Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 157 of 196
Found at i:46163002 original size:8 final size:7
Alignment explanation
Indices: 46162989--46163034 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
46162979 TAACTTATAT
46162989 ATAATAAC
1 ATAAT-AC
46162997 ATAATA-
1 ATAATAC
*
46163003 A-ATTAC
1 ATAATAC
46163009 ATAATAC
1 ATAATAC
46163016 ATAATAAC
1 ATAAT-AC
46163024 ATAATAC
1 ATAATAC
46163031 ATAA
1 ATAA
46163035 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:46163027 original size:15 final size:15
Alignment explanation
Indices: 46162989--46163034 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
46162979 TAACTTATAT
46162989 ATAATAACATAAT--
1 ATAATAACATAATAC
*
46163002 A-AATTACATAATAC
1 ATAATAACATAATAC
46163016 ATAATAACATAATAC
1 ATAATAACATAATAC
46163031 ATAA
1 ATAA
46163035 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:46163086 original size:9 final size:9
Alignment explanation
Indices: 46163064--46163788 Score: 614
Period size: 9 Copynumber: 81.4 Consensus size: 9
46163054 AACTTACATA
*
46163064 ATAACTTCC
1 ATAACTTAC
*
46163073 GTAACTTAC
1 ATAACTTAC
46163082 ATAACTT--
1 ATAACTTAC
*
46163089 ATACACGTAC
1 ATA-ACTTAC
46163099 ATAACTTAC
1 ATAACTTAC
*
46163108 ATAA--TAT
1 ATAACTTAC
*
46163115 ATAAACATATAT
1 AT-AAC-T-TAC
* *
46163127 AGAAACTCAC
1 A-TAACTTAC
* *
46163137 ATAAATTAA
1 ATAACTTAC
46163146 ATAACTTAC
1 ATAACTTAC
46163155 ATAACTTAC
1 ATAACTTAC
* *
46163164 ATAAATTAA
1 ATAACTTAC
46163173 ATAACTTAC
1 ATAACTTAC
46163182 ATAACTTAC
1 ATAACTTAC
*
46163191 ATAAATTA-
1 ATAACTTAC
46163199 AGTAACTTAC
1 A-TAACTTAC
*
46163209 ATAACTTAA
1 ATAACTTAC
*
46163218 ATAAACTTGC
1 AT-AACTTAC
* *
46163228 ATAAATTAA
1 ATAACTTAC
46163237 ATAACTTAC
1 ATAACTTAC
*
46163246 ATAACCTAC
1 ATAACTTAC
* *
46163255 ATAAATTAA
1 ATAACTTAC
46163264 ATAACTTAC
1 ATAACTTAC
* *
46163273 ATAAATTAA
1 ATAACTTAC
46163282 ATAACTTAC
1 ATAACTTAC
46163291 ATAACTTAC
1 ATAACTTAC
46163300 ATAACTTAC
1 ATAACTTAC
* *
46163309 ATAAATTAA
1 ATAACTTAC
*
46163318 ATAATTTAC
1 ATAACTTAC
46163327 ATAACTTAC
1 ATAACTTAC
* *
46163336 ATAAATTAA
1 ATAACTTAC
*
46163345 ATAACTTAA
1 ATAACTTAC
46163354 ATAACTTAC
1 ATAACTTAC
46163363 ATAACTTAC
1 ATAACTTAC
*
46163372 ATAAATTA-
1 ATAACTTAC
46163380 ATTAACTTAC
1 A-TAACTTAC
46163390 ATAACTTAC
1 ATAACTTAC
*
46163399 ATAAAC-TAA
1 AT-AACTTAC
46163408 ATAACTTAC
1 ATAACTTAC
46163417 ATAACTTAC
1 ATAACTTAC
*
46163426 ATAAAC-TAA
1 AT-AACTTAC
46163435 ATAACTTAC
1 ATAACTTAC
46163444 ATAACTTAC
1 ATAACTTAC
* *
46163453 ATAAATTAA
1 ATAACTTAC
46163462 ATAACTTAC
1 ATAACTTAC
*
46163471 ATGGACTTAC
1 AT-AACTTAC
* **
46163481 ATAAATTTT
1 ATAACTTAC
46163490 ATAACTTAC
1 ATAACTTAC
46163499 ATAACTTAC
1 ATAACTTAC
* *
46163508 ATAAATTAA
1 ATAACTTAC
46163517 ATAACTTAC
1 ATAACTTAC
* *
46163526 ATAAATTCC
1 ATAACTTAC
* *
46163535 GTGGACTTAC
1 AT-AACTTAC
*
46163545 ATAACCTAC
1 ATAACTTAC
* *
46163554 ATAAATTAA
1 ATAACTTAC
46163563 ATAACTTAC
1 ATAACTTAC
46163572 ATAACTTAC
1 ATAACTTAC
46163581 ATAACTTAC
1 ATAACTTAC
* *
46163590 ATAAATTAA
1 ATAACTTAC
46163599 ATAACTTAC
1 ATAACTTAC
46163608 ATAACTTAC
1 ATAACTTAC
* *
46163617 ATAAATTAA
1 ATAACTTAC
*
46163626 ATTACTTAC
1 ATAACTTAC
46163635 ATAACTTAC
1 ATAACTTAC
*
46163644 ATTA--TAC
1 ATAACTTAC
46163651 ATAACCTT-C
1 ATAA-CTTAC
*
46163660 TTAACTTAC
1 ATAACTTAC
*
46163669 ATTA--TAC
1 ATAACTTAC
* *
46163676 ACAACTCAC
1 ATAACTTAC
46163685 ATAA-TTA-
1 ATAACTTAC
*
46163692 AT-ATTATAC
1 ATAACT-TAC
*
46163701 ACAACTTAC
1 ATAACTTAC
46163710 ATAA--TAC
1 ATAACTTAC
*
46163717 ATTACTTAC
1 ATAACTTAC
46163726 ATAACTTAC
1 ATAACTTAC
*
46163735 ATTACTTAC
1 ATAACTTAC
46163744 AGT-ACTTAC
1 A-TAACTTAC
46163753 ATAA--TAC
1 ATAACTTAC
46163760 ATAA--TAC
1 ATAACTTAC
46163767 ATAACTTAC
1 ATAACTTAC
*
46163776 ATAACGTAC
1 ATAACTTAC
46163785 ATAA
1 ATAA
46163789 TACATAAAAA
Statistics
Matches: 569, Mismatches: 111, Indels: 72
0.76 0.15 0.10
Matches are distributed among these distances:
6 1 0.00
7 41 0.07
8 21 0.04
9 461 0.81
10 37 0.07
11 1 0.00
12 7 0.01
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:46163717 original size:66 final size:67
Alignment explanation
Indices: 46163565--46163738 Score: 183
Period size: 66 Copynumber: 2.5 Consensus size: 67
46163555 TAAATTAAAT
* * * * *
46163565 AACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAATTA
1 AACTTACATAA--TACATAACTTACATAACTTACATTA--TACACAACTCACATAAATTAAATTA
*
46163630 CTTACAT
62 C-TACAC
* *
46163637 AACTTACATTATACATAACCTT-CTTAACTTACATTATACACAACTCACAT-AATTAATATTA-T
1 AACTTACATAATACATAA-CTTACATAACTTACATTATACACAACTCACATAAATTAA-ATTACT
46163699 ACAC
64 ACAC
*
46163703 AACTTACATAATACATTACTTACATAACTTACATTA
1 AACTTACATAATACATAACTTACATAACTTACATTA
46163739 CTTACAGTAC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
65 3 0.03
66 33 0.38
67 6 0.07
68 16 0.18
70 17 0.19
71 3 0.03
72 10 0.11
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (67 bp):
AACTTACATAATACATAACTTACATAACTTACATTATACACAACTCACATAAATTAAATTACTAC
AC
Found at i:46163728 original size:41 final size:42
Alignment explanation
Indices: 46163662--46163777 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 42
46163652 TAACCTTCTT
* * *
46163662 AACTTACATTATACACAACTCACATAA-TTAATATTA-TACAC
1 AACTTACATAATACATAACTCACATAACTT-ACATTACTACAC
* * *
46163703 AACTTACATAATACATTACTTACATAACTTACATTACTTACAG
1 AACTTACATAATACATAACTCACATAACTTACATTAC-TACAC
*
46163746 TACTTACATAATACATAA-T-ACATAACTTACAT
1 AACTTACATAATACATAACTCACATAACTTACAT
46163778 AACGTACATA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 41 0.64
42 3 0.05
43 20 0.31
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.34
Consensus pattern (42 bp):
AACTTACATAATACATAACTCACATAACTTACATTACTACAC
Found at i:46163762 original size:7 final size:7
Alignment explanation
Indices: 46163750--46163795 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
46163740 TTACAGTACT
46163750 TACATAA
1 TACATAA
46163757 TACATAA
1 TACATAA
46163764 TACATAA
1 TACATAA
46163771 CTTACATAA
1 --TACATAA
46163780 CGTACATAA
1 --TACATAA
46163789 TACATAA
1 TACATAA
46163796 AAATATATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 21 0.58
9 15 0.42
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.28
Consensus pattern (7 bp):
TACATAA
Found at i:46167466 original size:21 final size:21
Alignment explanation
Indices: 46167440--46167508 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
46167430 CAACAACTTA
* *
46167440 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
46167461 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
* *
46167482 AAGCAAAGGCCGTAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
46167503 AAGCAG
1 AAGCAG
46167509 CGAGAGAAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:46168008 original size:42 final size:43
Alignment explanation
Indices: 46167957--46168165 Score: 284
Period size: 43 Copynumber: 4.9 Consensus size: 43
46167947 GTTTGTGAAA
** *
46167957 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGTATTTTTTACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCC
* *
46168000 -AAGCGCCGCTAAAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTTCC
46168042 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
*
46168085 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCGG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-C
*
46168129 T-AGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
46168166 CCCTGTAAGC
Statistics
Matches: 154, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
41 1 0.01
42 36 0.23
43 115 0.75
44 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
Found at i:46170279 original size:23 final size:24
Alignment explanation
Indices: 46170251--46170306 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
46170241 TTTTAATTTT
46170251 ATAATTTATTAAA-AGAATATAAA
1 ATAATTTATTAAATAGAATATAAA
* *
46170274 ATAATTT-TAAAATATAATATAAA
1 ATAATTTATTAAATAGAATATAAA
*
46170297 ATAATATATT
1 ATAATTTATT
46170307 TTCATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 22 0.81
24 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAATTTATTAAATAGAATATAAA
Found at i:46175419 original size:13 final size:13
Alignment explanation
Indices: 46175401--46175428 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46175391 CTCAAACACA
46175401 TATAATCTACATC
1 TATAATCTACATC
46175414 TATAATCTACATC
1 TATAATCTACATC
46175427 TA
1 TA
46175429 GTCACTTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAATCTACATC
Found at i:46175667 original size:29 final size:29
Alignment explanation
Indices: 46175635--46175707 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
46175625 AAAGTATTTT
46175635 AAAAA-TATTTTAAAATTAAAAAAAAGTAA
1 AAAAAGTATTTTAAAATT-AAAAAAAGTAA
* *
46175664 AAAAA-TATTTTAAAATTTAAAAAATTAA
1 AAAAAGTATTTTAAAATTAAAAAAAGTAA
46175692 AAAAAGTATTTTAAAA
1 AAAAAGTATTTTAAAA
46175708 GTATTTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 14 0.34
29 27 0.66
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAAAGTATTTTAAAATTAAAAAAAGTAA
Found at i:46175696 original size:40 final size:40
Alignment explanation
Indices: 46175596--46175726 Score: 122
Period size: 40 Copynumber: 3.2 Consensus size: 40
46175586 CAAAATTTTT
* *
46175596 ATTTTAAAAATTAAAACAAAAATTAAAAAAAAGTATTTTAAAA
