060 ATAATTTAATAGTAAATATATG-
1 ATAATTTAATAATAAAT-TATGA
* * * *
15209082 ATAATTTTATATTAAATAATTA
1 ATAATTTAATAATAAATTATGA
* * *
15209104 AAAATTAAATAGTAAATTAATG-
1 ATAATTTAATAATAAATT-ATGA
** * *
15209126 ATAACATAGTAATGAATGTAT-A
1 ATAATTTAATAATAAAT-TATGA
** *
15209148 ATAACATAATAATAAATTATTA
1 ATAATTTAATAATAAATTATGA
* * *
15209170 ATAATTTAGTAGTAAATTATTA
1 ATAATTTAATAATAAATTATGA
* * * **
15209192 ATAACTTATTAATAAATCACCA
1 ATAATTTAATAATAAATTATGA
** *
15209214 ATAACGTAATACTAAATTACT-A
1 ATAATTTAATAATAAATTA-TGA
* * *
15209236 ATAATCTAGTAATAAATTATTA
1 ATAATTTAATAATAAATTATGA
* *
15209258 ATAATTTAATTATAAATAAATG-
1 ATAATTTAATAATAAAT-TATGA
15209280 ATAATTTA
1 ATAATTTA
15209288 GTTGTAAATC
Statistics
Matches: 210, Mismatches: 48, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.01
21 18 0.09
22 176 0.84
23 13 0.06
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAATTTAATAATAAATTATGA
Found at i:15209098 original size:44 final size:44
Alignment explanation
Indices: 15208963--15209129 Score: 144
Period size: 44 Copynumber: 3.8 Consensus size: 44
15208953 AAATTAGTGA
** * * * *
15208963 TAAATTATCCATAACTTAACAGTTAATAAATGATAA-TTTA-AT
1 TAAATTATGAATAATTTAATAGTAAATATATGATAATTTTATAT
* * ** *
15209005 TATAATTCATGAATAATTTAATA-TAAATATGTAATAATTTGGTAG
1 TA-AATT-ATGAATAATTTAATAGTAAATATATGATAATTTTATAT
15209050 TAAATTATGAATAATTTAATAGTAAATATATGATAATTTTATAT
1 TAAATTATGAATAATTTAATAGTAAATATATGATAATTTTATAT
* * * *
15209094 TAAATAATTAAAAATTAAATAGTAAAT-TAATGATAA
1 TAAATTATGAATAATTTAATAGTAAATAT-ATGATAA
15209130 CATAGTAATG
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
42 2 0.02
43 30 0.30
44 64 0.65
45 3 0.03
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (44 bp):
TAAATTATGAATAATTTAATAGTAAATATATGATAATTTTATAT
Found at i:15209171 original size:11 final size:11
Alignment explanation
Indices: 15209157--15209274 Score: 78
Period size: 11 Copynumber: 10.7 Consensus size: 11
15209147 AATAACATAA
15209157 TAATAAATTAT
1 TAATAAATTAT
* *
15209168 TAATAATTTAG
1 TAATAAATTAT
*
15209179 TAGTAAATTAT
1 TAATAAATTAT
*
15209190 TAATAACTTAT
1 TAATAAATTAT
* *
15209201 TAATAAATCAC
1 TAATAAATTAT
* ** *
15209212 CAATAACGTAA
1 TAATAAATTAT
* *
15209223 TACTAAATTAC
1 TAATAAATTAT
*
15209234 TAAT-AATCTAG
1 TAATAAAT-TAT
15209245 TAATAAATTAT
1 TAATAAATTAT
*
15209256 TAATAATTTAAT
1 TAATAAATT-AT
15209268 T-ATAAAT
1 TAATAAAT
15209275 AAATGATAAT
Statistics
Matches: 79, Mismatches: 25, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
10 3 0.04
11 70 0.89
12 6 0.08
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (11 bp):
TAATAAATTAT
Found at i:15209196 original size:66 final size:65
Alignment explanation
Indices: 15209023--15209274 Score: 202
Period size: 66 Copynumber: 3.8 Consensus size: 65
15209013 ATGAATAATT
* * * * *
15209023 TAAT-ATAAA-TATGTAATAATTTGGTAGTAAATTATGAATAATTTAATAGTAAATATATGATAA
1 TAATAATAAATTAT-TAATAATTTAGTAGTAAATTATTAATAACTTAATAATAAAT-TATAATAA
**
15209086 TT
64 CA
* * * * * * * * * * *
15209088 TTATATTAAATAATTAAAAATTAAATAGTAAATTAATGATAACATAGTAATGAATGTATAATAAC
1 TAATAATAAATTATTAATAATTTAGTAGTAAATTATTAATAACTTAATAATAAAT-TATAATAAC
15209153 A
65 A
* * *
15209154 TAATAATAAATTATTAATAATTTAGTAGTAAATTATTAATAACTTATTAATAAATCACCAATAAC
1 TAATAATAAATTATTAATAATTTAGTAGTAAATTATTAATAACTTAATAATAAATTA-TAATAAC
*
15209219 G
65 A
* * * * * *
15209220 TAATACTAAATTACTAATAATCTAGTAATAAATTATTAATAATTTAATTATAAAT
1 TAATAATAAATTATTAATAATTTAGTAGTAAATTATTAATAACTTAATAATAAAT
15209275 AAATGATAAT
Statistics
Matches: 144, Mismatches: 40, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
