Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 52 of 290
Found at i:16469849 original size:53 final size:53
Alignment explanation
Indices: 16469792--16469893 Score: 122
Period size: 53 Copynumber: 1.9 Consensus size: 53
16469782 TTATAAAAAA
16469792 TATATAAAGAAATAT-ATAA-AATAAAATATAT-ATATATAATA-TAATATAATTTT
1 TATATAAA-AAATATGATAATAA-AAAATA-ATGATA-ATAATAGTAATATAATTTT
*
16469845 TATATAAAATATATGATAATAAAAAATAATGGATAATAATAGTAATATA
1 TATATAAAAAATATGATAATAAAAAATAAT-GATAATAATAGTAATATA
16469894 TAACTAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
52 7 0.16
53 24 0.56
54 12 0.28
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (53 bp):
TATATAAAAAATATGATAATAAAAAATAATGATAATAATAGTAATATAATTTT
Found at i:16469855 original size:18 final size:19
Alignment explanation
Indices: 16469802--16469857 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
16469792 TATATAAAGA
*
16469802 AATATATAAAATAAAATAT
1 AATATATATAATAAAATAT
*
16469821 -ATATATATAATATAATAT
1 AATATATATAATAAAATAT
* *
16469839 AATTTTTAT-ATAAAATAT
1 AATATATATAATAAAATAT
16469857 A
1 A
16469858 TGATAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATATATAATAAAATAT
Found at i:16469872 original size:17 final size:17
Alignment explanation
Indices: 16469850--16469883 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16469840 ATTTTTATAT
16469850 AAAATATAT-GATAATAA
1 AAAATA-ATGGATAATAA
16469867 AAAATAATGGATAATAA
1 AAAATAATGGATAATAA
16469884 TAGTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAATAATGGATAATAA
Found at i:16473296 original size:18 final size:18
Alignment explanation
Indices: 16473273--16473307 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16473263 AAAGTTTCTA
16473273 TCATATTTAA-ATTTTATT
1 TCATA-TTAATATTTTATT
16473291 TCATATTAATATTTTAT
1 TCATATTAATATTTTAT
16473308 ATAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TCATATTAATATTTTATT
Found at i:16474009 original size:20 final size:19
Alignment explanation
Indices: 16473984--16474021 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
16473974 AATTACTTAT
16473984 TAATTATAATTAGTAATAAA
1 TAATTATAATTA-TAATAAA
16474004 TAATTATAATTATAATAA
1 TAATTATAATTATAATAA
16474022 TATGAGACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATTATAATTATAATAAA
Found at i:16480688 original size:32 final size:32
Alignment explanation
Indices: 16480652--16480721 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
16480642 TGGGTTTTTT
* *
16480652 TTTGTTATTTATTGTTTGAATGTGTTG-GATTA
1 TTTGTTATTTATTATTTGAATGTGCTGAGA-TA
* *
16480684 TTTGTTATTTGTTATTTGATTGTGCTGAGATA
1 TTTGTTATTTATTATTTGAATGTGCTGAGATA
16480716 TTTGTT
1 TTTGTT
16480722 TTTTTTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 31 0.94
33 2 0.06
ACGTcount: A:0.17, C:0.01, G:0.21, T:0.60
Consensus pattern (32 bp):
TTTGTTATTTATTATTTGAATGTGCTGAGATA
Found at i:16487295 original size:21 final size:21
Alignment explanation
Indices: 16487265--16487304 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16487255 CTTCGAATTT
16487265 GTTTACCTATTATTATTATCC
1 GTTTACCTATTATTATTATCC
*
16487286 GTTTATCTATTATTATTAT
1 GTTTACCTATTATTATTAT
16487305 TGTTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.57
Consensus pattern (21 bp):
GTTTACCTATTATTATTATCC
Found at i:16501158 original size:3 final size:3
Alignment explanation
Indices: 16501150--16501188 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16501140 ACCATTCTTT
16501150 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16501189 GTGCTAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16502682 original size:51 final size:51
Alignment explanation
Indices: 16502615--16502724 Score: 184
Period size: 51 Copynumber: 2.2 Consensus size: 51
16502605 TCACATGTAT
*
16502615 CACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTAC
1 CACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCACTTAC
* **
16502666 CACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCACTTAC
16502717 CACTTGTC
1 CACTTGTC
16502725 GCTTGTCACT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (51 bp):
CACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCACTTAC
Found at i:16502719 original size:7 final size:7
Alignment explanation
Indices: 16502703--16502741 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
16502693 CTAAAGCTAC
*
16502703 CACTTAT
1 CACTTGT
16502710 CACTTGT
1 CACTTGT
16502717 CACTTGT
1 CACTTGT
*
16502724 CGCTTGT
1 CACTTGT
*
16502731 CACTTAT
1 CACTTGT
16502738 CACT
1 CACT
16502742 GCTCAGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.10, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:16506565 original size:12 final size:12
Alignment explanation
Indices: 16506548--16506573 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16506538 AAAATAGGGC
16506548 TTTAGCGGCGTT
1 TTTAGCGGCGTT
16506560 TTTAGCGGCGTT
1 TTTAGCGGCGTT
16506572 TT
1 TT
16506574 ATCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:16506707 original size:41 final size:41
Alignment explanation
Indices: 16506597--16506765 Score: 252
Period size: 41 Copynumber: 4.1 Consensus size: 41
16506587 GCAAAAATTA
* ***
16506597 TAAAACACAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGC
*
16506638 TAAAA-ACTGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
**
16506678 TAAAAGACAGAGCTTTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
16506719 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
16506760 TAAAAG
1 TAAAAG
16506766 TCATATAACT
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 31 0.26
41 86 0.74
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (41 bp):
TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:16507406 original size:24 final size:24
Alignment explanation
Indices: 16507379--16507427 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
16507369 AGGATATTTA
*
16507379 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
16507403 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
16507427 T
1 T
16507428 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:16507723 original size:7 final size:7
Alignment explanation
Indices: 16507713--16507754 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
16507703 ATTTTAAGGT
16507713 TTATGGA
1 TTATGGA
16507720 TTATGGA
1 TTATGGA
16507727 TTATGGA
1 TTATGGA
*
16507734 TTATGGGT
1 TTAT-GGA
16507742 TTATGGA
1 TTATGGA
16507749 TTATGG
1 TTATGG
16507755 TTTACAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (7 bp):
TTATGGA
Found at i:16507756 original size:14 final size:14
Alignment explanation
Indices: 16507710--16507772 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
16507700 ACTATTTTAA
16507710 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
16507724 GGATTATGGATTAT
1 GGTTTATGGATTAT
16507738 GGGTTTATGGATTAT
1 -GGTTTATGGATTAT
** *
16507753 GGTTTACAGTTTAT
1 GGTTTATGGATTAT
16507767 GGTTTA
1 GGTTTA
16507773 AGGGTTGGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
14 30 0.70
15 13 0.30
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:16507766 original size:29 final size:28
Alignment explanation
Indices: 16507710--16507772 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
16507700 ACTATTTTAA
**
16507710 GGTTTATGGATTATGGATTATGGATTAT
1 GGTTTATGGATTATGGATTACAGATTAT
* *
16507738 GGGTTTATGGATTATGGTTTACAGTTTAT
1 -GGTTTATGGATTATGGATTACAGATTAT
16507767 GGTTTA
1 GGTTTA
16507773 AGGGTTGGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (28 bp):
GGTTTATGGATTATGGATTACAGATTAT
Found at i:16507771 original size:7 final size:7
Alignment explanation
Indices: 16507705--16507772 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
16507695 GAGTTACTAT
*
16507705 TTTAAGG
1 TTTATGG
16507712 TTTATGG
1 TTTATGG
*
16507719 ATTATGG
1 TTTATGG
*
16507726 ATTATGG
1 TTTATGG
*
16507733 ATTATGGG
1 TTTAT-GG
16507741 TTTATGG
1 TTTATGG
*
16507748 ATTATGG
1 TTTATGG
**
16507755 TTTACAG
1 TTTATGG
16507762 TTTATGG
1 TTTATGG
16507769 TTTA
1 TTTA
16507773 AGGGTTGGGG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 45 0.88
8 6 0.12
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:16507784 original size:28 final size:29
Alignment explanation
Indices: 16507753--16507813 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
16507743 TATGGATTAT
16507753 GGTTTACA-GTTTATGGT-TTAAGGGTT-GG
1 GGTTTA-AGGTTTA-GGTGTTAAGGGTTAGG
*
16507781 GGTTTAAGGTTTAGGTGTTAGGGGTTAGG