1 ATTTAAAAAATTAAAAAAAAAATT-AAAAAAA-TATTTT-AAA
** *
46175639 ATATTTTAAAATT--AAAAAAAAGTAAAAAAATATTTTAAA
1 AT-TTAAAAAATTAAAAAAAAAATTAAAAAAATATTTTAAA
** ** *
46175678 ATTTAAAAAATTAAAAAAAGTATTTTAAAAGTATTTTAAA
1 ATTTAAAAAATTAAAAAAAAAATTAAAAAAATATTTTAAA
46175718 ATTTAAAAA
1 ATTTAAAAA
46175727 GGAAAAAAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
38 8 0.11
39 5 0.07
40 35 0.47
41 7 0.09
42 8 0.11
43 2 0.03
44 9 0.12
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (40 bp):
ATTTAAAAAATTAAAAAAAAAATTAAAAAAATATTTTAAA
Found at i:46176656 original size:23 final size:23
Alignment explanation
Indices: 46176625--46176669 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
46176615 TACAATCAAC
46176625 ATTACACATATC-AACAAGCCATA
1 ATTACACAT-TCAAACAAGCCATA
*
46176648 ATTAGACATTCAAAACAAGCCA
1 ATTACACATTC-AAACAAGCCA
46176670 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTCAAACAAGCCATA
Found at i:46177659 original size:21 final size:19
Alignment explanation
Indices: 46177617--46177660 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
46177607 CATCTTTTTC
* *
46177617 AGAAGCCCAAAGGCTGAAT
1 AGAAGCCCAAAAGCTAAAT
46177636 AGAAGCCCATAAAAGCTAAAT
1 AGAAGCCC--AAAAGCTAAAT
46177657 AGAA
1 AGAA
46177661 AGTAAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.50, C:0.18, G:0.20, T:0.11
Consensus pattern (19 bp):
AGAAGCCCAAAAGCTAAAT
Found at i:46180151 original size:6 final size:6
Alignment explanation
Indices: 46180140--46180166 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46180130 TTTTGGTAAC
46180140 TTTGCA TTTGCA TTTGCA TTTGCA TTT
1 TTTGCA TTTGCA TTTGCA TTTGCA TTT
46180167 TACCCTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGCA
Found at i:46191103 original size:133 final size:133
Alignment explanation
Indices: 46190896--46191255 Score: 436
Period size: 133 Copynumber: 2.7 Consensus size: 133
46190886 GAGCAGGTTG
* * * * * *
46190896 AAAGATAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCATAGATACCAGATCTTGCCT
1 AAAGATAACAGATCTTGTCTTCCTATACTGGTAGTGAAGTAGATCAAAGA-AACAGATCTTGTCT
*
46190960 TCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTA
65 TCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTA
46191025 GATC
130 GATC
* * * * *
46191029 AGAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAACAGATCTTGTCTC
1 AAAGATAACAGATCTTGTCTTCCTATACTGGTAGTGAAGTAGATCAAAGAAACAGATCTTGTCTT
* *
46191094 CCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAG
66 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAG
46191159 ATC
131 ATC
** * * * * * * * * * *
46191162 AAAGATAGTAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAATATACATATTTTATCT
1 AAAGATAACAGATCTTGTCTTCCTATACT-GGTAGTGAAGTAGATCAAAGAAACAGATCTTGTCT
* *
46191226 TCCCATACTGGTGGCAAAGTAGATTGAAGA
65 TCCCATACTGGTGGCGAAGTAGATCGAAGA
46191256 TTACAGATCT
Statistics
Matches: 192, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
132 1 0.01
133 175 0.91
134 16 0.08
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (133 bp):
AAAGATAACAGATCTTGTCTTCCTATACTGGTAGTGAAGTAGATCAAAGAAACAGATCTTGTCTT
CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAG
ATC
Found at i:46191139 original size:89 final size:88
Alignment explanation
Indices: 46190896--46191092 Score: 340
Period size: 89 Copynumber: 2.2 Consensus size: 88
46190886 GAGCAGGTTG
* *
46190896 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCATAGATACCAGATCTTGCCTT
1 AAAGA-AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGTCTT
*
46190961 CCCATACTGGTGGCGAAGTAGATC
65 CCCATACTGGTGGTGAAGTAGATC
*
46190985 GAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGTCTT
1 AAAGAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGTCTT
46191050 CCCATACTGGTGGTGAAGTAGATC
65 CCCATACTGGTGGTGAAGTAGATC
46191074 AAAGAAACAGATCTTGTCT
1 AAAGAAACAGATCTTGTCT
46191093 CCCCATACTG
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
88 14 0.14
89 88 0.86
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (88 bp):
AAAGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGTCTTC
CCATACTGGTGGTGAAGTAGATC
Found at i:46191147 original size:89 final size:89
Alignment explanation
Indices: 46190896--46191166 Score: 280
Period size: 89 Copynumber: 3.1 Consensus size: 89
46190886 GAGCAGGTTG
* ** * * **
46190896 AAAGATAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCATAGATACCAGATCTTGCCT
1 AAAGA-AAGCAGATCTTGTCTCCACATACTGGCGTGAAGTAGATCAGAGAAACCAGATCTTATCT
* *
46190960 TCCCATACTGGTGGCGAAGTAGATC
65 TCACATACTGGTGGTGAAGTAGATC
* * ** * *
46190985 GAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTCCACATACTGGCGTGAAGTAGATCAGAGAAACCAGATCTTATCTT
*
46191050 CCCATACTGGTGGTGAAGTAGATC
66 CACATACTGGTGGTGAAGTAGATC
* * * *
46191074 AAAGAAA-CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC-GAAGAAAGCAGATCTTATC
1 AAAGAAAGCAGATCTTGTCTCCACATACTGG-CGTGAAGTAGATCAG-AGAAACCAGATCTTATC
** *
46191137 TTCATGTACTGG-CGTGAAGTAGATC
64 TTCACATACTGGTGGTGAAGTAGATC
46191162 AAAGA
1 AAAGA
46191167 TAGTAGGTCC
Statistics
Matches: 161, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
88 39 0.24
89 122 0.76
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
AAAGAAAGCAGATCTTGTCTCCACATACTGGCGTGAAGTAGATCAGAGAAACCAGATCTTATCTT
CACATACTGGTGGTGAAGTAGATC
Found at i:46191183 original size:44 final size:45
Alignment explanation
Indices: 46190896--46191183 Score: 278
Period size: 44 Copynumber: 6.5 Consensus size: 45
46190886 GAGCAGGTTG
* **
46190896 AAAGATAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * * * * *
46190940 ATAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * **
46190985 GAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * * *
46191029 AGAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * * * *
46191074 AAAGA-AACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * * **
46191118 GAAGAAAGCAGATCTTATCTTCATGTACTGG-CGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * *
46191162 AAAGATAGTAGGTCCTGTCTTC
1 AAAGATAGCAGATCTTGTCTTC
46191184 CTATATCGGT
Statistics
Matches: 196, Mismatches: 45, Indels: 6
0.79 0.18 0.02
Matches are distributed among these distances:
44 127 0.65
45 69 0.35
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
AAAGATAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
Found at i:46193777 original size:101 final size:101
Alignment explanation
Indices: 46193599--46193832 Score: 387
Period size: 101 Copynumber: 2.3 Consensus size: 101
46193589 ACATTCGTAA
* * *
46193599 TGCCATAACCCAATTATGGTCTTATCATCAGAATGACATAGCCCAGCTATGGTCTTACATATAAA
1 TGCCATAACCTAGTTATGGTCTTATCATCAGAATGACATAACCCAGCTATGGTCTTACATATAAA
*
46193664 CACTGCCATGGTCCAACCATGGTCTTACGTTCATAG
66 CACTGCCATGGTCCAACCATGGTCTTAAGTTCATAG
* ** *
46193700 TGTCATAACCTAGTTATGGTCTTATCATCAGAATGTTATAACTCAGCTATGGTCTTACATATAAA
1 TGCCATAACCTAGTTATGGTCTTATCATCAGAATGACATAACCCAGCTATGGTCTTACATATAAA
46193765 CACTGCCATGGTCCAACCATGGTCTTAAGTTCATAG
66 CACTGCCATGGTCCAACCATGGTCTTAAGTTCATAG
46193801 TGCCATAACCTAGTTATGGTCTTATGCATCAG
1 TGCCATAACCTAGTTATGGTCTTAT-CATCAG
46193833 TTCATCCTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 117 0.95
102 6 0.05
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (101 bp):
TGCCATAACCTAGTTATGGTCTTATCATCAGAATGACATAACCCAGCTATGGTCTTACATATAAA
CACTGCCATGGTCCAACCATGGTCTTAAGTTCATAG
Found at i:46197877 original size:29 final size:27
Alignment explanation
Indices: 46197844--46197909 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
46197834 CTCTTTCTTG
* *
46197844 TTGTTATTTTTGAA-TTCATCCTTTAAAT
1 TTGTTATTTTTCAACTTAATCC-TT-AAT
46197872 TCTGTT-TGTTTTCAACTTAATCCTTAAT
1 T-TGTTAT-TTTTCAACTTAATCCTTAAT
46197900 TTGTTATTTT
1 TTGTTATTTT
46197910 AGGTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
27 7 0.22
28 7 0.22
29 12 0.38
30 6 0.19
ACGTcount: A:0.21, C:0.12, G:0.08, T:0.59
Consensus pattern (27 bp):
TTGTTATTTTTCAACTTAATCCTTAAT
Found at i:46198135 original size:24 final size:23
Alignment explanation
Indices: 46198094--46198185 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 23
46198084 CATATTATGT
46198094 ATATATTTTATTATTATTTTATTTTC
1 ATAT-TTTTA-TA-TATTTTATTTTC
* *
46198120 ATAATTTTTATATATTTTATATAC
1 AT-ATTTTTATATATTTTATTTTC
46198144 ATTTATATTTTATAATATTTATATTTTC
1 A--TAT-TTTTAT-ATATTT-TATTTTC
46198172 ATA-TTTTATA-ATTT
1 ATATTTTTATATATTT
46198186 ATATATGTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
22 4 0.07
23 1 0.02
24 17 0.30
25 4 0.07
26 16 0.29
27 8 0.14
28 6 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATTTTTATATATTTTATTTTC
Found at i:46198139 original size:35 final size:35
Alignment explanation
Indices: 46198093--46198175 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
46198083 GCATATTATG
* *
46198093 TATATATTTTAT-TATTATTT-TATTTTCATAATTTT
1 TATATATTTTATATA-CATTTATATTTT-ATAATATT
46198128 TATATATTTTATATACATTTATATTTTATAATATT
1 TATATATTTTATATACATTTATATTTTATAATATT
*
46198163 TATAT-TTTCATAT
1 TATATATTTTATAT
46198176 TTTATAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 7 0.16
35 28 0.65
36 8 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (35 bp):
TATATATTTTATATACATTTATATTTTATAATATT
Found at i:46198152 original size:17 final size:17
Alignment explanation
Indices: 46198130--46198175 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
46198120 ATAATTTTTA