65 4 0.03
66 138 0.96
67 2 0.01
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (65 bp):
TAATAATAAATTATTAATAATTTAGTAGTAAATTATTAATAACTTAATAATAAATTATAATAACA
Found at i:15209295 original size:22 final size:22
Alignment explanation
Indices: 15209258--15209305 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
15209248 TAAATTATTA
15209258 ATAATTTAATTATAAATAAATG
1 ATAATTTAATTATAAATAAATG
* * * *
15209280 ATAATTTAGTTGTAAATCATTG
1 ATAATTTAATTATAAATAAATG
15209302 ATAA
1 ATAA
15209306 GATAAAAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAATTTAATTATAAATAAATG
Found at i:15210100 original size:15 final size:16
Alignment explanation
Indices: 15210082--15210122 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
15210072 ATGAAATTAA
15210082 AATTTTAAGT-AA-TTT
1 AATTTTAA-TAAACTTT
15210097 AATTTTACATAAACTTT
1 AATTTTA-ATAAACTTT
15210114 AATTTTAAT
1 AATTTTAAT
15210123 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.35
16 5 0.22
17 10 0.43
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (16 bp):
AATTTTAATAAACTTT
Found at i:15210146 original size:20 final size:19
Alignment explanation
Indices: 15210127--15210195 Score: 52
Period size: 20 Copynumber: 3.6 Consensus size: 19
15210117 TTTAATTTTA
15210127 ATTAATTTAAATTAAATTT
1 ATTAATTTAAATTAAATTT
* * * *
15210146 AAATAAATT-AATAAAAGTT
1 -ATTAATTTAAATTAAATTT
*
15210165 A-TATATTTACAAATAAATTT
1 ATTA-ATTTA-AATTAAATTT
15210185 ATTAATTTAAA
1 ATTAATTTAAA
15210196 AATTTATAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 9
0.69 0.15 0.17
Matches are distributed among these distances:
17 2 0.05
18 4 0.11
19 10 0.27
20 19 0.51
21 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (19 bp):
ATTAATTTAAATTAAATTT
Found at i:15225349 original size:19 final size:20
Alignment explanation
Indices: 15225297--15225339 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
15225287 TATGGTATGC
* *
15225297 TTTTGTAACTCCAAGTGTGA
1 TTTTATAACTCCAAATGTGA
15225317 TTTTATAACTCCAAATGTGA
1 TTTTATAACTCCAAATGTGA
15225337 TTT
1 TTT
15225340 ATCTCTCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (20 bp):
TTTTATAACTCCAAATGTGA
Found at i:15231553 original size:109 final size:109
Alignment explanation
Indices: 15231346--15231557 Score: 259
Period size: 109 Copynumber: 1.9 Consensus size: 109
15231336 CAGAGATTTT
* * *
15231346 GGGTTCGAGTCCCAATAGCATTGTTAGGAGAAGATTGTTGGCAGATCGAAGGTTGGCCTCGTCCA
1 GGGTTCGAGTCCCAATAGCATTATTAGGAGAAGATTGTTGGCAAATCGAAGATTGGCCTCGTCCA
* *
15231411 TCAACTCTATGTGCTCGAACATCGGTATGAAAGTAAAAAGTTTC
66 TCAACTATATGTGCTCGAACATCAGTATGAAAGTAAAAAGTTTC
* * * *
15231455 GGGTTCGAGTCCCAAT-GATATTATTTGGGGAAGATTGTTGGCAAATC-AGAGATTTG-CTACGT
1 GGGTTCGAGTCCCAATAG-CATTATTAGGAGAAGATTGTTGGCAAATCGA-AGATTGGCCT-CGT
* * * *
15231517 CCATCAATTATATGTGCTCGAACATTATTATTAAAGTAAAA
63 CCATCAACTATATGTGCTCGAACATCAGTATGAAAGTAAAA
15231558 TGTTCGACTT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
108 4 0.05
109 83 0.95
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (109 bp):
GGGTTCGAGTCCCAATAGCATTATTAGGAGAAGATTGTTGGCAAATCGAAGATTGGCCTCGTCCA
TCAACTATATGTGCTCGAACATCAGTATGAAAGTAAAAAGTTTC
Found at i:15257037 original size:24 final size:24
Alignment explanation
Indices: 15257005--15257053 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
15256995 TATCATCGGC
* *
15257005 TATGAAAGACAAGCGAGCCAAGAA
1 TATGAAAGACAAGCGAACAAAGAA
15257029 TATGAAAGACAAGCGAACAAAGAA
1 TATGAAAGACAAGCGAACAAAGAA
15257053 T
1 T