1 GGTTTAAGGTTTAGGTGTTAAGGGTTAGG
16507810 GGTT
1 GGTT
16507814 AGGGGTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.14
28 19 0.66
29 6 0.21
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (29 bp):
GGTTTAAGGTTTAGGTGTTAAGGGTTAGG
Found at i:16507785 original size:21 final size:22
Alignment explanation
Indices: 16507761--16507806 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
16507751 ATGGTTTACA
*
16507761 GTTTATGGTTTAAGG-GTT-GGG
1 GTTTAAGGTTT-AGGTGTTAGGG
16507782 GTTTAAGGTTTAGGTGTTAGGG
1 GTTTAAGGTTTAGGTGTTAGGG
16507804 GTT
1 GTT
16507807 AGGGGTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 13 0.59
22 6 0.27
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.43
Consensus pattern (22 bp):
GTTTAAGGTTTAGGTGTTAGGG
Found at i:16507801 original size:7 final size:7
Alignment explanation
Indices: 16507791--16507821 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
16507781 GGTTTAAGGT
*
16507791 TTAGGTG
1 TTAGGGG
16507798 TTAGGGG
1 TTAGGGG
16507805 TTAGGGG
1 TTAGGGG
16507812 TTAGGGG
1 TTAGGGG
16507819 TTA
1 TTA
16507822 TAGGTTATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:16508005 original size:14 final size:14
Alignment explanation
Indices: 16507986--16508052 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
16507976 GTTTGCAGGT
*
16507986 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
16508000 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* *
16508014 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
16508029 AAAATGATTTCTGG
1 AAAATGATTTCTGG
16508043 AAAATGATTT
1 AAAATGATTT
16508053 ACTTTTCTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:16508630 original size:22 final size:23
Alignment explanation
Indices: 16508605--16508668 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
16508595 AATTTTTTAA
*
16508605 AAAAATTATTTAAAATT-AATAT
1 AAAAATTATTAAAAATTCAATAT
16508627 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
* *
16508649 AAAAATTATAAAAAAGTCAA
1 AAAAATTATTAAAAATTCAA
16508669 AAATTAGCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 8 0.23
22 17 0.49
23 10 0.29
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:16508941 original size:20 final size:18
Alignment explanation
Indices: 16508926--16508961 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16508916 TATTTCTCTC
*
16508926 CCCCGATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
*
16508944 TCCCAATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
16508962 TCTCAGCCTT
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:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CCCCAATTCCCTTTTCTT
Found at i:16509068 original size:35 final size:34
Alignment explanation
Indices: 16508986--16509069 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
16508976 TGACTAAGCC
* *
16508986 ATTTGCCTAAATCATAGTTCCCCCGAAACCCTCA
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
* *
16509020 TTTTCTCCCAAATCATAGTTCCCCCAAAACCC-CAAA
1 ATTTC-CCTAAATCATAGTTCCCCCAAAACCCTC--A
16509056 ATTTCCCTAAATCA
1 ATTTCCCTAAATCA
16509070 AACCCATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
34 4 0.10
35 32 0.78
36 5 0.12
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.27
Consensus pattern (34 bp):
ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
Found at i:16513018 original size:241 final size:241
Alignment explanation
Indices: 16512595--16513310 Score: 1405
Period size: 241 Copynumber: 3.0 Consensus size: 241
16512585 ATGAATTAAT
16512595 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
16512660 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
16512725 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
16512790 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
16512836 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
16512901 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
16512966 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
16513031 AAAAAGACTTGAAAAGAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
16513077 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
16513142 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
16513207 TTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
16513272 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTA
16513311 GGTGCAACAA
Statistics
Matches: 471, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 471 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:16514014 original size:21 final size:20
Alignment explanation
Indices: 16513990--16514033 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
16513980 CTCTTAACAA
16513990 AAATTATAAAAAAATAAAAAT
1 AAATT-TAAAAAAATAAAAAT
* * *
16514011 AAATTTCAAAAATTGAAAAT
1 AAATTTAAAAAAATAAAAAT
16514031 AAA
1 AAA
16514034 ATAATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATTTAAAAAAATAAAAAT
Found at i:16514082 original size:3 final size:3
Alignment explanation
Indices: 16514074--16514099 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16514064 TAAAATAATT
16514074 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
16514100 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:16514369 original size:21 final size:21
Alignment explanation
Indices: 16514343--16514382 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16514333 ACTTTATCTA
**
16514343 AAGTTAAAAGTTAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
16514364 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
16514383 CGTTCTTTTG
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:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:16516264 original size:20 final size:22
Alignment explanation
Indices: 16516225--16516265 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16516215 ATTACATATA
*
16516225 TATATATATTTTATAGTTGTTT
1 TATATATATTATATAGTTGTTT
16516247 TATATATATTAT-TA-TTGTT
1 TATATATATTATATAGTTGTT
16516266 CCTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATATATATTATATAGTTGTTT
Found at i:16519575 original size:29 final size:29
Alignment explanation
Indices: 16519516--16519576 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
16519506 TTGAAATTTA
* **
16519516 ATTTTTATATTTAAAAAATAAATTTTTTT
1 ATTTTTATATTTAAAAAATAAATCTAATT
*
16519545 ATTTTT-TATTTAAAAATTATAATCTAATT
1 ATTTTTATATTTAAAAAATA-AATCTAATT
16519574 ATT
1 ATT
16519577 AATATTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
ATTTTTATATTTAAAAAATAAATCTAATT
Found at i:16523125 original size:18 final size:19
Alignment explanation
Indices: 16523094--16523136 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
16523084 ATTATAAAAT
*
16523094 AATTTAAAATTATTTTTAA
1 AATTTAAAATTATTTATAA
16523113 AATTTAAAA-TATTTATAA
1 AATTTAAAATTATTTATAA
16523131 AATTTA
1 AATTTA
16523137 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTTAAAATTATTTATAA
Found at i:16528984 original size:16 final size:16
Alignment explanation
Indices: 16528958--16529001 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
16528948 GTCAAATTTG
16528958 AAGAATATAAAATAAAA
1 AAGAAT-TAAAATAAAA
16528975 AAGAATT-AAATAAAA
1 AAGAATTAAAATAAAA
* *
16528990 AATAAATAAAAT
1 AAGAATTAAAAT
16529002 TGTCTTCGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (16 bp):
AAGAATTAAAATAAAA
Found at i:16530552 original size:21 final size:21
Alignment explanation
Indices: 16530528--16530596 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
16530518 TTTGCTGTTC
16530528 TTATTATCTTCATTTAAATAT
1 TTATTATCTTCATTTAAATAT
* ****
16530549 TTATTAT-TTTATTGCTGT-T
1 TTATTATCTTCATTTAAATAT
16530568 CTTATTATCTTCATTTAAATAT
1 -TTATTATCTTCATTTAAATAT
16530590 TTATTAT
1 TTATTAT
16530597 TTTATCATTT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.37
21 20 0.57
22 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.61
Consensus pattern (21 bp):
TTATTATCTTCATTTAAATAT
Found at i:16530564 original size:41 final size:41
Alignment explanation
Indices: 16530519--16530601 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
16530509 TTCTAAATAT
16530519 TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
1 TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
16530560 TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
1 TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
16530601 T
1 T
16530602 CATTTTCACG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.61
Consensus pattern (41 bp):
TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