46198130 TATATTTTATATACATT
1 TATATTTTATATACATT
*
46198147 TATATTTTATA-ATATT
1 TATATTTTATATACATT
46198163 TATATTTTCATAT
1 TATATTTT-ATAT
46198176 TTTATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (17 bp):
TATATTTTATATACATT
Found at i:46198169 original size:52 final size:50
Alignment explanation
Indices: 46198095--46198191 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 50
46198085 ATATTATGTA
*
46198095 TATATTTTATTATTATTTTATTTTCATAATTTTTATATATTT-TATATACATT
1 TATATTTTATTAATATTTTATTTTCAT-A-TTTTATA-ATTTATATATACATT
46198147 TATATTTTA-TAATATTTATATTTTCATATTTTATAATTTATATAT
1 TATATTTTATTAATATTT-TATTTTCATATTTTATAATTTATATAT
46198192 GTTTATACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
49 4 0.10
50 12 0.29
51 8 0.19
52 18 0.43
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (50 bp):
TATATTTTATTAATATTTTATTTTCATATTTTATAATTTATATATACATT
Found at i:46198177 original size:14 final size:16
Alignment explanation
Indices: 46198095--46198198 Score: 79
Period size: 16 Copynumber: 6.2 Consensus size: 16
46198085 ATATTATGTA
*
46198095 TATATTTTATTATTATT
1 TATATTTTA-TAATATT
*
46198112 T-TATTTTCATAATTTTT
1 TATATTTT-ATAA-TATT
*
46198129 ATATATTTTATATACATT
1 -TATATTTTATA-ATATT
46198147 TATATTTTATAATATT
1 TATATTTTATAATATT
46198163 TATATTTTCAT-AT-TT
1 TATATTTT-ATAATATT
* *
46198178 TATAATTTATATATGTT
1 TATATTTTATA-ATATT
46198195 TATA
1 TATA
46198199 CATTCTTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.03
15 9 0.12
16 24 0.33
17 24 0.33
18 6 0.08
19 7 0.10
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (16 bp):
TATATTTTATAATATT
Found at i:46198198 original size:8 final size:7
Alignment explanation
Indices: 46198130--46198189 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
46198120 ATAATTTTTA
46198130 TATATTT
1 TATATTT
46198137 TATATACATT
1 TATAT---TT
46198147 TATATTT
1 TATATTT
46198154 TATAATATT
1 TAT-AT-TT
46198163 TATATTT
1 TATATTT
46198170 TCATATTT
1 T-ATATTT
*
46198178 TATAATT
1 TATATTT
46198185 TATAT
1 TATAT
46198190 ATGTTTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
7 22 0.49
8 11 0.24
9 5 0.11
10 7 0.16
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATTT
Found at i:46198198 original size:17 final size:17
Alignment explanation
Indices: 46198130--46198198 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
46198120 ATAATTTTTA
* *
46198130 TATATTTTATATACATT
1 TATAATTTATATATATT
*
46198147 TATATTTTATA-ATATT
1 TATAATTTATATATATT
46198163 TAT-ATTT-TCATAT-TT
1 TATAATTTAT-ATATATT
*
46198178 TATAATTTATATATGTT
1 TATAATTTATATATATT
46198195 TATA
1 TATA
46198199 CATTCTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
14 1 0.02
15 9 0.20
16 17 0.38
17 18 0.40
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (17 bp):
TATAATTTATATATATT
Found at i:46232108 original size:16 final size:18
Alignment explanation
Indices: 46232082--46232114 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46232072 TTAGAATTGG
46232082 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
46232099 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
46232115 TCTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:46233458 original size:41 final size:41
Alignment explanation
Indices: 46233400--46233508 Score: 182
Period size: 41 Copynumber: 2.6 Consensus size: 41
46233390 CTTAATTTAA
*
46233400 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
46233442 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
46233483 CAGATCATCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
46233509 ACGTATAGTC
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
41 60 0.94
42 4 0.06
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:46235442 original size:19 final size:20
Alignment explanation
Indices: 46235404--46235445 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
46235394 TATGATTTAT
*
46235404 CAACATATTTATTTATATAA
1 CAACATATTTATTTAGATAA
*
46235424 CAACAT-TTTATTTGGATAA
1 CAACATATTTATTTAGATAA
46235443 CAA
1 CAA
46235446 AATCTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (20 bp):
CAACATATTTATTTAGATAA
Found at i:46238485 original size:30 final size:31
Alignment explanation
Indices: 46238451--46238510 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
46238441 AAACCTTTTA
* *
46238451 TTTTCTCCTAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
*
46238481 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
46238511 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:46241157 original size:24 final size:25
Alignment explanation
Indices: 46241130--46241193 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
46241120 TTAAGCTCAC
**
46241130 ATGAGCTTTCTGTT-TTAAACTCTT
1 ATGAGCTTTCTGTTATTAAACTCGG
*
46241154 ATGAG-TTTCTTGTTATTAAGCTCGG
1 ATGAGCTTTC-TGTTATTAAACTCGG
*
46241179 ATAAGCTTTCTGTTA
1 ATGAGCTTTCTGTTA
46241194 CATGGCTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 4 0.12
24 9 0.27
25 16 0.48
26 4 0.12
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (25 bp):
ATGAGCTTTCTGTTATTAAACTCGG
Found at i:46250962 original size:17 final size:17
Alignment explanation
Indices: 46250940--46250983 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
46250930 AATTGATCAC
46250940 ATGTATGATAA-TGCCTT
1 ATGTATGA-AAGTGCCTT
*
46250957 ATGTATGAAAGTGTCTT
1 ATGTATGAAAGTGCCTT
46250974 ATGTATGAAA
1 ATGTATGAAA
46250984 TTGATCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (17 bp):
ATGTATGAAAGTGCCTT
Found at i:46254179 original size:42 final size:40
Alignment explanation
Indices: 46254133--46254222 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 40
46254123 TAAAAAGTAT
* *
46254133 TTATATTAAAAAAACACTACCATAAAGATAATAAATGTTTTA
1 TTATATTAAAAAAACAC-A-AATAAAGATAATAAATATTTTA
*
46254175 TTATATT--AAAAACACAAATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACACAAATAAAGATAATAAATATTTTA
46254213 TTATATTAAA
1 TTATATTAAA
46254223 TATAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
38 26 0.60
39 1 0.02
40 9 0.21
42 7 0.16
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (40 bp):
TTATATTAAAAAAACACAAATAAAGATAATAAATATTTTA
Found at i:46254357 original size:18 final size:18
Alignment explanation
Indices: 46254327--46254371 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
46254317 AACGATTTAA
*
46254327 TATAA-ATATATATTTAT
1 TATAACATATATAATTAT
46254344 TATTTAACATATATAATTAT
1 TA--TAACATATATAATTAT
46254364 TATAACAT
1 TATAACAT
46254372 TTTTTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 3 0.12
20 13 0.54
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAACATATATAATTAT
Found at i:46262189 original size:4 final size:4
Alignment explanation
Indices: 46262180--46262218 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
46262170 CTGCTCATTT
46262180 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
46262219 GCGTGCATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:46262404 original size:26 final size:27
Alignment explanation
Indices: 46262375--46262430 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
46262365 ATAATTTTTT
46262375 TTATTTACCAAAATATAT-AAAAAAAA
1 TTATTTACCAAAATATATCAAAAAAAA
*
46262401 TTATTTATCAAAATATATCAAAAAAAA
1 TTATTTACCAAAATATATCAAAAAAAA
46262428 TTA
1 TTA
46262431 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (27 bp):
TTATTTACCAAAATATATCAAAAAAAA
Found at i:46262435 original size:12 final size:12
Alignment explanation
Indices: 46262420--46262454 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46262410 AAAATATATC
*
46262420 AAAAAAAATTAA
1 AAAAAAAATCAA
*
46262432 AAAAAAAACCAA
1 AAAAAAAATCAA
46262444 AAAAAAAATCA
1 AAAAAAAATCA
46262455 GATCGATGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAAAAAATCAA
Found at i:46262439 original size:26 final size:26
Alignment explanation
Indices: 46262384--46262439 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
46262374 TTTATTTACC
** **
46262384 AAAATATATAAAAAAAATTATTTATC
1 AAAATATATAAAAAAAATTATAAAAA
46262410 AAAATATATCAAAAAAAATTA-AAAAA
1 AAAATATAT-AAAAAAAATTATAAAAA
46262436 AAAA
1 AAAA
46262440 CCAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAATATATAAAAAAAATTATAAAAA
Found at i:46262520 original size:27 final size:27
Alignment explanation
Indices: 46262490--46262556 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
46262480 CGCCAATAGT
*
46262490 ATTGGCGGCACCAAAGGTGCCAAAAC-C
1 ATTGGCGGCACCAAAGGTGCC-AAACTA
* *
46262517 ATTGGCGGCACCAATGGTGCCATACTA
1 ATTGGCGGCACCAAAGGTGCCAAACTA
46262544 ATTGGCGGCACCA
1 ATTGGCGGCACCA
46262557 CTCGTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAACTA
Found at i:46262653 original size:11 final size:11
Alignment explanation
Indices: 46262637--46262673 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
46262627 GTTGGCGCGG
46262637 AAAAGAAGAGA
1 AAAAGAAGAGA
46262648 AAAAG-AGAGA
1 AAAAGAAGAGA
*
46262658 AAAAGAGGAGA
1 AAAAGAAGAGA
46262669 AAAAG
1 AAAAG
46262674 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:46262738 original size:19 final size:21
Alignment explanation
Indices: 46262700--46262738 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
46262690 AATAATTGAT
*
46262700 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
46262721 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