15257054 GAGGTAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.14, G:0.22, T:0.10
Consensus pattern (24 bp):
TATGAAAGACAAGCGAACAAAGAA
Found at i:15259606 original size:23 final size:23
Alignment explanation
Indices: 15259570--15259616 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
15259560 AACAATGAAT
**
15259570 TTAATTGATCAATTAATTTTTTG
1 TTAATTGAGAAATTAATTTTTTG
**
15259593 TTAATTGAGAAATTTCTTTTTTG
1 TTAATTGAGAAATTAATTTTTTG
15259616 T
1 T
15259617 ATAAATTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (23 bp):
TTAATTGAGAAATTAATTTTTTG
Found at i:15268965 original size:6 final size:6
Alignment explanation
Indices: 15268954--15268983 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15268944 ATTATTCATG
*
15268954 CTCGAA CTCGAA CTCGAA CTCGGA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
15268984 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (6 bp):
CTCGAA
Found at i:15276698 original size:2 final size:2
Alignment explanation
Indices: 15276693--15276717 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15276683 AAATATTTTT
15276693 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15276718 CTCTCGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15281145 original size:34 final size:34
Alignment explanation
Indices: 15281107--15281176 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
15281097 CTGCTATTGT
15281107 TTTAATGTTGGGCCCTAACATCTTT-ACAGATGTA
1 TTTAATGTTGGGCCCTAACAT-TTTCACAGATGTA
*
15281141 TTTAATGTTGGGCCTTAACATTTTCACAGATGTA
1 TTTAATGTTGGGCCCTAACATTTTCACAGATGTA
15281175 TT
1 TT
15281177 GTCGGTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 3 0.09
34 31 0.91
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (34 bp):
TTTAATGTTGGGCCCTAACATTTTCACAGATGTA
Found at i:15283640 original size:2 final size:2
Alignment explanation
Indices: 15283633--15283664 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15283623 TCTATTGCTT
15283633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15283665 AACCCTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15283716 original size:4 final size:4
Alignment explanation
Indices: 15283707--15283776 Score: 68
Period size: 4 Copynumber: 17.5 Consensus size: 4
15283697 TCCATTGCTT
* * * * * * *
15283707 TATA TATA TATA TATG TATG TATT TATA TGTA TATG TATA CATA TACA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
15283755 TATA CATA TATA TATA TATA TA
1 TATA TATA TATA TATA TATA TA
15283777 ATTACCTTAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (4 bp):
TATA
Found at i:15283718 original size:6 final size:6
Alignment explanation
Indices: 15283707--15283776 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
15283697 TCCATTGCTT
* * * * * * *
15283707 TATATA TATATA TATGTA TGTATT TATATG TATATG TATACA TATACA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
15283755 TATACA TATATA TATATA TATA
1 TATATA TATATA TATATA TATA
15283777 ATTACCTTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (6 bp):
TATATA
Found at i:15285110 original size:2 final size:2
Alignment explanation
Indices: 15285068--15285098 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15285058 GTTATTGCTT
15285068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15285099 GTAAGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15295962 original size:21 final size:20
Alignment explanation
Indices: 15295925--15295978 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
15295915 CTAAAAATCC
15295925 AAATTTTCTTTTATTATTTG
1 AAATTTTCTTTTATTATTTG
