Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 22 of 85
Found at i:7200454 original size:11 final size:11
Alignment explanation
Indices: 7200439--7200468 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
7200429 AAAAAATTAA
7200439 AAAAAGTATTTT
1 AAAAA-TATTTT
7200451 AAAAATATTTT
1 AAAAATATTTT
7200462 AAAAATA
1 AAAAATA
7200469 AATCATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:7204059 original size:8 final size:8
Alignment explanation
Indices: 7204048--7204075 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7204038 GACCAATTAA
7204048 AAAATTTT
1 AAAATTTT
7204056 AAAATTTT
1 AAAATTTT
7204064 AAAATTTT
1 AAAATTTT
7204072 AAAA
1 AAAA
7204076 AATCAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:7204146 original size:33 final size:31
Alignment explanation
Indices: 7204082--7204150 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
7204072 AAAAAATCAA
* *
7204082 TTCAACCATCAATTCAATCAGTTTTAGCCGG
1 TTCAACCATCAATTCAACCACTTTTAGCCGG
* *
7204113 TTCAACCATCGATTCAACCTATCTTTTATCCGG
1 TTCAACCATCAATTCAACC-A-CTTTTAGCCGG
7204146 TTCAA
1 TTCAA
7204151 TCGGTTTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 17 0.53
32 1 0.03
33 14 0.44
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (31 bp):
TTCAACCATCAATTCAACCACTTTTAGCCGG
Found at i:7220483 original size:16 final size:16
Alignment explanation
Indices: 7220452--7220485 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7220442 CATTTTAATA
* *
7220452 TTATGTCTTTTTTATT
1 TTATGTCTTATATATT
7220468 TTATGTCTTATATATT
1 TTATGTCTTATATATT
7220484 TT
1 TT
7220486 GCATGCATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (16 bp):
TTATGTCTTATATATT
Found at i:7225112 original size:17 final size:18
Alignment explanation
Indices: 7225090--7225123 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7225080 AAATTAAAAT
7225090 ATATAAAAATA-ATATAC
1 ATATAAAAATATATATAC
*
7225107 ATATAACAATATATATA
1 ATATAAAAATATATATA
7225124 AAACTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATAAAAATATATATAC
Found at i:7230719 original size:41 final size:41
Alignment explanation
Indices: 7230671--7230901 Score: 286
Period size: 41 Copynumber: 5.6 Consensus size: 41
7230661 NNNNNNNNNN
7230671 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
* *
7230712 TTATTCAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
7230753 TGATTTCAGATCA-CGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGA-TTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
* * * *
7230794 TTATTCAGATCACCGGCACTTAGCCTGCTAGGTTTTAAAACC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGG-CTTATAGCC
** ** **** * *
7230836 TGA-AAATTTCAATTACATTTAGCCTGCTAGGCTTATAACC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
7230876 TGATTCAGATCACCGGCACTTAGCCT
1 TGATTCAGATCACCGGCACTTAGCCT
7230902 NNNNNNNNNN
Statistics
Matches: 157, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
40 19 0.12
41 121 0.77
42 17 0.11
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
Found at i:7230775 original size:82 final size:84
Alignment explanation
Indices: 7230674--7230901 Score: 315
Period size: 82 Copynumber: 2.8 Consensus size: 84
7230664 NNNNNNNTGA
*
7230674 TTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTTATTCAGATCACCGGCACTTAGCTTG
1 TTCAGATCA-CGGCACTTAGCCTGCTAGGCTTATAGCCTTATTCAGATCACCGGCACTTAGCCTG
* *
7230739 CTAGG-CTTATAGCCTG-AT
65 CTAGGTCTTAAAACCTGAAT
7230757 TTCAGATCACGGCACTTAGCCTGCTAGGCTTATAGCCTTATTCAGATCACCGGCACTTAGCCTGC
1 TTCAGATCACGGCACTTAGCCTGCTAGGCTTATAGCCTTATTCAGATCACCGGCACTTAGCCTGC
*
7230822 TAGGTTTTAAAACCTGAAAAT
66 TAGGTCTTAAAACCTG--AAT
* * * *
7230843 TTCA-ATTA---CATTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCT
1 TTCAGATCACGGCACTTAGCCTGCTAGGCTTATAGCCTTATTCAGATCACCGGCACTTAGCCT
7230902 NNNNNNNNNN
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
82 107 0.80
83 17 0.13
85 3 0.02
86 6 0.05
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (84 bp):
TTCAGATCACGGCACTTAGCCTGCTAGGCTTATAGCCTTATTCAGATCACCGGCACTTAGCCTGC
TAGGTCTTAAAACCTGAAT
Found at i:7235283 original size:25 final size:25
Alignment explanation
Indices: 7235253--7235342 Score: 144
Period size: 25 Copynumber: 3.6 Consensus size: 25
7235243 TGTAAACAGT
* *
7235253 AAGCTCTTCCGAGCTAAATAACGGG
1 AAGCTCATGCGAGCTAAATAACGGG
7235278 AAGCTCATGCGAGCTAAATAACGGG
1 AAGCTCATGCGAGCTAAATAACGGG
* *
7235303 AAGCTCATGCGAGCTGAATAACGGA
1 AAGCTCATGCGAGCTAAATAACGGG
7235328 AAGCTCATGCGAGCT
1 AAGCTCATGCGAGCT
7235343 GCGGTGTGTC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (25 bp):
AAGCTCATGCGAGCTAAATAACGGG
Found at i:7235343 original size:25 final size:25
Alignment explanation
Indices: 7235231--7235343 Score: 138
Period size: 25 Copynumber: 4.6 Consensus size: 25
7235221 ATTCATGTAT
* * * *
7235231 GCTCATACGAGCTGTA-AACAGTAA
1 GCTCATGCGAGCTGAATAACGGGAA
* * *
7235255 GCTCTTCCGAGCTAAATAACGGGAA
1 GCTCATGCGAGCTGAATAACGGGAA
*
7235280 GCTCATGCGAGCTAAATAACGGGAA
1 GCTCATGCGAGCTGAATAACGGGAA
*
7235305 GCTCATGCGAGCTGAATAACGGAAA
1 GCTCATGCGAGCTGAATAACGGGAA
7235330 GCTCATGCGAGCTG
1 GCTCATGCGAGCTG
7235344 CGGTGTGTCC
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 12 0.15
25 66 0.85
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAACGGGAA
Found at i:7235671 original size:15 final size:16
Alignment explanation
Indices: 7235651--7235680 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7235641 CGAATGAATT
7235651 TAAGTCA-ATTCAATA
1 TAAGTCATATTCAATA
7235666 TAAGTCATATTCAAT
1 TAAGTCATATTCAAT
7235681 TTAGTCCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (16 bp):
TAAGTCATATTCAATA
Found at i:7240728 original size:37 final size:37
Alignment explanation
Indices: 7240678--7240751 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
7240668 CTTATTTTTT
7240678 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
1 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
7240715 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
1 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
7240752 TGACCCGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (37 bp):
CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
Found at i:7244239 original size:25 final size:25
Alignment explanation
Indices: 7244110--7244302 Score: 78
Period size: 25 Copynumber: 7.7 Consensus size: 25
7244100 TCACGATATT
* *
7244110 TGGCTCTCATGAGCTTCTCGATTA-A
1 TGGCTCACATGAGCTTCCCG-TTACA
* * *
7244135 TGGATCTCTTGAGCTTCCCGTTTAC-
1 TGGCTCACATGAGCTTCCCG-TTACA
** **
7244160 -GGCTCGTATGAGCTTCCCAATA-A
1 TGGCTCACATGAGCTTCCCGTTACA
* *
7244183 TTGGCTCGCAAGAGCTTCCTAC-TATACA
1 -TGGCTCACATGAGCTTCC--CGT-TACA
7244211 --GCTCACATGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTACA
* ** *
7244234 TGGCTCATATGAGCTTCATGTTATA
1 TGGCTCACATGAGCTTCCCGTTACA
* * * * *
7244259 TTGCTCAAAAGAGCTACCCGTTTATA
1 TGGCTCACATGAGCTTCCCG-TTACA
7244285 T-GCTCACATGAGCATTCC
1 TGGCTCACATGAGC-TTCC
7244303 TGAATATGAG
Statistics
Matches: 127, Mismatches: 28, Indels: 25
0.71 0.16 0.14
Matches are distributed among these distances:
23 7 0.06
24 15 0.12
25 92 0.72
26 9 0.07
27 3 0.02
28 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCGTTACA
Found at i:7251633 original size:24 final size:24
Alignment explanation
Indices: 7251589--7251634 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7251579 CAGCTCGCAA
*
7251589 GAGCATCCCGTTATTTAGCTCTAT
1 GAGCATCCCGTTATATAGCTCTAT
* *
7251613 GAGCATCCCGTTGTATGGCTCT
1 GAGCATCCCGTTATATAGCTCT
7251635 CACGAGCTTC
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:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATATAGCTCTAT
Found at i:7251681 original size:25 final size:26
Alignment explanation
Indices: 7251626--7251693 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
7251616 CATCCCGTTG
*
7251626 TATGGCTCTCACGAGC-TTCACGATA
1 TATGGCTCTCATGAGCTTTCACGATA
*
7251651 TTTGGCTCTCATGAGCTTTC-CGAT-
1 TATGGCTCTCATGAGCTTTCACGATA
**
7251675 TAATGGCTCTTTTGAGCTT
1 T-ATGGCTCTCATGAGCTT
7251694 CTCGTTTACG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.89
26 3 0.08
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
TATGGCTCTCATGAGCTTTCACGATA
Found at i:7251784 original size:25 final size:25
Alignment explanation
Indices: 7251756--7251807 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
7251746 ATCATCTAGT
7251756 TCACATAAGCTTCCA-GTTACATGGC
1 TCACATAAGCTT-CATGTTACATGGC
* *
7251781 TCACATGAGCTTCATGTTATATGGC
1 TCACATAAGCTTCATGTTACATGGC
7251806 TC
1 TC
7251808 GAAAGAGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (25 bp):
TCACATAAGCTTCATGTTACATGGC
Found at i:7253478 original size:13 final size:13
Alignment explanation
Indices: 7253430--7253515 Score: 50