46262739 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:46262796 original size:3 final size:3
Alignment explanation
Indices: 46262784--46262824 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
46262774 AAAATAATAG
46262784 TAT TAGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46262825 GTTGTTGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:46262829 original size:3 final size:3
Alignment explanation
Indices: 46262823--46262860 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
46262813 ATTATTATTA
46262823 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
46262861 AGTATTAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:46262991 original size:34 final size:35
Alignment explanation
Indices: 46262953--46263032 Score: 135
Period size: 36 Copynumber: 2.3 Consensus size: 35
46262943 GTTAGTTAGT
*
46262953 TATTATTTTTAG-TAAAATTAATAATTTTAGTGTG
1 TATTATTTTGAGATAAAATTAATAATTTTAGTGTG
46262987 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
1 TATTATTTTGAG-ATAAAATTAATAATTTTAGTGTG
46263023 TATTATTTTG
1 TATTATTTTG
46263033 TTTATTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 11 0.26
36 32 0.74
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (35 bp):
TATTATTTTGAGATAAAATTAATAATTTTAGTGTG
Found at i:46265866 original size:159 final size:161
Alignment explanation
Indices: 46265440--46265894 Score: 380
Period size: 160 Copynumber: 2.8 Consensus size: 161
46265430 GTTGAAAAAA
* * *
46265440 AAAATTAGTAAATAAATCTTACTTCGGCCATTTATTCGTATTTTTTTCTTCGCATTTTATTACTT
1 AAAATTAGT-AATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTTCGCATTTTATTACTT
** * *
46265505 TAAAAAATATCAT-AATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
65 TAAAAAATATCATAAATTAGT-ATTTTATAATTTTACATTATTTCAGTACATAATCTTTGAAA-T
* * *
46265569 TATTACTCTAGTGTGTTATTTAAATTAATTTGGTGT
128 TATTACTCTAGTGTATTATTT-AATGAATTT-GTAT
* ** * * *
46265605 AAAA--A--AATAACCCTTACCCCTGCCCTTTGCTCGTATTATTTTC-TCG-ATTTTTATTACTT
1 AAAATTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTTCGCA-TTTTATTACTT
* * * ** * **
46265664 TAAATAAAATTAT-ATTATTCTCGTATTTTATTGTTTTATATTATTTCAGTACATTTTCTTTGAA
65 T-AA-AAAA-TATCATAAAT-TAGTATTTTATAATTTTACATTATTTCAGTACATAATCTTTGAA
* * *
46265728 A-TATT-TTGTA-T-TAATTATTT-CTGAATTT-TAT
126 ATTATTACTCTAGTGT-ATTATTTAATGAATTTGTAT
*
46265759 AAAAGTTAGTAATACACTCTTACTTCTACCATTTGTTCGTATTTTTTTCTTCGCATTTTATTACT
1 AAAA-TTAGTAATA-ACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTTCGCATTTTATTACT
* * * * *
46265824 TTAAAAAATATCATAAACTTAGTCTTTTATAATTTTACATTATATCAGTGCATCATGTTTGAAAT
64 TTAAAAAATATCATAAA-TTAGTATTTTATAATTTTACATTATTTCAGTACATAATCTTTGAAA-
46265889 TTATTA
127 TTATTA
46265895 ATTTAATGTG
Statistics
Matches: 226, Mismatches: 44, Indels: 43
0.72 0.14 0.14
Matches are distributed among these distances:
154 6 0.03
156 6 0.03
157 2 0.01
158 11 0.05
159 64 0.28
160 65 0.29
161 25 0.11
162 40 0.18
163 3 0.01
165 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (161 bp):
AAAATTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTTCGCATTTTATTACTTT
AAAAAATATCATAAATTAGTATTTTATAATTTTACATTATTTCAGTACATAATCTTTGAAATTAT
TACTCTAGTGTATTATTTAATGAATTTGTAT
Found at i:46265901 original size:159 final size:159
Alignment explanation
Indices: 46265440--46265901 Score: 394
Period size: 159 Copynumber: 2.9 Consensus size: 159
46265430 GTTGAAAAAA
* * *
46265440 AAAATTAGTAAATAAATCTTACTTCGGCCATTTATTCGTATTTTTTTCTTCGCATTTTATTACTT
1 AAAATTAGT-AATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTTCGCATTTTATTACTT
**
46265505 TAAAAAATATCAT-AATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
65 TAAAAAATATCATAAATTAGT-ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
* * * *
46265569 TATTACTCTAGTGT-GTTATTTAAATTAATTTGGTGT
129 TATTA--ATA-T-TAATTATTT-AATGAATTT-GTAT
* ** * * *
46265605 AAAA--A--AATAACCCTTACCCCTGCCCTTTGCTCGTATTATTTTC-TCG-ATTTTTATTACTT
1 AAAATTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTTCGCA-TTTTATTACTT
* * * ** * * ** *
46265664 TAAATAAAATTAT-ATTATTCTCGTATTTTATTGTTTTATATTATTTCAGTACATTTTCTTTGAA
65 T-AA-AAAA-TATCATAAAT-TAGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAA
* *
46265728 ATATT-TT-GTATTAATTATTT-CTGAATTT-TAT
126 AT-TTATTAATATTAATTATTTAATGAATTTGTAT
*
46265759 AAAAGTTAGTAATACACTCTTACTTCTACCATTTGTTCGTATTTTTTTCTTCGCATTTTATTACT
1 AAAA-TTAGTAATA-ACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTTCGCATTTTATTACT
* * *
46265824 TTAAAAAATATCATAAACTTAGTCTTTTATAATTTTACATTATATCAGTGCATCATGTTTGAAAT
64 TTAAAAAATATCATAAA-TTAGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAAT
46265889 TTATTAAT-TTAAT
128 TTATTAATATTAAT
46265902 GTGTTAAGGG
Statistics
Matches: 233, Mismatches: 44, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
154 6 0.03
156 6 0.03
157 2 0.01
158 13 0.06
159 71 0.30
160 62 0.27
161 21 0.09
162 43 0.18
163 5 0.02
165 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (159 bp):
AAAATTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTTCGCATTTTATTACTTT
AAAAAATATCATAAATTAGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTA
TTAATATTAATTATTTAATGAATTTGTAT
Found at i:46266755 original size:21 final size:21
Alignment explanation
Indices: 46266731--46266840 Score: 74
Period size: 21 Copynumber: 5.3 Consensus size: 21
46266721 CCTTCCTTCC
46266731 CTCTTCTTCTTCTTTTTTTTT
1 CTCTTCTTCTTCTTTTTTTTT
*
46266752 CTCTTCTCCTT-TTCTTTTCTTT
1 CTCTTCTTCTTCTT-TTTT-TTT
*
46266774 C-CTTCTTTCTTTCTTTTTTCTT
1 CTCTTC-TTC-TTCTTTTTTTTT
* *
46266796 CTCTT-TTCCTTCTCTTCTTGTT
1 CTCTTCTT-CTTCT-TTTTTTTT
46266818 CT-TTC-T-TTC--TTTTTTT
1 CTCTTCTTCTTCTTTTTTTTT
46266834 CTCTTCT
1 CTCTTCT
46266841 CCTTTCCCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 25
0.69 0.07 0.24
Matches are distributed among these distances:
16 7 0.10
17 3 0.04
19 3 0.04
20 2 0.03
21 27 0.38
22 18 0.25
23 9 0.13
24 2 0.03
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.71
Consensus pattern (21 bp):
CTCTTCTTCTTCTTTTTTTTT
Found at i:46266758 original size:18 final size:18
Alignment explanation
Indices: 46266735--46266814 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
46266725 CCTTCCCTCT
46266735 TCTTCTTCTTTTTTTTTC
1 TCTTCTTCTTTTTTTTTC
* *
46266753 TCTTCTCCTTTTCTTTTC
1 TCTTCTTCTTTTTTTTTC
46266771 T-TTCCTTCTTTCTTTCTTT-
1 TCTT-CTTCTTT-TTT-TTTC
**
46266790 T-TTCTTCTCTTTTCCTTC
1 TCTTCTTCT-TTTTTTTTC
46266808 TCTTCTT
1 TCTTCTT
46266815 GTTCTTTCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 4 0.08
18 31 0.62
19 12 0.24
20 3 0.06
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TCTTCTTCTTTTTTTTTC
Found at i:46266762 original size:34 final size:38
Alignment explanation
Indices: 46266709--46266913 Score: 119
Period size: 40 Copynumber: 5.4 Consensus size: 38
46266699 TTACCTTTTT
46266709 TTTC-TTTTTTTTC-C-T-TCC-TTC-CCTCTTC-TTC
1 TTTCTTTTTTTTTCTCTTCTCCTTTCTCCTCTTCTTTC
** *
46266740 -TTCTTTTTTTTTCTCTTCTCCTTTTCTTTTCTTTCCTTC
1 TTTCTTTTTTTTTCTCTTCTCC-TTTCTCCTC-TTCTTTC
* * *
46266779 TTTCTTTCTTTTT-TCTTCTCTTTTCCTTCTCTTCTTGTTC
1 TTTCTTTTTTTTTCTCTTCTCCTTT-CTCCTCTTC-T-TTC
46266819 TTTCTTTCTTTTTTTCTCTTCTCCTTTC-CCT-TTCTTTC
1 TTTC-TT-TTTTTTTCTCTTCTCCTTTCTCCTCTTCTTTC
* * * *
46266857 CTTCTTTTTCTTTCTTCCCTCTCCGTTCTTCCT-TTCTTTC
1 TTTCTTTTTTTTTC-T-CTTCTCCTTTC-TCCTCTTCTTTC
*
46266897 TCTCTTTCTTTCTTTCT
1 TTTCTTT-TTT-TTTCT
46266914 TTCCCTCTCC
Statistics
Matches: 136, Mismatches: 16, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
30 3 0.02
31 9 0.07
32 1 0.01
33 1 0.01
34 3 0.02
36 10 0.07
37 5 0.04
38 24 0.18
39 16 0.12
40 36 0.26
41 7 0.05
42 11 0.08
43 10 0.07
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (38 bp):
TTTCTTTTTTTTTCTCTTCTCCTTTCTCCTCTTCTTTC
Found at i:46266783 original size:4 final size:4
Alignment explanation
Indices: 46266762--46266916 Score: 93
Period size: 4 Copynumber: 37.0 Consensus size: 4
46266752 CTCTTCTCCT
* *
46266762 TTTC TTTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTC CTTC TCTTC
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC T-TTC
* * *
46266813 TTGTTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCCC TTTC TTTC CTTC
1 -T-TTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT--C TTTC TTTC TTTC
* * * * *
46266861 -TT- TTTC TTTC TTCCC TCTCC GTTC TTCC TTTC TTTC TCTC TTTC TTTC
1 TTTC TTTC TTTC TT-TC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
46266909 TTTC TTTC
1 TTTC TTTC
46266917 CCTCTCCTTC
Statistics
Matches: 119, Mismatches: 18, Indels: 27
0.73 0.11 0.16
Matches are distributed among these distances:
3 9 0.08
4 80 0.67
5 19 0.16
6 11 0.09
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:46266790 original size:44 final size:44
Alignment explanation
Indices: 46266733--46266872 Score: 152
Period size: 44 Copynumber: 3.3 Consensus size: 44
46266723 TTCCTTCCCT
46266733 CTTC-TTC-TTCTTTTTTTTTCTCTTCTCCTTTTCTTTTCTTTC
1 CTTCTTTCTTTCTTTTTTTTTCTCTTCTCCTTTTCTTTTCTTTC
* * *
46266775 CTTCTTTCTTTCTTTTTTCTTCTCTTTTCC--TTCTCTTC-TT-
1 CTTCTTTCTTTCTTTTTTTTTCTCTTCTCCTTTTCTTTTCTTTC
* * *
46266815 GTTCTTTCTTTC--TTTTTTTCTCTTCTCCTTTCCCTTTCTTTC
1 CTTCTTTCTTTCTTTTTTTTTCTCTTCTCCTTTTCTTTTCTTTC
46266857 CTTCTTTTTCTTTCTT
1 CTTC--TTTCTTTCTT
46266873 CCCTCTCCGT
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
38 14 0.18
40 16 0.21
41 4 0.05
42 14 0.18
43 3 0.04
44 27 0.35