15295945 AAATTTT-TTATTATTTATTTG
1 AAATTTTCTT-TTA-TTATTTG
* *
15295966 -CATTTACTTTTAT
1 AAATTTTCTTTTAT
15295979 AAGTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 3 0.10
20 17 0.59
21 9 0.31
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (20 bp):
AAATTTTCTTTTATTATTTG
Found at i:15296040 original size:21 final size:21
Alignment explanation
Indices: 15296015--15296057 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15296005 TTATTTGGTA
15296015 ATTTATTCCTT-ATATATCTTT
1 ATTTATTCCTTAAT-TATCTTT
*
15296036 ATTTATTTCTTAATTATCTTT
1 ATTTATTCCTTAATTATCTTT
15296057 A
1 A
15296058 CATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTATTCCTTAATTATCTTT
Found at i:15296898 original size:20 final size:19
Alignment explanation
Indices: 15296873--15296913 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
15296863 ATAATTCATT
15296873 AATCCTACAAAATTATTAGA
1 AATCCTACAAAATTATT-GA
15296893 AATCCTACAAAATTATTGA
1 AATCCTACAAAATTATTGA
15296912 AA
1 AA
15296914 GATTTTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (19 bp):
AATCCTACAAAATTATTGA
Found at i:15297127 original size:94 final size:94
Alignment explanation
Indices: 15297012--15297184 Score: 219
Period size: 95 Copynumber: 1.8 Consensus size: 94
15297002 TCAAATTAAT
** * *
15297012 TTACCAAACTATTTTAGAATTTAAA-TTTCAAATT-AAATCTTACTAATTATTAT-AAA-ATTTA
1 TTACCAAACTATTGGAAAATTTAAATTTTCAAATTAAAAT-TTACCAA--ATTATGAAATATTTA
15297073 ATAATTTTTTTATAAAAAATAAAATTTTCAATC
63 ATAA-TTTTTTATAAAAAATAAAATTTTCAATC
*
15297106 TTACCAAACTATTGGAAAATTTAAATTTTTAAATTAAAATTTACCAAATTATGGAAATATTTAAT
1 TTACCAAACTATTGGAAAATTTAAATTTTCAAATTAAAATTTACCAAATTAT-GAAATATTTAAT
*
15297171 GATTTTTTATAAAA
65 AATTTTTTATAAAA
15297185 TTTTTTATCT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
93 5 0.07
94 22 0.32
95 29 0.43
96 12 0.18
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (94 bp):
TTACCAAACTATTGGAAAATTTAAATTTTCAAATTAAAATTTACCAAATTATGAAATATTTAATA
ATTTTTTATAAAAAATAAAATTTTCAATC
Found at i:15301272 original size:69 final size:68
Alignment explanation
Indices: 15301156--15301289 Score: 180
Period size: 69 Copynumber: 2.0 Consensus size: 68
15301146 AATTGTGATG
* * * *
15301156 GCTACCTGTTCAGCATTTCCTTTTCCACCTTTTTCTGGGTCTTTTTTTATTAATACCTCGAGGAC
1 GCTACCTGTTCAGCATTTCCGTTCCCACCTTTTTCTCGGTCATTTTTT-TTAATACCTCGAGGAC
15301221 TTTT
65 TTTT
* * *
15301225 GCTAGCTGTTC-GTCATTTCCGTTCCCTCCTTTTTCTCGGTCATTTTTTTTAATACCTCGTGGAC
1 GCTACCTGTTCAG-CATTTCCGTTCCCACCTTTTTCTCGGTCATTTTTTTTAATACCTCGAGGAC
15301289 T
65 T
15301290 CTTATGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
68 17 0.30
69 40 0.70
ACGTcount: A:0.13, C:0.26, G:0.14, T:0.47
Consensus pattern (68 bp):
GCTACCTGTTCAGCATTTCCGTTCCCACCTTTTTCTCGGTCATTTTTTTTAATACCTCGAGGACT
TTT
Found at i:15301984 original size:79 final size:79
Alignment explanation
Indices: 15301840--15301987 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
15301830 GTTAAAGTAG
* *
15301840 ATTATCCCACATATAATAAATTTTTAATATCCTATAGTCTTATATTTAGGTTGGGTCCCTCCACT
1 ATTATCCCACATATAACAAATTTTTAATATCCTATAGTCTTATATTTAGGTTGGCTCCCTCCACT
15301905 TATAGTCAAAGTGA
66 TATAGTCAAAGTGA
* * * * *
15301919 ATTATCTCACATCTAACAAATTTTTAATATCTTGTAGTCTTATATTTAGGTTGAGCT-CCTTCAC
1 ATTATCCCACATATAACAAATTTTTAATATCCTATAGTCTTATATTTAGGTTG-GCTCCCTCCAC
15301983 TTATA
65 TTATA
15301988 ACCAATTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 59 0.97
80 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (79 bp):
ATTATCCCACATATAACAAATTTTTAATATCCTATAGTCTTATATTTAGGTTGGCTCCCTCCACT
TATAGTCAAAGTGA
