Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 49 of 160
Found at i:10687473 original size:188 final size:191
Alignment explanation
Indices: 10687226--10687675 Score: 497
Period size: 188 Copynumber: 2.3 Consensus size: 191
10687216 TTCCCCAAAT
* * * *
10687226 AGAGGCTTTAAAACTTTGAAAATTTTAAAATGGTTTGCCCGAAAGTCTTAGAAATTATGCCTA-G
1 AGAGGCTTTGAAACTTTGAAAA-TTTAAAATGGTTTGCCAG-AAGTCTTGGAGATTATGCCTATG
* *
10687290 AGGTCTTATAAATCTCAACATCTTTGAATGCTC-GTCCTAATCAAAGGCATTGAAACTTTGAAAA
64 AGGTCTAACAAATCTCAACATCTTTGAATGCTCTGTCC-AATCAAAGGCATTGAAACTTTGAAAA
* *
10687354 TTTAAAAT-G-TTC-TACCCAGAGGTCTTATAAATCTTGACATCTTTAAATG-CTCTTCCCAATC
128 TTTAAAATGGTTTCTTACCCAGAGGTCTTACAAATCTTAACATCTTTAAATGTCTC-TCCCAAT-
10687415 A
191 A
* *
10687416 A-AGGCTTTGAAACTTTGAAAATTTAAAATGGTTTACCTAGATGTCTTGGAGATTATG-CTATGA
1 AGAGGCTTTGAAACTTTGAAAATTTAAAATGGTTTGCC-AGAAGTCTTGGAGATTATGCCTATGA
** * * *
10687479 GGTCTAACAAATCTTGACATCTTTGAATGCTCTTTCCAATCAGATGCATTGAAACTTTGAAAATT
65 GGTCTAACAAATCTCAACATCTTTGAATGCTCTGTCCAATCAAAGGCATTGAAACTTTGAAAATT
* *
10687544 TAAAATGGTTTCTTGGAGATTATACCCAGAGGTCTTACAAATCTTAACATCTTTGAATGTTTCTC
130 TAAAATGGTTTC--------T-TACCCAGAGGTCTTACAAATCTTAACATCTTTAAATGTCTCTC
10687609 CCAATA
186 CCAATA
* * *
10687615 AGAGTCATTGAAACTTTGAAATTTTAAAATGGTTTGCCCA-AAGGTCTTGGAGATTAT-CCTA
1 AGAGGCTTTGAAACTTTGAAAATTTAAAATGGTTTG-CCAGAA-GTCTTGGAGATTATGCCTA
10687676 AAAATCTTTG
Statistics
Matches: 218, Mismatches: 22, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
187 3 0.01
188 91 0.42
189 24 0.11
190 4 0.02
199 3 0.01
200 89 0.41
201 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (191 bp):
AGAGGCTTTGAAACTTTGAAAATTTAAAATGGTTTGCCAGAAGTCTTGGAGATTATGCCTATGAG
GTCTAACAAATCTCAACATCTTTGAATGCTCTGTCCAATCAAAGGCATTGAAACTTTGAAAATTT
AAAATGGTTTCTTACCCAGAGGTCTTACAAATCTTAACATCTTTAAATGTCTCTCCCAATA
Found at i:10687554 original size:105 final size:102
Alignment explanation
Indices: 10687366--10687671 Score: 328
Period size: 105 Copynumber: 3.0 Consensus size: 102
10687356 TAAAATGTTC
* * * * *
10687366 TACCCAGAGGTCTTATAAATCTTGACATCTTTAAATGCTCTTCCCAATCAAAGGCTTTGAAACTT
1 TACCCAGAGGTCTTACAAATCTTGACATCTTTGAATGCTCTTTCCAATCAGA-GCATTGAAACTT
10687431 TGAAAATTTAAAATGGTTTACCTAGATGTCTTGGAGATTA
65 TGAAAATTTAAAATGGTTT-CCTA-ATGTCTTGGAGATTA
* * *
10687471 T-GCTATGAGGTCTAACAAATCTTGACATCTTTGAATGCTCTTTCCAATCAGATGCATTGAAACT
1 TACCCA-GAGGTCTTACAAATCTTGACATCTTTGAATGCTCTTTCCAATCAGA-GCATTGAAACT
10687535 TTGAAAATTTAAAATGG-----T--T-TCTTGGAGATTA
64 TTGAAAATTTAAAATGGTTTCCTAATGTCTTGGAGATTA
* *
10687566 TACCCAGAGGTCTTACAAATCTTAACATCTTTGAATG-T-TTCTCCCAATAAGAGTCATTGAAAC
1 TACCCAGAGGTCTTACAAATCTTGACATCTTTGAATGCTCTT-T-CCAATCAGAG-CATTGAAAC
* * *
10687629 TTTGAAATTTTAAAATGGTTTGCCCAAAGGTCTTGGAGATTA
63 TTTGAAAATTTAAAATGGTTT--CCTAATGTCTTGGAGATTA
10687671 T
1 T
10687672 CCTAAAAATC
Statistics
Matches: 169, Mismatches: 17, Indels: 30
0.78 0.08 0.14
Matches are distributed among these distances:
93 2 0.01
94 3 0.02
95 76 0.45
96 3 0.02
99 1 0.01
104 2 0.01
105 82 0.49
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (102 bp):
TACCCAGAGGTCTTACAAATCTTGACATCTTTGAATGCTCTTTCCAATCAGAGCATTGAAACTTT
GAAAATTTAAAATGGTTTCCTAATGTCTTGGAGATTA
Found at i:10687578 original size:95 final size:95
Alignment explanation
Indices: 10687459--10687649 Score: 264
Period size: 95 Copynumber: 2.0 Consensus size: 95
10687449 TACCTAGATG
* * * *
10687459 TCTTGGAGATTATGCTATGAGGTCTAACAAATCTTGACATCTTTGAATGCTCTT-T-CCAATCAG
1 TCTTGGAGATTATCCCATGAGGTCTAACAAATCTTAACATCTTTGAATG-T-TTCTCCCAATAAG
10687522 A-TGCATTGAAACTTTGAAAATTTAAAATGGTT
64 AGT-CATTGAAACTTTGAAAATTTAAAATGGTT
*
10687554 TCTTGGAGATTATACCCA-GAGGTCTTACAAATCTTAACATCTTTGAATGTTTCTCCCAATAAGA
1 TCTTGGAGATTAT-CCCATGAGGTCTAACAAATCTTAACATCTTTGAATGTTTCTCCCAATAAGA
*
10687618 GTCATTGAAACTTTGAAATTTTAAAATGGTT
65 GTCATTGAAACTTTGAAAATTTAAAATGGTT
10687649 T
1 T
10687650 GCCCAAAGGT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
93 2 0.02
94 2 0.02
95 79 0.92
96 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (95 bp):
TCTTGGAGATTATCCCATGAGGTCTAACAAATCTTAACATCTTTGAATGTTTCTCCCAATAAGAG
TCATTGAAACTTTGAAAATTTAAAATGGTT
Found at i:10688044 original size:2 final size:2
Alignment explanation
Indices: 10688037--10688061 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10688027 CATGATATTT
10688037 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
10688062 TTTTCCTTCT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10688328 original size:15 final size:15
Alignment explanation
Indices: 10688308--10688347 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10688298 TCTTATACAA
10688308 GTGCAAATGCAAGTG
1 GTGCAAATGCAAGTG
*
10688323 GTGCAAATACAAGTG
1 GTGCAAATGCAAGTG
* *
10688338 ATGTAAATGC
1 GTGCAAATGC
10688348 GAATGTCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.23
Consensus pattern (15 bp):
GTGCAAATGCAAGTG
Found at i:10688393 original size:38 final size:38
Alignment explanation
Indices: 10688342--10688425 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
10688332 CAAGTGATGT
* * *
10688342 AAATGCGAATGTCTTTCTCATGGTGCATATGCAAGTGC
1 AAATGCAAATGTCTTTCTCATGATGCACATGCAAGTGC
*
10688380 AAATGCAAATGTCTTTCTCATGATGCACATGCAAGTGG
1 AAATGCAAATGTCTTTCTCATGATGCACATGCAAGTGC
10688418 AAATGCAA
1 AAATGCAA
10688426 GTGATGCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (38 bp):
AAATGCAAATGTCTTTCTCATGATGCACATGCAAGTGC
Found at i:10688565 original size:130 final size:130
Alignment explanation
Indices: 10688381--10688614 Score: 396
Period size: 130 Copynumber: 1.8 Consensus size: 130
10688371 TGCAAGTGCA
* *
10688381 AATGCAAATGTCTTTCTCATGATGCACATGCAAGTGGAAATGCAAGTGATGCAAACATGAATGTC
1 AATGCAAATGTCTTTCTCATGATGCACATGCAAGTGCAAATGCAAGTGATGCAAACACGAATGTC
*
10688446 TTTTTTTGTGATGCAGATACAAGTGATACAAATGCGAATATCTTTTTTTTTGTGATGTAAATGTG
66 TTTTTTTGTGATGCAGATACAAGTGATACAAATGAGAATATCTTTTTTTTTGTGATGTAAATGTG
* *
10688511 AATGCAAATGTCTTTCTCATGATGCACATTCAAGTGCAAATGCAAGTGATGCAAATACGAATGTC
1 AATGCAAATGTCTTTCTCATGATGCACATGCAAGTGCAAATGCAAGTGATGCAAACACGAATGTC
* * *
10688576 TTTTTTTGTGATGTAGGTACAAGTGATGCAAATGAGAAT
66 TTTTTTTGTGATGCAGATACAAGTGATACAAATGAGAAT
10688615 GCAAATGTGA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 96 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (130 bp):
AATGCAAATGTCTTTCTCATGATGCACATGCAAGTGCAAATGCAAGTGATGCAAACACGAATGTC
TTTTTTTGTGATGCAGATACAAGTGATACAAATGAGAATATCTTTTTTTTTGTGATGTAAATGTG
Found at i:10688634 original size:12 final size:12
Alignment explanation
Indices: 10688601--10688634 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10688591 GGTACAAGTG
*
10688601 ATGCAAATGAGA
1 ATGCAAATGTGA
10688613 ATGCAAATGTGA
1 ATGCAAATGTGA
*
10688625 ATGTAAATGT
1 ATGCAAATGT
10688635 CTTTCTCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (12 bp):
ATGCAAATGTGA
Found at i:10688814 original size:15 final size:15
Alignment explanation
Indices: 10688794--10688835 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
10688784 ATCCTTTTTT
10688794 GTGATGCAAATGCAA
1 GTGATGCAAATGCAA
*
10688809 GTGATGCAAATACAA
1 GTGATGCAAATGCAA
10688824 GTGATGCAAATG
1 GTGATGCAAATG
10688836 TGAATGTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (15 bp):
GTGATGCAAATGCAA
Found at i:10689088 original size:34 final size:34
Alignment explanation
Indices: 10688966--10689185 Score: 123
Period size: 34 Copynumber: 6.6 Consensus size: 34
10688956 TATGAATTAA
* * * * *
10688966 TAAACTAGGCTTAAAATCTTCATCAAATGCTAAG
1 TAAACTGGGCTTAAAATTTTCATCAAGTGCCAGG
* * * * * *
10689000 TAAATTAGGCTT-ATATTTTCA-CTATGAGCCAGC
1 TAAACTGGGCTTAAAATTTTCATC-AAGTGCCAGG
** * * *
10689033 TAAGTTGGGCTT-TAATCTTCATCAAGTGTCAGG
1 TAAACTGGGCTTAAAATTTTCATCAAGTGCCAGG
* * *
10689066 TAAACTGGGTTTAAAATTTTCATCATAG-GCTAGA
1 TAAACTGGGCTTAAAATTTTCATCA-AGTGCCAGG
* *
10689100 TAAACTAGGCTT-AAATCTTT-AT-TAGTGCCAGG
1 TAAACTGGGCTTAAAAT-TTTCATCAAGTGCCAGG
*
10689132 TAAA-TCGGGCTTAAAATTTTCATCAAGTGCCAAG
1 TAAACT-GGGCTTAAAATTTTCATCAAGTGCCAGG
** *
10689166 TAAACTAAGCTTAAATTTTT
1 TAAACTGGGCTTAAAATTTT
10689186 ATGTAAACTT
Statistics
Matches: 138, Mismatches: 37, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
31 3 0.02
32 17 0.12
33 54 0.39
34 61 0.44
35 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (34 bp):
TAAACTGGGCTTAAAATTTTCATCAAGTGCCAGG
Found at i:10689151 original size:66 final size:66
Alignment explanation
Indices: 10689057--10689187 Score: 169
Period size: 66 Copynumber: 2.0 Consensus size: 66
10689047 ATCTTCATCA
* * * *
10689057 AGTGTCAGGTAAACTGGGTTTAAAATTTTCATCATAG-G-CTAGATAAACTAGGCTTAAATCTTT
1 AGTGCCAGGTAAACTGGGCTTAAAATTTTCATCA-AGTGCCAAG-TAAACTAAGCTTAAATCTTT
10689120 ATT
64 ATT
*
10689123 AGTGCCAGGTAAA-TCGGGCTTAAAATTTTCATCAAGTGCCAAGTAAACTAAGCTTAAATTTTTA
1 AGTGCCAGGTAAACT-GGGCTTAAAATTTTCATCAAGTGCCAAGTAAACTAAGCTTAAATCTTTA
10689187 T
65 T
10689188 GTAAACTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
65 3 0.05
66 51 0.89
67 3 0.05
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (66 bp):
AGTGCCAGGTAAACTGGGCTTAAAATTTTCATCAAGTGCCAAGTAAACTAAGCTTAAATCTTTAT
T
Found at i:10689180 original size:100 final size:100
Alignment explanation
Indices: 10688966--10689185 Score: 230
Period size: 100 Copynumber: 2.2 Consensus size: 100
10688956 TATGAATTAA
* * * *
10688966 TAAACTAGGCTTAAAATCTTCATCAAATGCTAAGTAAATTAGGCTTATATTTTCACTATGAGCCA
1 TAAACTAGGCTTAAAATTTTCATCAAAGGCTAAGTAAACTAGGCTTAAATTTTCACTATGAGCCA
* * * * *
10689031 GCTAAGTTGGGCTTTAATCTTCATCAAGTGTCAGG
66 GCTAAATCGGGCTTAAATCTTCATCAAGTGCCAAG
* * * * *
10689066 TAAACTGGGTTTAAAATTTTCATCATAGGCT-AGATAAACTAGGCTTAAATCTTT-ATTA-GTGC
1 TAAACTAGGCTTAAAATTTTCATCAAAGGCTAAG-TAAACTAGGCTTAAAT-TTTCACTATGAGC
* *
10689128 CAGGTAAATCGGGCTTAAAATTTTCATCAAGTGCCAAG
64 CAGCTAAATCGGGCTT-AAATCTTCATCAAGTGCCAAG
* *
10689166 TAAACTAAGCTTAAATTTTT
1 TAAACTAGGCTTAAAATTTT
10689186 ATGTAAACTT
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
99 18 0.19
100 76 0.78
101 3 0.03
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (100 bp):
TAAACTAGGCTTAAAATTTTCATCAAAGGCTAAGTAAACTAGGCTTAAATTTTCACTATGAGCCA
GCTAAATCGGGCTTAAATCTTCATCAAGTGCCAAG