Found at i:16531046 original size:16 final size:15
Alignment explanation
Indices: 16531004--16531053 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
16530994 TTATTGTACG
*
16531004 TATATATATATACTTT
1 TATATATAT-TATTTT
16531020 TATATATATTATTTT
1 TATATATATTATTTT
*
16531035 TATATATCATTATATT
1 TATATAT-ATTATTTT
16531051 TAT
1 TAT
16531054 TATTATGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATATATTATTTT
Found at i:16531671 original size:18 final size:17
Alignment explanation
Indices: 16531650--16531683 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16531640 TTCGGATCCC
*
16531650 AAAAATTTTCGTGTTTTA
1 AAAAATTCTCGT-TTTTA
16531668 AAAAATTCTCGTTTTT
1 AAAAATTCTCGTTTTT
16531684 CAATCGGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (17 bp):
AAAAATTCTCGTTTTTA
Found at i:16539834 original size:119 final size:120
Alignment explanation
Indices: 16539650--16539874 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
16539640 GCTCCTCGTT
*
16539650 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
16539715 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
16539770 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
16539832 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
16539875 CACATCATTC
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16539874 original size:40 final size:40
Alignment explanation
Indices: 16539650--16539874 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
16539640 GCTCCTCGTT
* *
16539650 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
16539690 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
16539730 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
16539770 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
16539809 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
16539850 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16539875 CACATCATTC
Statistics
Matches: 166, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 120 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:16547862 original size:119 final size:120
Alignment explanation
Indices: 16547678--16547902 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
16547668 GCTCCTCGTT
*
16547678 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
16547743 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
16547798 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
16547860 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
16547903 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16547902 original size:40 final size:40
Alignment explanation
Indices: 16547678--16547902 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
16547668 GCTCCTCGTT
* *
16547678 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
16547718 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
16547758 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
16547798 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
16547837 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
16547878 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16547903 CATCATTCAA
Statistics
Matches: 166, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 120 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:16554702 original size:73 final size:72
Alignment explanation
Indices: 16554610--16555026 Score: 588
Period size: 73 Copynumber: 5.7 Consensus size: 72
16554600 TTGATGTTTT
* *
16554610 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGGCATGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
*
16554675 AATTTCA
66 ATTTTCA
16554682 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
16554747 TATTTTCA
65 TATTTTCA
* *
16554755 ATTTCTGGTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTG
1 ATTTCT-GTTTT---CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
16554820 AGGTATTTTCA
62 AGGTATTTTCA
* * * * *
16554831 ATTTCTGGTTTTCAAAAATATCAACTTACATT--GAGAGGTGAGTTGGGCCTCAAGACACGCTGA
1 ATTTCT-GTTTTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
*
16554894 GGTAATTTCA
63 GGTATTTTCA
*
16554904 ATTTCTGTTTGTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
16554969 TATTTTCA
65 TATTTTCA
* * *
16554977 A-TTATGCTTTTCAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTC
1 ATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
16555027 GGGTTACATG
Statistics
Matches: 310, Mismatches: 24, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
71 10 0.03
72 59 0.19
73 151 0.49
74 8 0.03
75 11 0.04
76 71 0.23
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
ATTTTCA
Found at i:16554892 original size:149 final size:147
Alignment explanation
Indices: 16554610--16555026 Score: 555
Period size: 149 Copynumber: 2.9 Consensus size: 147
16554600 TTGATGTTTT
* * *
16554610 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGGCATGCTGAGG
1 ATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
* * *
16554674 TAATTTCAATTTCT-GTTTGTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 TATTTTCAATTTCTGGTTT-TCAAAAATATCAACTCACATT-CGAGAGGTGAGTTGAGCCTCAAG
* *
16554736 GCACGCTGAGGTATTTTCA
129 ACACGCTGAGGTAATTTCA
*
16554755 ATTTCTGGTTT-TAAAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCT
1 ATTTCT-GTTTGT---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
* *
16554819 GAGGTATTTTCAATTTCTGGTTTTCAAAAATATCAACTTACATT-GAGAGGTGAGTTGGGCCTCA
62 GAGGTATTTTCAATTTCTGGTTTTCAAAAATATCAACTCACATTCGAGAGGTGAGTTGAGCCTCA
16554883 AGACACGCTGAGGTAATTTCA
127 AGACACGCTGAGGTAATTTCA
* *
16554904 ATTTCTGTTTGTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
* * * *
16554969 TATTTTCAA-TTATGCTTTTC-AAAA-ATCAACTCATATTACTAGAGGTGAGTTGAGCCTC
66 TATTTTCAATTTCTGGTTTTCAAAAATATCAACTCACATT-CGAGAGGTGAGTTGAGCCTC
16555027 GGGTTACATG
Statistics
Matches: 242, Mismatches: 20, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
143 11 0.05
144 4 0.02
145 32 0.13
146 64 0.26
148 4 0.02
149 108 0.45
150 8 0.03
151 11 0.05
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (147 bp):
ATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
TATTTTCAATTTCTGGTTTTCAAAAATATCAACTCACATTCGAGAGGTGAGTTGAGCCTCAAGAC
ACGCTGAGGTAATTTCA
Found at i:16555163 original size:88 final size:87
Alignment explanation
Indices: 16554969--16555218 Score: 236
Period size: 88 Copynumber: 2.8 Consensus size: 87
16554959 CACGCTGAGG
* * * * * *
16554969 TATTTTC-AATTATGCTTTTCAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGTTA
1 TATTTTCAAATTCTG-TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCA
*
16555033 CATGCCGAGGTATTTTCAAAATC
65 CATGCCGAGCTATTTTCAAAATC
* *
16555056 TATTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCAAGAAGCGAGTTGAGCCTTGGCTCA
1 TATTTT-CAAATTCTGTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCA
* * **
16555121 CGTGCTGAGCTATTTTCAATTTC
65 CATGCCGAGCTATTTTCAAAATC
* * * * * * *
16555144 TGTTTT-TAATGTCTAGTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCCTCGGGG
1 TATTTTCAAAT-TCT-GTTTTCAAA-AATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-GGC
*
16555207 TCACATACCGAG
62 TCACATGCCGAG
16555219 GATAAAGATT
Statistics
Matches: 132, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
86 3 0.02
87 12 0.09
88 100 0.76
89 17 0.13
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (87 bp):
TATTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCAC
ATGCCGAGCTATTTTCAAAATC
Found at i:16557097 original size:3 final size:3
Alignment explanation
Indices: 16557089--16557141 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
16557079 AACCTTCACA
* * *
16557089 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT T-T TAC TAT CTAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
16557133 TAT TAT TAT
1 TAT TAT TAT
16557142 ACTTATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:16557246 original size:18 final size:17
Alignment explanation
Indices: 16557199--16557252 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
16557189 TTATTGTACG
*
16557199 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
16557215 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
16557233 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
16557252 T
1 T
16557253 TATGCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:16566835 original size:27 final size:26
Alignment explanation
Indices: 16566798--16566912 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