Found at i:15304510 original size:21 final size:21
Alignment explanation
Indices: 15304486--15304527 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15304476 AAAATTTTTT
* *
15304486 ATTAGAAGTAATTAATTAAAA
1 ATTAAAAGTAATAAATTAAAA
*
15304507 ATTAAAATTAATAAATTAAAA
1 ATTAAAAGTAATAAATTAAAA
15304528 GATTTCATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTAAAAGTAATAAATTAAAA
Found at i:15304737 original size:25 final size:23
Alignment explanation
Indices: 15304709--15304758 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
15304699 TCTTCCTATT
*
15304709 AAATTTTATTAATTTATTAATTTAA
1 AAATTTTATTAAATTATT--TTTAA
15304734 AAATTTTATTAAATTATTTTTAA
1 AAATTTTATTAAATTATTTTTAA
15304757 AA
1 AA
15304759 CAAAATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.29
25 17 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AAATTTTATTAAATTATTTTTAA
Found at i:15306458 original size:38 final size:38
Alignment explanation
Indices: 15306410--15306486 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
15306400 TTTTCCTTTT
*
15306410 CTGGATTAAAGCCCCGTGTTTTTGGTCATGAACATTTG
1 CTGGATTAAAGCCCCGGGTTTTTGGTCATGAACATTTG
* *
15306448 CTGGATTAAAGCCCTGGGTTTTTGGTCGTGAACATTTG
1 CTGGATTAAAGCCCCGGGTTTTTGGTCATGAACATTTG
15306486 C
1 C
15306487 ATATCTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.36
Consensus pattern (38 bp):
CTGGATTAAAGCCCCGGGTTTTTGGTCATGAACATTTG
Found at i:15306678 original size:52 final size:52
Alignment explanation
Indices: 15306591--15306746 Score: 176
Period size: 52 Copynumber: 3.0 Consensus size: 52
15306581 TGGACAAGAA
**
15306591 GACTTACAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAGTAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGTAAGTTT
* * * *
15306643 GACTTGTA-AG-AGAATAATTCTAAAAGGAAAGGGATTCTTAAGAGGAAAGTTT
1 GAC-T-TACAGTAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
* *
15306695 GACTTACAGTAGAAGAATTCTAAGAGGAGAGAGATTCTTAAT-GAGTAAGTTT
1 GACTTACAGTAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAG-GTAAGTTT
15306747 ATATGGTTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.05
52 72 0.83
53 7 0.08
54 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.28
Consensus pattern (52 bp):
GACTTACAGTAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:15307671 original size:11 final size:11
Alignment explanation
Indices: 15307638--15307673 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
15307628 GAATCCCATA
15307638 AGAGATTTGTTT
1 AGAGATTTG-TT
15307650 A-AGATTTGTT
1 AGAGATTTGTT
15307660 AGAGATTTGTT
1 AGAGATTTGTT
15307671 AGA
1 AGA
15307674 TATTGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 19 0.83
12 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:15307766 original size:52 final size:52
Alignment explanation
Indices: 15307695--15307850 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
15307685 GGACAAGAAG
* *
15307695 ACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAATTTA
1 ACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTTTA
* * * * * *
15307747 ACTTGTAAGAGAAAAATTCTAAAAAGAAAG-GGATTTTTAATAGGCAAGTTTG
1 ACTTGCAAGAGAAGAATTCT-AAGAGAAAGAGGATTCTTAATAGGTAAGTTTA
* *
15307799 ACTTACAAGAGAAGAATTCTAAGAGGAAAGA-GATTCTTAATGGGTAAGTTTA
1 ACTTGCAAGAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTTA
15307851 TATGGTTATA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
51 3 0.04
52 74 0.87
53 8 0.09
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (52 bp):
ACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTTTA
Done.