Found at i:10689398 original size:22 final size:22
Alignment explanation
Indices: 10689373--10689474 Score: 127
Period size: 22 Copynumber: 4.6 Consensus size: 22
10689363 TATATATCAA
10689373 CTAATCTAGGCTTATGTGCTAG
1 CTAATCTAGGCTTATGTGCTAG
10689395 CTAAAT-T-GAGCTTATGTGCTAG
1 CT-AATCTAG-GCTTATGTGCTAG
* *
10689417 CTAATCTGGGCTTATGTGCCAG
1 CTAATCTAGGCTTATGTGCTAG
*
10689439 CTAAACTAGGCTTATGTGCTAG
1 CTAATCTAGGCTTATGTGCTAG
* *
10689461 TTAATCTGGGCTTA
1 CTAATCTAGGCTTA
10689475 AAACTTCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.06
22 61 0.88
23 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (22 bp):
CTAATCTAGGCTTATGTGCTAG
Found at i:10689423 original size:44 final size:44
Alignment explanation
Indices: 10689373--10689474 Score: 152
Period size: 44 Copynumber: 2.3 Consensus size: 44
10689363 TATATATCAA
* * *
10689373 CTAATCTAGGCTTATGTGCTAGCTAAA-TTGAGCTTATGTGCTAG
1 CTAATCTGGGCTTATGTGCCAGCTAAACTAG-GCTTATGTGCTAG
10689417 CTAATCTGGGCTTATGTGCCAGCTAAACTAGGCTTATGTGCTAG
1 CTAATCTGGGCTTATGTGCCAGCTAAACTAGGCTTATGTGCTAG
*
10689461 TTAATCTGGGCTTA
1 CTAATCTGGGCTTA
10689475 AAACTTCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 51 0.96
45 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (44 bp):
CTAATCTGGGCTTATGTGCCAGCTAAACTAGGCTTATGTGCTAG
Found at i:10691632 original size:18 final size:20
Alignment explanation
Indices: 10691597--10691639 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10691587 AATTTTCTCT
* *
10691597 TTTTTTGTTTTTTTTTTCA-
1 TTTTTTGTTCTTTCTTTCAC
10691616 TTTTTTG-TCTTTCTTTCAC
1 TTTTTTGTTCTTTCTTTCAC
10691635 TTTTT
1 TTTTT
10691640 CTAGAATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTGTTCTTTCTTTCAC
Found at i:10691659 original size:5 final size:5
Alignment explanation
Indices: 10691649--10691674 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10691639 TCTAGAATAC
10691649 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
10691675 ACCTTAGGAC
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10694488 original size:3 final size:3
Alignment explanation
Indices: 10694480--10694520 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10694470 GTTGATTTTC
10694480 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10694521 AGAATAGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10694579 original size:18 final size:18
Alignment explanation
Indices: 10694553--10694622 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 18
10694543 ATATTGTGAT
*
10694553 TATATTATATTATTATAG
1 TATAGTATATTATTATAG
10694571 TATAGTATATTATAGTATATCAG
1 TATAGTATA-T-TA-T-TAT-AG
*
10694594 TATAGTATATTATTGTAG
1 TATAGTATATTATTATAG
*
10694612 CATAGTATATT
1 TATAGTATATT
10694623 GTATTATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 20 0.45
19 3 0.07
20 3 0.07
21 3 0.07
22 4 0.09
23 11 0.25
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (18 bp):
TATAGTATATTATTATAG
Found at i:10694617 original size:41 final size:41
Alignment explanation
Indices: 10694553--10694650 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
10694543 ATATTGTGAT
* *
10694553 TATATTATATTATTATAGTATAGTATATTATAGTATATCAG
1 TATAGTATATTATTATAGCATAGTATATTATAGTATATCAG
* * * * *
10694594 TATAGTATATTATTGTAGCATAGTATATTGTATTATATTAT
1 TATAGTATATTATTATAGCATAGTATATTATAGTATATCAG
*
10694635 TATAGTCTATTATTAT
1 TATAGTATATTATTAT
10694651 TATTTTTATT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (41 bp):
TATAGTATATTATTATAGCATAGTATATTATAGTATATCAG
Found at i:10694645 original size:23 final size:22
Alignment explanation
Indices: 10694480--10694653 Score: 111
Period size: 23 Copynumber: 7.5 Consensus size: 22
10694470 GTTGATTTTC
*
10694480 ATTATTATTATTATTAT-TATTATT
1 ATTA-TATTA-TATTATATAGTA-T
* *
10694504 ATTATTATTATTATTATAGAATAGT
1 ATTA-TATTA-TATTATATAGTA-T
* *
10694529 ATGTATATTATATTATATTGT-G
1 AT-TATATTATATTATATAGTAT
10694551 ATTATATTATATTATTATAGTAT
1 ATTATATTATATTA-TATAGTAT
* *
10694574 AGTATATTATAGTATATCAGTAT
1 ATTATATTATATTATAT-AGTAT
* *
10694597 AGTATATTAT-TGTAGCATAGTAT
1 ATTATATTATAT-TA-TATAGTAT
* *
10694620 ATTGTATTATATTATTATAGTCT
1 ATTATATTATATTA-TATAGTAT
10694643 ATTATTATTAT
1 ATTA-TATTAT
10694654 TTTTATTTTC
Statistics
Matches: 122, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
21 12 0.10
22 10 0.08
23 53 0.43
24 34 0.28
25 11 0.09
26 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (22 bp):
ATTATATTATATTATATAGTAT
Found at i:10695551 original size:21 final size:21
Alignment explanation
Indices: 10695481--10695551 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
10695471 ATCGCAGGTT
10695481 TTTTTTTCTATTTTGATTTT-A-
1 TTTTTTT-TATTTT-ATTTTAAG
*
10695502 TTTTGATTTATTTTATATTTTAAG
1 TTTT-TTTTA-TTT-TATTTTAAG
10695526 --TTTTTTATTTTATTTTAAG
1 TTTTTTTTATTTTATTTTAAG
10695545 TTTTTTT
1 TTTTTTT
10695552 ATTATTCTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
19 9 0.22
20 3 0.07
21 15 0.37
22 12 0.29
23 2 0.05
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (21 bp):
TTTTTTTTATTTTATTTTAAG
Found at i:10695565 original size:23 final size:19
Alignment explanation
Indices: 10695491--10695550 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
10695481 TTTTTTTCTA
* *
10695491 TTTTGATTTTATTTTGA-T
1 TTTTTATTTTATTTTAAGT
* *
10695509 TTATT-TTATATTTTAAGT
1 TTTTTATTTTATTTTAAGT
10695527 TTTTTATTTTATTTTAAGT
1 TTTTTATTTTATTTTAAGT
10695546 TTTTT
1 TTTTT
10695551 TATTATTCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.26
18 8 0.24
19 17 0.50
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTTATTTTATTTTAAGT
Found at i:10699717 original size:19 final size:20
Alignment explanation
Indices: 10699673--10699710 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
10699663 GTTTTTCTTC
10699673 AAAAATAATAAAAATGAAAA
1 AAAAATAATAAAAATGAAAA
10699693 AAAAATAA-AAAAATGAAA
1 AAAAATAATAAAAATGAAA
10699711 GAGAAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (20 bp):
AAAAATAATAAAAATGAAAA
Found at i:10700023 original size:7 final size:6
Alignment explanation
Indices: 10700007--10700053 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
10699997 AGGCGTGCAA
* *
10700007 AAAAAT AAAAGT AAAAAT AAAAAT AAAAAA ATAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAA
10700054 GAGAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:10700036 original size:26 final size:26
Alignment explanation
Indices: 10700005--10700064 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
10699995 AGAGGCGTGC
*
10700005 AAAAAAATAAAAGTAAAAATAAAA-AT
1 AAAAAAATAAAA-TAAAAATAAAAGAG
10700031 AAAAAAATAAAATAAAAATAAAAGAG
1 AAAAAAATAAAATAAAAATAAAAGAG
10700057 AAAAAAAT
1 AAAAAAAT
10700065 GAGACTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (26 bp):
AAAAAAATAAAATAAAAATAAAAGAG
Found at i:10700061 original size:19 final size:19
Alignment explanation
Indices: 10700007--10700062 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
10699997 AGGCGTGCAA
*
10700007 AAAAATAAAAG-TAAAAAT
1 AAAAATAAAAGAAAAAAAT
10700025 AAAAATAAAA-AAATAAAAT
1 AAAAATAAAAGAAA-AAAAT
10700044 AAAAATAAAAGAGAAAAAA
1 AAAAATAAAAGA-AAAAAA
10700063 ATGAGACTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 11 0.33
19 15 0.45
20 5 0.15
21 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAAATAAAAGAAAAAAAT
Found at i:10700724 original size:11 final size:11
Alignment explanation
Indices: 10700710--10700744 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
10700700 CTGTATTACA
*
10700710 TACATTGTGTT
1 TACATTGTATT
*
10700721 TACATTATATT
1 TACATTGTATT
10700732 TACATTGTATT
1 TACATTGTATT
10700743 TA
1 TA
10700745 AACCCTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.54
Consensus pattern (11 bp):
TACATTGTATT
Found at i:10701031 original size:55 final size:55
Alignment explanation
Indices: 10700830--10701020 Score: 213
Period size: 55 Copynumber: 3.5 Consensus size: 55
10700820 TTGATCTTAA
* * * * * *
10700830 CTCAGTCCAGATTATTTTCTTGACTTATAGTTTAATCTCAGTCGTTCAATCTCGA
1 CTCAGTCCAGATCATTTTCTTGACTTATAGTTCAATCCCAGTCATTCGATCTCGG
* * ** * * *
10700885 CTCAGTTCAGATCATTTTCTTGACTTATAGTTCAATCCTAGTTGTTTGATTTCAG
1 CTCAGTCCAGATCATTTTCTTGACTTATAGTTCAATCCCAGTCATTCGATCTCGG
* *
10700940 CTCAATCCAGATTATTTTCTTGACTTAT-GATTCAATCCCAGTCATTCGATCTCGG
1 CTCAGTCCAGATCATTTTCTTGACTTATAG-TTCAATCCCAGTCATTCGATCTCGG
* *
10700995 CTTAGTCCAGATCATTTTTTTGACTT
1 CTCAGTCCAGATCATTTTCTTGACTT
10701021 GTGATTCAAT
Statistics
Matches: 111, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
54 1 0.01
55 110 0.99
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (55 bp):
CTCAGTCCAGATCATTTTCTTGACTTATAGTTCAATCCCAGTCATTCGATCTCGG
Found at i:10701040 original size:55 final size:55
Alignment explanation
Indices: 10700833--10701062 Score: 205
Period size: 55 Copynumber: 4.2 Consensus size: 55
10700823 ATCTTAACTC
* * * * * * *
10700833 AGTCCAGATTATTTTCTTGACTTAT-AGTTTAATCTCAGTCGTTCAATCTCGACTC
1 AGTCCAGATCATTTTCTTGACTTATGA-TTCAATCCCAGTCATTCGATCTCGGCTT
* * ** * * * *
10700888 AGTTCAGATCATTTTCTTGACTTAT-AGTTCAATCCTAGTTGTTTGATTTCAGCTC
1 AGTCCAGATCATTTTCTTGACTTATGA-TTCAATCCCAGTCATTCGATCTCGGCTT
* *
10700943 AATCCAGATTATTTTCTTGACTTATGATTCAATCCCAGTCATTCGATCTCGGCTT
1 AGTCCAGATCATTTTCTTGACTTATGATTCAATCCCAGTCATTCGATCTCGGCTT
* * * * *
10700998 AGTCCAGATCATTTTTTTGACTTGTGATTCAATCTC-GATCATTTGATCTTGGCTT
1 AGTCCAGATCATTTTCTTGACTTATGATTCAATCCCAG-TCATTCGATCTCGGCTT
*
10701053 AGTCTAGATC
1 AGTCCAGATC
10701063 GTATTTTTCC
Statistics
Matches: 144, Mismatches: 29, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
54 1 0.01
55 142 0.99
56 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (55 bp):
AGTCCAGATCATTTTCTTGACTTATGATTCAATCCCAGTCATTCGATCTCGGCTT
Found at i:10701043 original size:110 final size:110
Alignment explanation
Indices: 10700830--10701044 Score: 265
Period size: 110 Copynumber: 2.0 Consensus size: 110
10700820 TTGATCTTAA
* * * * *
10700830 CTCAGTCCAGATTATTTTCTTGACTTATAGTTTAATCTCAGTCGTTCAATCTCGACTCAGTTCAG
1 CTCAATCCAGATTATTTTCTTGACTTATAGTTCAATCCCAGTCATTCAATCTCGACTCAGTCCAG
* **
10700895 ATCATTTTCTTGACTTATAGTTCAATCCTAGTTGTTTGATTTCAG