Period size: 14 Copynumber: 6.4 Consensus size: 13
7253420 ATGTTCCAGC
* *
7253430 AAAAATGAAGAAAC
1 AAAAAT-AAAAAAT
* *
7253444 AAAAATACTAAAAC
1 AAAAATA-AAAAAT
*
7253458 AAAAA-AAAAGAT
1 AAAAATAAAAAAT
7253470 -AAAATAAAAAAT
1 AAAAATAAAAAAT
*
7253482 AAAAATAAAAACCT
1 AAAAATAAAAA-AT
*
7253496 AAAACTAAGAAATAT
1 AAAAATAA-AAA-AT
7253511 AAAAA
1 AAAAA
7253516 GCAAAGAACA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
11 4 0.07
12 9 0.16
13 12 0.21
14 23 0.41
15 8 0.14
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.13
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:7258785 original size:15 final size:14
Alignment explanation
Indices: 7258757--7258783 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7258747 ATGCGTCTTT
7258757 TTTTTTAATATTTA
1 TTTTTTAATATTTA
7258771 TTTTTTAATATTT
1 TTTTTTAATATTT
7258784 TACTATACGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:7264820 original size:31 final size:31
Alignment explanation
Indices: 7264755--7264820 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
7264745 AAAAAAACTC
* * *
7264755 ATTTAATTATTTATATCTTATTTTTTTATGT
1 ATTTAATTATTTAAATCTAATTTTTTTATAT
7264786 ATTTAATT-TTTAAATCTAACTTTATTTT-TAT
1 ATTTAATTATTTAAATCTAA-TTT-TTTTATAT
7264817 ATTT
1 ATTT
7264821 GTGCTTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 9 0.30
31 17 0.57
32 4 0.13
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (31 bp):
ATTTAATTATTTAAATCTAATTTTTTTATAT
Found at i:7266584 original size:14 final size:14
Alignment explanation
Indices: 7266565--7266591 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7266555 TGGTAAAACT
7266565 CACTAAGATTAATC
1 CACTAAGATTAATC
7266579 CACTAAGATTAAT
1 CACTAAGATTAAT
7266592 TAATGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (14 bp):
CACTAAGATTAATC
Found at i:7270361 original size:20 final size:20
Alignment explanation
Indices: 7270336--7270376 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7270326 TATTGTTAAT
*
7270336 ATTTT-AATATATATATATTA
1 ATTTTAAATAT-TAGATATTA
7270356 ATTTTAAATATTAGATATTA
1 ATTTTAAATATTAGATATTA
7270376 A
1 A
7270377 CATAACATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTTTAAATATTAGATATTA
Found at i:7272128 original size:72 final size:72
Alignment explanation
Indices: 7272008--7272178 Score: 231
Period size: 72 Copynumber: 2.4 Consensus size: 72
7271998 AAAATTATAT
* * * *
7272008 ATAAACAACTATTGATAAAACTA-ATTTAATAAAAATAAGTAGAACATAACTTCAATATCTAAAG
1 ATAAACAACTATTGATAAAACTAGATTTAACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
7272072 ACCAAAC
66 ACCAAAC
* * *
7272079 ATAAACAAATATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTA-ACAAAAATAAGTAGAACATAAATTCAATATCCAAA
7272143 AACCAAAC
65 AACCAAAC
* *
7272151 ATAAATATCTATTGATAAAACTAG-TTTA
1 ATAAACAACTATTGATAAAACTAGATTTA
7272179 GCATTGTCAG
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 24 0.28
72 62 0.72
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTTAACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:7272623 original size:18 final size:18
Alignment explanation
Indices: 7272602--7272649 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
7272592 TCCATATATT
*
7272602 TGAACATCATTTGAGATG
1 TGAACATCATTTGAAATG
7272620 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
7272638 TGAACATCATTT
1 TGAACATCATTT
7272650 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:7275346 original size:25 final size:25
Alignment explanation
Indices: 7275278--7275351 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
7275268 GAAGTGGAGA
* * *
7275278 AGAGGAACAAAGAACCAACACCAAC
1 AGAGGAACAAAGAACCAGCGCCAGC
7275303 AGAGGAACAAAGAACCAGCGCCAGC
1 AGAGGAACAAAGAACCAGCGCCAGC
* *
7275328 AGTGGAACAAAGAATCAGCGCCAG
1 AGAGGAACAAAGAACCAGCGCCAG
7275352 AGGAACACCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.47, C:0.26, G:0.24, T:0.03
Consensus pattern (25 bp):
AGAGGAACAAAGAACCAGCGCCAGC
Found at i:7279051 original size:40 final size:40
Alignment explanation
Indices: 7278927--7279067 Score: 126
Period size: 40 Copynumber: 3.6 Consensus size: 40
7278917 CAACTTTGAA
* * *
7278927 TCGAGGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGGATT-AT
* * * * *
7278968 TCAATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAG
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
* *
7279005 CCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
* * * *
7279045 TTGATGAGGCACAGGGTGCCAAA
1 TCGATGAGACACTGGGTGTCAAA
7279068 CTGGTGTGTT
Statistics
Matches: 77, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 16 0.21
38 13 0.17
39 2 0.03
40 31 0.40
41 15 0.19
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
Found at i:7279546 original size:19 final size:19
Alignment explanation
Indices: 7279503--7279540 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7279493 CCCGAACTCA
7279503 AATGTGGTGATGTTTATCC
1 AATGTGGTGATGTTTATCC
7279522 AATGTGGTGATGTTTATCC
1 AATGTGGTGATGTTTATCC
7279541 TTTGTGTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (19 bp):
AATGTGGTGATGTTTATCC
Found at i:7285608 original size:20 final size:18
Alignment explanation
Indices: 7285567--7285602 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7285557 CTCACTATAT
*
7285567 TTTTTATATTAGAATTTG
1 TTTTTATATTAGAACTTG
*
7285585 TTTTTATATTAGAGCTTG
1 TTTTTATATTAGAACTTG
7285603 AATTTTTTTT
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:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (18 bp):
TTTTTATATTAGAACTTG
Found at i:7287475 original size:35 final size:35
Alignment explanation
Indices: 7287429--7287497 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
7287419 TTAATTAATC
* *
7287429 AGCTTTGACAATTGGAGTTCCCGAACAGTCATTGG
1 AGCTTTGACAATTGGAGTTCCCAAACAGCCATTGG
7287464 AGCTTTGACAATTGGAGTTCCCAAACAGCCATTG
1 AGCTTTGACAATTGGAGTTCCCAAACAGCCATTG
7287498 AATTGGACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (35 bp):
AGCTTTGACAATTGGAGTTCCCAAACAGCCATTGG
Found at i:7287692 original size:32 final size:30
Alignment explanation
Indices: 7287625--7287709 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 30
7287615 TTATGGCGTC
* * *
7287625 TGAAGGGT-CTTTGGTGTGAACACTCAGAT
1 TGAATGGTCCTTTGGTGTGAACACTAAAAT
7287654 TCGAATGGTCCTTTGGGTGTGAACACTAAAAAT
1 T-GAATGGTCCTTT-GGTGTGAACACT-AAAAT
* *
7287687 TGAATGGTCCATTGATGTGAACA
1 TGAATGGTCCTTTGGTGTGAACA
7287710 AGAGTAGCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
29 1 0.02
30 6 0.13
31 13 0.28
32 23 0.49
33 4 0.09
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (30 bp):
TGAATGGTCCTTTGGTGTGAACACTAAAAT
Found at i:7290185 original size:414 final size:414
Alignment explanation
Indices: 7289415--7290243 Score: 1658
Period size: 414 Copynumber: 2.0 Consensus size: 414
7289405 CTAAATCGCA
7289415 TATAAGGTAAAAGTTAATTTATGATTTAAAAATAATTAAAGGGACTAAAGAAGTAATTACACCAT
1 TATAAGGTAAAAGTTAATTTATGATTTAAAAATAATTAAAGGGACTAAAGAAGTAATTACACCAT
7289480 TGTTACGGTTAGTGAATTATATATATTATATGTAAATTTATTTTATATATTATAATAATTAAAGA
66 TGTTACGGTTAGTGAATTATATATATTATATGTAAATTTATTTTATATATTATAATAATTAAAGA
7289545 TAAAATATGTTATCTTAATTATTAAGTAAATATATATTATATAATAATAAAACAAATAGGTAAAA
131 TAAAATATGTTATCTTAATTATTAAGTAAATATATATTATATAATAATAAAACAAATAGGTAAAA
7289610 GAAAAAGAAATAGAAAGCCATACAAAACTAAGAAAGAAAAAAATAAAGAAAAAGAAGGAGAAAGA
196 GAAAAAGAAATAGAAAGCCATACAAAACTAAGAAAGAAAAAAATAAAGAAAAAGAAGGAGAAAGA
7289675 AAGGAGACGCACGGCTAGGGCTCCAAATTTTCAATTTTGGATTGGTTAGTCAATTTAGTTCCATT
261 AAGGAGACGCACGGCTAGGGCTCCAAATTTTCAATTTTGGATTGGTTAGTCAATTTAGTTCCATT
7289740 TTCTTGTAATTTGTATGTTTTTAAAATCTCGGTACCTAGAGTAACTCAACCCATGTCGAAATTTT
326 TTCTTGTAATTTGTATGTTTTTAAAATCTCGGTACCTAGAGTAACTCAACCCATGTCGAAATTTT
7289805 AGCAATTATTAAGTTTTTAAGTGT
391 AGCAATTATTAAGTTTTTAAGTGT
7289829 TATAAGGTAAAAGTTAATTTATGATTTAAAAATAATTAAAGGGACTAAAGAAGTAATTACACCAT
1 TATAAGGTAAAAGTTAATTTATGATTTAAAAATAATTAAAGGGACTAAAGAAGTAATTACACCAT
7289894 TGTTACGGTTAGTGAATTATATATATTATATGTAAATTTATTTTATATATTATAATAATTAAAGA
66 TGTTACGGTTAGTGAATTATATATATTATATGTAAATTTATTTTATATATTATAATAATTAAAGA
7289959 TAAAATATGTTATCTTAATTATTAAGTAAATATATATTATATAATAATAAAACAAATAGGTAAAA
131 TAAAATATGTTATCTTAATTATTAAGTAAATATATATTATATAATAATAAAACAAATAGGTAAAA
7290024 GAAAAAGAAATAGAAAGCCATACAAAACTAAGAAAGAAAAAAATAAAGAAAAAGAAGGAGAAAGA
196 GAAAAAGAAATAGAAAGCCATACAAAACTAAGAAAGAAAAAAATAAAGAAAAAGAAGGAGAAAGA
7290089 AAGGAGACGCACGGCTAGGGCTCCAAATTTTCAATTTTGGATTGGTTAGTCAATTTAGTTCCATT
261 AAGGAGACGCACGGCTAGGGCTCCAAATTTTCAATTTTGGATTGGTTAGTCAATTTAGTTCCATT
7290154 TTCTTGTAATTTGTATGTTTTTAAAATCTCGGTACCTAGAGTAACTCAACCCATGTCGAAATTTT
326 TTCTTGTAATTTGTATGTTTTTAAAATCTCGGTACCTAGAGTAACTCAACCCATGTCGAAATTTT
7290219 AGCAATTATTAAGTTTTTAAGTGT
391 AGCAATTATTAAGTTTTTAAGTGT
7290243 T
1 T