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (44 bp):
CTTCTTTCTTTCTTTTTTTTTCTCTTCTCCTTTTCTTTTCTTTC
Found at i:46266820 original size:53 final size:53
Alignment explanation
Indices: 46266708--46266840 Score: 136
Period size: 53 Copynumber: 2.6 Consensus size: 53
46266698 ATTACCTTTT
* * ** * *
46266708 TTTTCTTTTTTTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTCTCTTCTCC
1 TTTTCTTTTCTTTCCTTCTTTCTTTCTTCTTCTTCTTCTCTTTTCTCTTCTCC
46266761 TTTTCTTTTCTTTCCTTCTTTCTTTCTT-TT-TTCTTCTCTTTTC-CTTCT-C
1 TTTTCTTTTCTTTCCTTCTTTCTTTCTTCTTCTTCTTCTCTTTTCTCTTCTCC
* *
46266810 --TTCTTGTTCTTTCTTTCTTTTTTTC-TCTTCT
1 TTTTCTT-TTCTTTCCTTCTTTCTTTCTTCTTCT
46266841 CCTTTCCCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
47 6 0.09
48 19 0.28
49 2 0.03
50 5 0.07
51 11 0.16
52 2 0.03
53 24 0.35
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.71
Consensus pattern (53 bp):
TTTTCTTTTCTTTCCTTCTTTCTTTCTTCTTCTTCTTCTCTTTTCTCTTCTCC
Found at i:46266841 original size:82 final size:82
Alignment explanation
Indices: 46266706--46266872 Score: 223
Period size: 82 Copynumber: 2.0 Consensus size: 82
46266696 AAATTACCTT
* * * *
46266706 TTTTTTCTTTTTTTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTTCTTTTC
1 TTTTTTCTTTCTTTTCCTTCCTTCCCTCTTCTTCTTCTCTTTTTTTCTCTTCTCCTTTCCCTTTC
46266771 TTTCCTTC-TTTCTTTC
66 TTTCCTTCTTTTCTTTC
* *
46266787 TTTTTTCTTCTCTTTTCCTTCTCTT-CTTGTTCTTTCTT-TCTTTTTTTCTCTTCTCCTTTCCCT
1 TTTTTTCTT-TCTTTTCCTTC-CTTCCCTCTTC-TTCTTCTCTTTTTTTCTCTTCTCCTTTCCCT
46266850 TTCTTTCCTTCTTTTTCTTTC
63 TTCTTTCCTTC-TTTTCTTTC
46266871 TT
1 TT
46266873 CCCTCTCCGT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
81 9 0.12
82 48 0.64
83 8 0.11
84 10 0.13
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (82 bp):
TTTTTTCTTTCTTTTCCTTCCTTCCCTCTTCTTCTTCTCTTTTTTTCTCTTCTCCTTTCCCTTTC
TTTCCTTCTTTTCTTTC
Found at i:46266903 original size:82 final size:82
Alignment explanation
Indices: 46266745--46266925 Score: 212
Period size: 82 Copynumber: 2.2 Consensus size: 82
46266735 TCTTCTTCTT
* * * *
46266745 TTTTTTTCTCTTCTCCTTTTCTTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTCTC
1 TTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTTCTTTTTCCCTCTCTTTTCCTTCTC
*
46266810 TTCTTGTTCTTTCTTTC
66 TTCTTGCTCTTTCTTTC
46266827 TTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTC-TT-TTTCTTTCTTCCCTCTCCGTTCTTCCT
1 TTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTTCTTT-TTCCCTCT-C-TT-TTCCT
46266890 T-TCTT-TCT-CTCTTTCTTTC
62 TCTCTTCT-TGCTCTTTCTTTC
* *
46266909 TTTCTTTC-CCTCTCCTT
1 TTTTTTTCTCTTCTCCTT
46266926 CTGCCCCCCA
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
80 7 0.08
81 16 0.18
82 51 0.59
83 7 0.08
84 6 0.07
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (82 bp):
TTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTTCTTTTTCCCTCTCTTTTCCTTCTC
TTCTTGCTCTTTCTTTC
Found at i:46267035 original size:27 final size:27
Alignment explanation
Indices: 46266960--46267026 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
46266950 TATTATTAAC
46266960 TGGTGCCGCCAATAGTATTGGCACCAT
1 TGGTGCCGCCAATAGTATTGGCACCAT
* * *
46266987 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATAGTATTGGCACCAT
46267014 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
46267027 CCCATTGGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATAGTATTGGCACCAT
Found at i:46267114 original size:27 final size:28
Alignment explanation
Indices: 46267082--46267157 Score: 127
Period size: 27 Copynumber: 2.7 Consensus size: 28
46267072 TGCAGGTTTT
46267082 TTTTATATATTTTGGTAAATAAAAAAAA
1 TTTTATATATTTTGGTAAATAAAAAAAA
46267110 -TTTATATATTTTGGTAAATAAAAAAAA
1 TTTTATATATTTTGGTAAATAAAAAAAA
*
46267137 TTTTATAATATTTTGATAAAT
1 TTTTAT-ATATTTTGGTAAAT
46267158 TTTTATTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 27 0.60
28 5 0.11
29 13 0.29
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (28 bp):
TTTTATATATTTTGGTAAATAAAAAAAA
Found at i:46269165 original size:25 final size:25
Alignment explanation
Indices: 46269131--46269178 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
46269121 TATCAAATCT
46269131 TTATTTCATAAAAACTGTTAGAAAG
1 TTATTTCATAAAAACTGTTAGAAAG
*
46269156 TTATTTCATAAACACTGTTAGAA
1 TTATTTCATAAAAACTGTTAGAA
46269179 TAGCATTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (25 bp):
TTATTTCATAAAAACTGTTAGAAAG
Found at i:46269190 original size:25 final size:25
Alignment explanation
Indices: 46269137--46269193 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
46269127 ATCTTTATTT
* *
46269137 CATAAAAACTGTTAGAAAGTTATTT
1 CATAAAAACTGTTAGAAAGTCATTC
*
46269162 CATAAACACTGTTAGAATAG-CATTC
1 CATAAAAACTGTTAGAA-AGTCATTC
46269187 CATAAAA
1 CATAAAA
46269194 TCAGAAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (25 bp):
CATAAAAACTGTTAGAAAGTCATTC
Found at i:46269669 original size:31 final size:31
Alignment explanation
Indices: 46269634--46269696 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
46269624 AACACTAAGA
46269634 AACAAATACACCCTTTAATTTTGAACACAAC
1 AACAAATACACCCTTTAATTTTGAACACAAC
*
46269665 AACAAATACACCTTTTAATTTTGAACACAAC
1 AACAAATACACCCTTTAATTTTGAACACAAC
46269696 A
1 A
46269697 CGAAAATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (31 bp):
AACAAATACACCCTTTAATTTTGAACACAAC
Found at i:46284313 original size:29 final size:29
Alignment explanation
Indices: 46284270--46284326 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
46284260 TACAAAACTC
* * *
46284270 AACCCATCTCGTCAAAATTATTTTTTCAG
1 AACCCATCCCCTCAAAACTATTTTTTCAG
46284299 AACCCATCCCCTCAAAACTATTTTTTCA
1 AACCCATCCCCTCAAAACTATTTTTTCA
46284327 AAATCCGTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (29 bp):
AACCCATCCCCTCAAAACTATTTTTTCAG
Found at i:46285008 original size:20 final size:20
Alignment explanation
Indices: 46284960--46285020 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
46284950 ATTTTATAGA
46284960 ATAACAATA-ATATTTTATTT
1 ATAA-AATATATATTTTATTT
* **
46284980 TTATGATATATATTTTATTT
1 ATAAAATATATATTTTATTT
*
46285000 ATAAAATATGATATGTTATTT
1 ATAAAATAT-ATATTTTATTT
46285021 TACTAATTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.09
20 19 0.59
21 10 0.31
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (20 bp):
ATAAAATATATATTTTATTT
Found at i:46287827 original size:31 final size:31
Alignment explanation
Indices: 46287789--46287850 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
46287779 TAGTAGCGGT
*
46287789 GCCAAAGTGATAGGCGGCACCACTTTGTCCA
1 GCCAAAGTGATAGGCGGCACCACTTAGTCCA
46287820 GCCAAAGTGATAGGCGGCACCACTTAGTCCA
1 GCCAAAGTGATAGGCGGCACCACTTAGTCCA
46287851 TTCTGGTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.18
Consensus pattern (31 bp):
GCCAAAGTGATAGGCGGCACCACTTAGTCCA
Found at i:46291222 original size:62 final size:62
Alignment explanation
Indices: 46291156--46291385 Score: 388
Period size: 62 Copynumber: 3.7 Consensus size: 62
46291146 CAATGTACCT
46291156 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
46291218 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTATAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * * *
46291280 AATTTAGATTACAAAGTTTGTTCTAATTTTTAATATTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * *
46291342 AATTTATATTATAAAGTTTGTTCCAAGTTTTAGTGTTGTAATGT
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGT
46291386 TGCAATTAAT
Statistics
Matches: 156, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 156 1.00
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
Found at i:46291829 original size:62 final size:62
Alignment explanation
Indices: 46291710--46291831 Score: 145
Period size: 62 Copynumber: 2.0 Consensus size: 62
46291700 AACTTGAGTT
* * * * * * * *
46291710 GGGAGGAGTGTTGTTCTATGGTGGATACGACCTAGGAGGAGTGGAGTAATACGGTGGATATG
1 GGGAAGAGTGTTGTACTACGGTGGATACGACCTAAGAAGAATGAAGTAATACAGTGGATATG
* **
46291772 GGGAAGAGTGTTGTACTGCGGTGGATACGACCTAAGAAGAATGAAGTAATGTAGTGGATA
1 GGGAAGAGTGTTGTACTACGGTGGATACGACCTAAGAAGAATGAAGTAATACAGTGGATA
46291832 CGGGCTGAGA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.29, C:0.08, G:0.39, T:0.25
Consensus pattern (62 bp):
GGGAAGAGTGTTGTACTACGGTGGATACGACCTAAGAAGAATGAAGTAATACAGTGGATATG
Found at i:46292006 original size:24 final size:24
Alignment explanation
Indices: 46291979--46292024 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46291969 TATATGACCA
* *
46291979 CTCAGGATCTGGCTCTGGCTCGAG
1 CTCAAGATCGGGCTCTGGCTCGAG
*
46292003 CTCAAGCTCGGGCTCTGGCTCG
1 CTCAAGATCGGGCTCTGGCTCG
46292025 GCCTCTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.33, G:0.33, T:0.24
Consensus pattern (24 bp):
CTCAAGATCGGGCTCTGGCTCGAG
Found at i:46294640 original size:17 final size:16
Alignment explanation
Indices: 46294618--46294651 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
46294608 ACAAACTCTC
46294618 TTTTCCTTTTCTATTTT
1 TTTTCCTTTTCT-TTTT
46294635 TTTTCCTTTTCTTTTT
1 TTTTCCTTTTCTTTTT
46294651 T
1 T
46294652 CCTTCCCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCCTTTTCTTTTT
Found at i:46294657 original size:17 final size:17
Alignment explanation
Indices: 46294620--46294657 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
46294610 AAACTCTCTT
*
46294620 TTCCTTTTCTATTTTTT
1 TTCCTTTTCTATTTTTC
46294637 TTCCTTTTCT-TTTTTCC
1 TTCCTTTTCTATTTTT-C