66 ATCATTTTCTTGACTTATAGTTCAATCCGAGTCATTTGATTTCAG
* * *
10700940 CTCAATCCAGATTATTTTCTTGACTTAT-GATTCAATCCCAGTCATTCGATCTCGGCTTAGTCCA
1 CTCAATCCAGATTATTTTCTTGACTTATAG-TTCAATCCCAGTCATTCAATCTCGACTCAGTCCA
* *
10701004 GATCATTTTTTTGACTTGT-GATTCAATCTCGA-TCATTTGAT
65 GATCATTTTCTTGACTTATAG-TTCAATC-CGAGTCATTTGAT
10701045 CTTGGCTTAG
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
109 2 0.02
110 85 0.96
111 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (110 bp):
CTCAATCCAGATTATTTTCTTGACTTATAGTTCAATCCCAGTCATTCAATCTCGACTCAGTCCAG
ATCATTTTCTTGACTTATAGTTCAATCCGAGTCATTTGATTTCAG
Found at i:10701348 original size:5 final size:5
Alignment explanation
Indices: 10701274--10701333 Score: 106
Period size: 5 Copynumber: 12.4 Consensus size: 5
10701264 TTGTTACTAG
10701274 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-T-
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
10701322 TATTA TATTA TA
1 TATTA TATTA TA
10701334 ATATGGTATA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 49 0.92
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:10701361 original size:28 final size:28
Alignment explanation
Indices: 10701302--10701371 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
10701292 TATATTATAT
* * * ** *
10701302 TATATTATATTATATTATATTATTATAT
1 TATAATATAGTATAGTATATTAGCATAG
*
10701330 TATAATATGGTATAGTATATTAGCATAG
1 TATAATATAGTATAGTATATTAGCATAG
*
10701358 TATATTATAGTATA
1 TATAATATAGTATA
10701372 TCAATATAGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (28 bp):
TATAATATAGTATAGTATATTAGCATAG
Found at i:10701369 original size:10 final size:10
Alignment explanation
Indices: 10701277--10701410 Score: 92
Period size: 10 Copynumber: 12.9 Consensus size: 10
10701267 TTACTAGTAT
*
10701277 TATATTATAT
1 TATATTATAG
*
10701287 TATATTATAT
1 TATATTATAG
*
10701297 TATATTATAT
1 TATATTATAG
*
10701307 TATATTATAT
1 TATATTATAG
10701317 TATATTAT--
1 TATATTATAG
*
10701325 TATATTATAA
1 TATATTATAG
**
10701335 TATGGTATAG
1 TATATTATAG
10701345 TATATTAGCATAG
1 TATATT---ATAG
10701358 TATATTATAG
1 TATATTATAG
10701368 TATATCAATATAG
1 TATAT---TATAG
*
10701381 TATTATTGTAG
1 TA-TATTATAG
* *
10701392 TATAGTATAT
1 TATATTATAG
*
10701402 TGTATTATA
1 TATATTATA
10701411 TTTTATAGTC
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
8 8 0.08
10 70 0.67
11 6 0.06
13 17 0.16
14 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.51
Consensus pattern (10 bp):
TATATTATAG
Found at i:10701370 original size:23 final size:24
Alignment explanation
Indices: 10701340--10701395 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
10701330 TATAATATGG
* *
10701340 TATAGTATATTAGCATAGTA-TAT
1 TATAGTATATCAACATAGTATTAT
*
10701363 TATAGTATATCAATATAGTATTAT
1 TATAGTATATCAACATAGTATTAT
*
10701387 TGTAGTATA
1 TATAGTATA
10701396 GTATATTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (24 bp):
TATAGTATATCAACATAGTATTAT
Found at i:10701401 original size:23 final size:23
Alignment explanation
Indices: 10701340--10701409 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
10701330 TATAATATGG
**
10701340 TATAGTATATTAGCATAGTA-TAT
1 TATAGTATA-TAATATAGTATTAT
10701363 TATAGTATATCAATATAGTATTAT
1 TATAGTATAT-AATATAGTATTAT
* *
10701387 TGTAGTATAGT-ATATTGTATTAT
1 TATAGTATA-TAATATAGTATTAT
10701410 ATTTTATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.03
23 27 0.68
24 11 0.28
25 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (23 bp):
TATAGTATATAATATAGTATTAT
Found at i:10701404 original size:15 final size:16
Alignment explanation
Indices: 10701376--10701410 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10701366 AGTATATCAA
10701376 TATAGTATTATTGTAG
1 TATAGTATTATTGTAG
*
10701392 TATAGTA-TATTGTAT
1 TATAGTATTATTGTAG
10701407 TATA
1 TATA
10701411 TTTTATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TATAGTATTATTGTAG
Found at i:10703752 original size:30 final size:30
Alignment explanation
Indices: 10703716--10703774 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
10703706 CACAAAATGA
10703716 GATGCATGTACTATCCATTGATGTGGATGT
1 GATGCATGTACTATCCATTGATGTGGATGT
*
10703746 GATGCATGTACTATCTATTGATGTGGATG
1 GATGCATGTACTATCCATTGATGTGGATG
10703775 AGATATAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (30 bp):
GATGCATGTACTATCCATTGATGTGGATGT
Found at i:10706517 original size:15 final size:16
Alignment explanation
Indices: 10706489--10706521 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10706479 AAGGACTGTG
10706489 TTTTGTTTGGTGATTT
1 TTTTGTTTGGTGATTT
*
10706505 TTTTGTTT-TTGATTT
1 TTTTGTTTGGTGATTT
10706520 TT
1 TT
10706522 GGCTGGGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (16 bp):
TTTTGTTTGGTGATTT
Found at i:10707157 original size:18 final size:18
Alignment explanation
Indices: 10707134--10707168 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10707124 TGATGGTGCA
10707134 TTCAAGGGTTGTGGGGCC
1 TTCAAGGGTTGTGGGGCC
10707152 TTCAAGGGTTGTGGGGC
1 TTCAAGGGTTGTGGGGC
10707169 TTGGTAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.14, G:0.46, T:0.29
Consensus pattern (18 bp):
TTCAAGGGTTGTGGGGCC
Found at i:10713933 original size:18 final size:19
Alignment explanation
Indices: 10713902--10713957 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
10713892 AAAACTAAAC
10713902 TTAAATTG--CTTAAAAAT
1 TTAAATTGAACTTAAAAAT
*
10713919 TTAAATT-AACTTAAAAAAA
1 TTAAATTGAACTT-AAAAAT
*
10713938 TTAAATTGAA-TTGAAAAT
1 TTAAATTGAACTTAAAAAT
10713956 TT
1 TT
10713958 TTAAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 7 0.22
18 9 0.28
19 14 0.44
20 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (19 bp):
TTAAATTGAACTTAAAAAT
Found at i:10724465 original size:16 final size:16
Alignment explanation
Indices: 10724446--10724494 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
10724436 TTGGTTTGTT
10724446 TCTTTTA-ACTTTTTTA
1 TCTTTTATA-TTTTTTA
10724462 TCTTTTATATTTTTTA
1 TCTTTTATATTTTTTA
* *
10724478 ACTTTTTTTATTTTTTA
1 TC-TTTTATATTTTTTA
10724495 GTGGGCTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTTTTATATTTTTTA
Found at i:10724484 original size:17 final size:16
Alignment explanation
Indices: 10724455--10724494 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
10724445 TTCTTTTAAC
*
10724455 TTTTTTATCTTTTATA
1 TTTTTTAACTTTTATA
*
10724471 TTTTTTAACTTTTTTTA
1 TTTTTTAAC-TTTTATA
10724488 TTTTTTA
1 TTTTTTA
10724495 GTGGGCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTAACTTTTATA
Found at i:10724558 original size:18 final size:18
Alignment explanation
Indices: 10724516--10724551 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10724506 TTTTTCATGA
*
10724516 GATTTTTTTTTATATTTT
1 GATTTTTTTATATATTTT
*
10724534 GCTTTTTTTATATATTTT
1 GATTTTTTTATATATTTT
10724552 ATATTTTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.75
Consensus pattern (18 bp):
GATTTTTTTATATATTTT
Found at i:10724603 original size:226 final size:214
Alignment explanation
Indices: 10724214--10724624 Score: 599
Period size: 224 Copynumber: 1.9 Consensus size: 214
10724204 TGTCTTTTTA
** *
10724214 ATTTTTTTTTTTTGTTTCTTTTTACTTTTTATCTTTTATAATTTTTAACTTTTTTTTTTGTAGGG
1 ATTTTTTTGGTTTGTTTCTTTTAACTTTTTATCTTTTATAATTTTTAACTTTTTTTTTTGTAGGG
*
10724279 CTTTTTTTCATGAGATTTTTTTTATTTTTTTGCTTTTTTTTATATTTATATATTGATTTCAATGG
66 CTTTTTTTCATGAGATTTTTTTTATTATTTTGCTTTTTTTTATATTTATATATTGATTTCAATGG
* *
10724344 AACTATTGTTTTAGTTTTATAAGACTCACCTTTTTTATTTTTAATTTTTTATAATTTATACCCAT
131 AACTATTGTTTTAGTTTTACAAGACTCACC-TTTTTATTTTT-ATTTTTTAAAATTTATACCCAT
10724409 AACTTTTGTATTTTTAAACCT
194 AACTTTTGTATTTTTAAACCT
* *
10724430 ATTTTTTTGGTTTGTTTCTTTTAACTTTTTTATCTTTTATATTTTTTAACTTTTTTTATTTTTTA
1 ATTTTTTTGGTTTGTTTCTTTTAAC-TTTTTATCTTTTATAATTTTTAAC-TTTTTT-TTTTGTA
*
10724495 GTGGGCTTATTTTTTTCATGAGATTTTTTTT-TATATTTTGCTTTTTTTATATATTTTATATTTT
63 --GGGC---TTTTTTTCATGAGATTTTTTTTAT-TATTTTGCTTTTTTT-TATA-TTTATATATT
* *
10724559 GATTTCAATGGAACTATTGTTTTAGTTTTACGAGACTGACCTTTTTATTTTTATTTTTTAAAATT
120 GATTTCAATGGAACTATTGTTTTAGTTTTACAAGACTCACCTTTTTATTTTTATTTTTTAAAATT
10724624 T
185 T
10724625 TTATAATTTA
Statistics
Matches: 173, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
216 22 0.13
217 23 0.13
218 6 0.03
219 6 0.03
221 4 0.02
223 1 0.01
224 49 0.28
225 15 0.09
226 47 0.27
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (214 bp):
ATTTTTTTGGTTTGTTTCTTTTAACTTTTTATCTTTTATAATTTTTAACTTTTTTTTTTGTAGGG
CTTTTTTTCATGAGATTTTTTTTATTATTTTGCTTTTTTTTATATTTATATATTGATTTCAATGG
AACTATTGTTTTAGTTTTACAAGACTCACCTTTTTATTTTTATTTTTTAAAATTTATACCCATAA
CTTTTGTATTTTTAAACCT
Found at i:10725787 original size:17 final size:17
Alignment explanation
Indices: 10725764--10725804 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
10725754 CCATATTTTG
* *
10725764 TTTTTTTGTTTTTTTGCC
1 TTTTTTGGTTTTTTAG-C
10725782 TTTTTTGGTTTTTTAGC
1 TTTTTTGGTTTTTTAGC
10725799 TTTTTT
1 TTTTTT
10725805 AATCAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.02, C:0.07, G:0.12, T:0.78
Consensus pattern (17 bp):
TTTTTTGGTTTTTTAGC
Found at i:10726053 original size:24 final size:23
Alignment explanation
Indices: 10726008--10726078 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
10725998 TGTTTTGTTT
*
10726008 TATTTTAACTATATATTAAATTA
1 TATTTTAAATATATATTAAATTA
* * *
10726031 TATTTTAAATAATTTATTTAATTT
1 TATTTTAAAT-ATATATTAAATTA
* * *
10726055 TATATTTATATATGTATTATATTA
1 TAT-TTTAAATATATATTAAATTA
10726079 ATAAAATTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
23 9 0.24
24 22 0.59
25 6 0.16
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (23 bp):
TATTTTAAATATATATTAAATTA
Found at i:10729478 original size:61 final size:62
Alignment explanation
Indices: 10729385--10729511 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 62
10729375 GATATTTGAA
* * * *
10729385 TTTTAGTTTACTAAGTTTTATATATTTCATAATT-TCATCATCTATGGTGAGAATTTGTGA-G
1 TTTTAATTTACTAAGTTATATATATTTCATAATTCT-ATCATCTATGGTGAAAATTTATGAGG
* * * * * *
10729446 TTTTAATTTACTATGTTATATGTGTTTTATAATTCTATTATTTATGGTGAAAATTTATGAGG
1 TTTTAATTTACTAAGTTATATATATTTCATAATTCTATCATCTATGGTGAAAATTTATGAGG
10729508 TTTT
1 TTTT