7290244 GTTGAATAAT
Statistics
Matches: 415, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 415 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (414 bp):
TATAAGGTAAAAGTTAATTTATGATTTAAAAATAATTAAAGGGACTAAAGAAGTAATTACACCAT
TGTTACGGTTAGTGAATTATATATATTATATGTAAATTTATTTTATATATTATAATAATTAAAGA
TAAAATATGTTATCTTAATTATTAAGTAAATATATATTATATAATAATAAAACAAATAGGTAAAA
GAAAAAGAAATAGAAAGCCATACAAAACTAAGAAAGAAAAAAATAAAGAAAAAGAAGGAGAAAGA
AAGGAGACGCACGGCTAGGGCTCCAAATTTTCAATTTTGGATTGGTTAGTCAATTTAGTTCCATT
TTCTTGTAATTTGTATGTTTTTAAAATCTCGGTACCTAGAGTAACTCAACCCATGTCGAAATTTT
AGCAATTATTAAGTTTTTAAGTGT
Found at i:7290433 original size:15 final size:16
Alignment explanation
Indices: 7290399--7290433 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7290389 GGAGCTAAAT
7290399 TTAGCTTAAAGTGAAA
1 TTAGCTTAAAGTGAAA
7290415 TTAGCTTAAAGTG-AA
1 TTAGCTTAAAGTGAAA
7290430 TTAG
1 TTAG
7290434 TATGAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (16 bp):
TTAGCTTAAAGTGAAA
Found at i:7291977 original size:26 final size:27
Alignment explanation
Indices: 7291933--7291994 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
7291923 GGTCCACCGA
7291933 GACAGTAAACACTGGGTAGTCTG-TCGG
1 GACAGTAAACACTGGGTAGTC-GATCGG
* *
7291960 GATAGTAAAC-GTGGGTAGTCGATCGG
1 GACAGTAAACACTGGGTAGTCGATCGG
7291986 GACAGTAAA
1 GACAGTAAA
7291995 TACGGGGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 21 0.68
27 9 0.29
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.21
Consensus pattern (27 bp):
GACAGTAAACACTGGGTAGTCGATCGG
Found at i:7295793 original size:54 final size:54
Alignment explanation
Indices: 7295711--7295900 Score: 344
Period size: 54 Copynumber: 3.5 Consensus size: 54
7295701 NNNNNNNNCA
7295711 GGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATT
1 GGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATT
7295765 GGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATT
1 GGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATT
* **
7295819 GGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACA
1 GGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATT
*
7295873 AGGGATTTAGCCTGGACTGGTAATCCCG
1 GGGGATTTAGCCTGGACTGGTAATCCCG
7295901 CTGTAAGGAT
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 132 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (54 bp):
GGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATT
Found at i:7300912 original size:35 final size:36
Alignment explanation
Indices: 7300871--7300939 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
7300861 AGCGTAAGTT
7300871 TGAAGAACCATTTTT-TTATT-GAAACCTTGTTTGAA
1 TGAAGAA-CATTTTTCTTATTGGAAACCTTGTTTGAA
* * *
7300906 TGAAGAACTTTTTTCTTCTTGGAACCCTTGTTTG
1 TGAAGAACATTTTTCTTATTGGAAACCTTGTTTG
7300940 TCATTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 11 0.38
36 12 0.41
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (36 bp):
TGAAGAACATTTTTCTTATTGGAAACCTTGTTTGAA
Found at i:7302095 original size:27 final size:26
Alignment explanation
Indices: 7302060--7302140 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
7302050 AAGGTCTTTC
7302060 GGGACAGTAAACACAGGTAAGTCTGCTT
1 GGGACAGTAAACAC-GGTAAGTCTG-TT
* *
7302088 -GGATAGTAAACACGAGTAAGTCCGTT
1 GGGACAGTAAACACG-GTAAGTCTGTT
*
7302114 GGGGCAGTAAACACGGGTAAGTCTGTT
1 GGGACAGTAAACAC-GGTAAGTCTGTT
7302141 AAGACAAAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.07
27 41 0.91
28 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (26 bp):
GGGACAGTAAACACGGTAAGTCTGTT
Found at i:7305597 original size:29 final size:30
Alignment explanation
Indices: 7305554--7305620 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
7305544 TTGAAAATAT
* * *
7305554 CTCTATTTCATTCAA-AAAAAATTTAGA-AA
1 CTCTCTTTCAGTCAATAAAAAATTCA-ACAA
*
7305583 CTCTCTTTCAGTCAATAAAAACTTCAACAA
1 CTCTCTTTCAGTCAATAAAAAATTCAACAA
7305613 CTCTCTTT
1 CTCTCTTT
7305621 GCTTCAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
CTCTCTTTCAGTCAATAAAAAATTCAACAA
Found at i:7309662 original size:13 final size:13
Alignment explanation
Indices: 7309644--7309669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7309634 TTACAGATGA
7309644 AATTAGGTTGACT
1 AATTAGGTTGACT
7309657 AATTAGGTTGACT
1 AATTAGGTTGACT
7309670 TAAATATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
AATTAGGTTGACT
Found at i:7310627 original size:24 final size:25
Alignment explanation
Indices: 7310600--7310661 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
7310590 ACATTTTCCA
7310600 TCAATTCATCCTTTGCA-TATATCG
1 TCAATTCATCCTTTGCATTATATCG
* *
7310624 TCAATTCAACCTTTGCATTTTATCG
1 TCAATTCATCCTTTGCATTATATCG
*
7310649 TTAATTCATCCTT
1 TCAATTCATCCTT
7310662 GCCACAGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 16 0.48
25 17 0.52
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (25 bp):
TCAATTCATCCTTTGCATTATATCG
Found at i:7317654 original size:20 final size:21
Alignment explanation
Indices: 7317610--7317652 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7317600 ATAGGAGCTG
*
7317610 AACAAAAACCCATAAGGGTTA
1 AACAAAAACCCATAAGAGTTA
* *
7317631 AACAAAAACTCATATGAGTTA
1 AACAAAAACCCATAAGAGTTA
7317652 A
1 A
7317653 CAGAAGCTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (21 bp):
AACAAAAACCCATAAGAGTTA
Found at i:7317834 original size:18 final size:18
Alignment explanation
Indices: 7317811--7317846 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7317801 TAATTTAATT
*
7317811 TCTTATTTTTAACAATAA
1 TCTTATTTTCAACAATAA
7317829 TCTTATTTTCAACAATAA
1 TCTTATTTTCAACAATAA
7317847 ATATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (18 bp):
TCTTATTTTCAACAATAA
Found at i:7321864 original size:23 final size:23
Alignment explanation
Indices: 7321834--7321882 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
7321824 NNNNNNNNNN
7321834 GTGGTAGCTTCGGCTACATAACA
1 GTGGTAGCTTCGGCTACATAACA
*
7321857 GTGGTAGCTTCGGCTACATATCA
1 GTGGTAGCTTCGGCTACATAACA
7321880 GTG
1 GTG
7321883 TGGCACTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (23 bp):
GTGGTAGCTTCGGCTACATAACA
Found at i:7323812 original size:28 final size:28
Alignment explanation
Indices: 7323775--7323837 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
7323765 AGGGCTGATG
7323775 AATTTTTTGAA-GCAAAT-AGAGTT-ATTGA
1 AATTTTTTGAACG-AAATAAG-GTTCA-TGA
7323803 AATTTTTTGAACGAAATAAGGTTCATGA
1 AATTTTTTGAACGAAATAAGGTTCATGA
7323831 AATTTTT
1 AATTTTT
7323838 AAAGGATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (28 bp):
AATTTTTTGAACGAAATAAGGTTCATGA
Found at i:7324997 original size:363 final size:363
Alignment explanation
Indices: 7324332--7325061 Score: 1307
Period size: 363 Copynumber: 2.0 Consensus size: 363
7324322 AACAGAAAGC
* * *
7324332 AATAAATGAAAATAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTAAAAAACGGTTGGATTC
1 AATAAATGAAAAGAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTAAAAAACGGCTGGATAC
* *
7324397 CATTAATTCTCTCGATTTGTCATTTCAAAATCAAATTCGTTCTGATGATAGTAGTTTCCAAGGAT
66 CATTAATTCTCTCGATTTGTCATTTCAAAATCAAATTCATTCTGACGATAGTAGTTTCCAAGGAT
*
7324462 AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAATGCTCCTTCAGTCTGGATTTCT
131 AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAACGCTCCTTCAGTCTGGATTTCT
*
7324527 TGGCCATCTTCTCTCTGAAGCGAAATTATGAAGCTTCAGCTCTTCTCCCATCAAGTAAAAGGTTT
196 TGGCCATCTTCTCTCTGAAGCGAAACTATGAAGCTTCAGCTCTTCTCCCATCAAGTAAAAGGTTT
* *
7324592 CTCCTTTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTGAGTTCCCTGATCTGTGAATATGC
261 CTCATCTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTGAGTTCCCTGATCTGTGAATATGC
*
7324657 TGAAATATAATCTCTTGAAAACAAGGTTTCTTATTCTG
326 TGAAAGATAATCTCTTGAAAACAAGGTTTCTTATTCTG
* *
7324695 AATAAATGAAAGGAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTCAAAAACGGCTGGATAC
1 AATAAATGAAAAGAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTAAAAAACGGCTGGATAC
*
7324760 CATTAATTCTCTCGATTTGTCATTTCAAAATCCAATTCATTCTGACGATAGTAGTTTCCAAGGAT
66 CATTAATTCTCTCGATTTGTCATTTCAAAATCAAATTCATTCTGACGATAGTAGTTTCCAAGGAT
7324825 AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAACGCTCCTTCAGTCTGGATTTCT
131 AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAACGCTCCTTCAGTCTGGATTTCT
* *
7324890 TGGCCATCTTCTCTCTGAAGCGAAACTATGATGCTTCAGCTCTTCTCCCATCAGGTAAAAGGTTT
196 TGGCCATCTTCTCTCTGAAGCGAAACTATGAAGCTTCAGCTCTTCTCCCATCAAGTAAAAGGTTT
*
7324955 CTCATCTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTGAGTTCCCTGATCTGTGCATATGC
261 CTCATCTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTGAGTTCCCTGATCTGTGAATATGC
*
7325020 TGAAAGATAATCTCTTGAAAACAAGGTTTCTTATTTTG
326 TGAAAGATAATCTCTTGAAAACAAGGTTTCTTATTCTG
7325058 AATA
1 AATA
7325062 TCTCTGATAA
Statistics
Matches: 350, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