46294654 TTCC
1 TTCC
46294658 CTGTAACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCCTTTTCTATTTTTC
Found at i:46296566 original size:40 final size:42
Alignment explanation
Indices: 46296468--46296567 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 42
46296458 ATTGATCTCG
* * *
46296468 ATTTTGCACACTTAGTGC-CTGTTATTTAACATCATTATTTA
1 ATTTCGCACACTTAGTGCTCTGTTATTCAACATCATCATTTA
*
46296509 ATTTCGCACACTTAGTGCTC-GTTATTCAACCTCATCATTTA
1 ATTTCGCACACTTAGTGCTCTGTTATTCAACATCATCATTTA
46296550 A-TTCGCACACTTAGTGCT
1 ATTTCGCACACTTAGTGCT
46296568 AATCATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
40 17 0.31
41 36 0.67
42 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (42 bp):
ATTTCGCACACTTAGTGCTCTGTTATTCAACATCATCATTTA
Found at i:46298829 original size:41 final size:41
Alignment explanation
Indices: 46298760--46298868 Score: 155
Period size: 41 Copynumber: 2.7 Consensus size: 41
46298750 TTTAACACAT
* * *
46298760 TCACTAGCACTTAGCCTGCTTGGCTTATAGCCTGATTCAGA
1 TCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
46298801 TCACCAGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
46298842 TTACCGGCACTTAGCCTGCTAGACTTA
1 TCACCAGCACTTAGCCTGCTAGGCTTA
46298869 AAGTCTGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (41 bp):
TCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:46298889 original size:41 final size:41
Alignment explanation
Indices: 46298844--46299038 Score: 209
Period size: 41 Copynumber: 4.8 Consensus size: 41
46298834 GATTCAGATT
* * *
46298844 ACCGGCACTT-AGCCTGCTAGACTTAAAGTCTGAATTATTTC
1 ACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
* * * *
46298885 ACCGG---TAAGCCTGCTAGACTTAAAGTCCGAATTATTTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
* *
46298923 ACCGGCCTTAAGCCTGCTAGACATAAAGTTTGAAATAATTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
* * *
46298964 ACCGCCATTAAGCCTGCTAGACATCAAGTTTGAAATAATTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
* * * *
46299005 ACCGGCATTAAACCTGCTAGGCATAGAGCCTGAA
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAA
46299039 TACCACGGAT
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 35 0.26
41 98 0.73
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (41 bp):
ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
Found at i:46300686 original size:24 final size:23
Alignment explanation
Indices: 46300635--46300686 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
46300625 TTGGTACATA
46300635 ATTTTTGAACATGTCATTTTAGT
1 ATTTTTGAACATGTCATTTTAGT
46300658 ATTTTTGAACATGTCATTTTAGT
1 ATTTTTGAACATGTCATTTTAGT
46300681 ATTTTT
1 ATTTTT
46300687 TAATTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.56
Consensus pattern (23 bp):
ATTTTTGAACATGTCATTTTAGT
Found at i:46305266 original size:21 final size:21
Alignment explanation
Indices: 46305240--46305282 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
46305230 GGTTCGCTGT
*
46305240 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
46305261 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
46305282 A
1 A
46305283 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:46305282 original size:16 final size:16
Alignment explanation
Indices: 46305263--46305295 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46305253 TGTATTGGAT
*
46305263 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
46305279 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
46305295 T
1 T
46305296 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:46305340 original size:45 final size:44
Alignment explanation
Indices: 46305274--46305368 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
46305264 GGATTAGAGG
* *
46305274 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
46305319 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
46305363 TGTAAT
1 TGTAAT
46305369 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:46305551 original size:18 final size:17
Alignment explanation
Indices: 46305530--46305564 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46305520 TTATTATTTA
*
46305530 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46305548 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46305565 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46305558 original size:28 final size:27
Alignment explanation
Indices: 46305488--46305560 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
46305478 TTTATTATCA
*
46305488 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
46305516 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
46305543 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
46305561 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:46305677 original size:144 final size:147
Alignment explanation
Indices: 46305449--46305720 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
46305439 ATGATTATTG
46305449 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
46305514 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
46305579 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
* *
46305598 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTACTCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
46305660 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
46305721 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 91 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:46305695 original size:18 final size:17
Alignment explanation
Indices: 46305674--46305708 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46305664 TTATTATTAA
*
46305674 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46305692 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46305709 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46305791 original size:119 final size:119
Alignment explanation
Indices: 46305657--46305875 Score: 411
Period size: 119 Copynumber: 1.8 Consensus size: 119
46305647 CTCATATTTA
* *
46305657 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
46305722 TATTCTTATATGAATTTACTCAAACCATAATATATATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATATACTGTAAAATATAAAAT
46305776 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
46305841 TATTCTTATATGAATTTACTCAAATCATAATATAT
66 TATTCTTATATGAATTTACTCAAACCATAATATAT
46305876 GATTATAACT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 97 1.00
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.42
Consensus pattern (119 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATATACTGTAAAATATAAAAT
Found at i:46305814 original size:18 final size:17
Alignment explanation
Indices: 46305793--46305827 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46305783 TTATTATTAA
46305793 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
46305811 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
46305828 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:46305890 original size:17 final size:16
Alignment explanation
Indices: 46305868--46305914 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
46305858 ACTCAAATCA
46305868 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
46305885 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
46305899 TAAATATATGATTTAA
1 T-AATATATGATTTAA
46305915 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:46305915 original size:17 final size:17
Alignment explanation
Indices: 46305887--46305920 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46305877 ATTATAACTA
*
46305887 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
46305904 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
46305921 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:46306063 original size:93 final size:92
Alignment explanation
Indices: 46305953--46306147 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
46305943 GATTATAGTT
* * *
46305953 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
46306016 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
46306046 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
46306111 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
46306138 TATGAATTTA
1 TATGAATTTA
46306148 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:46311726 original size:37 final size:37
Alignment explanation
Indices: 46311676--46311751 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
46311666 TTATTTTAGA
46311676 TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
1 TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
46311713 TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
1 TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
46311750 TT
1 TT
46311752 CTGGTTTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (37 bp):
TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
Found at i:46321354 original size:24 final size:24
Alignment explanation
Indices: 46321322--46321373 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
46321312 TTTCTAGAAG
* **
46321322 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATATATGAACATAATAT
*
46321346 ATTTAGTATATATTAACATAATAT
1 ATTTAGTATATATGAACATAATAT
46321370 ATTT
1 ATTT
46321374 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGTATATATGAACATAATAT
Found at i:46326978 original size:25 final size:25
Alignment explanation