10729512 TACTAGATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
61 48 0.89
62 6 0.11
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.53
Consensus pattern (62 bp):
TTTTAATTTACTAAGTTATATATATTTCATAATTCTATCATCTATGGTGAAAATTTATGAGG
Found at i:10735687 original size:14 final size:14
Alignment explanation
Indices: 10735663--10735710 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
10735653 AGGTAGTTAG
*
10735663 GGTTTAGGGTTTGA
1 GGTTTAAGGTTTGA
* *
10735677 GATTTAAGGTTTAA
1 GGTTTAAGGTTTGA
10735691 GGTTTAAGGTTTGA
1 GGTTTAAGGTTTGA
10735705 GGTTTA
1 GGTTTA
10735711 GGATTTCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
GGTTTAAGGTTTGA
Found at i:10735688 original size:21 final size:21
Alignment explanation
Indices: 10735663--10735712 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
10735653 AGGTAGTTAG
*
10735663 GGTTTAGGGTTTGAGATTTAA
1 GGTTTAGGGTTTAAGATTTAA
* * *
10735684 GGTTTAAGGTTTAAGGTTTGA
1 GGTTTAGGGTTTAAGATTTAA
10735705 GGTTTAGG
1 GGTTTAGG
10735713 ATTTCATTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATTTAA
Found at i:10736723 original size:8 final size:9
Alignment explanation
Indices: 10736689--10736731 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 9
10736679 CTTTCTTTAA
10736689 TTTTCTTTTC
1 TTTT-TTTTC
10736699 TATTTTTTTCAC
1 T-TTTTTTT--C
10736711 TTTTTTTTC
1 TTTTTTTTC
10736720 TTTTTTTTC
1 TTTTTTTTC
10736729 TTT
1 TTT
10736732 CCCTCCTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 13 0.43
10 5 0.17
11 10 0.33
12 2 0.07
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:10737872 original size:17 final size:17
Alignment explanation
Indices: 10737837--10737875 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
10737827 CTTGTCAAAA
*
10737837 TTAAAGCAATGTTGGTT
1 TTAAACCAATGTTGGTT
10737854 TTAAACCAA-GTTGGATT
1 TTAAACCAATGTTGG-TT
10737871 TTAAA
1 TTAAA
10737876 ACCTTCACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (17 bp):
TTAAACCAATGTTGGTT
Found at i:10738163 original size:31 final size:31
Alignment explanation
Indices: 10738126--10738184 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
10738116 TTCTGGTGCT
** *
10738126 AACTAATCTAGGTTTAATTCTCTTTGGTACC
1 AACTAATCTAGACTTAATTCTCATTGGTACC
*
10738157 AACTAATTTAGACTTAATTCTCATTGGT
1 AACTAATCTAGACTTAATTCTCATTGGT
10738185 GCCAGCTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (31 bp):
AACTAATCTAGACTTAATTCTCATTGGTACC
Found at i:10738830 original size:18 final size:17
Alignment explanation
Indices: 10738802--10738920 Score: 98
Period size: 18 Copynumber: 6.6 Consensus size: 17
10738792 TTCTCCATTC
*
10738802 TTTCTTTTTTTTT-TCT
1 TTTCTTTTTTTTTCTTT
*
10738818 TTTCTTCTTTTTTTATTT
1 TTTCTT-TTTTTTTCTTT
*
10738836 TTTCTTTTTTTTCCCTTTT
1 TTTCTTTTTTTT-TC-TTT
*
10738855 TTTTTTTTTTTCATTCTTT
1 TTTCTTTTTTT--TTCTTT
*
10738874 TTTCTTTTTTTTCTCTTA
1 TTTCTTTTTTTT-TCTTT
10738892 TTTCTTTTTATCTTT-TTT
1 TTTCTTTTT-T-TTTCTTT
*
10738910 TATCTTTTTTT
1 TTTCTTTTTTT
10738921 ATATTCTATC
Statistics
Matches: 85, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
16 7 0.08
17 15 0.18
18 31 0.36
19 28 0.33
20 3 0.04
21 1 0.01
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTTTTTTTCTTT
Found at i:10738841 original size:38 final size:36
Alignment explanation
Indices: 10738802--10738920 Score: 109
Period size: 35 Copynumber: 3.3 Consensus size: 36
10738792 TTCTCCATTC
10738802 TTTCTTTTTTTTTTCTTTTCTTCTTTTTTTATTTTTT
1 TTTCTTTTTTTTTTCTTTT-TTCTTTTTTTATTTTTT
** * *
10738839 CTTT-TTTTTCCCTTT-TTTTTT-TTTTTTCATTCTTT
1 -TTTCTTTTT-TTTTTCTTTTTTCTTTTTTTATTTTTT
* * * *
10738874 TTTCTTTTTTTTCTCTTATTTCTTTTTATCTTTTTT
1 TTTCTTTTTTTTTTCTTTTTTCTTTTTTTATTTTTT
*
10738910 TATCTTTTTTT
1 TTTCTTTTTTT
10738921 ATATTCTATC
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
34 5 0.08
35 22 0.34
36 22 0.34
37 9 0.14
38 6 0.09
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (36 bp):
TTTCTTTTTTTTTTCTTTTTTCTTTTTTTATTTTTT
Found at i:10738845 original size:34 final size:33
Alignment explanation
Indices: 10738802--10738920 Score: 105
Period size: 34 Copynumber: 3.3 Consensus size: 33
10738792 TTCTCCATTC
10738802 TTTCTTTTTTTTTTCTTTTCTTCTTTTTTTATTT
1 TTTCTTTTTTTTTTCTTTT-TTCTTTTTTTATTT
** *
10738836 TTTCTTTTTTTTCCCTTTTTTTTTTTTTTTCATTCT
1 TTTCTTTTTTTTTTC-TTTTTTCTTTTTTT-ATT-T
*
10738872 TTT-TTCTTTTTTTTCTCTTATTTCTTTTTATCTTTTT
1 TTTCTT-TTTTTTTTCT-TT-TTTCTTTTT-T-TATTT
10738909 TTATCTTTTTTT
1 TT-TCTTTTTTT
10738921 ATATTCTATC
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
34 22 0.32
35 10 0.15
36 13 0.19
37 11 0.16
38 9 0.13
39 3 0.04
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (33 bp):
TTTCTTTTTTTTTTCTTTTTTCTTTTTTTATTT
Found at i:10738900 original size:1 final size:1
Alignment explanation
Indices: 10738806--10738885 Score: 52
Period size: 1 Copynumber: 80.0 Consensus size: 1
10738796 CCATTCTTTC
* * * * * *** ** *
10738806 TTTTTTTTTTCTTTTCTTCTTTTTTTATTTTTTCTTTTTTTTCCCTTTTTTTTTTTTTTTCATTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
10738871 TTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTT
10738886 CTCTTATTTC
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:10738922 original size:10 final size:9
Alignment explanation
Indices: 10738799--10738920 Score: 106
Period size: 10 Copynumber: 13.1 Consensus size: 9
10738789 GCATTCTCCA
10738799 TTCTTTCTTT
1 TTCTTT-TTT
*
10738809 TTTTTTTCTT
1 TTCTTTT-TT
10738819 TTCTTCTTTT
1 TTCTT-TTTT
*
10738829 TT-TATTTT
1 TTCTTTTTT
10738837 TTCTTTTTT
1 TTCTTTTTT
*
10738846 TTCCCTTTTT
1 TT-CTTTTTT
10738856 TT-TTTTTT
1 TTCTTTTTT
10738864 TTCATTCTTTT
1 TTC-TT-TTTT
10738875 TTCTTTTTT
1 TTCTTTTTT
* *
10738884 TTCTCTTAT
1 TTCTTTTTT
10738893 TTC-TTTTT
1 TTCTTTTTT
*
10738901 ATCTTTTTT
1 TTCTTTTTT
10738910 TATCTTTTTT
1 T-TCTTTTTT
10738920 T
1 T
10738921 ATATTCTATC
Statistics
Matches: 91, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
8 18 0.20
9 28 0.31
10 36 0.40
11 9 0.10
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:10740076 original size:14 final size:14
Alignment explanation
Indices: 10740038--10740078 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10740028 TCAGCACATA
*
10740038 AATATGAAATATAC
1 AATATGAAATATGC
*
10740052 AATATAAAATATGC
1 AATATGAAATATGC
*
10740066 AATATGTAATATG
1 AATATGAAATATG
10740079 TAACACACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.32
Consensus pattern (14 bp):
AATATGAAATATGC
Found at i:10741366 original size:22 final size:21
Alignment explanation
Indices: 10741328--10741410 Score: 55
Period size: 21 Copynumber: 3.8 Consensus size: 21
10741318 CAATCATTCA
**
10741328 TTTCTTTTTCTTTTTTTTTCT
1 TTTCTTTTTCTCATTTTTTCT
10741349 TTTCTTTGTTCTCATTTTTTTCT
1 TTTCTTT-TTCTCA-TTTTTTCT
* *
10741372 TCTTATTTTTTTC-TTTATTT-T
1 T-TTCTTTTTCTCATTT-TTTCT
10741393 TTTCCTTTATT-TCATTTT
1 TTT-CTTT-TTCTCATTTT
10741411 CTTTTTTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
20 2 0.04
21 18 0.36
22 12 0.24
23 13 0.26
24 5 0.10
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.78
Consensus pattern (21 bp):
TTTCTTTTTCTCATTTTTTCT
Found at i:10741379 original size:14 final size:14
Alignment explanation
Indices: 10741328--10741396 Score: 58
Period size: 14 Copynumber: 5.3 Consensus size: 14
10741318 CAATCATTCA
* *
10741328 TTTCTTTTTCTTTT
1 TTTCTTCTTATTTT
*
10741342 TTT-TTC-T-TTTC
1 TTTCTTCTTATTTT
* *
10741353 TTTGTTCTCATTTT
1 TTTCTTCTTATTTT
10741367 TTTCTTCTTATTTT
1 TTTCTTCTTATTTT
10741381 TTTC-T-TTATTTT
1 TTTCTTCTTATTTT
10741393 TTTC
1 TTTC
10741397 CTTTATTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 6 0.13
12 15 0.33
13 3 0.07
14 22 0.48
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.80
Consensus pattern (14 bp):
TTTCTTCTTATTTT
Found at i:10741393 original size:27 final size:25
Alignment explanation
Indices: 10741333--10741419 Score: 74
Period size: 26 Copynumber: 3.5 Consensus size: 25
10741323 ATTCATTTCT
* * *
10741333 TTTTC-TTTTTTTTTCTTTTCTTTG
1 TTTTCTTTTTTTTTTCCTTTATTTA
* *
10741357 TTCTCATTTTTTTCTT-C-TTATTT-
1 TTTTC-TTTTTTTTTTCCTTTATTTA
10741380 TTTTCTTTATTTTTTTCCTTTATTTCA
1 TTTTCTTT-TTTTTTTCCTTTATTT-A
10741407 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
10741420 AAATTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
22 3 0.06
23 10 0.20
24 10 0.20
25 6 0.12
26 13 0.26
27 8 0.16
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (25 bp):
TTTTCTTTTTTTTTTCCTTTATTTA
Found at i:10745737 original size:35 final size:35
Alignment explanation
Indices: 10745698--10745767 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
10745688 ACTAAAATAC
*
10745698 TTATAAATTTTGGTTTAAAAAAATATAA-TATAAAA
1 TTATAAACTTTGGTTTAAAAAAATA-AAGTATAAAA
*
10745733 TTATAAACTTTGGTTTGAAAAAATAAAGTATAAAA
1 TTATAAACTTTGGTTTAAAAAAATAAAGTATAAAA
10745768 AAAGTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 2 0.06
35 30 0.94
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (35 bp):
TTATAAACTTTGGTTTAAAAAAATAAAGTATAAAA
Found at i:10747142 original size:18 final size:18
Alignment explanation
Indices: 10747097--10747143 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
10747087 TCTTCCATTT
10747097 TTTTATTTTTTGTTTTAAA
1 TTTT-TTTTTTGTTTTAAA
* *
10747116 TTTTGTTTTTGTTTT-TA
1 TTTTTTTTTTGTTTTAAA
10747133 TTGTTTTTTTT
1 TT-TTTTTTTT
10747144 AGGATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 4 0.17
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTAAA
Found at i:10747162 original size:31 final size:30
Alignment explanation
Indices: 10747094--10747171 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 30
10747084 CTTTCTTCCA
10747094 TTTTTTTATT-TTTTGTTTTAAATTTTGTTT
1 TTTTTTTATTGTTTT-TTTTAAATTTTGTTT
*
10747124 TTGTTTTTATTGTTTTTTTTAGGATTTT-TTT
1 TT-TTTTTATTGTTTTTTTTA-AATTTTGTTT
* *
10747155 CTTTTTTTTTTGGTTTT
1 -TTTTTTTATTGTTTTT
10747172 GTTGTATAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 2 0.05
31 28 0.68
32 11 0.27
ACGTcount: A:0.09, C:0.01, G:0.10, T:0.79
Consensus pattern (30 bp):
TTTTTTTATTGTTTTTTTTAAATTTTGTTT
Found at i:10748859 original size:26 final size:27