16566788 AGCATGGCTG
* *
16566798 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
16566824 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
16566852 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
16566879 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
16566906 CCAGAAC
1 CCAGAAC
16566913 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:16566857 original size:54 final size:54
Alignment explanation
Indices: 16566798--16566912 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
16566788 AGCATGGCTG
*
16566798 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
16566852 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
16566906 CCAGAAC
1 CCAGAAC
16566913 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:16568621 original size:25 final size:26
Alignment explanation
Indices: 16568527--16568635 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
16568517 CATGAAATTC
16568527 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
16568553 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
16568579 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
16568605 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
16568630 TTATCA
1 TTATCA
16568636 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:16572631 original size:54 final size:54
Alignment explanation
Indices: 16572572--16572682 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
16572562 TGGCTGCCAA
*
16572572 AACAAATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAAATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCACCAG
* * * *
16572626 AACAAATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACCAG
1 AACAAATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACCAG
16572680 AAC
1 AAC
16572683 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
AACAAATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACCAG
Found at i:16572646 original size:27 final size:26
Alignment explanation
Indices: 16572572--16572682 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
16572562 TGGCTGCCAA
* *
16572572 AACAAATAATGTGACAGAGTCACCAG
1 AACAAATAATGTGGCAGAGCCACCAG
*
16572598 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAAATAAT-GTGGCAGAGCCACCAG
16572626 AACAAATATATGTGGCAGAGCCACCAG
1 AACAAATA-ATGTGGCAGAGCCACCAG
* * * *
16572653 ATCAGATATTTGTGGCATAGCCACCAG
1 AACAAATA-ATGTGGCAGAGCCACCAG
16572680 AAC
1 AAC
16572683 GCTTCCTCCA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 55 0.75
28 17 0.23
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
AACAAATAATGTGGCAGAGCCACCAG
Found at i:16573277 original size:26 final size:26
Alignment explanation
Indices: 16573168--16573269 Score: 170
Period size: 26 Copynumber: 3.9 Consensus size: 26
16573158 CATGAAATTC
16573168 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
16573194 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
16573220 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
16573246 TTATCATTG-AACATTTACCTAACC
1 TTATCA-TGAAACATTTACCTAACC
16573270 TTTTATCAAT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
26 71 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:16573993 original size:23 final size:21
Alignment explanation
Indices: 16573935--16574008 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
16573925 GACACATAAA
* *
16573935 GTGCCTTAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
*
16573956 GTGCCTGATATGACACACGAG
1 GTGCCTGATACGACACACGAG
* *
16573977 GTGCTTGAAATACGACACATC-AA
1 GTGCCTG--ATACGACACA-CGAG
16574000 GTGCCTGAT
1 GTGCCTGAT
16574009 TGGTAAAGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 26 0.60
23 16 0.37
24 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:16574406 original size:15 final size:15
Alignment explanation
Indices: 16574380--16574436 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
16574370 CATATATATT
16574380 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
16574394 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
16574409 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
16574424 ATATAAATTCAAT
1 ATATAATTTCAAT
16574437 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:16574767 original size:5 final size:5
Alignment explanation
Indices: 16574759--16574785 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16574749 TCTTTAGTTT
16574759 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
16574786 TAAAACATAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:16578442 original size:19 final size:20
Alignment explanation
Indices: 16578415--16578455 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
16578405 AAAAAATAAT
16578415 AATTAAAA-TAATTTTCAAA
1 AATTAAAATTAATTTTCAAA
* *
16578434 AATTCAAATTAATTTTTAAA
1 AATTAAAATTAATTTTCAAA
16578454 AA
1 AA
16578456 ATTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAAAATTAATTTTCAAA
Found at i:16582280 original size:42 final size:41
Alignment explanation
Indices: 16582228--16582353 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 41
16582218 ACATGTAATA
* * *
16582228 AAATATCGATGCCACTGTCCCAGACAAGTTCTTGCACGAAATC
1 AAATA-CGATGCCA-TGTCCCAGACATGGTCTTACACGAAATC
* *
16582271 AAATACGATGCCGATGTCCCAAACATGGTCTTATACGTAAATC
1 AAATACGATGCC-ATGTCCCAGACATGGTCTTACACG-AAATC
*
16582314 ATAAGT-CGAGGCCAATGTCCCAGACATGGTCTTACACGAA
1 A-AA-TACGATGCC-ATGTCCCAGACATGGTCTTACACGAA
16582354 CTCACATATC
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
42 25 0.36
43 14 0.20
44 30 0.43
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (41 bp):
AAATACGATGCCATGTCCCAGACATGGTCTTACACGAAATC
Found at i:16586971 original size:19 final size:19
Alignment explanation
Indices: 16586947--16586985 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16586937 GTAAAACTAC
16586947 CAGTTATAACATCTGAAGA
1 CAGTTATAACATCTGAAGA
16586966 CAGTTATAACATCTGAAGA
1 CAGTTATAACATCTGAAGA
16586985 C
1 C
16586986 GAAGCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (19 bp):
CAGTTATAACATCTGAAGA
Found at i:16588427 original size:12 final size:11
Alignment explanation
Indices: 16588410--16588448 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
16588400 ACTAAAATGT
16588410 ATAATAATATAA
1 ATAAT-ATATAA
*
16588422 ATAATATAATGA
1 ATAATAT-ATAA
16588434 ATAATATATAA
1 ATAATATATAA
16588445 ATAA
1 ATAA
16588449 AAATAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:16588454 original size:24 final size:24
Alignment explanation
Indices: 16588405--16588455 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
16588395 TTATAACTAA
* *
16588405 AATGTATAATAATATAAATAATAT
1 AATGAATAATAATATAAATAAAAT
16588429 AATGAATAAT-ATATAAATAAAAAT
1 AATGAATAATAATATAAAT-AAAAT
16588453 AAT
1 AAT
16588456 ATATACACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
AATGAATAATAATATAAATAAAAT
Found at i:16590619 original size:44 final size:44
Alignment explanation
Indices: 16590030--16590611 Score: 797
Period size: 44 Copynumber: 13.2 Consensus size: 44
16590020 CAAATGTCAG
* *
16590030 ATCTACTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
16590074 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * **
16590118 ATCTGCTATTTTCGATCTGCTCTCTGCCAATACAGAGAGGTTAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
16590162 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCTAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
** *
16590206 ATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
16590250 ATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
16590294 ATCGGTTATCTTCGATATGCTCTCTGTCAATACGGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
16590338 ATCTACTATCTTTGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
16590382 ATCTGTTATCTTCGATCTGCTCAT-TGTCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTC-TCTGTCAATACAGAGACGCCAA
* ** * * *
16590426 ATCTGCTATCTTCAATCTGCTCTCTACCAATATAGAGATGTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
16590470 ATCTACTATCTTCGATCCGCTCTCTGCCAATACAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
16590514 ATCTACTATATTCGATCTACTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
16590558 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
16590602 ATCTGCTATC
1 ATCTGCTATC
16590612 GGTGATCTAT
Statistics
Matches: 477, Mismatches: 59, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
43 1 0.00
44 475 1.00