Indices: 46326939--46326991 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
46326929 TTATTATTGC
*
46326939 TATTGTCATTTTTATCACTATTT-AT
1 TATTGTCATTATTATCA-TATTTGAT
* *
46326964 TATTGTTATTATTATTATATTTGAT
1 TATTGTCATTATTATCATATTTGAT
46326989 TAT
1 TAT
46326992 ATCCCTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (25 bp):
TATTGTCATTATTATCATATTTGAT
Found at i:46328689 original size:27 final size:27
Alignment explanation
Indices: 46328653--46328706 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46328643 TTCTAGAAAA
* **
46328653 TTTAGTATTTATGAGTATAATATATTT
1 TTTAGCATTTATGAACATAATATATTT
*
46328680 TTTAGCATTTATTAACATAATATATTT
1 TTTAGCATTTATGAACATAATATATTT
46328707 GACTTTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (27 bp):
TTTAGCATTTATGAACATAATATATTT
Found at i:46335811 original size:22 final size:21
Alignment explanation
Indices: 46335775--46335816 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
46335765 ACAAAAATAA
*
46335775 AATAAAATAGTAAAATTAAAT
1 AATAAAATAGGAAAATTAAAT
46335796 AATAATAATAGGAAAATTAAA
1 AATAA-AATAGGAAAATTAAA
46335817 AAAAATTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AATAAAATAGGAAAATTAAAT
Found at i:46348938 original size:70 final size:70
Alignment explanation
Indices: 46348855--46348997 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
46348845 AAGCAAATAG
46348855 CAACCATGAGGCATTGTACAAAACCCAGGCATTTGCTTTTATATACATATACTGCAAACCAAAAC
1 CAACCATGAGGCATTGTACAAAACCCAGGCATTTGCTTTTATATACATATACTGCAAACCAAAAC
46348920 TGAAA
66 TGAAA
46348925 CAACCATGAGGCATTGTACAAAACCCAGGCATTTGCTTTTATATACATATACTGCAAACCAAAAC
1 CAACCATGAGGCATTGTACAAAACCCAGGCATTTGCTTTTATATACATATACTGCAAACCAAAAC
46348990 TGAAA
66 TGAAA
46348995 CAA
1 CAA
46348998 TCACCCAACG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.24
Consensus pattern (70 bp):
CAACCATGAGGCATTGTACAAAACCCAGGCATTTGCTTTTATATACATATACTGCAAACCAAAAC
TGAAA
Found at i:46352167 original size:41 final size:38
Alignment explanation
Indices: 46352091--46352176 Score: 95
Period size: 41 Copynumber: 2.2 Consensus size: 38
46352081 TATAAAAATT
*
46352091 ATTTTTATAAAATTATTGATTTTTTTTCAATGTTTTAGA
1 ATTTTTATAAAATTATTGATTTTTTTTCAAGGTTTTA-A
46352130 ATTTTTA-AATAATTATTGACATTTTTTTT-ATAGGTTTTAA
1 ATTTTTATAA-AATTATTG--ATTTTTTTTCA-AGGTTTTAA
46352170 ACTTTTT
1 A-TTTTT
46352177 TTTAGTTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
38 2 0.05
39 15 0.37
40 3 0.07
41 21 0.51
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.59
Consensus pattern (38 bp):
ATTTTTATAAAATTATTGATTTTTTTTCAAGGTTTTAA
Found at i:46352184 original size:18 final size:20
Alignment explanation
Indices: 46352152--46352190 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
46352142 TTATTGACAT
46352152 TTTTTTTATAGGTTTTAAAC
1 TTTTTTTATAGGTTTTAAAC
*
46352172 TTTTTTT-TA-GTTTTGAAC
1 TTTTTTTATAGGTTTTAAAC
46352190 T
1 T
46352191 CATCTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTTTTTATAGGTTTTAAAC
Found at i:46352559 original size:5 final size:5
Alignment explanation
Indices: 46352549--46352575 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46352539 TAAGCCTATT
46352549 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
46352576 AACAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:46353220 original size:13 final size:14
Alignment explanation
Indices: 46353198--46353234 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
46353188 ATAATAGTAT
46353198 TTTAAA-AATTT-A
1 TTTAAATAATTTAA
46353210 TTTAAATAATTTAA
1 TTTAAATAATTTAA
*
46353224 TTGAAATAATT
1 TTTAAATAATT
46353235 AACAACAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 6 0.27
13 5 0.23
14 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TTTAAATAATTTAA
Found at i:46365851 original size:23 final size:23
Alignment explanation
Indices: 46365807--46365851 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46365797 TTCATTGTTT
*
46365807 TTAATATTATTTTAATATTTAAC
1 TTAATATTATTTTAATACTTAAC
*
46365830 TTAATATTTTTTTCAA-ACTTAA
1 TTAATATTATTTT-AATACTTAA
46365852 TTTTAGTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATATTATTTTAATACTTAAC
Found at i:46366230 original size:9 final size:9
Alignment explanation
Indices: 46366218--46366243 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
46366208 ACTCTATTTA
46366218 TTTTATTGG
1 TTTTATTGG
46366227 TTTTATTGG
1 TTTTATTGG
46366236 TTTTATTG
1 TTTTATTG
46366244 TTTGTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.19, T:0.69
Consensus pattern (9 bp):
TTTTATTGG
Found at i:46367944 original size:12 final size:12
Alignment explanation
Indices: 46367927--46367952 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46367917 CATGTCAATC
46367927 ATACATTTCACA
1 ATACATTTCACA
46367939 ATACATTTCACA
1 ATACATTTCACA
46367951 AT
1 AT
46367953 CATAACATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (12 bp):
ATACATTTCACA
Found at i:46369137 original size:30 final size:30
Alignment explanation
Indices: 46369103--46369169 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
46369093 TACAGGGGAT
46369103 ACACGACCATGTCACCTGGCCATATGTCAC
1 ACACGACCATGTCACCTGGCCATATGTCAC
*
46369133 ACACGACCATGTCACCTGGCCGTATGTCAC
1 ACACGACCATGTCACCTGGCCATATGTCAC
46369163 ACACGAC
1 ACACGAC
46369170 TGAGACACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.27, C:0.37, G:0.18, T:0.18
Consensus pattern (30 bp):
ACACGACCATGTCACCTGGCCATATGTCAC
Found at i:46370235 original size:30 final size:31
Alignment explanation
Indices: 46370181--46370275 Score: 115
Period size: 30 Copynumber: 3.1 Consensus size: 31
46370171 AGCCCGGCCT
* * *
46370181 AAATATA-ATAAATATATATTTTTATTTTTA
1 AAATATATTTAAAAATATTTTTTTATTTTTA
46370211 AAA-ATATTTAAAAATATTTTTTTATTTTTA
1 AAATATATTTAAAAATATTTTTTTATTTTTA
46370241 AAATATATTT-AAAATACTTTTTTTAATTTTCTA
1 AAATATATTTAAAAATA-TTTTTTT-ATTTT-TA
46370274 AA
1 AA
46370276 TTTTTTTTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
29 3 0.05
30 32 0.56
31 13 0.23
32 5 0.09
33 4 0.07
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (31 bp):
AAATATATTTAAAAATATTTTTTTATTTTTA
Found at i:46372034 original size:40 final size:43
Alignment explanation
Indices: 46371984--46372078 Score: 115
Period size: 47 Copynumber: 2.2 Consensus size: 43
46371974 GCACCCATAA
*
46371984 CAAGTGGCA-G-TAAT-TGCAAATATGTGGTTTGATCACAAAC
1 CAAGTGGCATGTTAATCTACAAATATGTGGTTTGATCACAAAC
*
46372024 CAAGTGGCAGTTTGTTTAATCTACAAATATGTGGTTTGATCACGAAC
1 CAAGTGGCA---TG-TTAATCTACAAATATGTGGTTTGATCACAAAC
46372071 CAAGTGGC
1 CAAGTGGC
46372079 GGTTTGCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
40 9 0.20
44 1 0.02
46 4 0.09
47 32 0.70
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
CAAGTGGCATGTTAATCTACAAATATGTGGTTTGATCACAAAC
Found at i:46372072 original size:47 final size:47
Alignment explanation
Indices: 46372000--46372102 Score: 161
Period size: 47 Copynumber: 2.2 Consensus size: 47
46371990 GCAGTAATTG
*
46372000 CAAATATGTGGTTTGATCACAAACCAAGTGGCAGTTTGTTTAATCTA
1 CAAATATGTGGTTTGATCACAAACCAAGTGGCAGTTTGCTTAATCTA
* * * *
46372047 CAAATATGTGGTTTGATCACGAACCAAGTGGCGGTTTGCTTAATTTG
1 CAAATATGTGGTTTGATCACAAACCAAGTGGCAGTTTGCTTAATCTA
46372094 CAAATATGT
1 CAAATATGT
46372103 TGTGCACCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (47 bp):
CAAATATGTGGTTTGATCACAAACCAAGTGGCAGTTTGCTTAATCTA
Found at i:46372523 original size:15 final size:15
Alignment explanation
Indices: 46372503--46372532 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46372493 ATTTCGTAAT
46372503 TTCTTTAAAATTTTA
1 TTCTTTAAAATTTTA
*
46372518 TTCTTTAAACTTTTA
1 TTCTTTAAAATTTTA
46372533 GGCCAAGTTA
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:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
TTCTTTAAAATTTTA
Found at i:46374434 original size:17 final size:16
Alignment explanation
Indices: 46374412--46374443 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
46374402 TTTTTGGGAA
46374412 AAAAATTAAAAATTAAT
1 AAAAATT-AAAATTAAT
46374429 AAAAATTAAAATTAA
1 AAAAATTAAAATTAA
46374444 AGTAACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATTAAAATTAAT
Found at i:46376261 original size:20 final size:19
Alignment explanation
Indices: 46376211--46376257 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
46376201 TATCAATATA
46376211 AATATTAAAT--TTAATTT
1 AATATTAAATAATTAATTT
46376228 AATATTAAGATAATTAATTT
1 AATATTAA-ATAATTAATTT
46376248 AATATTAAAT
1 AATATTAAAT
46376258 TAATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.30
18 2 0.07
19 2 0.07
20 15 0.56
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AATATTAAATAATTAATTT
Found at i:46376286 original size:12 final size:11
Alignment explanation
Indices: 46376261--46376317 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
46376251 ATTAAATTAA
*
46376261 TAAAATACTAT
1 TAAAATAATAT
46376272 TAAAATAAGTAT
1 TAAAATAA-TAT
*
46376284 TAAATTTAATAT
1 TAAA-ATAATAT
*
46376296 T-AAA-ACTAT
1 TAAAATAATAT
46376305 TAAAATAATAT
1 TAAAATAATAT
46376316 TA
1 TA
46376318 TTTTTGGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 5 0.14
10 3 0.08
11 15 0.41
12 11 0.30
13 3 0.08
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:46388194 original size:16 final size:16
Alignment explanation
Indices: 46388173--46388221 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