Alignment explanation
Indices: 10748797--10748860 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
10748787 TGGAATGTGG
10748797 TTTAGGGTTT-GAAAGGTGGTTTAGGA
1 TTTAGGGTTTAGAAAGGTGGTTTAGGA
* *
10748823 TTT-GAGATTTAG-AAGTTGGTTTAGGA
1 TTTAG-GGTTTAGAAAGGTGGTTTAGGA
10748849 TTTAGGGTTTAG
1 TTTAGGGTTTAG
10748861 GATTTAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 1 0.03
26 29 0.91
27 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.42
Consensus pattern (27 bp):
TTTAGGGTTTAGAAAGGTGGTTTAGGA
Found at i:10748903 original size:7 final size:7
Alignment explanation
Indices: 10748840--10748921 Score: 58
Period size: 7 Copynumber: 11.7 Consensus size: 7
10748830 TTTAGAAGTT
10748840 GGTTTAG
1 GGTTTAG
*
10748847 GATTTAG
1 GGTTTAG
10748854 GGTTTAG
1 GGTTTAG
* *
10748861 GATTTAA
1 GGTTTAG
* *
10748868 AGTTTAA
1 GGTTTAG
*
10748875 GGTTTTG
1 GGTTTAG
10748882 GGTTT-G
1 GGTTTAG
* *
10748888 AGATATAG
1 -GGTTTAG
10748896 GGTTTAG
1 GGTTTAG
10748903 GGTTTAG
1 GGTTTAG
**
10748910 TATTTAG
1 GGTTTAG
10748917 GGTTT
1 GGTTT
10748922 CATAAAATTA
Statistics
Matches: 56, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
6 1 0.02
7 54 0.96
8 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:10749936 original size:21 final size:21
Alignment explanation
Indices: 10749903--10749942 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10749893 ATTTTTTTTA
10749903 TTTTTCATGTTTTTCTTTCTT
1 TTTTTCATGTTTTTCTTTCTT
* *
10749924 TTTTTTATTTTTTTCTTTC
1 TTTTTCATGTTTTTCTTTC
10749943 CCTCTCTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTTCATGTTTTTCTTTCTT
Found at i:10767286 original size:32 final size:33
Alignment explanation
Indices: 10767240--10767313 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
10767230 TTGTAAAAAA
* *
10767240 AAATTTTTTAAAGAAAAAA-AATTCTTGATAGTT
1 AAATTTATT-AAGAAAAAATAATTCTTGATAGGT
* **
10767273 AAGTTTATTAAGAAAAAATGGTTCTTGATAGGT
1 AAATTTATTAAGAAAAAATAATTCTTGATAGGT
10767306 AAATTTAT
1 AAATTTAT
10767314 ATACTTATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 9 0.26
33 25 0.74
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.39
Consensus pattern (33 bp):
AAATTTATTAAGAAAAAATAATTCTTGATAGGT
Found at i:10771432 original size:3 final size:3
Alignment explanation
Indices: 10771424--10771457 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10771414 AATATTTTTC
10771424 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10771458 TTATTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10771462 original size:3 final size:3
Alignment explanation
Indices: 10771456--10771502 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
10771446 ATAATAATAA
10771456 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10771503 AAATACAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10771957 original size:24 final size:23
Alignment explanation
Indices: 10771909--10771958 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
10771899 AGATTTGAAA
10771909 ATTTATATAAAATAAAAATAAATT
1 ATTTATATAAAATAAAAAT-AATT
*
10771933 ATTTATAATAAATTCAAAAAT-ATT
1 ATTTAT-ATAAAAT-AAAAATAATT
10771957 AT
1 AT
10771959 ATAACTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 11 0.48
25 6 0.26
26 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTTATATAAAATAAAAATAATT
Found at i:10774292 original size:37 final size:37
Alignment explanation
Indices: 10774251--10774322 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 37
10774241 ATAACTTCAA
*
10774251 TAGCTTCAAGATGTCATTC-TCATCAAC-TATTGAATAT
1 TAGCTTCAAAATGTC-TTCTTCATC-ACTTATTGAATAT
10774288 TAGCTTCAAAATGTCTTCTTCATCACTTATTGAAT
1 TAGCTTCAAAATGTCTTCTTCATCACTTATTGAAT
10774323 GTTACCTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (37 bp):
TAGCTTCAAAATGTCTTCTTCATCACTTATTGAATAT
Found at i:10777831 original size:3 final size:3
Alignment explanation
Indices: 10777823--10777880 Score: 89
Period size: 3 Copynumber: 19.3 Consensus size: 3
10777813 AAGAAACTAC
** *
10777823 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG GGG AAG AGG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
10777871 AAG AAG AAG A
1 AAG AAG AAG A
10777881 GAACAGAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10783293 original size:22 final size:23
Alignment explanation
Indices: 10783268--10783315 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
10783258 CTTTGTTTTT
10783268 TTAA-AAATATTTTTTAAA-AAAA
1 TTAAGAAAT-TTTTTTAAACAAAA
*
10783290 TTAAGGAATTTTTTTAAACAAAA
1 TTAAGAAATTTTTTTAAACAAAA
10783313 TTA
1 TTA
10783316 TTTTTGTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
TTAAGAAATTTTTTTAAACAAAA
Found at i:10787962 original size:60 final size:60
Alignment explanation
Indices: 10787827--10788028 Score: 230
Period size: 61 Copynumber: 3.3 Consensus size: 60
10787817 ATGCAAGCCC
* * *
10787827 TCCAATATGTTGGTAAGGCTTT-TTATTCTATTGAAAAATTCA-TTCTTGGAAACTTGAACCCT
1 TCCAATATATTGGTAAGG-TTTATT-TT-TATTGAAAAATTCATTTCTTAGAAATTTGAA-CCT
* * * * *
10787889 T-CAATATGTTGGTAAGGTTTATTTTTATTCAAAAATTCATTTGTTTGAAATTTGAAGCT
1 TCCAATATATTGGTAAGGTTTATTTTTATTGAAAAATTCATTTCTTAGAAATTTGAACCT
* * *
10787948 TCCAATAAATTGGTAAGGTTCATTTTTATTTGAAAAATTCATTTCTTAGAATTTTGAACCT
1 TCCAATATATTGGTAAGGTTTATTTTTA-TTGAAAAATTCATTTCTTAGAAATTTGAACCT
*
10788009 TCTAATATATTGGTAAGGTT
1 TCCAATATATTGGTAAGGTT
10788029 CACATTTATT
Statistics
Matches: 121, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
59 16 0.13
60 41 0.34
61 63 0.52
62 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (60 bp):
TCCAATATATTGGTAAGGTTTATTTTTATTGAAAAATTCATTTCTTAGAAATTTGAACCT
Found at i:10788142 original size:61 final size:60
Alignment explanation
Indices: 10788070--10788256 Score: 200
Period size: 61 Copynumber: 3.1 Consensus size: 60
10788060 AGTAAAAAGT
* *
10788070 ATTTTTCAAATAAAAATGAACCTTACCAACTTATTGGAAGGTTCAAATTTTCAAGAAATGA
1 ATTTTTTAAATAAAAATGAACCTTACCAACATATT-GAAGGTTCAAATTTTCAAGAAATGA
* * * * **
10788131 ATTTTTTAAATAAAAATGAATCTTGCCAACATATTTG-AGGTTTAAA-TTT-AAAAAAAAA
1 ATTTTTTAAATAAAAATGAACCTTACCAACATA-TTGAAGGTTCAAATTTTCAAGAAATGA
* * * *
10788189 ATTTTTTTGAATAAAAATGAACCTTACCAACATATTCAAGGGTTCAAGTTTCCAAGAAATGA
1 A-TTTTTTAAATAAAAATGAACCTTACCAACATATTGAA-GGTTCAAATTTTCAAGAAATGA
*
10788251 AATTTT
1 ATTTTT
10788257 CAATAGAATA
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
58 9 0.09
59 33 0.33
60 14 0.14
61 36 0.36
62 9 0.09
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (60 bp):
ATTTTTTAAATAAAAATGAACCTTACCAACATATTGAAGGTTCAAATTTTCAAGAAATGA
Found at i:10788209 original size:59 final size:61
Alignment explanation
Indices: 10788070--10788224 Score: 190
Period size: 59 Copynumber: 2.6 Consensus size: 61
10788060 AGTAAAAAGT
* * * **
10788070 ATTTTTCAAATAAAAATGAACCTTACCAACTTATTGGAAGGTTCAAATTTTCAAGAAATGA
1 ATTTTTTAAATAAAAATGAACCTTACCAACATATTGGAAGGTTCAAATTTTCAAAAAAAAA
* * * *
10788131 ATTTTTTAAATAAAAATGAATCTTGCCAACATATTTG-AGGTTTAAA-TTT-AAAAAAAAA
1 ATTTTTTAAATAAAAATGAACCTTACCAACATATTGGAAGGTTCAAATTTTCAAAAAAAAA
*
10788189 ATTTTTTTGAATAAAAATGAACCTTACCAACATATT
1 A-TTTTTTAAATAAAAATGAACCTTACCAACATATT
10788225 CAAGGGTTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 7 0.09
59 34 0.42
60 8 0.10
61 32 0.40
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (61 bp):
ATTTTTTAAATAAAAATGAACCTTACCAACATATTGGAAGGTTCAAATTTTCAAAAAAAAA
Found at i:10794593 original size:22 final size:21
Alignment explanation
Indices: 10794559--10794610 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
10794549 ATTTTCCCTT
10794559 TTTTATTTATTTTT-TGCTTTG
1 TTTT-TTTATTTTTATGCTTTG
*
10794580 ATTTTTTTATTTTTATGTTTTG
1 -TTTTTTTATTTTTATGCTTTG
10794602 TTTTTTTAT
1 TTTTTTTAT
10794611 ATTATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.79
Consensus pattern (21 bp):
TTTTTTTATTTTTATGCTTTG
Found at i:10794639 original size:14 final size:14
Alignment explanation
Indices: 10794612--10794649 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
10794602 TTTTTTTATA
10794612 TTATA-TTT-ATAT
1 TTATATTTTAATAT
10794624 TTATATTTTAATAT
1 TTATATTTTAATAT
10794638 TTATTATTTTAA
1 TTA-TATTTTAA
10794650 AAGGTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 3 0.13
14 7 0.30
15 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATTTTAATAT
Found at i:10794851 original size:18 final size:19
Alignment explanation
Indices: 10794776--10794856 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 19
10794766 ATATATTTTC
10794776 TATAATTGCAAT-ATTATAT
1 TATAATTGC-ATGATTATAT
10794795 T-TAATTGCATGA-TAT-T
1 TATAATTGCATGATTATAT
*
10794811 TAATATATATGCATCATATTATAT
1 T-ATA-AT-TGCAT--GATTATAT
10794835 TATAATTGCATGA-TATAT
1 TATAATTGCATGATTATAT
10794853 TATA
1 TATA
10794857 TTATTATATG
Statistics
Matches: 51, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
16 2 0.04
17 5 0.10
18 19 0.37
19 4 0.08
20 5 0.10
21 5 0.10
22 3 0.06
23 6 0.12
24 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (19 bp):
TATAATTGCATGATTATAT
Found at i:10804494 original size:10 final size:9
Alignment explanation
Indices: 10804478--10804510 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
10804468 TACTACATTT
10804478 TAAAAAAAA
1 TAAAAAAAA
10804487 TAAAAAAAA
1 TAAAAAAAA
10804496 T-AAAAAAA
1 TAAAAAAAA
10804504 TAAAAAA
1 TAAAAAA
10804511 TGAAAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:10804517 original size:9 final size:8
Alignment explanation
Indices: 10804480--10804510 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
10804470 CTACATTTTA
10804480 AAAAAAAT
1 AAAAAAAT
10804488 AAAAAAAAT
1 -AAAAAAAT
10804497 AAAAAAAT
1 AAAAAAAT
10804505 AAAAAA
1 AAAAAA
10804511 TGAAAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:10804517 original size:17 final size:16
Alignment explanation
Indices: 10804479--10804510 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10804469 ACTACATTTT
10804479 AAAAAAAATAAAAAAA
1 AAAAAAAATAAAAAAA
10804495 ATAAAAAAATAAAAAA
1 A-AAAAAAATAAAAAA
10804511 TGAAAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAAAAATAAAAAAA
Found at i:10805760 original size:129 final size:129
Alignment explanation