363 350 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (363 bp):
AATAAATGAAAAGAAGAAAAGGAACCTAAATATCTACCCCAGTTAATTAAAAAACGGCTGGATAC
CATTAATTCTCTCGATTTGTCATTTCAAAATCAAATTCATTCTGACGATAGTAGTTTCCAAGGAT
AAAACTTTATTTGCTATCTTCTTTTGAAATCATTTCCCTCAAACGCTCCTTCAGTCTGGATTTCT
TGGCCATCTTCTCTCTGAAGCGAAACTATGAAGCTTCAGCTCTTCTCCCATCAAGTAAAAGGTTT
CTCATCTATCAAGAGCGTCTTTTGCTAGTCTATGTGCATGTGAGTTCCCTGATCTGTGAATATGC
TGAAAGATAATCTCTTGAAAACAAGGTTTCTTATTCTG
Found at i:7335805 original size:14 final size:15
Alignment explanation
Indices: 7335776--7335808 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
7335766 TAACTTTTAC
7335776 CATTCATATCATGAAT
1 CATTCATA-CATGAAT
7335792 CATTCATA-ATGAAT
1 CATTCATACATGAAT
7335806 CAT
1 CAT
7335809 ATTGTCCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (15 bp):
CATTCATACATGAAT
Found at i:7340528 original size:23 final size:23
Alignment explanation
Indices: 7340498--7340547 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
7340488 TTGTGCAAGA
7340498 TTGAATGGCTTTATATGTATCAT
1 TTGAATGGCTTTATATGTATCAT
7340521 TTGAATGGCTTTATATGTATCAT
1 TTGAATGGCTTTATATGTATCAT
7340544 TTGA
1 TTGA
7340548 GCCTTTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (23 bp):
TTGAATGGCTTTATATGTATCAT
Found at i:7343749 original size:19 final size:19
Alignment explanation
Indices: 7343725--7343774 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
7343715 CGAGTTTGGA
*
7343725 CGAACGGATCGCCTAAGGC
1 CGAACGGTTCGCCTAAGGC
7343744 CGAACGGTTCGCCTAAGGC
1 CGAACGGTTCGCCTAAGGC
*
7343763 AGAACGGTTCGC
1 CGAACGGTTCGC
7343775 GAGAGAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.24, C:0.30, G:0.32, T:0.14
Consensus pattern (19 bp):
CGAACGGTTCGCCTAAGGC
Found at i:7348565 original size:84 final size:84
Alignment explanation
Indices: 7348475--7348642 Score: 264
Period size: 84 Copynumber: 2.0 Consensus size: 84
7348465 CCACTACCAG
* **
7348475 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCATCATTGTCCTTCACATCACCTTCT
1 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
7348540 CTTCTATTCACCACCTCTT
66 CTTCTATTCACCACCTCTT
* * *
7348559 TAGTTCCACCATTTAGATTCTGTCTACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
1 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
* *
7348624 TTTTTATTCACCACCTCTT
66 CTTCTATTCACCACCTCTT
7348643 CATTAACCTC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 76 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.38
Consensus pattern (84 bp):
TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
CTTCTATTCACCACCTCTT
Found at i:7349252 original size:228 final size:219
Alignment explanation
Indices: 7348864--7349298 Score: 683
Period size: 228 Copynumber: 1.9 Consensus size: 219
7348854 CTCTCCACCA
* * *
7348864 CCACCACCAACACTCTTAGACTGTTCGCTGCCTGAATCCCGTGACCATGTTGGTGACCTTGACTT
1 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACTT
* * *
7348929 AGACTTCGACTTGGAGCTTCTCCTCTTCAAATCCTCCTCCCTTGATTCCCCAACAACCCTGCCTG
66 AGACTTCGACTTGGAGCTTCTCCTCCTCAAATCCCCCTCCCTTGATTCCCCAACAACCCTCCCTG
*
7348994 CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCTTCAGTTGCACCTTA
131 CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAGTTGCACCTTA
7349059 CTACTACCTCTAGTCTCATCCATT
196 CTACTACCTCTAGTCTCATCCATT
7349083 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACAT
1 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGAC--
*
7349148 TGACGTAGACATT-GCCTTGGAGCTTCTCCTCCTCAAATCTTCCCTCTCCCTTGATTCCCCAACA
64 T----TAGAC-TTCGACTTGGAGCTTCTCCTCCTCAAATC--CCC-CTCCCTTGATTCCCCAACA
*
7349212 ACCCTCCCTGCCCCCAAAGAATCCCTTGACCTTGTAGGTGAGCTCACATCCCTAACATCCCTCAG
121 ACCCTCCCTGCCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAG
*
7349277 TTGCACCTTACTACTCCCTCTA
186 TTGCACCTTACTACTACCTCTA
7349299 ACGTCATCAA
Statistics
Matches: 196, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
219 60 0.31
221 1 0.01
225 29 0.15
226 2 0.01
227 2 0.01
228 102 0.52
ACGTcount: A:0.21, C:0.38, G:0.14, T:0.27
Consensus pattern (219 bp):
CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACTT
AGACTTCGACTTGGAGCTTCTCCTCCTCAAATCCCCCTCCCTTGATTCCCCAACAACCCTCCCTG
CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAGTTGCACCTTA
CTACTACCTCTAGTCTCATCCATT
Found at i:7357512 original size:19 final size:19
Alignment explanation
Indices: 7357483--7357529 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
7357473 TATTTCATAC
7357483 TATGC-ACAAACAAGTAAA
1 TATGCAACAAACAAGTAAA
*
7357501 TATGCAACAAACAAGTCAA
1 TATGCAACAAACAAGTAAA
*
7357520 TATCCAACAA
1 TATGCAACAA
7357530 TTACAAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.17
Consensus pattern (19 bp):
TATGCAACAAACAAGTAAA
Found at i:7359709 original size:13 final size:13
Alignment explanation
Indices: 7359691--7359736 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
7359681 CATTTAATGG
*
7359691 AATCAGTTGGTCA
1 AATCAGTTAGTCA
* *
7359704 AATCAGTTAATAA
1 AATCAGTTAGTCA
*
7359717 AATCAGTTCGTCA
1 AATCAGTTAGTCA
7359730 AATCAGT
1 AATCAGT
7359737 CACTGCATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATCAGTTAGTCA
Found at i:7362660 original size:40 final size:40
Alignment explanation
Indices: 7362616--7362713 Score: 145
Period size: 34 Copynumber: 2.6 Consensus size: 40
7362606 TGTTTTGACA
*
7362616 AATAACAGATATAAACGAATATGAATTAAATAACACTTTC
1 AATAATAGATATAAACGAATATGAATTAAATAACACTTTC
7362656 AATAATAGATAT-----AA-ATGAATTAAATAACACTTTC
1 AATAATAGATATAAACGAATATGAATTAAATAACACTTTC
7362690 AATAATAGATATAAACGAATATGA
1 AATAATAGATATAAACGAATATGA
7362714 GTTATGAAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
34 32 0.63
35 2 0.04
39 2 0.04
40 15 0.29
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (40 bp):
AATAATAGATATAAACGAATATGAATTAAATAACACTTTC
Found at i:7366629 original size:18 final size:18
Alignment explanation
Indices: 7366595--7366650 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 18
7366585 CTCTTCAAAG
*
7366595 AATAATAA-AACATAAATA
1 AATAATAATAA-AAAAATA
7366613 AATAATAATAAAAAAATTA
1 AATAATAATAAAAAAA-TA
* *
7366632 ACAAAATTATAAAAAAATA
1 A-ATAATAATAAAAAAATA
7366651 TAAAGTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 12 0.38
19 7 0.22
20 13 0.41
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAATAATAAAAAAATA
Found at i:7366782 original size:30 final size:31
Alignment explanation
Indices: 7366733--7366797 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
7366723 ATCTATGAAT
* *
7366733 TATAAAATATATGAAAAAATATGTATGTACA
1 TATAAAATATATGAAAAAATAAGTAAGTACA
* *
7366764 TATAAAGTATAT-AAAAAATAAGTAAGTATA
1 TATAAAATATATGAAAAAATAAGTAAGTACA
7366794 TATA
1 TATA
7366798 TATCAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (31 bp):
TATAAAATATATGAAAAAATAAGTAAGTACA
Found at i:7370387 original size:50 final size:50
Alignment explanation
Indices: 7370197--7370386 Score: 272
Period size: 50 Copynumber: 3.8 Consensus size: 50
7370187 TCCTGTACTA
* * * ** *
7370197 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * **
7370247 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
7370297 CCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
7370347 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7370387 TNNNNNNNNN
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 125 1.00
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:7372652 original size:22 final size:20
Alignment explanation
Indices: 7372604--7372710 Score: 80
Period size: 21 Copynumber: 5.5 Consensus size: 20
7372594 GTACATTATT
7372604 ATATTTTTTTGTATTCCCTC
1 ATATTTTTTTGTATTCCCTC
* *
7372624 GTATTTTTATGATACTT-CCTC
1 ATATTTTTTTG-TA-TTCCCTC
7372645 ATATTTTTTTAGTATTCCCTC
1 ATATTTTTTT-GTATTCCCTC
* * * *
7372666 ATAATATTTGGTAAT--CTC
1 ATATTTTTTTGTATTCCCTC
*
7372684 -TA-TTTTTTGTATTCACTC
1 ATATTTTTTTGTATTCCCTC
*
7372702 ATAATTTTT
1 ATATTTTTT
7372711 GGCACTCTCT
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
16 8 0.12
17 2 0.03
18 6 0.09
19 2 0.03
20 20 0.29
21 27 0.40
22 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (20 bp):
ATATTTTTTTGTATTCCCTC
Found at i:7372696 original size:36 final size:37
Alignment explanation
Indices: 7372649--7372721 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
7372639 TTCCTCATAT
* *
7372649 TTTTTTAGTATTCCCTCATAATATTTGGTAATCTCTA
1 TTTTTTAGTATTCACTCATAATATTTGGCAATCTCTA
* *
7372686 TTTTTT-GTATTCACTCATAATTTTTGGCACTCTCTA
1 TTTTTTAGTATTCACTCATAATATTTGGCAATCTCTA
7372722 ATATATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 26 0.81
37 6 0.19
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.52
Consensus pattern (37 bp):
TTTTTTAGTATTCACTCATAATATTTGGCAATCTCTA
Found at i:7379818 original size:24 final size:24