45 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:16600819 original size:551 final size:551
Alignment explanation
Indices: 16599761--16600871 Score: 1810
Period size: 551 Copynumber: 2.0 Consensus size: 551
16599751 TTGCAGGTAT
** *
16599761 AAAC-TGCCCCGCTTTGTATTGCCTTGGGAAGAGTAATGATGCATAACCAATGACTCCCCAAATT
1 AAACTTGCCCCGCTTTGTATTGCCTTAAGAAGAGTAATGATGCATAACCAACGACTCCCCAAATT
* *
16599825 CCAGGAAGAGGTACCCAATCAAAACTTCCACAATGATAAAGGACTTTATTATGAGCCATCCAAGA
66 CCAGGAAGAGGTACCCAATCAAAACTTCCACAATGATAAAGGACTTCATTAGGAGCCATCCAAGA
*
16599890 AGCTTTCCACATTATATCTTCCTCTCAGAGATTCTGAAGTATTTCCGTCCATCTTTCCTCTGTAA
131 AGCTTTCCACATTATATCTTCCTCTCAGAGATTCTAAAGTATTTCCGTCCATCTTTCCTCTGTAA
* **
16599955 TGTCGTCCCTCATCGGCGTAGCTGCAGCTTCCGTTAAGGGAGAATAATCCTAAAAGGACACTCGG
196 TGTCGTCCCTCATCGGCGTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTAAAAGGACACTCAA
*
16600020 CAAGGAATCTTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATAC
261 CAAGGAACCTTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATAC
** * *
16600085 AATGAATCTACCTTCACCAGCTCTTTGACGTGCGCTCAAGAATCTAAACGTCTCAGCTAGGATTG
326 AATGAATCTACCTTCACCAGCTCTCCGACGTGCGCTCAAGAATCTAAACATCTCAGCTAAGATTG
* *
16600150 CAGGCACAGGTGTGTTCTGTTTACCAAGTCGATCGAATAAATTCGCAACCGCCTCATCTATATGC
391 CAGGCACAGGTGTGTTCTATTTACCAAGTCGATCGAATAAATCCGCAACCGCCTCATCTATATGC
*
16600215 CCAATAGCTTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAGAACATCAACCCTCTTCTT
456 CCAATAGCTTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTT
* *
16600280 CACATCTAGGTGTGCCAATATCAAATCCCTC
521 CACATCTAGGTATACCAATATCAAATCCCTC
* * *
16600311 AAACTTGCCCTGCTTTGTATTGCCTTAAGACGAGTAATGGTGCATAACCAACGACTCCCCAAATT
1 AAACTTGCCCCGCTTTGTATTGCCTTAAGAAGAGTAATGATGCATAACCAACGACTCCCCAAATT
*
16600376 CCAGGAAGAGGTACCCAATCAAAACTTCCACAATGATAAAGGACTTCATTAGGAGCCATCCAAGG
66 CCAGGAAGAGGTACCCAATCAAAACTTCCACAATGATAAAGGACTTCATTAGGAGCCATCCAAGA
* * * *
16600441 AGCTTTCCATATTATATCTTCCTCTCGGAGATTCTAAAGTATTTCTGTCCATCTTTCTTCTGTAA
131 AGCTTTCCACATTATATCTTCCTCTCAGAGATTCTAAAGTATTTCCGTCCATCTTTCCTCTGTAA
* * * *
16600506 TTTCGTCCCTCCTCGTCGTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTCAAAGGACACTCAA
196 TGTCGTCCCTCATCGGCGTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTAAAAGGACACTCAA
* * * *
16600571 CAAGGAACCTTATCAACCTTCTAAAAGTGACTATGGAACCATACTAATAACAACTGTGCACATCC
261 CAAGGAACCTTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATAC
* *
16600636 AATTAATCTACCTTCACCAGCTCTCCGACGTGCGCTCAAGGATCTAAACATCTCAGCTAAGATTG
326 AATGAATCTACCTTCACCAGCTCTCCGACGTGCGCTCAAGAATCTAAACATCTCAGCTAAGATTG
* * * * *
16600701 CAGGCACAGGTGTGTTCTATTTACCAAGTTGATCGAATAAATCCGTAACTGCCTCATCTATGTGG
391 CAGGCACAGGTGTGTTCTATTTACCAAGTCGATCGAATAAATCCGCAACCGCCTCATCTATATGC
*
16600766 CCAATAGCTTTAGGGAAAGTCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTT
456 CCAATAGCTTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTT
* *
16600831 CACATCTGGGTATACCAATATTAAATCCCTC
521 CACATCTAGGTATACCAATATCAAATCCCTC
16600862 AAACTTGCCC
1 AAACTTGCCC
16600872 ACCGAATGTA
Statistics
Matches: 515, Mismatches: 45, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
550 4 0.01
551 511 0.99
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (551 bp):
AAACTTGCCCCGCTTTGTATTGCCTTAAGAAGAGTAATGATGCATAACCAACGACTCCCCAAATT
CCAGGAAGAGGTACCCAATCAAAACTTCCACAATGATAAAGGACTTCATTAGGAGCCATCCAAGA
AGCTTTCCACATTATATCTTCCTCTCAGAGATTCTAAAGTATTTCCGTCCATCTTTCCTCTGTAA
TGTCGTCCCTCATCGGCGTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTAAAAGGACACTCAA
CAAGGAACCTTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATAC
AATGAATCTACCTTCACCAGCTCTCCGACGTGCGCTCAAGAATCTAAACATCTCAGCTAAGATTG
CAGGCACAGGTGTGTTCTATTTACCAAGTCGATCGAATAAATCCGCAACCGCCTCATCTATATGC
CCAATAGCTTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTT
CACATCTAGGTATACCAATATCAAATCCCTC
Found at i:16603228 original size:19 final size:19
Alignment explanation
Indices: 16603204--16603300 Score: 64
Period size: 19 Copynumber: 5.4 Consensus size: 19
16603194 GAGGAATGAT
*
16603204 ATATATAGTAAAATATATA
1 ATATATAATAAAATATATA
*
16603223 ATATATAATAAAATTTATA
1 ATATATAATAAAATATATA
* **
16603242 A-ATAAAAT-GTATA-ATA
1 ATATATAATAAAATATATA
*
16603258 ATATA-AATAATATA-ATGA
1 ATATATAATAAAATATAT-A
*
16603276 ATA-ATATATAAAA-AAATA
1 ATATATA-ATAAAATATATA
16603294 ATATATA
1 ATATATA
16603301 CACTATTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
16 7 0.11
17 12 0.19
18 16 0.25
19 28 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATATAATAAAATATATA
Found at i:16603262 original size:21 final size:20
Alignment explanation
Indices: 16603215--16603300 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 20
16603205 TATATAGTAA
*
16603215 AATATATAATATATAAT-AA-
1 AATATATAA-ATAAAATGAAT
* *
16603234 AATTTATAAATAAAATGTAT
1 AATATATAAATAAAATGAAT
16603254 AATAATATAAATAATATAATGAAT
1 AAT-ATATAAAT-A-A-AATGAAT
16603278 AATATATAAA-AAAAT-AAT
1 AATATATAAATAAAATGAAT
16603296 -ATATA
1 AATATA
16603301 CACTATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
17 5 0.09
18 9 0.16
19 12 0.21
20 4 0.07
21 8 0.14
22 1 0.02
23 8 0.14
24 9 0.16
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AATATATAAATAAAATGAAT
Found at i:16609920 original size:71 final size:71
Alignment explanation
Indices: 16609801--16609932 Score: 176
Period size: 71 Copynumber: 1.9 Consensus size: 71
16609791 GATGACATCA
* * * *
16609801 TATCGATACAATGGATTATTGCATTGCACTGTACCGCATGTAAATTAGCTACGCTACGTACCACT
1 TATCGATACAATGGATTACTGCATTGCACTATACCGCAAGTAAATTAGCTACCCTACGTACCACT
16609866 GCAACC
66 GCAACC
* * **
16609872 TATCGATATAGTGGATTACTGCATTGCA-TCATACCGCAAGTATGTTAGCTACCCTACGTAC
1 TATCGATACAATGGATTACTGCATTGCACT-ATACCGCAAGTAAATTAGCTACCCTACGTAC
16609933 TACTATCTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 1 0.02
71 51 0.98
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (71 bp):
TATCGATACAATGGATTACTGCATTGCACTATACCGCAAGTAAATTAGCTACCCTACGTACCACT
GCAACC
Found at i:16610590 original size:14 final size:14
Alignment explanation
Indices: 16610548--16610583 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
16610538 AGAATAGCAT
16610548 TGTGTTTGTGTAGC
1 TGTGTTTGTGTAGC
16610562 TGTGTTTGTGTAGC
1 TGTGTTTGTGTAGC
16610576 TGTGTTTG
1 TGTGTTTG
16610584 ATTAGCTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.06, C:0.06, G:0.36, T:0.53
Consensus pattern (14 bp):
TGTGTTTGTGTAGC
Found at i:16630943 original size:2 final size:2
Alignment explanation
Indices: 16630936--16630965 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16630926 TAAAATAGTT
16630936 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16630966 ACAAGAGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16634272 original size:37 final size:39
Alignment explanation
Indices: 16634175--16634274 Score: 150
Period size: 41 Copynumber: 2.6 Consensus size: 39
16634165 ATATTTTATT
* *
16634175 TATATTATCAATATATAATAAAAGTATTTAAATAAAATA
1 TATATTATTAATATATAATAAAAATATTTAAATAAAATA
16634214 TATATTAAATTAATATATAATAAAAATATTTAAAT-AAA-A
1 TATATT--ATTAATATATAATAAAAATATTTAAATAAAATA
16634253 TATATTATTAATATATAATAAA
1 TATATTATTAATATATAATAAA
16634275 TATTTTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
37 16 0.28
39 13 0.23
40 3 0.05
41 25 0.44
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (39 bp):
TATATTATTAATATATAATAAAAATATTTAAATAAAATA
Found at i:16638364 original size:25 final size:25
Alignment explanation
Indices: 16638334--16638383 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
16638324 GAATATTTTA
*
16638334 ACAATTTAACAATCATATTTAATAT
1 ACAATTTAACAATCATATCTAATAT
* *
16638359 ACAATTTAATAATTATATCTAATAT
1 ACAATTTAACAATCATATCTAATAT
16638384 TCCAATCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (25 bp):
ACAATTTAACAATCATATCTAATAT
Found at i:16638643 original size:7 final size:7
Alignment explanation
Indices: 16638631--16638661 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
16638621 TGTGGATCCC
16638631 TTCCCAA
1 TTCCCAA
16638638 TTCCCAA
1 TTCCCAA
16638645 TTCCCAA
1 TTCCCAA
*
16638652 TTCCTAA
1 TTCCCAA
16638659 TTC
1 TTC
16638662 TTAATCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (7 bp):
TTCCCAA
Found at i:16639253 original size:5 final size:5
Alignment explanation
Indices: 16639245--16639301 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
16639235 AATAAAAAAA
* *
16639245 TAATT TAATT TAGTT TGATT T--TT ATAATT TAATT TAATTT TAATT TAA-T
1 TAATT TAATT TAATT TAATT TAATT -TAATT TAATT TAA-TT TAATT TAATT