Indices: 10805551--10805954 Score: 412
Period size: 129 Copynumber: 3.1 Consensus size: 129
10805541 ATTTAGAAAA
* * *
10805551 GCTTTATTTATTTTTCAAAGTTGTTGAA-CCTCTGTTTAGAGGAGTCTTATTTATTTTTAAAATC
1 GCTTTATTTATTTTTCAAAGTTGTT-AAGCCTCTGTTTAAAGGAGCCTTATTTATTTTTAAAGTC
* * *
10805615 ATTAAGCCTCTATTTAGATGAACTTTATTTATTTTTCAAAAGTTGTTTAACCTCTATTTAAGGGG
65 ATTGAGCCTCTGTTTAGATGAGCTTTATTTATTTTTCAAAAGTTGTTTAACCTCTATTTAAGGGG
* *
10805680 GCTTTATTTATTTTTCAAAGTTGTTAAGCCTCTGTTTAAAGCAGCCTTATTTATTTTTAAAGTAA
1 GCTTTATTTATTTTTCAAAGTTGTTAAGCCTCTGTTTAAAGGAGCCTTATTTATTTTTAAAGTCA
* * * * *
10805745 TTGAGCTTCTGTTTAGATGAGCTTTATTCT-TTTATCAGAAGTCG--TAAGCCTCTATTT-AGAG
66 TTGAGCCTCTGTTTAGATGAGCTTTATT-TATTTTTCAAAAGTTGTTTAA-CCTCTATTTAAGGG
10805806 G
129 G
** * * * * *
10805807 AATCTTATTTATTTTT-AAAGTTGTTGAGCCTCTATTTCAAGGTGCCTTATTTACTTTTCAAAAG
1 GCT-TTATTTATTTTTCAAAGTTGTTAAGCCTCTGTTTAAAGGAGCCTTATTTA-TTTT-TAAAG
* * * * * * *
10805871 TCGTTGAGCCTCTGTTTAGAGGTGCCTTATTTATTTTT--AAAGTTATTGAACCTCTGTTTATA-
63 TCATTGAGCCTCTGTTTAGATGAGCTTTATTTATTTTTCAAAAGTTGTTTAACCTCTATTTA-AG
*
10805933 GGT
127 GGG
* *
10805936 GCTTTATTCATTTATCAAA
1 GCTTTATTTATTTTTCAAA
10805955 AGTCGTGAGT
Statistics
Matches: 224, Mismatches: 39, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
127 44 0.20
128 46 0.21
129 132 0.59
130 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (129 bp):
GCTTTATTTATTTTTCAAAGTTGTTAAGCCTCTGTTTAAAGGAGCCTTATTTATTTTTAAAGTCA
TTGAGCCTCTGTTTAGATGAGCTTTATTTATTTTTCAAAAGTTGTTTAACCTCTATTTAAGGGG
Found at i:10805903 original size:214 final size:211
Alignment explanation
Indices: 10805509--10805930 Score: 489
Period size: 214 Copynumber: 2.0 Consensus size: 211
10805499 ATTGTTGAAG
** * *
10805509 AGCCTTATTTTTTTTAAAGTCGTTGAGTCTCTATTTAGAAAAGCTTTATTTATTTTTCAAAGTTG
1 AGCCTTATTTTTTTTAAAGTAATTGAGTCTCTATTTAGAAAAGCTTTATTTATTTATCAAAGTCG
* * *
10805574 TTGAACCTCTGTTTAGAGGAGTCTTATTTATTTTTAAAATCATTAAGCCTCTATTTAGATGAACT
66 TTGAACCTCTATTTAGAGGAATCTTATTTATTTTTAAAATCATTAAGCCTCTATTTAGATG-ACC
* * * * *
10805639 TTATTTATTTTTCAAAAGTTGTTTAACCTCTATTTAAGGGGGCTTTATTTATTTTTCAAAGTTGT
130 TTATTTACTTTTCAAAAGTCGTTGAACCTCTATTTAAGGGGGCCTTATTTATTTTT-AAAGTTAT
10805704 T-AAGCCTCTGTTTAAAGC
194 TGAA-CCTCTGTTTAAAGC
* **
10805722 AGCCTTATTTATTTTTAAAGTAATTGAG-CTTCTGTTTAGATGAGCTTTATTCT-TTTATCAGAA
1 AGCCTTATTT-TTTTTAAAGTAATTGAGTC-TCTATTTAGAAAAGCTTTATT-TATTTATCA-AA
* ** *
10805785 GTCG-T-AAGCCTCTATTTAGAGGAATCTTATTTATTTTTAAAGTTGTTGAGCCTCTATTTCAAG
62 GTCGTTGAA-CCTCTATTTAGAGGAATCTTATTTATTTTTAAAATCATTAAGCCTCTATTT--AG
* * * *
10805848 GTG-CCTTATTTACTTTTCAAAAGTCGTTGAGCCTCTGTTT-AGAGGTGCCTTATTTATTTTTAA
124 ATGACCTTATTTACTTTTCAAAAGTCGTTGAACCTCTATTTAAG-GGGGCCTTATTTATTTTTAA
10805911 AGTTATTGAACCTCTGTTTA
188 AGTTATTGAACCTCTGTTTA
10805931 TAGGTGCTTT
Statistics
Matches: 177, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
213 33 0.19
214 134 0.76
215 6 0.03
216 4 0.02
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (211 bp):
AGCCTTATTTTTTTTAAAGTAATTGAGTCTCTATTTAGAAAAGCTTTATTTATTTATCAAAGTCG
TTGAACCTCTATTTAGAGGAATCTTATTTATTTTTAAAATCATTAAGCCTCTATTTAGATGACCT
TATTTACTTTTCAAAAGTCGTTGAACCTCTATTTAAGGGGGCCTTATTTATTTTTAAAGTTATTG
AACCTCTGTTTAAAGC
Found at i:10805909 original size:171 final size:171
Alignment explanation
Indices: 10805510--10805990 Score: 521
Period size: 171 Copynumber: 2.8 Consensus size: 171
10805500 TTGTTGAAGA
* * * * * *
10805510 GCCTTATTT--TTTTTAAAGTCGTTGAGTCTCTATTTAGAA-AAGCTTTATTTATTTTTCAAAGT
1 GCCTTATTTACTTTTCAAAGTCGTTAAGCCTCTGTTTA-AAGCAGCCTTATTTATTTTT-AAAGT
** * * * *
10805572 TGTTGAACCTCTGTTTAGAGGAG-TCTTATTTATTT-TTAAAA-TCATTAAGCCTCTATTTAGAT
64 AATTGAACCTCTGTTTAGAGGAGCT-TTATTCATTTATCAAAAGTC-GTAAGCCTCTATTTAGAG
*
10805634 GAACTTTATTTATTTTTCAAAAGTTGTTTAACCTCTATTTAAGGGG
127 GAACTTTATTTATTTTT-AAAAGTTGTTGAACCTCTATTTAAGGGG
* * *
10805680 GCTTTATTTATTTTTCAAAGTTGTTAAGCCTCTGTTTAAAGCAGCCTTATTTATTTTTAAAGTAA
1 GCCTTATTTACTTTTCAAAGTCGTTAAGCCTCTGTTTAAAGCAGCCTTATTTATTTTTAAAGTAA
* * * * *
10805745 TTGAGCTTCTGTTTAGATGAGCTTTATTCTTTTATCAGAAGTCGTAAGCCTCTATTTAGAGGAA-
66 TTGAACCTCTGTTTAGAGGAGCTTTATTCATTTATCAAAAGTCGTAAGCCTCTATTTAGAGGAAC
* *
10805809 TCTTATTTATTTTT-AAAGTTGTTGAGCCTCTATTTCAA-GGT
131 T-TTATTTATTTTTAAAAGTTGTTGAACCTCTATTT-AAGGGG
* * ** *
10805850 GCCTTATTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGTGCCTTATTTATTTTTAAAGTT
1 GCCTTATTTACTTTTC-AAAGTCGTTAAGCCTCTGTTTAAAGCAGCCTTATTTATTTTTAAAGTA
* * * * * *
10805915 ATTGAACCTCTGTTTATAGGTGCTTTATTCATTTATCAAAAGTCGTGAGTCTCTATTTAGGGGAG
65 ATTGAACCTCTGTTTAGAGGAGCTTTATTCATTTATCAAAAGTCGTAAGCCTCTATTTAGAGGAA
10805980 CTTTATTTATT
130 CTTTATTTATT
10805991 CATTGGGCCT
Statistics
Matches: 260, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
170 43 0.17
171 141 0.54
172 74 0.28
173 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (171 bp):
GCCTTATTTACTTTTCAAAGTCGTTAAGCCTCTGTTTAAAGCAGCCTTATTTATTTTTAAAGTAA
TTGAACCTCTGTTTAGAGGAGCTTTATTCATTTATCAAAAGTCGTAAGCCTCTATTTAGAGGAAC
TTTATTTATTTTTAAAAGTTGTTGAACCTCTATTTAAGGGG
Found at i:10805983 original size:214 final size:212
Alignment explanation
Indices: 10805509--10805990 Score: 487
Period size: 214 Copynumber: 2.3 Consensus size: 212
10805499 ATTGTTGAAG
* * * * *
10805509 AGCCTTATT-TTTTTTAAAGTCGTTGAGTCTCTATTTAGAAAAGCTTTATTTATTTTTCAAAGTT
1 AGCCTTATTCATTTTAAAAGTCG-TGAGTCTCTATTTAGAAGAGCTTTATTTATTTATCAAAGTC
* *
10805573 GTTGAACCTCTGTTTAGAGGAGTCTTATTTATTTTTAAAATCATTAAGCCTCTATTTAGATGAAC
65 GTTGAACCTCTATTTAGAGGAATCTTATTTATTTTTAAAATCATTAAGCCTCTATTTAGATG-AC
* * * * * *
10805638 TTTATTTATTTTTCAAAAGTTGTTTAACCTCTATTTAAGGGGGCTTTATTTATTTTTCAAAGTTG
129 CTTATTTACTTTTCAAAAGTCGTTGAACCTCTATTTAAGGGGGCCTTATTTATTTTTCAAAGTTA
10805703 TTAAGCCTCTGTTTAAAGC
194 TTAAGCCTCTGTTTAAAGC
* * ** * *
10805722 AGCCTTATTTATTTTTAAAGTAATTGAG-CTTCTGTTTAGATGAGCTTTATTCT-TTTATCAGAA
1 AGCCTTATTCATTTTAAAAGT-CGTGAGTC-TCTATTTAGAAGAGCTTTATT-TATTTATCA-AA
* ** *
10805785 GTCG-T-AAGCCTCTATTTAGAGGAATCTTATTTATTTTTAAAGTTGTTGAGCCTCTATTTCAAG
62 GTCGTTGAA-CCTCTATTTAGAGGAATCTTATTTATTTTTAAAATCATTAAGCCTCTATTT--AG
* * * *
10805848 GTG-CCTTATTTACTTTTCAAAAGTCGTTGAGCCTCTGTTT-AGAGGTGCCTTATTTATTTTT-A
124 ATGACCTTATTTACTTTTCAAAAGTCGTTGAACCTCTATTTAAG-GGGGCCTTATTTATTTTTCA
* *
10805910 AAGTTATTGAA-CCTCTGTTTATAGG
188 AAGTTATT-AAGCCTCTGTTTAAAGC
* * **
10805935 TGCTTTATTCATTTATCAAAAGTCGTGAGTCTCTATTTAGGGGAGCTTTATTTATT
1 AGCCTTATTCATTT-T-AAAAGTCGTGAGTCTCTATTTAGAAGAGCTTTATTTATT
10805991 CATTGGGCCT
Statistics
Matches: 220, Mismatches: 35, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
213 46 0.21
214 158 0.72
215 12 0.05
216 4 0.02
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (212 bp):
AGCCTTATTCATTTTAAAAGTCGTGAGTCTCTATTTAGAAGAGCTTTATTTATTTATCAAAGTCG
TTGAACCTCTATTTAGAGGAATCTTATTTATTTTTAAAATCATTAAGCCTCTATTTAGATGACCT
TATTTACTTTTCAAAAGTCGTTGAACCTCTATTTAAGGGGGCCTTATTTATTTTTCAAAGTTATT
AAGCCTCTGTTTAAAGC
Found at i:10806258 original size:15 final size:15
Alignment explanation
Indices: 10806238--10806270 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
10806228 TTTGTTAATT
10806238 AAAAAAAT-AAAAATA
1 AAAAAAATGAAAAA-A
10806253 AAAAAAATGAAAAAA
1 AAAAAAATGAAAAAA
10806268 AAA
1 AAA
10806271 TCAAGTGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAAAAATGAAAAAA
Found at i:10814475 original size:21 final size:21
Alignment explanation
Indices: 10814446--10814507 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
10814436 AAAAAGAAAA
*
10814446 GGAGTTTGAAAGGGAGGAGTT
1 GGAGGTTGAAAGGGAGGAGTT
* * *
10814467 GGAGGTTGAAA-AGAAGAGCTA
1 GGAGGTTGAAAGGGAGGAG-TT
10814488 GG-GGTTGAAAGGGAGGAGTT
1 GGAGGTTGAAAGGGAGGAGTT
10814508 AGAGTTGTCG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.32, C:0.02, G:0.47, T:0.19
Consensus pattern (21 bp):
GGAGGTTGAAAGGGAGGAGTT
Found at i:10814514 original size:20 final size:20
Alignment explanation
Indices: 10814451--10814514 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
10814441 GAAAAGGAGT
*
10814451 TTGAAAGGGAGGAGTTGGAGG
1 TTGAAAGGGAGGAGTTAGA-G
* * * *
10814472 TTGAAA-AGAAGAGCTAGGGG
1 TTGAAAGGGAGGAGTTA-GAG
10814492 TTGAAAGGGAGGAGTTAGAG
1 TTGAAAGGGAGGAGTTAGAG
10814512 TTG
1 TTG
10814515 TCGTATGGAA
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.33, C:0.02, G:0.45, T:0.20
Consensus pattern (20 bp):
TTGAAAGGGAGGAGTTAGAG
Found at i:10816995 original size:20 final size:20
Alignment explanation
Indices: 10816972--10817026 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
10816962 ATAGGTATCT
10816972 TACTATGTGTACAAACATCC
1 TACTATGTGTACAAACATCC
* * *
10816992 TACTATGTGTGCAGACATTC
1 TACTATGTGTACAAACATCC
10817012 TACTATGTGGTACAA
1 TACTATGT-GTACAA
10817027 GCAATTTGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (20 bp):
TACTATGTGTACAAACATCC
Found at i:10822571 original size:23 final size:25
Alignment explanation
Indices: 10822545--10822597 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
10822535 AGAATAATTT
*
10822545 TTAAACATAAAGCATAAAA-G-TCC
1 TTAAACATAAACCATAAAATGATCC
*
10822568 TTAAACATAAACCCTAAAATGATCC
1 TTAAACATAAACCATAAAATGATCC
10822593 TTAAA
1 TTAAA
10822598 TTTAAATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 17 0.65
24 1 0.04
25 8 0.31
ACGTcount: A:0.51, C:0.19, G:0.06, T:0.25
Consensus pattern (25 bp):
TTAAACATAAACCATAAAATGATCC
Found at i:10822640 original size:12 final size:12
Alignment explanation
Indices: 10822623--10822649 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10822613 TAAAAAATCA
10822623 AAATAATCTCTC
1 AAATAATCTCTC
10822635 AAATAATCTCTC
1 AAATAATCTCTC
10822647 AAA
1 AAA
10822650 ACATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATAATCTCTC
Found at i:10828782 original size:34 final size:34
Alignment explanation
Indices: 10828733--10828821 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 34
10828723 CAGATTTTTA
* * * *
10828733 ATTTAAAAATTTCATTGCCTCCGGTTAGATGAGCT
1 ATTT-AAAGTTTCATTGCCTCCGGTCAAATAAGCT
* **
10828768 ATTTAAAGTTTCATTGCTTGTGGTCAAATAAGCT
1 ATTTAAAGTTTCATTGCCTCCGGTCAAATAAGCT
* *
10828802 ATTTAAAGTGTCATAGCCTC
1 ATTTAAAGTTTCATTGCCTC
10828822 TAGTTAAAGG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