Alignment explanation
Indices: 7379787--7379838 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
7379777 CTCCAAATCA
*
7379787 TTTTCCCCAAATCCCTAACTTAGT
1 TTTTCCCCAAATCCCTAACTTAAT
*
7379811 TTTTCCCCAATTCCCTAACTTAAT
1 TTTTCCCCAAATCCCTAACTTAAT
7379835 TTTT
1 TTTT
7379839 TCTTTCCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTTCCCCAAATCCCTAACTTAAT
Found at i:7380799 original size:14 final size:14
Alignment explanation
Indices: 7380780--7380807 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7380770 TAGTAATTTA
7380780 AATTAGTTATGCTT
1 AATTAGTTATGCTT
7380794 AATTAGTTATGCTT
1 AATTAGTTATGCTT
7380808 GATGGTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
AATTAGTTATGCTT
Found at i:7381827 original size:17 final size:17
Alignment explanation
Indices: 7381805--7381838 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7381795 TGAAACAGTG
7381805 ATTGGATCCTTATAAAA
1 ATTGGATCCTTATAAAA
7381822 ATTGGATCCTTATAAAA
1 ATTGGATCCTTATAAAA
7381839 GAAGTATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
ATTGGATCCTTATAAAA
Found at i:7383861 original size:21 final size:21
Alignment explanation
Indices: 7383825--7383872 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7383815 ACTTAAAGCG
**
7383825 GAGGCAGCAGTGAGGGAAACA
1 GAGGCAGCAGAAAGGGAAACA
* *
7383846 GAGGCAGCAGAAAGGGTAGCA
1 GAGGCAGCAGAAAGGGAAACA
7383867 GAGGCA
1 GAGGCA
7383873 ATAAGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.44, T:0.04
Consensus pattern (21 bp):
GAGGCAGCAGAAAGGGAAACA
Found at i:7384481 original size:35 final size:35
Alignment explanation
Indices: 7384441--7384605 Score: 110
Period size: 30 Copynumber: 5.2 Consensus size: 35
7384431 TTAAATTTAA
7384441 TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
1 TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
*** * * *
7384476 TTTAAT-AAGAT-TT-AATATTAA-A-TTTA--A-
1 TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
7384503 TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
1 TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
*** * * *
7384538 TTTAAT-AAGAT-TT-AATATTAA-A-TTTA--A-
1 TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
7384565 TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
1 TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
7384600 TTTAAT
1 TTTAAT
7384606 AAGATTTAAT
Statistics
Matches: 90, Mismatches: 24, Indels: 32
0.62 0.16 0.22
Matches are distributed among these distances:
27 12 0.13
28 6 0.07
29 4 0.04
30 18 0.20
31 4 0.04
32 18 0.20
33 4 0.04
34 6 0.07
35 18 0.20
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.55
Consensus pattern (35 bp):
TTTAATGTTTATCTTGTAGATAAATATTTTATTAT
Found at i:7384498 original size:62 final size:62
Alignment explanation
Indices: 7384370--7384639 Score: 497
Period size: 62 Copynumber: 4.4 Consensus size: 62
7384360 TTTGCAGCGC
* * *
7384370 TTAAATTAAATTTAATGTTTATCTTGTAAATAAACA-TTTATTATTTTAATAAGATTTAATA
1 TTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTAATA
7384431 TTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTAATA
1 TTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTAATA
7384493 TTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTAATA
1 TTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTAATA
7384555 TTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTAATA
1 TTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTAATA
*
7384617 TTAAATTTAATTTAATATTTATC
1 TTAAATTTAATTTAATGTTTATC
7384640 AAGATAAATA
Statistics
Matches: 204, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
61 33 0.16
62 171 0.84
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (62 bp):
TTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTAATA
Found at i:7387376 original size:25 final size:25
Alignment explanation
Indices: 7387329--7387377 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7387319 TTCCTAGCCA
* **
7387329 TATAATGGGAAGCTCATGTGAGCTG
1 TATAAAGGGAAGCTCATACGAGCTG
*
7387354 TATAAAGGGAAGCTCTTACGAGCT
1 TATAAAGGGAAGCTCATACGAGCT
7387378 AAATATCGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (25 bp):
TATAAAGGGAAGCTCATACGAGCTG
Found at i:7387815 original size:21 final size:22
Alignment explanation
Indices: 7387791--7387835 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
7387781 TGAATTTAAA
*
7387791 TCAATTTAATACAAT-TCATAT
1 TCAATTCAATACAATATCATAT
*
7387812 TCAATTCAATCCAATACTCATAT
1 TCAATTCAATACAATA-TCATAT
7387835 T
1 T
7387836 TGGAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (22 bp):
TCAATTCAATACAATATCATAT
Found at i:7405897 original size:18 final size:18
Alignment explanation
Indices: 7405876--7405913 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7405866 GAAGACACTG
7405876 AAAAATGACAGCAATTCC
1 AAAAATGACAGCAATTCC
*
7405894 AAAAATGACGGCAATTCC
1 AAAAATGACAGCAATTCC
7405912 AA
1 AA
7405914 CTCGAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.13, T:0.16
Consensus pattern (18 bp):
AAAAATGACAGCAATTCC
Found at i:7408328 original size:75 final size:72
Alignment explanation
Indices: 7408205--7408350 Score: 220
Period size: 75 Copynumber: 2.0 Consensus size: 72
7408195 CAAGTCGCCT
* *
7408205 CTTGAAGCCCTTTTGTCTGACATGCAAGTAACAGGTACTGCTGCTTCCTGCTCTAAGAAAAGTGA
1 CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATACTGCTGCTTCCTGCTCT---AAAAGTGA
*
7408270 TGATGGTTCC
63 TGATAGTTCC
* *
7408280 CTTGAAGCCCTTTTGTCAGACATGCAAGTCACAGATACTGCTTCTTCCTGCTCTAAAAGTGATGA
1 CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATACTGCTGCTTCCTGCTCTAAAAGTGATGA
7408345 TAGTTC
66 TAGTTC
7408351 TCAACCTGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
72 16 0.24
75 50 0.76
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (72 bp):
CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATACTGCTGCTTCCTGCTCTAAAAGTGATGA
TAGTTCC
Found at i:7421719 original size:6 final size:6
Alignment explanation
Indices: 7421708--7421761 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
7421698 TCTGTCAAAT
7421708 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC
7421756 TCCTTC
1 TCCTTC
7421762 CGTTTTTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTTC
Found at i:7427363 original size:22 final size:23
Alignment explanation
Indices: 7427313--7427371 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
7427303 TATATTTCGA
* *
7427313 TATTT-TATTATAAATATTTAAT
1 TATTTATATAATAAATATTAAAT
*
7427335 TAATTATATAATAAAT-TTAAAT
1 TATTTATATAATAAATATTAAAT
7427357 TATTTAT-TAGATAAA
1 TATTTATATA-ATAAA
7427372 ATGATAATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 20 0.65
23 9 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTATATAATAAATATTAAAT
Found at i:7427406 original size:16 final size:18
Alignment explanation
Indices: 7427385--7427418 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7427375 ATAATCATTT
7427385 TTAATT-TT-TTTTATAA
1 TTAATTGTTCTTTTATAA
7427401 TTAATTGTTCTTTTATAA
1 TTAATTGTTCTTTTATAA
7427419 CAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TTAATTGTTCTTTTATAA
Found at i:7434565 original size:29 final size:29
Alignment explanation
Indices: 7434532--7434589 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
7434522 TCCAACAGTT
7434532 ACTTCCCAACGGCTAATTCACACCCCCAA
1 ACTTCCCAACGGCTAATTCACACCCCCAA
*
7434561 ACTTCCTAACGGCTAATTCACACCCCCAA
1 ACTTCCCAACGGCTAATTCACACCCCCAA
7434590 CACTAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.43, G:0.07, T:0.19
Consensus pattern (29 bp):
ACTTCCCAACGGCTAATTCACACCCCCAA
Found at i:7436858 original size:38 final size:38
Alignment explanation
Indices: 7436807--7436884 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
7436797 CTCAAAATAT
7436807 TATAATCATAATAATTAGGGCCTACGAGACCCGATACA
1 TATAATCATAATAATTAGGGCCTACGAGACCCGATACA
7436845 TATAATCATAATAATTAGGGCCTACGAGACCCGATACA
1 TATAATCATAATAATTAGGGCCTACGAGACCCGATACA
7436883 TA
1 TA
7436885 CTCATGCAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (38 bp):
TATAATCATAATAATTAGGGCCTACGAGACCCGATACA
Found at i:7444790 original size:21 final size:21
Alignment explanation
Indices: 7444766--7444805 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7444756 CAAACTAACG
*
7444766 TGGTTTTGCCTATTAACTTAA
1 TGGTTTTGACTATTAACTTAA
*
7444787 TGGTTTTGACTTTTAACTT
1 TGGTTTTGACTATTAACTT
7444806 TAGAAAAAGT
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:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (21 bp):
TGGTTTTGACTATTAACTTAA
Found at i:7447854 original size:13 final size:13
Alignment explanation
Indices: 7447836--7447860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7447826 GAAGCATCAG
7447836 ATTTTGATAACAT
1 ATTTTGATAACAT
7447849 ATTTTGATAACA
1 ATTTTGATAACA