16639294 TAATT TAA
1 TAATT TAA
16639302 AAATGTCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
3 2 0.05
4 5 0.11
5 30 0.68
6 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:16639290 original size:16 final size:15
Alignment explanation
Indices: 16639269--16639299 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
16639259 TTGATTTTTA
16639269 TAATTTAATTTAATTT
1 TAATTTAA-TTAATTT
16639285 TAATTTAATTAATTT
1 TAATTTAATTAATTT
16639300 AAAAATGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TAATTTAATTAATTT
Found at i:16639297 original size:25 final size:24
Alignment explanation
Indices: 16639243--16639301 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
16639233 AAAATAAAAA
* *
16639243 AATAATTTAATTTAGTTTGATTTT
1 AATAATTTAATTTAATTTGAATTT
* *
16639267 TATAATTTAATTTAATTTTAATTT
1 AATAATTTAATTTAATTTGAATTT
16639291 AATTAATTTAA
1 AA-TAATTTAA
16639302 AAATGTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
AATAATTTAATTTAATTTGAATTT
Found at i:16650107 original size:44 final size:44
Alignment explanation
Indices: 16650057--16650147 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
16650047 TTGAAACTAA
* * * *
16650057 AATAGAAGTTGTGATAATTATACATTTAATAATTATTATAAGTT
1 AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
* * *
16650101 AATAGAAATTCTTATAATTATGCATTTAAAAATAATTATAATTT
1 AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
16650145 AAT
1 AAT
16650148 TTATAATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (44 bp):
AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
Found at i:16654577 original size:27 final size:27
Alignment explanation
Indices: 16654547--16654608 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
16654537 TGCGTACAGA
*
16654547 GGTTCGCAAATAT-GGTTCGTACCTAGG
1 GGTTCGCAAATATGGGTTCGCACCTA-G
* *
16654574 GGTTCGTACATATGGGTTCGCACCTAG
1 GGTTCGCAAATATGGGTTCGCACCTAG
16654601 GGTTCGCA
1 GGTTCGCA
16654609 TATTAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (27 bp):
GGTTCGCAAATATGGGTTCGCACCTAG
Found at i:16654579 original size:14 final size:13
Alignment explanation
Indices: 16654560--16654606 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
16654550 TCGCAAATAT
16654560 GGTTCGTACCTAGG
1 GGTTCGTACCTA-G
*
16654574 GGTTCGTACATATG
1 GGTTCGTACCTA-G
*
16654588 GGTTCGCACCTAG
1 GGTTCGTACCTAG
16654601 GGTTCG
1 GGTTCG
16654607 CATATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 7 0.24
14 22 0.76
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (13 bp):
GGTTCGTACCTAG
Found at i:16654912 original size:18 final size:18
Alignment explanation
Indices: 16654866--16654923 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
16654856 AGGGGCTCAC
*
16654866 CTATAA-GGGTTTACACA
1 CTATAAGGGGTTTACATA
* * *
16654883 ATATCAGTGGTTTACATA
1 CTATAAGGGGTTTACATA
* *
16654901 CTATAAGGGGTTCACTTA
1 CTATAAGGGGTTTACATA
16654919 CTATA
1 CTATA
16654924 GGGTTTTCAT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 4 0.13
18 27 0.87
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (18 bp):
CTATAAGGGGTTTACATA
Found at i:16656580 original size:11 final size:11
Alignment explanation
Indices: 16656566--16656606 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
16656556 TGTTTTCTCT
16656566 CTATTTTGCTA
1 CTATTTTGCTA
*
16656577 CTATTTTACTA
1 CTATTTTGCTA
* *
16656588 TTATGTTGCTA
1 CTATTTTGCTA
16656599 CTATTTTG
1 CTATTTTG
16656607 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:16656850 original size:12 final size:12
Alignment explanation
Indices: 16656829--16656862 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16656819 TATATTTTTT
*
16656829 AAAATTATATAA
1 AAAATAATATAA
16656841 AAAATAATATAA
1 AAAATAATATAA
*
16656853 AAATTAATAT
1 AAAATAATAT
16656863 GGGTTGGCCG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:16657268 original size:117 final size:117
Alignment explanation
Indices: 16657126--16657362 Score: 402
Period size: 117 Copynumber: 2.0 Consensus size: 117
16657116 GAAAGTCACA
* *
16657126 TTTCAACAATTATTTATAATCATTATTATTAAATATTTTTATTAATTTAATATAAAATATTTCGT
1 TTTCAACAATTATTTATAATCATTATTATTAAATATGTTTATTAATTTAATATAAAATATTTCAT
*
16657191 ATTTATCATGAACTATTATTATGATCCTTGGATGTTGCTTAATCTAATTTTT
66 ATTTATCATGAACTATTATTATGATCCTTGCATGTTGCTTAATCTAATTTTT
* * * * *
16657243 TTTCAACAATTATTTTTAATCATTATTATTAAATGTGTTTATTAATTTAGTGTAACATATTTCAT
1 TTTCAACAATTATTTATAATCATTATTATTAAATATGTTTATTAATTTAATATAAAATATTTCAT
16657308 ATTTATCATGAACTATTATTATGATCCTTGCATGTTGCTTAATCTAATTTTT
66 ATTTATCATGAACTATTATTATGATCCTTGCATGTTGCTTAATCTAATTTTT
16657360 TTT
1 TTT
16657363 TCAAATTAAT
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 112 1.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (117 bp):
TTTCAACAATTATTTATAATCATTATTATTAAATATGTTTATTAATTTAATATAAAATATTTCAT
ATTTATCATGAACTATTATTATGATCCTTGCATGTTGCTTAATCTAATTTTT
Found at i:16660083 original size:19 final size:20
Alignment explanation
Indices: 16660034--16660084 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
16660024 TTTCCCATTA
16660034 AACTTAATTAATAACTAATT
1 AACTTAATTAATAACTAATT
* * *
16660054 TATTATAATTAA-ATCTAATT
1 AACT-TAATTAATAACTAATT
16660074 AACTTAATTAA
1 AACTTAATTAA
16660085 CTAAGATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (20 bp):
AACTTAATTAATAACTAATT
Found at i:16663921 original size:14 final size:15
Alignment explanation
Indices: 16663894--16663922 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16663884 TATAATTTAA
16663894 AATAAACAATACTCT
1 AATAAACAATACTCT
16663909 AATAAAC-ATACTCT
1 AATAAACAATACTCT
16663923 CTAACTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAACAATACTCT
Found at i:16665208 original size:28 final size:28
Alignment explanation
Indices: 16665172--16665237 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
16665162 TTTTTTCAAG
16665172 AAGAAAATAC-CAAGCTACTATTGATTCA
1 AAGAAAATACACAA-CTACTATTGATTCA
* *
16665200 AAGAAAATACACAACTATTGTTGATTCA
1 AAGAAAATACACAACTACTATTGATTCA
*
16665228 AAGAGAATAC
1 AAGAAAATAC
16665238 TCAAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.24
Consensus pattern (28 bp):
AAGAAAATACACAACTACTATTGATTCA
Found at i:16667093 original size:24 final size:26
Alignment explanation
Indices: 16667025--16667095 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 26
16667015 AGCGAGCCAT
*
16667025 ATCGGGAAGCTCATAAAGAGCCAATTA
1 ATCGGAAAGCTCAT-AAGAGCCAATTA
* * *
16667052 ATGGGAAA-CTCACGAAGAGTC-A-TA
1 ATCGGAAAGCTCA-TAAGAGCCAATTA
16667076 ATCGGAAAGCTCATAAGAGC
1 ATCGGAAAGCTCATAAGAGC
16667096 TAAGGTGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
24 14 0.40
25 5 0.14
26 10 0.29
27 6 0.17
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (26 bp):
ATCGGAAAGCTCATAAGAGCCAATTA
Found at i:16668061 original size:18 final size:18
Alignment explanation
Indices: 16668024--16668062 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16668014 GTGGAAATCA
*
16668024 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
16668042 AAATTATTAAAAAGA-AAT
1 AAATTATT-AAAAGATAAT
16668060 AAA
1 AAA
16668063 AGTCAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:16681278 original size:19 final size:18
Alignment explanation
Indices: 16681254--16681301 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
16681244 CGACACATAA
*
16681254 GTGCCTGAAACGACACGAG
1 GTGCCTGAAAC-ACACAAG
**
16681273 GTGCCTGCTGACACACAAG
1 GTGCCTG-AAACACACAAG
16681292 GTGCCTGAAA
1 GTGCCTGAAA
16681302 TATGACACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.04
19 20 0.87
20 2 0.09
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.15
Consensus pattern (18 bp):
GTGCCTGAAACACACAAG
Found at i:16681598 original size:29 final size:28
Alignment explanation
Indices: 16681526--16681608 Score: 132
Period size: 27 Copynumber: 3.0 Consensus size: 28
16681516 AACACGCCAG
* *
16681526 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
16681554 TATAATCCTCC-AAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
16681581 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
16681609 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:16685845 original size:24 final size:24
Alignment explanation
Indices: 16685781--16685851 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 24
16685771 AAGTTCAAGT
*
16685781 GAGTCAT-ATCAGGAAGCTCACAAA
1 GAGTCATAATC-GGAAACTCACAAA
* * *
16685805 GAGCCAATTAATGGGAAACTCACGAA
1 GAGTC-A-TAATCGGAAACTCACAAA