34 39 0.91
35 4 0.09
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (34 bp):
ATTTAAAGTTTCATTGCCTCCGGTCAAATAAGCT
Found at i:10829015 original size:34 final size:34
Alignment explanation
Indices: 10828969--10829087 Score: 118
Period size: 34 Copynumber: 3.4 Consensus size: 34
10828959 TGGATTTTTA
10828969 ATTTAAAGTTTCATTACTTTTGGTCAGAGGAGCT
1 ATTTAAAGTTTCATTACTTTTGGTCAGAGGAGCT
* *
10829003 ATTTAAAATTTCATTGCCTTTT-GTCAGATGG-GCTTT
1 ATTTAAAGTTTCATT-ACTTTTGGTCAGA-GGAGC--T
* * * *
10829039 CTTTAAAGTGTCA-TAGCTTTTGGTCAGAGGAACC
1 ATTTAAAGTTTCATTA-CTTTTGGTCAGAGGAGCT
10829073 ATTTAAAGTTTCATT
1 ATTTAAAGTTTCATT
10829088 GCCTCTAGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
34 33 0.49
35 16 0.24
36 18 0.27
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (34 bp):
ATTTAAAGTTTCATTACTTTTGGTCAGAGGAGCT
Found at i:10829065 original size:36 final size:34
Alignment explanation
Indices: 10828969--10829170 Score: 117
Period size: 34 Copynumber: 5.8 Consensus size: 34
10828959 TGGATTTTTA
10828969 ATTTAAAGTTTCATTA-CTTTTGGTCAGAGGAGCT
1 ATTTAAAGTTTCA-TAGCTTTTGGTCAGAGGAGCT
* *
10829003 ATTTAAAATTTCATTGCCTTTT-GTCAGATGG-GCTTT
1 ATTTAAAGTTTCATAG-CTTTTGGTCAGA-GGAGC--T
* * * *
10829039 CTTTAAAGTGTCATAGCTTTTGGTCAGAGGAACC
1 ATTTAAAGTTTCATAGCTTTTGGTCAGAGGAGCT
* * * * * ** *
10829073 ATTTAAAGTTTCATTGCCTCTAGTTAGAATAGGT
1 ATTTAAAGTTTCATAGCTTTTGGTCAGAGGAGCT
* ** *
10829107 ATTTAAAGTGTCATAG-TTTCTAATTAGAGGAGCCCT
1 ATTTAAAGTTTCATAGCTTT-TGGTCAGAGGAG--CT
*
10829143 -TTTCAAAGTTTCATAGCCTTTGGTCAGA
1 ATTT-AAAGTTTCATAGCTTTTGGTCAGA
10829171 TGAGTTTTTT
Statistics
Matches: 123, Mismatches: 33, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
33 2 0.02
34 65 0.53
35 17 0.14
36 37 0.30
37 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (34 bp):
ATTTAAAGTTTCATAGCTTTTGGTCAGAGGAGCT
Found at i:10829327 original size:305 final size:305
Alignment explanation
Indices: 10828768--10829333 Score: 819
Period size: 305 Copynumber: 1.9 Consensus size: 305
10828758 TAGATGAGCT
* * * *
10828768 ATTTAAAGTTTCATTGCTTGTGGTCAAATAAGCTATTTAAAGTGTCATAGCCTCTAGTTAAAGGA
1 ATTTAAAGTTTCATTGCCTCTAGTCAAATAAGCTATTTAAAGTGTCATAGCCTCTAATTAAAGGA
** * *
10828833 GTTCTTTTCAAAGTTTCATAGTCTCTAGTCAGAGGAACTTTTTAATTTTAAAAACCTTTAGTTAG
66 GCCCTTTTCAAAGTTTCATAGCCTCTAGTCAGAGGAACTTTTTAATTTTAAAAACCTTTACTTAG
*
10828898 AAGGCTCCATCCAAATTAAGCATGATTTGTAAGACCAAATGGCATAATCTATAAGTCTTCTTGGA
131 AAGGCTCCATCAAAATTAAGCATGATTTGTAAGACCAAATGGCATAATCTATAAGTCTTCTTGGA
* * * * *
10828963 TTTTTAATTTAAAGTTTCATTACTTTTGGTCAGAGGAGCTATTTAAAATTTCATTGCCTTTTGTC
196 TTTTTAATTTAAAGTTTCATTACCTCTGGTCAAAGAAGCTATTTAAAATTTCATTGCCTTTGGTC
10829028 AGATGGGCTTTCTTTAAAGTGTCATAGCTTTTGGTCAGAGGAACC
261 AGATGGGCTTTCTTTAAAGTGTCATAGCTTTTGGTCAGAGGAACC
* * ** *
10829073 ATTTAAAGTTTCATTGCCTCTAGTTAGAAT-AGGTATTTAAAGTGTCATAGTTTCTAATTAGAGG
1 ATTTAAAGTTTCATTGCCTCTAGTCA-AATAAGCTATTTAAAGTGTCATAGCCTCTAATTAAAGG
* * * ** * *
10829137 AGCCCTTTTCAAAGTTTCATAGCCTTTGGTCAGATGAGTTTTTTAATTTTAAGAGCCTTTACTTA
65 AGCCCTTTTCAAAGTTTCATAGCCTCTAGTCAGAGGAACTTTTTAATTTTAAAAACCTTTACTTA
* * * *
10829202 GAGGGCTTCATCAAAATTAGGCATGATTTGTAAGACTAAATGGCATAATCTATAAGTCTTCTTGG
130 GAAGGCTCCATCAAAATTAAGCATGATTTGTAAGACCAAATGGCATAATCTATAAGTCTTCTTGG
* * *
10829267 ATTTTTAATTTAAAGTTTCATTACCTCTGGTTAAAGAAGCTATTTAAAGTTTCGTTGCCTTTGGT
195 ATTTTTAATTTAAAGTTTCATTACCTCTGGTCAAAGAAGCTATTTAAAATTTCATTGCCTTTGGT
10829332 CA
260 CA
10829334 AAAAATCCAT
Statistics
Matches: 227, Mismatches: 33, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
305 224 0.99
306 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (305 bp):
ATTTAAAGTTTCATTGCCTCTAGTCAAATAAGCTATTTAAAGTGTCATAGCCTCTAATTAAAGGA
GCCCTTTTCAAAGTTTCATAGCCTCTAGTCAGAGGAACTTTTTAATTTTAAAAACCTTTACTTAG
AAGGCTCCATCAAAATTAAGCATGATTTGTAAGACCAAATGGCATAATCTATAAGTCTTCTTGGA
TTTTTAATTTAAAGTTTCATTACCTCTGGTCAAAGAAGCTATTTAAAATTTCATTGCCTTTGGTC
AGATGGGCTTTCTTTAAAGTGTCATAGCTTTTGGTCAGAGGAACC
Found at i:10829346 original size:34 final size:34
Alignment explanation
Indices: 10829274--10829348 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
10829264 TGGATTTTTA
* * *
10829274 ATTTAAAGTTTCATTACCTCTGGTTAAAGAAGCT
1 ATTTAAAGTTTCATTACCTCTGGTCAAAAAAGCC
* * * *
10829308 ATTTAAAGTTTCGTTGCCTTTGGTCAAAAAATCC
1 ATTTAAAGTTTCATTACCTCTGGTCAAAAAAGCC
10829342 ATTTAAA
1 ATTTAAA
10829349 AATGTTGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (34 bp):
ATTTAAAGTTTCATTACCTCTGGTCAAAAAAGCC
Found at i:10831295 original size:20 final size:19
Alignment explanation
Indices: 10831260--10831314 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
10831250 TTACGTTATC
10831260 TATATTTTTTATTATATTT
1 TATATTTTTTATTATATTT
10831279 TATATTTTTTATCTATATTT
1 TATATTTTTTAT-TATATTT
*
10831299 TATATTATTTCATTAT
1 TATATT-TTTTATTAT
10831315 GTTTAGAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 12 0.36
20 16 0.48
21 5 0.15
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATATTTTTTATTATATTT
Found at i:10833065 original size:16 final size:16
Alignment explanation
Indices: 10833044--10833076 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10833034 ATAATTTTAA
10833044 AATTTTTA-TTACATAT
1 AATTTTTAGTTA-ATAT
10833060 AATTTTTAGTTAATAT
1 AATTTTTAGTTAATAT
10833076 A
1 A
10833077 TTTAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTTTAGTTAATAT
Found at i:10833903 original size:29 final size:30
Alignment explanation
Indices: 10833830--10833903 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
10833820 TGTTTTATTT
*
10833830 AAAATAAGAATTTATTTGGGTATAAATAAA
1 AAAATAAAAATTTATTTGGGTATAAATAAA
* *
10833860 AAAATAAAGACTTATTT-GG-ATACAATAAA
1 AAAATAAAAATTTATTTGGGTATA-AATAAA
*
10833889 AATATAAAAATTTAT
1 AAAATAAAAATTTAT
10833904 CTAAATAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 3 0.08
29 20 0.54
30 14 0.38
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.32
Consensus pattern (30 bp):
AAAATAAAAATTTATTTGGGTATAAATAAA
Found at i:10838561 original size:16 final size:17
Alignment explanation
Indices: 10838540--10838572 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10838530 GTTATTTATT
*
10838540 TATTAA-ATTTAATATA
1 TATTAATATTAAATATA
10838556 TATTAATATTAAATATA
1 TATTAATATTAAATATA
10838573 AAATCAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTAATATTAAATATA
Found at i:10838760 original size:23 final size:22
Alignment explanation
Indices: 10838721--10838770 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
10838711 TAATTTATTT
**
10838721 TTTATTTTTTATTAAATTTAAA
1 TTTATTTTTTAAAAAATTTAAA
*
10838743 TATTATTTTTTAAAAAATTTTAA
1 T-TTATTTTTTAAAAAATTTAAA
10838766 TTTAT
1 TTTAT
10838771 ATCACAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATTTTTTAAAAAATTTAAA
Found at i:10840994 original size:16 final size:16
Alignment explanation
Indices: 10840950--10840997 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
10840940 TTTATTATAG
*
10840950 TAATTTAATATGTAGT
1 TAATTTAATATGTAAT
10840966 TAAGTTT--TATGTAAT
1 TAA-TTTAATATGTAAT
10840981 TAATTTAATATGTAAT
1 TAATTTAATATGTAAT
10840997 T
1 T
10840998 TTAGTAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.11
15 10 0.36
16 12 0.43
17 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (16 bp):
TAATTTAATATGTAAT
Found at i:10843656 original size:19 final size:19
Alignment explanation
Indices: 10843620--10843726 Score: 85
Period size: 19 Copynumber: 5.7 Consensus size: 19
10843610 CATGGTTGGT
* *
10843620 TGGTTT-GGTTTTGGAAGG
1 TGGTTTAGGGTTTGAAAGG
10843638 TGGTTTAGGGTTTGAAAGG
1 TGGTTTAGGGTTTGAAAGG
* * **
10843657 TAGTTTAGGATTT-AGGGAG
1 TGGTTTAGGGTTTGAAAG-G
* *
10843676 TGGTTAAGGGTTTGAAAAG
1 TGGTTTAGGGTTTGAAAGG
**
10843695 TGGTTTAAAGTTTGGAAA-G
1 TGGTTTAGGGTTT-GAAAGG
10843714 TGGTTTAGGGTTT
1 TGGTTTAGGGTTT
10843727 AGGATTTTAG
Statistics
Matches: 68, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
18 8 0.12
19 55 0.81
20 5 0.07
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.39
Consensus pattern (19 bp):
TGGTTTAGGGTTTGAAAGG
Found at i:10843716 original size:38 final size:38
Alignment explanation
Indices: 10843629--10843726 Score: 110
Period size: 38 Copynumber: 2.6 Consensus size: 38
10843619 TTGGTTTGGT
* * *
10843629 TTTGGAAGGTGGTTTAGGGTTTGAAAGGTAGTTTAGGA
1 TTTGGAAAGTGGTTTAGGGTTTGAAAAGTAGTTTAAGA
* * *
10843667 TTTAGG-GAGTGGTTAAGGGTTTGAAAAGTGGTTTAA-A
1 TTT-GGAAAGTGGTTTAGGGTTTGAAAAGTAGTTTAAGA
10843704 GTTTGGAAAGTGGTTTAGGGTTT
1 -TTTGGAAAGTGGTTTAGGGTTT
10843727 AGGATTTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
37 3 0.06
38 44 0.90
39 2 0.04
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (38 bp):
TTTGGAAAGTGGTTTAGGGTTTGAAAAGTAGTTTAAGA
Found at i:10843725 original size:7 final size:7
Alignment explanation
Indices: 10843717--10843756 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
10843707 TGGAAAGTGG
*
10843717 TTTAGGG
1 TTTAGGA
10843724 TTTAGGA
1 TTTAGGA
*
10843731 TTTTAGGT
1 -TTTAGGA
10843739 TTTAGGA
1 TTTAGGA
10843746 TTTAGGA
1 TTTAGGA
10843753 TTTA
1 TTTA
10843757 TGGTGTATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (7 bp):
TTTAGGA
Found at i:10843737 original size:15 final size:15
Alignment explanation
Indices: 10843717--10843748 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10843707 TGGAAAGTGG
10843717 TTTAGGGTTTAGGAT
1 TTTAGGGTTTAGGAT
*
10843732 TTTAGGTTTTAGGAT
1 TTTAGGGTTTAGGAT
10843747 TT
1 TT
10843749 AGGATTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAGGAT
Found at i:10845441 original size:143 final size:142
Alignment explanation
Indices: 10845232--10845515 Score: 403
Period size: 143 Copynumber: 2.0 Consensus size: 142
10845222 AATTACCCTT
* *
10845232 AATTTTGGTTATTTCATGCCTCTTGAGGTACTAAATGGTTTTGAATGCACAAAAAATCATAAAAT
1 AATTTTGGTTATTTCATGCCTCTTGAGGTACTAAATAGTTTTAAATGCACAAAAAATCATAAAAT
* *
10845297 ATTATAAAAATATGATTT-AAAAAGTTTCACAAAAAATTGACCTTCGA-AAGGTCAAATTACAAA
66 ATTATAAAAACATGATTTGAAAAA-TTTCACAAAAAACTGACCTT-GAGAAGGTCAAATTACAAA
10845360 AATACCCATAAAAA
129 AATACCCATAAAAA
* * * * *
10845374 AATTTT-GTTAATTTCATGCCTCTTGAGGTATTGCAGTAGTTTTAAATGCACCAAAAATCATGAA