7447861 CAAAACCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTGATAACAT
Found at i:7450610 original size:14 final size:14
Alignment explanation
Indices: 7450593--7450628 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
7450583 GTTAAAAATA
7450593 TATTATTAAATTAG
1 TATTATTAAATTAG
*
7450607 TATTATTAAATTAT
1 TATTATTAAATTAG
7450621 TATTATTA
1 TATTATTA
7450629 TATTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TATTATTAAATTAG
Found at i:7450621 original size:11 final size:12
Alignment explanation
Indices: 7450588--7450639 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 12
7450578 TATGTGTTAA
7450588 AAATATATTATT
1 AAATATATTATT
7450600 AAATTAGTATTATT
1 AAA-TA-TATTATT
7450614 AAAT-TATTATT
1 AAATATATTATT
*
7450625 -ATTATATT-TT
1 AAATATATTATT
7450635 AAATA
1 AAATA
7450640 AATAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 4 0.12
11 14 0.41
12 3 0.09
13 3 0.09
14 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
AAATATATTATT
Found at i:7451696 original size:23 final size:22
Alignment explanation
Indices: 7451670--7451757 Score: 117
Period size: 23 Copynumber: 4.0 Consensus size: 22
7451660 GCCTTGCCGA
7451670 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
7451692 CTCAGGCACTTTATGTGTCGTAT
1 -TCAGGCACTTTATGTGTCGTAT
* **
7451715 ATCAGGCACCTCGTGTGTCGT-T
1 -TCAGGCACTTTATGTGTCGTAT
7451737 TCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
7451758 ACTGATCAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.16
21 9 0.16
22 1 0.02
23 39 0.67
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:7456368 original size:129 final size:130
Alignment explanation
Indices: 7456095--7456354 Score: 513
Period size: 129 Copynumber: 2.0 Consensus size: 130
7456085 TTTTACCAAA
7456095 TAAAAAGAAACAAATGAAATTAAAGAAATTATAGACATTTCTTCATCATTTTCAGCACTAAAAAT
1 TAAAAAGAAACAAATGAAATTAAAGAAATTATAGACATTTCTTCATCATTTTCAGCACTAAAAAT
7456160 AGACATTGAAGAGGGTTTAAGCTAGTTTTGTAATGGCCCAAATTTGAGGTTATCGGAACAGTGGT
66 AGACATTGAAGAGGGTTTAAGCTAGTTTTGTAATGGCCCAAATTTGAGGTTATCGGAACAGTGGT
7456225 TAAAAAGAAACAAAT-AAATTAAAGAAATTATAGACATTTCTTCATCATTTTCAGCACTAAAAAT
1 TAAAAAGAAACAAATGAAATTAAAGAAATTATAGACATTTCTTCATCATTTTCAGCACTAAAAAT
7456289 AGACATTGAAGAGGGTTTAAGCTAGTTTTGTAATGGCCCAAATTTGAGGTTATCGGAACAGTGGT
66 AGACATTGAAGAGGGTTTAAGCTAGTTTTGTAATGGCCCAAATTTGAGGTTATCGGAACAGTGGT
7456354 T
1 T
7456355 TCGGGACCAC
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 115 0.88
130 15 0.12
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (130 bp):
TAAAAAGAAACAAATGAAATTAAAGAAATTATAGACATTTCTTCATCATTTTCAGCACTAAAAAT
AGACATTGAAGAGGGTTTAAGCTAGTTTTGTAATGGCCCAAATTTGAGGTTATCGGAACAGTGGT
Found at i:7459869 original size:24 final size:23
Alignment explanation
Indices: 7459824--7459901 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 23
7459814 ACACACCTTA
* *
7459824 GCTCTTATGAGCTTTTCGATTATG
1 GCTCTTATGAGC-TTCCCATTATG
7459848 GCTCTTCATGAGCTTCCCATTAATTG
1 GCTCTT-ATGAGCTTCCCATT-A-TG
*
7459874 GCTCTTTGTGAGCTTCCCGA-TATG
1 GCTC-TTATGAGCTTCCC-ATTATG
7459898 GCTC
1 GCTC
7459902 GCTTGAACTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 18 0.39
25 8 0.17
26 17 0.37
27 3 0.07
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (23 bp):
GCTCTTATGAGCTTCCCATTATG
Found at i:7463692 original size:131 final size:131
Alignment explanation
Indices: 7463470--7463805 Score: 496
Period size: 131 Copynumber: 2.6 Consensus size: 131
7463460 ATCTTTTCGG
* *
7463470 TATTCC-CTTGCTGGTCAAGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAA
1 TATTCCAC-TGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAA
* * * * *
7463534 GATGAGATTCGCCGTTTTCGATCTGCTCCGCTACTGATTAGGGAGGTAAGATCTGCAATCTCCAA
65 GATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGATTAGGGAGGCAAAATCTGCAATCTCCAA
7463599 CC
130 CC
* * * * * *
7463601 TATTCCACTGCTGGTCAGGGACATAAGACGTGTGGCTTAAACCTATTTCCTTACTCTTGGGGAAG
1 TATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAG
* *
7463666 ATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGTTTAGGGAGGCAAAATCTGCAATTTCCAAC
66 ATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGATTAGGGAGGCAAAATCTGCAATCTCCAAC
7463731 C
131 C
*
7463732 TATTCCACTGCTGTTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGG-AG
1 TATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAG
7463796 AATAAGATTC
66 -ATAAGATTC
7463806 GTCGCTTAGA
Statistics
Matches: 181, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
130 2 0.01
131 178 0.98
132 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (131 bp):
TATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAG
ATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGATTAGGGAGGCAAAATCTGCAATCTCCAAC
C
Found at i:7463830 original size:43 final size:43
Alignment explanation
Indices: 7463766--7464018 Score: 364
Period size: 43 Copynumber: 5.9 Consensus size: 43
7463756 AGGACTTGTG
* *
7463766 GCTTAAATCTGTTTCCCTACTCCTGGGG-AGAATAAGATTCGTC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAG-ATAAGATTCGCC
* * * *
7463809 GCTTAGATTTGTTTCCTTACTCCTGGGGAAAATAAGATTCTCC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC
* * * *
7463852 ACTTAGATCTATTTCCCTAGTTCTGGGGAAGATAAGATTCGCC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC
7463895 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC
* * *
7463938 GCTTAGATCTGTTTCCCTACTCATTGGGAAGATAAGATTCACC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC
*
7463981 GCTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGAT
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
7464019 CCGCAATATT
Statistics
Matches: 186, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 185 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (43 bp):
GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC
Found at i:7485321 original size:17 final size:17
Alignment explanation
Indices: 7485299--7485335 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
7485289 TAAGCCACAT
7485299 ATTGATGATAACAGAAA
1 ATTGATGATAACAGAAA
*
7485316 ATTGATGATAACATAAA
1 ATTGATGATAACAGAAA
7485333 ATT
1 ATT
7485336 AAGCCACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (17 bp):
ATTGATGATAACAGAAA
Found at i:7492423 original size:26 final size:27
Alignment explanation
Indices: 7492401--7492451 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
7492391 ATATAATGTT
7492401 ATTG-ATGATTTG-CGATTTTTAATTAG
1 ATTGAATGATTTGTC-ATTTTTAATTAG
7492427 ATTGAATGATTTGTCATTTTTAATT
1 ATTGAATGATTTGTCATTTTTAATT
7492452 GCAAGCAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 4 0.17
27 18 0.78
28 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (27 bp):
ATTGAATGATTTGTCATTTTTAATTAG
Found at i:7495558 original size:2 final size:2
Alignment explanation
Indices: 7495551--7495599 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
7495541 ACATATCGGG
7495551 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7495593 GA GA GA G
1 GA GA GA G
7495600 TTATATATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7500979 original size:9 final size:9
Alignment explanation
Indices: 7500962--7500998 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
7500952 TATAGTTTGA
*
7500962 TATTTGAAT
1 TATTCGAAT
7500971 TATTCGAAT
1 TATTCGAAT
*
7500980 TATTCGAGT
1 TATTCGAAT
7500989 TATTCGAAT
1 TATTCGAAT
7500998 T
1 T
7500999 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7501061 original size:27 final size:26
Alignment explanation
Indices: 7501025--7501077 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
7501015 TTCGAACTCG
7501025 AAATTCGAAAAAAAAATTCGAGTTGAT
1 AAATTCGAAAAAAAAA-TCGAGTTGAT
*
7501052 AAATTTGAAAAAAAAATCGAGTTGAT
1 AAATTCGAAAAAAAAATCGAGTTGAT
7501078 TCGAATAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (26 bp):
AAATTCGAAAAAAAAATCGAGTTGAT
Found at i:7501969 original size:15 final size:16
Alignment explanation
Indices: 7501932--7501970 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
7501922 TTTAAATACA
*
7501932 AGTTGTTCTAAATAAT
1 AGTTATTCTAAATAAT
*
7501948 GGTTATTCTAAAT-AT
1 AGTTATTCTAAATAAT
7501963 AGTTATTC
1 AGTTATTC
7501971 CTGAAACGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (16 bp):
AGTTATTCTAAATAAT
Found at i:7502693 original size:23 final size:23
Alignment explanation
Indices: 7502655--7502703 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7502645 CGTCGCGATG
** **
7502655 TGAGAGAGTTTTTCATCGTGACA
1 TGAGAGAGTTCCTCATCACGACA
7502678 TGAGAGAGTTCCTCATCACGACA
1 TGAGAGAGTTCCTCATCACGACA
7502701 TGA
1 TGA
7502704 CACACTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (23 bp):
TGAGAGAGTTCCTCATCACGACA
Found at i:7504879 original size:20 final size:20
Alignment explanation