16685831 GAGTCATAATCGGAAAGCTCA
1 GAGTCATAATCGGAAA-CTCA
16685852 TAAAAGCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
24 13 0.35
25 6 0.16
26 16 0.43
27 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (24 bp):
GAGTCATAATCGGAAACTCACAAA
Found at i:16699716 original size:30 final size:30
Alignment explanation
Indices: 16699675--16699734 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
16699665 ATTTATACAT
*
16699675 TAATAAACAAATGTAA-ATTTTAAAATTAA
1 TAATAAACAAATGCAATATTTTAAAATTAA
*
16699704 TAATAATACAAATGCAATATTTTGAAATTAA
1 TAATAA-ACAAATGCAATATTTTAAAATTAA
16699735 AATTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 6 0.22
30 9 0.33
31 12 0.44
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (30 bp):
TAATAAACAAATGCAATATTTTAAAATTAA
Found at i:16703469 original size:15 final size:14
Alignment explanation
Indices: 16703451--16703481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
16703441 TTAATTTATT
16703451 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
16703466 TAATAATAATCTAA
1 TAATAATAATCTAA
16703480 TA
1 TA
16703482 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:16703492 original size:21 final size:20
Alignment explanation
Indices: 16703468--16703536 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
16703458 AATGCTAATA
16703468 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
16703489 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
16703508 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
16703529 ATAATAAT
1 ATAATAAT
16703537 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:16710503 original size:20 final size:19
Alignment explanation
Indices: 16710476--16710525 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
16710466 CAAAAAATCC
16710476 TTAAATATTAAATTGAAAA
1 TTAAATATTAAATTGAAAA
* *
16710495 TTCAAATATTAAGTTGAACA
1 TT-AAATATTAAATTGAAAA
16710515 TTAAA-ATTAAA
1 TTAAATATTAAA
16710526 CTTAGATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 17 0.63
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (19 bp):
TTAAATATTAAATTGAAAA
Found at i:16711053 original size:21 final size:21
Alignment explanation
Indices: 16711007--16711067 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 21
16710997 TCTCTATTTT
*
16711007 TTATATTTAAAAATATGATATA
1 TTAT-TTTAAAAATATAATATA
*
16711029 --ATTTTAAAATTATAATATA
1 TTATTTTAAAAATATAATATA
* *
16711048 TTATTTGAATAATATTAATA
1 TTATTTTAAAAATA-TAATA
16711068 ATTCATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 15 0.48
20 2 0.06
21 9 0.29
22 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
TTATTTTAAAAATATAATATA
Found at i:16722917 original size:21 final size:21
Alignment explanation
Indices: 16722882--16722943 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 21
16722872 CATTTTACCC
*
16722882 TTAACTTAA-AAAATAATATT
1 TTAATTTAATAAAATAATATT
*
16722902 TTAATTTAATAAAAT-AT-TA
1 TTAATTTAATAAAATAATATT
*
16722921 TTAATTTAATATAA-AATATT
1 TTAATTTAATAAAATAATATT
16722941 TTA
1 TTA
16722944 TATTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 16 0.46
20 14 0.40
21 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATTTAATAAAATAATATT
Found at i:16722926 original size:19 final size:18
Alignment explanation
Indices: 16722896--16722943 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 18
16722886 CTTAAAAAAT
16722896 AATATTTTAATTTAATAA
1 AATATTTTAATTTAATAA
16722914 AATATTATTAATTTAATATAA
1 AATATT-TTAATTT-A-ATAA
16722935 AATATTTTA
1 AATATTTTA
16722944 TATTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.22
19 7 0.26
20 4 0.15
21 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATTTTAATTTAATAA
Found at i:16724373 original size:31 final size:31
Alignment explanation
Indices: 16724338--16724396 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
16724328 ACGACCCTAT
*
16724338 GACTTAAATAAAAACTTT-AGAATAGTTTAGC
1 GACTTAAACAAAAACTTTCA-AATAGTTTAGC
*
16724369 GACTTAAACGAAAACTTTCAAATAGTTT
1 GACTTAAACAAAAACTTTCAAATAGTTT
16724397 TGTAACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (31 bp):
GACTTAAACAAAAACTTTCAAATAGTTTAGC
Found at i:16726379 original size:16 final size:15
Alignment explanation
Indices: 16726358--16726393 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
16726348 AAATTAATAT
16726358 TTTTACAACATCTATA
1 TTTTACAACAT-TATA
*
16726374 TTTTACAACATTATT
1 TTTTACAACATTATA
16726389 TTTTA
1 TTTTA
16726394 AAATTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTACAACATTATA
Found at i:16735806 original size:26 final size:26
Alignment explanation
Indices: 16735773--16735827 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
16735763 ACTGACGAGA
16735773 ATAGTCCACTATGCACTGAGTAATGT
1 ATAGTCCACTATGCACTGAGTAATGT
16735799 ATAGTCCACTATGCACTGAGTAATGT
1 ATAGTCCACTATGCACTGAGTAATGT
16735825 ATA
1 ATA
16735828 ACAAAAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (26 bp):
ATAGTCCACTATGCACTGAGTAATGT
Found at i:16743114 original size:20 final size:20
Alignment explanation
Indices: 16743089--16743126 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16743079 AAAATAATTC
16743089 AAAAT-AATTTTCAAAATTTT
1 AAAATAAATTTT-AAAATTTT
16743109 AAAATAAATTTTAAAATT
1 AAAATAAATTTTAAAATT
16743127 CAAAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATAAATTTTAAAATTTT
Found at i:16743155 original size:18 final size:20
Alignment explanation
Indices: 16743121--16743158 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
16743111 AATAAATTTT
16743121 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATTTATAA
16743141 AAAATTC-AAAT-TTTATAA
1 AAAATTCAAAATATTTATAA
16743159 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTCAAAATATTTATAA
Found at i:16743164 original size:20 final size:22
Alignment explanation
Indices: 16743119--16743164 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
16743109 AAAATAAATT
16743119 TTAAAATTCAAAATATTTATAA
1 TTAAAATTCAAAATATTTATAA
16743141 --AAAATTC-AAAT-TTTATAA
1 TTAAAATTCAAAATATTTATAA
16743159 TTAAAA
1 TTAAAA
16743165 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAATTCAAAATATTTATAA
Found at i:16743187 original size:10 final size:9
Alignment explanation
Indices: 16743169--16743218 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
16743159 TTAAAAAAAA
16743169 TAAAAATTT
1 TAAAAATTT
16743178 TAAAATATTT
1 TAAAA-ATTT
*
16743188 TAAAAATATA
1 TAAAAAT-TT
*
16743198 TAAAAA-GT
1 TAAAAATTT
16743206 T-AAAATTT
1 TAAAAATTT
16743214 TAAAA
1 TAAAA
16743219 CTTCTCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
7 4 0.12
8 3 0.09
9 10 0.30
10 16 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
TAAAAATTT
Found at i:16747078 original size:16 final size:14
Alignment explanation
Indices: 16747048--16747092 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 14
16747038 TAGTTTAGGT
16747048 TTTCATTTTTCTTTTC
1 TTTC-TTTTT-TTTTC
16747064 TCTTCTTTTTATTTTC
1 T-TTCTTTTT-TTTTC
16747080 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
16747093 GTTGTAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 4 0.15
15 8 0.30
16 12 0.44
17 3 0.11
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:16750265 original size:30 final size:30
Alignment explanation
Indices: 16750183--16750266 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 30
16750173 TAGGTCCTTA
* *
16750183 TACTATTTACAAATTT-AAAATTTAGCCTATG
1 TACT-TTT-CAAATTTAAAAATTTAGCCCATC
16750214 TACTTTT---ATTTATAGAAATTTAGCCCATC
1 TACTTTTCAAATTTA-A-AAATTTAGCCCATC
16750243 TACTTTTCAAATTTAAAAATTTAG
1 TACTTTTCAAATTTAAAAATTTAG
16750267 GTGCAATTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
26 4 0.09
28 1 0.02
29 19 0.42
30 11 0.24
31 5 0.11
32 5 0.11
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (30 bp):
TACTTTTCAAATTTAAAAATTTAGCCCATC
Found at i:16755120 original size:7 final size:7
Alignment explanation
Indices: 16755110--16755176 Score: 55
Period size: 7 Copynumber: 8.7 Consensus size: 7
16755100 TTAAAGTTAA
16755110 TATATAT
1 TATATAT
16755117 TATAATAT
1 TAT-ATAT
16755125 TATAATAT
1 TAT-ATAT
*
16755133 TATATCT
1 TATATAT
16755140 TA-ATTAT
1 TATA-TAT
16755147 TAAGTATATT
1 T-A-TATA-T
16755157 TATTATAT
1 TA-TATAT
16755165 TATATAT
1 TATATAT
16755172 TATAT
1 TATAT
16755177 TAAGTAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 21 0.41
8 19 0.37
9 7 0.14
10 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (7 bp):
TATATAT