1 AATTTTGGTT-ATTTCATGCCTCTTGAGGTACT-AAATAGTTTTAAATGCACAAAAAATCATAAA
* * *
10845438 ATATTATGAAAACATGATTTGAAAAATTTCACGAAAAACTGATCTTGAGAAGGTCAAATTACAAA
64 ATATTATAAAAACATGATTTGAAAAATTTCACAAAAAACTGACCTTGAGAAGGTCAAATTACAAA
10845503 AATACCCATAAAA
129 AATACCCATAAAA
10845516 TGTATTTTGA
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
141 3 0.02
142 29 0.23
143 89 0.71
144 5 0.04
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (142 bp):
AATTTTGGTTATTTCATGCCTCTTGAGGTACTAAATAGTTTTAAATGCACAAAAAATCATAAAAT
ATTATAAAAACATGATTTGAAAAATTTCACAAAAAACTGACCTTGAGAAGGTCAAATTACAAAAA
TACCCATAAAAA
Found at i:10845559 original size:143 final size:143
Alignment explanation
Indices: 10845269--10845546 Score: 339
Period size: 143 Copynumber: 1.9 Consensus size: 143
10845259 GTACTAAATG
* * *
10845269 GTTTTGAATGCACAAAAAATCATAAAATATTATAAAAATATGATTTAAAAAGTTTCACAAAAAAT
1 GTTTTAAATGCACAAAAAATCATAAAATATTATAAAAACATGATTTAAAAAGTTTCACAAAAAAC
* ** *
10845334 TGACCTTCGAAAGGTCAAATTACAAAAATACCCATAAAAAAATTTTGTTAATTTCATGCCTCTTG
66 TGACCTTCGAAAGGTCAAATTACAAAAATACCCATAAAAAAATTTTGATAATTTCACACCTCTTC
* * *
10845399 AGGTATTGCAGTA
131 AGATAATGCAATA
* * * *
10845412 GTTTTAAATGCACCAAAAATCATGAAATATTATGAAAACATGATTTGAAAAA-TTTCACGAAAAA
1 GTTTTAAATGCACAAAAAATCATAAAATATTATAAAAACATGATTT-AAAAAGTTTCACAAAAAA
* **
10845476 CTGATCTT-GAGAAGGTCAAATTACAAAAATACCCATAAAATGTATTTTGATAA-TTCACACCT-
65 CTGACCTTCGA-AAGGTCAAATTACAAAAATACCCATAAAA-AAATTTTGATAATTTCACACCTC
10845538 TTCATGATA
128 TTCA-GATA
10845547 CAATCAATGT
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
142 5 0.04
143 97 0.84
144 14 0.12
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (143 bp):
GTTTTAAATGCACAAAAAATCATAAAATATTATAAAAACATGATTTAAAAAGTTTCACAAAAAAC
TGACCTTCGAAAGGTCAAATTACAAAAATACCCATAAAAAAATTTTGATAATTTCACACCTCTTC
AGATAATGCAATA
Found at i:10846382 original size:19 final size:19
Alignment explanation
Indices: 10846358--10846397 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
10846348 AATGATGATT
10846358 GGGATTGAAGCACAAGTTA
1 GGGATTGAAGCACAAGTTA
*
10846377 GGGATTGAAGCGCAAGTTA
1 GGGATTGAAGCACAAGTTA
10846396 GG
1 GG
10846398 AAAAAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.38, T:0.20
Consensus pattern (19 bp):
GGGATTGAAGCACAAGTTA
Found at i:10846457 original size:31 final size:29
Alignment explanation
Indices: 10846401--10846499 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 29
10846391 AGTTAGGAAA
* *
10846401 AAAGTGAATGGGATTGAATTATAAGTCAAAT
1 AAAGTGACT-GGATTGAACTATAAGTC-AAT
* *
10846432 AAAGTGACTAGGATTGAACTGTAAGT-TAT
1 AAAGTGACT-GGATTGAACTATAAGTCAAT
* *
10846461 CAAAATGAGCTGGATTGAACTATAAGTCGAAC
1 -AAAGTGA-CTGGATTGAACTATAAGTC-AAT
10846493 AAAGTGA
1 AAAGTGA
10846500 TAAAGACTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
29 2 0.04
30 21 0.39
31 30 0.56
32 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.26
Consensus pattern (29 bp):
AAAGTGACTGGATTGAACTATAAGTCAAT
Found at i:10847392 original size:22 final size:22
Alignment explanation
Indices: 10847367--10847466 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
10847357 GTGTGCGGAA
*
10847367 GACTTTGAGATTATGCCTAGAG
1 GACTTTGAAATTATGCCTAGAG
* * *
10847389 GACTTTGAAATTGT-ACTAGGAA
1 GACTTTGAAATTATGCCTA-GAG
** *
10847411 GACTTTGAAATTATGTTTGGAG
1 GACTTTGAAATTATGCCTAGAG
* *
10847433 GACTTTGAAATTATGCCTGGAT
1 GACTTTGAAATTATGCCTAGAG
*
10847455 GACTTTAAAATT
1 GACTTTGAAATT
10847467 GTACCTAACA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
21 3 0.05
22 59 0.94
23 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (22 bp):
GACTTTGAAATTATGCCTAGAG
Found at i:10847460 original size:44 final size:44
Alignment explanation
Indices: 10847363--10847446 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
10847353 GGTTGTGTGC
* *
10847363 GGAAGACTTTGAGATTATGCCTAGAGGACTTTGAAATTGTACTA
1 GGAAGACTTTGAAATTATGCCTAGAGGACTTTGAAATTATACTA
** *
10847407 GGAAGACTTTGAAATTATGTTTGGAGGACTTTGAAATTAT
1 GGAAGACTTTGAAATTATGCCTAGAGGACTTTGAAATTAT
10847447 GCCTGGATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (44 bp):
GGAAGACTTTGAAATTATGCCTAGAGGACTTTGAAATTATACTA
Found at i:10847932 original size:40 final size:38
Alignment explanation
Indices: 10847592--10848015 Score: 190
Period size: 40 Copynumber: 10.5 Consensus size: 38
10847582 AAAATTTCAC
* * * *
10847592 CCTAAGGTCTTTGAAAATCTTTCAAAAATTTAAAATTTTA
1 CCTAAGGTC-TTGGAAATCATT-AAAAATTTAAGATTTTG
* * * *
10847632 CACGAAGATCTTGAAAATAATTTAAAAATTTATAG-TTTTG
1 C-CTAAGGTCTTGGAAATCA-TTAAAAATTTA-AGATTTTG
* * * * * *
10847672 CTTGGAGATCTTGGAAATCATTCAAAGATGTAAGATTTTA
1 CCT-AAGGTCTTGGAAATCATT-AAAAATTTAAGATTTTG
* * *
10847712 CCCATAGGTATTTGGAAATCATTTAAAATTTAA-AGTTTTG
1 CCTA-AGGT-CTTGGAAATCATTAAAAATTTAAGA-TTTTG
* * * ** * *
10847752 CTCAAAAGTCTTGAAAATTGTTTAAAAATCTAAAATTTTG
1 C-CTAAGGTCTTGGAAA-TCATTAAAAATTTAAGATTTTG
* * *
10847792 CC-AAGAAGTCTTAGAGATCATTCAAAGATTTAAGATTTTG
1 CCTAAG--GTCTTGGAAATCATT-AAAAATTTAAGATTTTG
* * * * * *
10847832 CATGAAGGTCTTTTGAAATCATTTAAAAATATGAGGTTTTA
1 CCT-AAGGTC-TTGGAAATCA-TTAAAAATTTAAGATTTTG
* * * * *
10847873 CCCAGAGGTTTTTGAAAATCATTAAAAATTTTGAGGTTTTG
1 CCTA-AGG-TCTTGGAAATCATTAAAAA-TTTAAGATTTTG
*
10847914 CCTGAAGGTCTTGGAAATCCTTCAAAAATTTAAGATTTTG
1 CCT-AAGGTCTTGGAAATCATT-AAAAATTTAAGATTTTG
* *
10847954 CCCATAA-GTCTTTGGAGATCATTAAAAAATCTAAGATTTTG
1 -CC-TAAGGTC-TTGGAAATCATT-AAAAATTTAAGATTTTG
*
10847995 TCTAGAGGTCTTGGAAATCAT
1 CCTA-AGGTCTTGGAAATCAT
10848016 ATACTCAATT
Statistics
Matches: 288, Mismatches: 67, Indels: 58
0.70 0.16 0.14
Matches are distributed among these distances:
38 2 0.01
39 17 0.06
40 152 0.53
41 109 0.38
42 8 0.03
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (38 bp):
CCTAAGGTCTTGGAAATCATTAAAAATTTAAGATTTTG
Found at i:10847941 original size:41 final size:40
Alignment explanation
Indices: 10847827--10848015 Score: 111
Period size: 41 Copynumber: 4.7 Consensus size: 40
10847817 AGATTTAAGA
* * *
10847827 TTTTGCATGAAGGTCTTTTGAAATCATTTAAAAA-TATGAGG
1 TTTTGCCTGAAGGTC-TTGGAAATCA-TTAAAAATTTTGAGG
* * * *
10847868 TTTTACC-CAGAGGTTTTTGAAAATCATTAAAAATTTTGAGG
1 TTTTGCCTGA-AGG-TCTTGGAAATCATTAAAAATTTTGAGG
* * *
10847909 TTTTGCCTGAAGGTCTTGGAAATCCTTCAAAAA-TTTAAGA
1 TTTTGCCTGAAGGTCTTGGAAATCATT-AAAAATTTTGAGG
* * * * *
10847949 TTTTGCCCAT-AA-GTCTTTGGAGATCATTAAAAAATCTAAGA
1 TTTTG-CC-TGAAGGTC-TTGGAAATCATTAAAAATTTTGAGG
*
10847990 TTTTGTCT-AGAGGTCTTGGAAATCAT
1 TTTTGCCTGA-AGGTCTTGGAAATCAT
10848016 ATACTCAATT
Statistics
Matches: 118, Mismatches: 19, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
39 2 0.02
40 49 0.42
41 64 0.54
42 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (40 bp):
TTTTGCCTGAAGGTCTTGGAAATCATTAAAAATTTTGAGG
Found at i:10847977 original size:81 final size:80
Alignment explanation
Indices: 10847595--10848015 Score: 278
Period size: 81 Copynumber: 5.2 Consensus size: 80
10847585 ATTTCACCCT
* * * * * * *
10847595 AAGGTCTTTGAAAATCTTTCAAAAATTTAAAATTTTACAC-GAAGATC-TTGAAAATAATTTAAA
1 AAGGTC-TTGGAAATCATTCAAAAATATAAGATTTTACCCAGAAG-TCTTTGGAAATCA-TTAAA
*
10847658 AATTTATA-GTTTTGCTTG
63 AATTTA-AGGTTTTGCCTG
* * * * * * * *
10847676 GAGATCTTGGAAATCATTCAAAGATGTAAGATTTTACCCATAGGTATTTGGAAATCATTTAAAAT
1 AAGGTCTTGGAAATCATTCAAAAATATAAGATTTTACCCAGAAGTCTTTGGAAATCATTAAAAAT
* *
10847741 TTAAAGTTTTG-CTCA
66 TTAAGGTTTTGCCT-G
* * ** * * * * * * * *
10847756 AAAGTCTTGAAAATTGTTTAAAAATCTAAAATTTTGCCAAGAAGTC-TTAGAGATCATTCAAAGA
1 AAGGTCTTGGAAATCATTCAAAAATATAAGATTTTACCCAGAAGTCTTTGGAAATCATT-AAAAA
* *
10847820 TTTAAGATTTTGCATG
65 TTTAAGGTTTTGCCTG
* * * * * * *
10847836 AAGGTCTTTTGAAATCATTTAAAAATATGAGGTTTTACCCAGAGGTTTTTGAAAATCATTAAAAA
1 AAGGTC-TTGGAAATCATTCAAAAATATAAGATTTTACCCAGAAGTCTTTGGAAATCATTAAAAA
*
10847901 TTTTGAGGTTTTGCCTG
65 -TTTAAGGTTTTGCCTG
* * * * *
10847918 AAGGTCTTGGAAATCCTTCAAAAATTTAAGATTTTGCCCATAAGTCTTTGGAGATCATTAAAAAA
1 AAGGTCTTGGAAATCATTCAAAAATATAAGATTTTACCCAGAAGTCTTTGGAAATCATT-AAAAA
* * *
10847983 TCTAAGATTTTGTCT-
65 TTTAAGGTTTTGCCTG
10847998 AGAGGTCTTGGAAATCAT
1 A-AGGTCTTGGAAATCAT
10848016 ATACTCAATT
Statistics
Matches: 253, Mismatches: 76, Indels: 22
0.72 0.22 0.06
Matches are distributed among these distances:
79 12 0.05
80 94 0.37
81 114 0.45
82 33 0.13
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (80 bp):
AAGGTCTTGGAAATCATTCAAAAATATAAGATTTTACCCAGAAGTCTTTGGAAATCATTAAAAAT
TTAAGGTTTTGCCTG
Found at i:10849876 original size:11 final size:12
Alignment explanation
Indices: 10849856--10849889 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
10849846 CCCCTTATTA
10849856 TTCT-TTTTTTC
1 TTCTATTTTTTC
10849867 -TCTATTTTTTC
1 TTCTATTTTTTC
10849878 TTCTATTTTTTC
1 TTCTATTTTTTC
10849890 CTTCATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 7 0.33
12 11 0.52
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTATTTTTTC
Found at i:10854876 original size:19 final size:19
Alignment explanation
Indices: 10854849--10854941 Score: 100
Period size: 19 Copynumber: 4.9 Consensus size: 19
10854839 TTGATTGGGT
10854849 TTTGAAAGGTGGTTTAGGG
1 TTTGAAAGGTGGTTTAGGG
* *
10854868 TTTGTAAGGTAGTTTAGGG
1 TTTGAAAGGTGGTTTAGGG
*
10854887 TTT-AAAGAGTGGTTTATGG
1 TTTGAAAG-GTGGTTTAGGG
* * *
10854906 -TTGGAAGGTGGTTCATGG
1 TTTGAAAGGTGGTTTAGGG
*
10854924 TTTGAGAGGTGGTTTAGG
1 TTTGAAAGGTGGTTTAGG
10854942 ATTTAGGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
18 15 0.25
19 45 0.75
ACGTcount: A:0.20, C:0.01, G:0.40, T:0.39
Consensus pattern (19 bp):
TTTGAAAGGTGGTTTAGGG
Found at i:10854926 original size:37 final size:38
Alignment explanation
Indices: 10854853--10854941 Score: 94
Period size: 37 Copynumber: 2.4 Consensus size: 38
10854843 TTGGGTTTTG
* *
10854853 AAAG-GTGGTTTAGGGTTTGTAAGGTAGTTTAGGGTTT
1 AAAGAGTGGTTTAGGGTTTGGAAGGTAGTTCAGGGTTT
* * *
10854890 AAAGAGTGGTTTATGG-TTGGAAGGTGGTTCATGGTTT
1 AAAGAGTGGTTTAGGGTTTGGAAGGTAGTTCAGGGTTT
*
10854927 -GAGAGGTGGTTTAGG
1 AAAGA-GTGGTTTAGG
10854942 ATTTAGGGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
36 3 0.07
37 30 0.70
38 10 0.23
ACGTcount: A:0.21, C:0.01, G:0.40, T:0.37
Consensus pattern (38 bp):
AAAGAGTGGTTTAGGGTTTGGAAGGTAGTTCAGGGTTT
Done.