Indices: 7504854--7504901 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
7504844 TATCGATCTA
*
7504854 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
7504874 GTATCGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
7504894 GTATCGAT
1 GTATCGAT
7504902 TTTCCTTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:7504907 original size:17 final size:18
Alignment explanation
Indices: 7504854--7504907 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
7504844 TATCGATCTA
*
7504854 GTATCGATACTTTTCTTAAG
1 GTATCGA-A-TTTTCCTAAG
7504874 GTATCGATATATTTCCTAAG
1 GTATCGA-AT-TTTCCTAAG
7504894 GTATCG-ATTTTCCT
1 GTATCGAATTTTCCT
7504908 TCTCCAACGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 6 0.19
18 2 0.06
19 1 0.03
20 23 0.72
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (18 bp):
GTATCGAATTTTCCTAAG
Found at i:7516465 original size:18 final size:18
Alignment explanation
Indices: 7516442--7516481 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7516432 CAAATCTTCA
* *
7516442 GTATTTCTCTGTCTTTTC
1 GTATTTCTCTCTATTTTC
*
7516460 GTATTTCTTTCTATTTTC
1 GTATTTCTCTCTATTTTC
7516478 GTAT
1 GTAT
7516482 ATTTTTTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.10, T:0.62
Consensus pattern (18 bp):
GTATTTCTCTCTATTTTC
Found at i:7517860 original size:274 final size:275
Alignment explanation
Indices: 7517360--7517914 Score: 1094
Period size: 274 Copynumber: 2.0 Consensus size: 275
7517350 AAATTTAATA
7517360 TCAAATAAATAAATAAAATATAAAAAATAATTTAAGGAAACATTTTTAAAAAAAAAATAGTGTAA
1 TCAAATAAATAAATAAAATATAAAAAATAATTTAAGGAAACATTTTTAAAAAAAAAATAGTGTAA
7517425 AGAAAAATGAAAGATCAATAAATTAACGTTAATTTCTGCAAACGTGACACAACTAGTCAATCTGG
66 AGAAAAATGAAAGATCAATAAATTAACGTTAATTTCTGCAAACGTGACACAACTAGTCAATCTGG
7517490 TGGTGTCATGTGGCAACCTCTCAAAATACCATGTGACAAACATAAATTAAAAAATATATACTAAA
131 TGGTGTCATGTGGCAACCTCTCAAAATACCATGTGACAAACATAAATTAAAAAATATATACTAAA
7517555 AATTATATTTATGTTTTCCATGTGGCATTCTAAGAGGCTGCCACATGGCACCATCGGATTGACTA
196 AATTATATTTATGTTTTCCATGTGGCATTCTAAGAGGCTGCCACATGGCACCATCGGATTGACTA
7517620 ATAGTACCACATTAG
261 ATAGTACCACATTAG
7517635 TCAAATAAAT-AATAAAATATAAAAAATAATTTAAGGAAACATTTTTAAAAAAAAAATAGTGTAA
1 TCAAATAAATAAATAAAATATAAAAAATAATTTAAGGAAACATTTTTAAAAAAAAAATAGTGTAA
7517699 AGAAAAATGAAAGATCAATAAATTAACGTTAATTTCTGCAAACGTGACACAACTAGTCAATCTGG
66 AGAAAAATGAAAGATCAATAAATTAACGTTAATTTCTGCAAACGTGACACAACTAGTCAATCTGG
7517764 TGGTGTCATGTGGCAACCTCTCAAAATACCATGTGACAAACATAAATTAAAAAATATATACTAAA
131 TGGTGTCATGTGGCAACCTCTCAAAATACCATGTGACAAACATAAATTAAAAAATATATACTAAA
7517829 AATTATATTTATGTTTTCCATGTGGCATTCTAAGAGGCTGCCACATGGCACCATCGGATTGACTA
196 AATTATATTTATGTTTTCCATGTGGCATTCTAAGAGGCTGCCACATGGCACCATCGGATTGACTA
7517894 ATAGTACCACATTAG
261 ATAGTACCACATTAG
7517909 TACAAA
1 T-CAAA
7517915 CTAACGATAT
Statistics
Matches: 279, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
274 265 0.95
275 14 0.05
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (275 bp):
TCAAATAAATAAATAAAATATAAAAAATAATTTAAGGAAACATTTTTAAAAAAAAAATAGTGTAA
AGAAAAATGAAAGATCAATAAATTAACGTTAATTTCTGCAAACGTGACACAACTAGTCAATCTGG
TGGTGTCATGTGGCAACCTCTCAAAATACCATGTGACAAACATAAATTAAAAAATATATACTAAA
AATTATATTTATGTTTTCCATGTGGCATTCTAAGAGGCTGCCACATGGCACCATCGGATTGACTA
ATAGTACCACATTAG
Found at i:7524009 original size:24 final size:24
Alignment explanation
Indices: 7523953--7524019 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
7523943 AAAAATATAG
* *
7523953 AAAATTATAAAATTTATTATAATGAA
1 AAAAATATAAAA--TATTAAAATGAA
7523979 AAAAATATAAAATATTAAAAT-AA
1 AAAAATATAAAATATTAAAATGAA
*
7524002 AAATAATATTAAAGTATT
1 AAA-AATA-TAAAATATT
7524020 TAGATAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.14
24 12 0.33
25 8 0.22
26 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (24 bp):
AAAAATATAAAATATTAAAATGAA
Found at i:7524048 original size:16 final size:17
Alignment explanation
Indices: 7524023--7524055 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7524013 AAGTATTTAG
*
7524023 ATAATTATTA-AAAATA
1 ATAATAATTATAAAATA
7524039 ATAATAATTATAAAATA
1 ATAATAATTATAAAATA
7524056 TTATAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATAATTATAAAATA
Found at i:7524061 original size:16 final size:19
Alignment explanation
Indices: 7523979--7524053 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 19
7523969 TTATAATGAA
7523979 AAAAAT-ATAA-AA-TATT
1 AAAAATAATAATAATTATT
*
7523995 -AAAATAAAAATAA-TATT
1 AAAAATAATAATAATTATT
* *
7524012 -AAAGTATTTAGATAATTATT
1 AAAAATA-ATA-ATAATTATT
7524032 AAAAATAATAATAATTA-T
1 AAAAATAATAATAATTATT
7524050 AAAA
1 AAAA
7524054 TATTATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
15 5 0.11
16 3 0.06
17 11 0.23
18 6 0.13
19 11 0.23
20 6 0.13
21 5 0.11
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAATAATAATAATTATT
Found at i:7524061 original size:19 final size:20
Alignment explanation
Indices: 7523927--7524061 Score: 66
Period size: 19 Copynumber: 7.3 Consensus size: 20
7523917 AACTAAAAGC
*
7523927 ATTATAAAAATTTATTAAAA-
1 ATTATAATAA-TTATTAAAAT
*
7523947 A-TATAGAAAATTA-TAAAAT
1 ATTATA-ATAATTATTAAAAT
* *
7523966 -TTATTATAATGA--AAAA-
1 ATTATAATAATTATTAAAAT
*
7523982 AATATAA-AA-TATTAAAAT
1 ATTATAATAATTATTAAAAT
* *
7524000 A--AAAATAA-TATTAAAGT
1 ATTATAATAATTATTAAAAT
7524017 ATT-TAGATAATTATTAAAA-
1 ATTATA-ATAATTATTAAAAT
*
7524036 ATAATAATAATTA-TAAAAT
1 ATTATAATAATTATTAAAAT
7524055 ATTATAA
1 ATTATAA
7524062 AAAGCATAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 29
0.68 0.09 0.22
Matches are distributed among these distances:
15 1 0.01
16 5 0.06
17 23 0.26
18 17 0.19
19 29 0.33
20 14 0.16
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
ATTATAATAATTATTAAAAT
Found at i:7524092 original size:20 final size:21
Alignment explanation
Indices: 7524067--7524114 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
7524057 TATAAAAAGC
7524067 ATAAAAAATAT-AAAACAAATT
1 ATAAAAAATATGAAAA-AAATT
*
7524088 A-AAAATATATGAAAAAAATT
1 ATAAAAAATATGAAAAAAATT
7524108 ATAAAAA
1 ATAAAAA
7524115 CCTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
ATAAAAAATATGAAAAAAATT
Found at i:7525627 original size:25 final size:25
Alignment explanation
Indices: 7525581--7525628 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7525571 TTAAATTAAA
** * *
7525581 ATAAAATTTTATATAAATTTCATCT
1 ATAAAATTAAATAAAAAATTCATCT
7525606 ATAAAATTAAATAAAAAATTCAT
1 ATAAAATTAAATAAAAAATTCAT
7525629 GTGTACAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAATTAAATAAAAAATTCATCT
Found at i:7529766 original size:41 final size:41
Alignment explanation
Indices: 7529711--7529788 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
7529701 ATTATTTATA
* * *
7529711 CCCTGTATTGCACATATGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGAATTACACATAAGTGCCCCTGTTTGTACTTCGGTAC
*
7529752 CCCTGAATTACACATAAGTGCCCTTGTTTGTACTTCG
1 CCCTGAATTACACATAAGTGCCCCTGTTTGTACTTCG
7529789 ACAACCTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (41 bp):
CCCTGAATTACACATAAGTGCCCCTGTTTGTACTTCGGTAC
Found at i:7529800 original size:41 final size:41
Alignment explanation
Indices: 7529710--7529808 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
7529700 AATTATTTAT
* * * **
7529710 ACCCTGTATTGCACATATGTGCCCCTGTTTGTACTTCGGTA
1 ACCCTGAATTACACATAAGTGCCCCTGTTTGTACTTCGACA
* *
7529751 CCCCTGAATTACACATAAGTGCCCTTGTTTGTACTTCGACA
1 ACCCTGAATTACACATAAGTGCCCCTGTTTGTACTTCGACA
* *
7529792 ACCTTGAATTGCACATA
1 ACCCTGAATTACACATA
7529809 CTTGCCCTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.33
Consensus pattern (41 bp):
ACCCTGAATTACACATAAGTGCCCCTGTTTGTACTTCGACA
Found at i:7529815 original size:41 final size:39
Alignment explanation
Indices: 7529710--7529820 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 39
7529700 AATTATTTAT
* **
7529710 ACCCTGTATTGCACATATGTGCCCCTGTTTGTACTTCGGTA
1 ACCCTGAATTGCACATAT-TG-CCCTGTTTGTACTTCGACA
* * *
7529751 CCCCTGAATTACACATAAGTGCCCTTGTTTGTACTTCGACA
1 ACCCTGAATTGCACAT-ATTGCCC-TGTTTGTACTTCGACA
*
7529792 ACCTTGAATTGCACATACTTGCCCTGTTT
1 ACCCTGAATTGCACATA-TTGCCCTGTTT
7529821 ACACTTCAGT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
40 9 0.16
41 47 0.82
42 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (39 bp):
ACCCTGAATTGCACATATTGCCCTGTTTGTACTTCGACA
Found at i:7531073 original size:10 final size:10
Alignment explanation
Indices: 7531045--7531087 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
7531035 ATAGAAAAAA
7531045 AATTCTTATTT
1 AATT-TTATTT
*
7531056 TA-TTTATTT
1 AATTTTATTT
7531065 AATTTTATTT
1 AATTTTATTT
7531075 AATTTTATGTT
1 AATTTTAT-TT
7531086 AA
1 AA
7531088 AGTAGTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 7 0.25
10 16 0.57
11 5 0.18
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