46388163 CGCTGTATTG
*
46388173 GAATAGAGGCGTAATA
1 GAATAGAGGTGTAATA
*
46388189 GAATAGAGGTGTAATG
1 GAATAGAGGTGTAATA
*
46388205 GAATAGATGTGTAATA
1 GAATAGAGGTGTAATA
46388221 G
1 G
46388222 CAAATCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.33, T:0.24
Consensus pattern (16 bp):
GAATAGAGGTGTAATA
Found at i:46388470 original size:16 final size:16
Alignment explanation
Indices: 46388433--46388474 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46388423 TTAATCATAT
*
46388433 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
46388449 TT-AAATATATTATAA
1 TTAAAATATATTATAA
46388464 TTAAAATATAT
1 TTAAAATATAT
46388475 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:46388481 original size:14 final size:15
Alignment explanation
Indices: 46388442--46388483 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46388432 TTTAAACATA
*
46388442 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46388457 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46388471 A-TATAATTTAATA
1 ATTATAATTAAATA
46388484 AAATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46388601 original size:14 final size:15
Alignment explanation
Indices: 46388552--46388603 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46388542 ATAAAATATA
46388552 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
46388567 TATTAAATATATTAT
1 AATTAAATATATTAT
46388582 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
46388595 AATTTAATA
1 AATTAAATA
46388604 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:46388721 original size:14 final size:15
Alignment explanation
Indices: 46388682--46388723 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46388672 AATCAACATA
*
46388682 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46388697 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46388711 A-TATAATTTAATA
1 ATTATAATTAAATA
46388724 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46388841 original size:14 final size:15
Alignment explanation
Indices: 46388792--46388843 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46388782 ATAAAATATA
46388792 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
46388807 TATTAAATATATTAT
1 AATTAAATATATTAT
46388822 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
46388835 AATTTAATA
1 AATTAAATA
46388844 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:46388977 original size:120 final size:120
Alignment explanation
Indices: 46388436--46388968 Score: 969
Period size: 120 Copynumber: 4.4 Consensus size: 120
46388426 ATCATATTTA
*
46388436 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
46388501 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
46388556 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
46388621 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATC
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
46388676 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
46388741 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
46388796 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
46388861 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * *
46388916 GGA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
46388969 TAAAATAATT
Statistics
Matches: 401, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
120 400 1.00
121 1 0.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:46389023 original size:101 final size:93
Alignment explanation
Indices: 46388909--46389191 Score: 301
Period size: 91 Copynumber: 3.0 Consensus size: 93
46388899 ACTATAAAAG
** * * *
46388909 ATAATTTGGAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
46388973 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
*
46389010 ATAATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCT
1 ATAATTTAAAATAATTAA-TATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCT
* *
46389072 TGATAATAAATTTTCTTATATGAATTTAT
65 TAATAATAAATTATCTTATATGAATTTAT
* *
46389101 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
46389164 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
46389192 CTAAAATCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
91 85 0.52
92 24 0.15
93 2 0.01
95 1 0.01
99 1 0.01
100 6 0.04
101 44 0.27
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:46389067 original size:47 final size:46
Alignment explanation
Indices: 46389016--46389159 Score: 106
Period size: 47 Copynumber: 3.1 Consensus size: 46
46389006 TTGTATAATT
46389016 TAAAATAATAATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATAATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
46389063 TAAAAT--T-CTTGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAATAATT-ATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
*
46389107 TAAAATAATTAA-TATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAA-TAATTATT-AATATAATTTAATAATAATATATAATTTCA
46389154 TAAAAT
1 TAAAAT
46389160 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 12 0.17
45 12 0.17
46 10 0.14
47 17 0.24
48 9 0.12
49 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATAATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:46389079 original size:91 final size:90
Alignment explanation
Indices: 46388984--46389191 Score: 319
Period size: 91 Copynumber: 2.3 Consensus size: 90
46388974 TAATTATAAC
* * *
46388984 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
46389048 TAATATATAATTTCATAAAATTCTTGA
64 TAATATATAATTTCATAAAATTCTTAA
46389075 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
46389140 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
46389166 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
46389192 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
91 84 0.78
92 24 0.22
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:46389151 original size:44 final size:43
Alignment explanation
Indices: 46389009--46389151 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
46388999 TATGAATTTG
*
46389009 TATAATTTAAAATAA-TAATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAA-TATTAAATATAATTTAATAAT-ATA
** * * * *
46389053 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
46389100 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
46389144 TATAATTT
1 TATAATTT
46389152 CATAAAATTC
Statistics
Matches: 74, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 20 0.27
48 5 0.07
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:46389166 original size:47 final size:47
Alignment explanation
Indices: 46389034--46389172 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
46389024 TAATTATTAC
* *
46389034 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
46389081 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
46389125 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
46389172 A
1 A
46389173 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:46392183 original size:19 final size:20
Alignment explanation
Indices: 46392140--46392177 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46392130 TCTTTTTTTT
46392140 AAATATCAAAAAAAAATAAA
1 AAATATCAAAAAAAAATAAA
* *
46392160 AAATATGAAACAAAAATA
1 AAATATCAAAAAAAAATA
46392178 GAAATAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (20 bp):
AAATATCAAAAAAAAATAAA
Found at i:46393767 original size:132 final size:132
Alignment explanation
Indices: 46393052--46393723 Score: 1010
Period size: 132 Copynumber: 5.1 Consensus size: 132
46393042 ATTTCTTCTG
* * **
46393052 TCTATTCCACTGTTGCCCCA-GG-AGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTTA
1 TCTATTCCACTGCTG-CCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA
* * *
46393115 GGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAGATCT-ATAATC
64 GGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA-AATC
46393179 TTCAA
128 TTCAA
* * * *
46393184 TCTATTCCACTGTTGCCCAGGG-AGATAGAATTATTGGCTTCAATGTACTCCACTGCAACCTCAG
1 TCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG
* * *
46393248 GGAGGTAAAATCCACCATCTTTGATATGCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTT
65 GGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTT
46393313 CAA
130 CAA
* *
46393316 TCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCCACAGG
1 TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* *
46393381 GAGGTAAAATTCACCATCTTTGATCTGCTTCACTACTGCTTTGGGAGACAAGATCTGAAATCTTC
66 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
46393446 AA
131 AA
*
46393448 TCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
1 TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* *
46393513 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAATCTTT
66 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
46393578 AA
131 AA
* * *
46393580 TCTATTCCACTGCTGCCTAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACTACAGG
1 TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* * * *
46393645 GAGGTAAAATTCACCATCTTCGATCTGCTCCACTACTGCTTGGGGAGACAATATCTGAAATCTTT
66 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
46393710 AA
131 AA
**
46393712 TCTGCTCCACTG
1 TCTATTCCACTG
46393724 TCTCCGAGGG
Statistics
Matches: 505, Mismatches: 32, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 4 0.01
132 498 0.99
133 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
AA
Done.