Found at i:16755167 original size:32 final size:30
Alignment explanation
Indices: 16755124--16755182 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
16755114 TATTATAATA
*
16755124 TTATAATATTATATCTTAATTATTAAGTATAT
1 TTATAATATTATATATT-A-TATTAAGTATAT
*
16755156 TTATTATATTATATATTATATTAAGTA
1 TTATAATATTATATATTATATTAAGTA
16755183 AATATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
31 1 0.04
32 15 0.60
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATAATATTATATATTATATTAAGTATAT
Found at i:16755170 original size:16 final size:16
Alignment explanation
Indices: 16755112--16755178 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
16755102 AAAGTTAATA
16755112 TATATTATA-ATATTAT
1 TATATTATATAT-TTAT
* * *
16755128 AATATTATATCTTAAT
1 TATATTATATATTTAT
*
16755144 TAT-TAAGTATATTTAT
1 TATATTA-TATATTTAT
16755160 TATATTATATATTATAT
1 TATATTATATATT-TAT
16755177 TA
1 TA
16755179 AGTAAATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
15 2 0.05
16 29 0.74
17 8 0.21
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (16 bp):
TATATTATATATTTAT
Found at i:16755247 original size:10 final size:10
Alignment explanation
Indices: 16755196--16755267 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
16755186 ATAATAAATG
*
16755196 AAAGAAACAA
1 AAAGAAAGAA
16755206 AAAGAAAGACA
1 AAAGAAAGA-A
16755217 AAAGGTTAAACGAA
1 AAA-G--AAA-GAA
*
16755231 ATAGAAAGAA
1 AAAGAAAGAA
*
16755241 AAGGAAAGAA
1 AAAGAAAGAA
*
16755251 AAAGAAAAGAG
1 AAAG-AAAGAA
16755262 AAAGAA
1 AAAGAA
16755268 GGAAGGAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 24 0.48
11 16 0.32
12 1 0.02
13 1 0.02
14 6 0.12
15 2 0.04
ACGTcount: A:0.71, C:0.04, G:0.21, T:0.04
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:16760346 original size:43 final size:43
Alignment explanation
Indices: 16760241--16760398 Score: 246
Period size: 43 Copynumber: 3.7 Consensus size: 43
16760231 TGTAATTACA
* * *
16760241 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATG-GTTAG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
*
16760283 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
*
16760326 TGTAAGACCATGTCTAGGACATTGGCATCGTATTATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
* *
16760369 TGTAAGACCTTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
16760399 ATATGTGATA
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 35 0.33
43 71 0.67
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
Found at i:16760416 original size:43 final size:43
Alignment explanation
Indices: 16760235--16760419 Score: 239
Period size: 43 Copynumber: 4.3 Consensus size: 43
16760225 TCGAGATGTA
* * *
16760235 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTATG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGTG
*
16760278 GTTA-GTGTAAGACCATGTCTGGGACATTGGCATCGTATTGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGTG
* * *
16760320 ATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGTATTATG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGTG
* * *
16760363 ATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG-ATATGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGTG
* *
16760406 ATAACATGTAAGAC
1 ATTACGTGTAAGAC
16760420 AATATTTGGG
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 39 0.31
43 86 0.69
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGTG
Found at i:16761459 original size:44 final size:44
Alignment explanation
Indices: 16761374--16761460 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
16761364 GCCGTGTGCA
* **
16761374 ACACATGGTCATGTTGCACAGTCGTGTGTCACCTGGGGTACCAG
1 ACACATGGTCATGCTGCACAGTCGTGTGTCACCTGAAGTACCAG
* *
16761418 ACACATGGTCATGCTGTACGGTCGTGTGTC-CTCTGAAGTACCA
1 ACACATGGTCATGCTGCACAGTCGTGTGTCAC-CTGAAGTACCA
16761461 TTTCGAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.03
44 36 0.97
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (44 bp):
ACACATGGTCATGCTGCACAGTCGTGTGTCACCTGAAGTACCAG
Found at i:16766642 original size:12 final size:12
Alignment explanation
Indices: 16766625--16766668 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
16766615 AGAGCAAAGT
16766625 TTTATTTTATTA
1 TTTATTTTATTA
16766637 TTTATTTTGA-TA
1 TTTATTTT-ATTA
16766649 -TTATTTTATTA
1 TTTATTTTATTA
16766660 TTTAATTTT
1 TTT-ATTTT
16766669 TTGTGCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 9 0.32
12 12 0.43
13 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:16766707 original size:19 final size:19
Alignment explanation
Indices: 16766683--16766730 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
16766673 GCTATATACG
* * *
16766683 TTTTATATTATTTTTTATT
1 TTTTATATTAGTTATAATT
*
16766702 TTTTATCTTAGTTATAATT
1 TTTTATATTAGTTATAATT
16766721 TTTTAATATT
1 TTTT-ATATT
16766731 TAAATAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTATATTAGTTATAATT
Found at i:16773878 original size:32 final size:32
Alignment explanation
Indices: 16773842--16773905 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
16773832 AAAGATAATC
16773842 GCAATGTTTAATTAATTTAAGACTGACTGCTT
1 GCAATGTTTAATTAATTTAAGACTGACTGCTT
*
16773874 GCAATGTTTAATTAATTTAAGACTGATTGCTT
1 GCAATGTTTAATTAATTTAAGACTGACTGCTT
16773906 AATTTAGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (32 bp):
GCAATGTTTAATTAATTTAAGACTGACTGCTT
Found at i:16777386 original size:13 final size:14
Alignment explanation
Indices: 16777360--16777391 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
16777350 TCAACTCAAT
16777360 TAATAAATTATATA
1 TAATAAATTATATA
16777374 TAATAAA-TATATA
1 TAATAAATTATATA
16777387 TAATA
1 TAATA
16777392 TATTTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAAATTATATA
Found at i:16779137 original size:28 final size:28
Alignment explanation
Indices: 16779084--16779137 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
16779074 TTGTTTAAAA
* *
16779084 ATATCATAGTTTCATTTAACTATTTCGT
1 ATATCATAGTTTCAATTAAATATTTCGT
*
16779112 ATATCATTTGTTTCAATTAAAT-TTTC
1 ATATCA-TAGTTTCAATTAAATATTTC
16779138 ACAAATGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 10 0.45
29 12 0.55
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.52
Consensus pattern (28 bp):
ATATCATAGTTTCAATTAAATATTTCGT
Found at i:16789013 original size:6 final size:6
Alignment explanation
Indices: 16789004--16789039 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
16788994 AATAAAATTT
* *
16789004 AAATAA AAATAA AAGTAA AAGTAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
16789040 TAGTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:16789022 original size:12 final size:12
Alignment explanation
Indices: 16789007--16789051 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
16788997 AAAATTTAAA
16789007 TAAAAATAAAAG
1 TAAAAATAAAAG
* *
16789019 TAAAAGTAAAAA
1 TAAAAATAAAAG
*
16789031 TAAAAATAATAG
1 TAAAAATAAAAG
16789043 T-AAAATAAA
1 TAAAAATAAA
16789052 GGGAGTCAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (12 bp):
TAAAAATAAAAG
Found at i:16789030 original size:18 final size:18
Alignment explanation
Indices: 16788994--16789051 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
16788984 AAAAAAAGAC
* *
16788994 AATAAAATTTAAA-TAAA
1 AATAAAAATAAAAGTAAA
*
16789011 AATAAAAGTAAAAGTAAA
1 AATAAAAATAAAAGTAAA
*
16789029 AATAAAAATAATAGT-AA
1 AATAAAAATAAAAGTAAA
16789046 AATAAA
1 AATAAA
16789052 GGGAGTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 19 0.53
18 17 0.47
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (18 bp):
AATAAAAATAAAAGTAAA
Found at i:16789031 original size:24 final size:23
Alignment explanation
Indices: 16789004--16789051 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
16788994 AATAAAATTT
16789004 AAATAAAAATAAAAGTAAAAGTAA
1 AAATAAAAATAAAAGTAAAA-TAA
*
16789028 AAATAAAAATAATAGTAAAATAA
1 AAATAAAAATAAAAGTAAAATAA
16789051 A
1 A
16789052 GGGAGTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (23 bp):
AAATAAAAATAAAAGTAAAATAA
Found at i:16791349 original size:13 final size:13
Alignment explanation
Indices: 16791327--16791376 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
16791317 GTGTGTTTCA
*
16791327 CACGGACGTGTCG
1 CACGGCCGTGTCG
*
16791340 CACGGCCGTGTAG
1 CACGGCCGTGTCG
16791353 CACGGCCGTGTCG
1 CACGGCCGTGTCG
16791366 CACGGCCGTGT
1 CACGGCCGTGT
16791377 GGCTCGATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.12, C:0.34, G:0.38, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Done.