AATTTTATTT
Found at i:7531386 original size:12 final size:12
Alignment explanation
Indices: 7531369--7531399 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7531359 CAAATCCGAG
7531369 TTTAATTTCCAA
1 TTTAATTTCCAA
*
7531381 TTTAATTTCTAA
1 TTTAATTTCCAA
7531393 TTTAATT
1 TTTAATT
7531400 AATTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTAATTTCCAA
Found at i:7549418 original size:18 final size:18
Alignment explanation
Indices: 7549394--7549437 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
7549384 GTTTAGAAAT
7549394 TATTTTTATCA-T-ATTAA
1 TATTTTTAT-AGTAATTAA
7549411 TAATTTTTATAGTAATTAA
1 T-ATTTTTATAGTAATTAA
7549430 TATTTTTA
1 TATTTTTA
7549438 AAAAGATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 16 0.67
19 6 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTTTTATAGTAATTAA
Found at i:7553867 original size:90 final size:91
Alignment explanation
Indices: 7553705--7553882 Score: 229
Period size: 90 Copynumber: 2.0 Consensus size: 91
7553695 TGTTAAACCT
* * *
7553705 ATGTACCATAATAAAGCACATATTAATAGTTTAAGTACTACATATGATACTTTTAAAGTACAAGT
1 ATGTACCATAATAAAACACATATTAACAGTTTAAGTACTACATATGATACTTTTAAAATACAAGT
7553770 ACCACATT-GACATTTATGAAAGAAC
66 ACCACATTGGACATTTATGAAAGAAC
* * * *
7553795 ATGTACCATAATAAAACACATATTGACAGTTTAGGTACTATAT-TGAATA-TTTTCAAAATA-TA
1 ATGTACCATAATAAAACACATATTAACAGTTTAAGTACTACATATG-ATACTTTT-AAAATACAA
*
7553857 GATACTACATTGGACATTTATGAAAG
64 G-TACCACATTGGACATTTATGAAAG
7553883 TACAAAAACC
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
89 8 0.11
90 54 0.71
91 14 0.18
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (91 bp):
ATGTACCATAATAAAACACATATTAACAGTTTAAGTACTACATATGATACTTTTAAAATACAAGT
ACCACATTGGACATTTATGAAAGAAC
Found at i:7558120 original size:2 final size:2
Alignment explanation
Indices: 7558113--7558139 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7558103 TTATTCAAAG
7558113 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7558140 TGTATTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7559001 original size:43 final size:41
Alignment explanation
Indices: 7558953--7559050 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 41
7558943 ATACATATCT
** *
7558953 TTTACTTTGTATATTAAAGACATCATTTTTTTTATTTCATAAA
1 TTTACTTTGTATATTAAAGACAT-AAATTTTTAATTT-ATAAA
* *
7558996 TTTACTTTATATATTAAAGAGATAAATTTTTAATTTATAAA
1 TTTACTTTGTATATTAAAGACATAAATTTTTAATTTATAAA
* *
7559037 TTAATTTTGTATAT
1 TTTACTTTGTATAT
7559051 AATTAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 16 0.34
42 10 0.21
43 21 0.45
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (41 bp):
TTTACTTTGTATATTAAAGACATAAATTTTTAATTTATAAA
Found at i:7560642 original size:18 final size:18
Alignment explanation
Indices: 7560615--7560650 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7560605 ACCTATTGAA
7560615 TTTATCGATACCAATTTT
1 TTTATCGATACCAATTTT
* *
7560633 TTTATTGATACCACTTTT
1 TTTATCGATACCAATTTT
7560651 GCATACTGTT
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:0.25, C:0.17, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTATCGATACCAATTTT
Found at i:7567648 original size:6 final size:6
Alignment explanation
Indices: 7567639--7567681 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
7567629 GTTAATCCTT
7567639 ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA A
1 ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA A
7567682 ATCACTTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.49, G:0.00, T:0.16
Consensus pattern (6 bp):
ATCCCA
Found at i:7568178 original size:24 final size:22
Alignment explanation
Indices: 7568138--7568193 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
7568128 AATATAAACG
*
7568138 AAATTAAAATAAAAAATA-GTTT
1 AAATTAAAAAAAAAAATATG-TT
7568160 AAATTAAAAAAAAGTAAATATGTT
1 AAATTAAAAAAAA--AAATATGTT
*
7568184 ATATTAAAAA
1 AAATTAAAAA
7568194 TATTAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 12 0.41
24 16 0.55
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
AAATTAAAAAAAAAAATATGTT
Found at i:7575142 original size:23 final size:20
Alignment explanation
Indices: 7575098--7575153 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
7575088 CTTTTTTACA
*
7575098 AGAAAACCAAAAAGAAAAAAG
1 AGAAAACC-GAAAGAAAAAAG
7575119 AATGAAAACCGAAAGAAAAGAAG
1 -A-GAAAACCGAAAGAAAA-AAG
7575142 AGAAAA-CGAAAG
1 AGAAAACCGAAAG
7575154 TGGTAATCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 6 0.19
21 5 0.16
22 10 0.32
23 10 0.32
ACGTcount: A:0.70, C:0.09, G:0.20, T:0.02
Consensus pattern (20 bp):
AGAAAACCGAAAGAAAAAAG
Found at i:7578619 original size:28 final size:26
Alignment explanation
Indices: 7578565--7578619 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
7578555 AAACTCTTCT
*
7578565 AAAAGAAAAATCAAGAGAAATTCTTA
1 AAAAGAAAAATCAAGAGAAATTATTA
*
7578591 AAAAGAAAAACTCAAAGAGAACTTATTA
1 AAAAGAAAAA-TC-AAGAGAAATTATTA
7578619 A
1 A
7578620 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.40
27 2 0.08
28 13 0.52
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (26 bp):
AAAAGAAAAATCAAGAGAAATTATTA
Found at i:7579482 original size:26 final size:27
Alignment explanation
Indices: 7579434--7579488 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
7579424 CTTAATATTT
* *
7579434 AAGTAAATATATATAATATAATAA-TA
1 AAGTAAATATATATAAAAAAATAAGTA
7579460 AAGTAAATATA-ATAAAACAAATAAGTA
1 AAGTAAATATATATAAAA-AAATAAGTA
7579487 AA
1 AA
7579489 TGAAACAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAGTAAATATATATAAAAAAATAAGTA
Found at i:7579540 original size:13 final size:14
Alignment explanation
Indices: 7579524--7579554 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7579514 ATAAAAATTG
7579524 AGAAAG-AAAAGAA
1 AGAAAGAAAAAGAA
7579537 AGAAAGAAAAAGAA
1 AGAAAGAAAAAGAA
7579551 AGAA
1 AGAA
7579555 GGACTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAA
Found at i:7579870 original size:13 final size:14
Alignment explanation
Indices: 7579854--7579884 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7579844 ATAAAAATTG
7579854 AGAAAG-AAAAGAA
1 AGAAAGAAAAAGAA
7579867 AGAAAGAAAAAGAA
1 AGAAAGAAAAAGAA
7579881 AGAA
1 AGAA
7579885 GGACTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAA
Found at i:7580090 original size:330 final size:330
Alignment explanation
Indices: 7579489--7580153 Score: 1330
Period size: 330 Copynumber: 2.0 Consensus size: 330
7579479 AATAAGTAAA
7579489 TGAAACAAAGAAAGACAAAAGCAAAATAAAAATTGAGAAAGAAAAGAAAGAAAGAAAAAGAAAGA
1 TGAAACAAAGAAAGACAAAAGCAAAATAAAAATTGAGAAAGAAAAGAAAGAAAGAAAAAGAAAGA
7579554 AGGACTACTGGTGTTTCCAAGTTTATTTGGTTAGTCAATTTAGTCCATTTTCTTGTAATCTTTAT
66 AGGACTACTGGTGTTTCCAAGTTTATTTGGTTAGTCAATTTAGTCCATTTTCTTGTAATCTTTAT
7579619 GTTTTTGGAATCCCGGTGTTAAGCGCTACTCGACCTATGTCAAAATTTTAGTAATTATTGAGTTT
131 GTTTTTGGAATCCCGGTGTTAAGCGCTACTCGACCTATGTCAAAATTTTAGTAATTATTGAGTTT
7579684 TTAAATATTATTAATGTTGAACAATTTTAGTATTAGGGACTAAATTGATAGATTTTTAAGTTAGG
196 TTAAATATTATTAATGTTGAACAATTTTAGTATTAGGGACTAAATTGATAGATTTTTAAGTTAGG
7579749 AATAAAAAAATGATTAAATTGTAAAAGGAATTATAAATTTTGAGTAATAGGGACTAAATTGTGAA
261 AATAAAAAAATGATTAAATTGTAAAAGGAATTATAAATTTTGAGTAATAGGGACTAAATTGTGAA
7579814 AAAAT
326 AAAAT
7579819 TGAAACAAAGAAAGACAAAAGCAAAATAAAAATTGAGAAAGAAAAGAAAGAAAGAAAAAGAAAGA
1 TGAAACAAAGAAAGACAAAAGCAAAATAAAAATTGAGAAAGAAAAGAAAGAAAGAAAAAGAAAGA
7579884 AGGACTACTGGTGTTTCCAAGTTTATTTGGTTAGTCAATTTAGTCCATTTTCTTGTAATCTTTAT
66 AGGACTACTGGTGTTTCCAAGTTTATTTGGTTAGTCAATTTAGTCCATTTTCTTGTAATCTTTAT
7579949 GTTTTTGGAATCCCGGTGTTAAGCGCTACTCGACCTATGTCAAAATTTTAGTAATTATTGAGTTT
131 GTTTTTGGAATCCCGGTGTTAAGCGCTACTCGACCTATGTCAAAATTTTAGTAATTATTGAGTTT
7580014 TTAAATATTATTAATGTTGAACAATTTTAGTATTAGGGACTAAATTGATAGATTTTTAAGTTAGG
196 TTAAATATTATTAATGTTGAACAATTTTAGTATTAGGGACTAAATTGATAGATTTTTAAGTTAGG
7580079 AATAAAAAAATGATTAAATTGTAAAAGGAATTATAAATTTTGAGTAATAGGGACTAAATTGTGAA
261 AATAAAAAAATGATTAAATTGTAAAAGGAATTATAAATTTTGAGTAATAGGGACTAAATTGTGAA
7580144 AAAAT
326 AAAAT
7580149 TGAAA
1 TGAAA
7580154 TTTAGGGATT
Statistics
Matches: 335, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
330 335 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.33
Consensus pattern (330 bp):
TGAAACAAAGAAAGACAAAAGCAAAATAAAAATTGAGAAAGAAAAGAAAGAAAGAAAAAGAAAGA
AGGACTACTGGTGTTTCCAAGTTTATTTGGTTAGTCAATTTAGTCCATTTTCTTGTAATCTTTAT
GTTTTTGGAATCCCGGTGTTAAGCGCTACTCGACCTATGTCAAAATTTTAGTAATTATTGAGTTT
TTAAATATTATTAATGTTGAACAATTTTAGTATTAGGGACTAAATTGATAGATTTTTAAGTTAGG
AATAAAAAAATGATTAAATTGTAAAAGGAATTATAAATTTTGAGTAATAGGGACTAAATTGTGAA
AAAAT
Found at i:7587781 original size:18 final size:17
Alignment explanation
Indices: 7587760--7587793 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7587750 AAACGAAACA
*
7587760 AAAAAGGAAGAAAGAAAG
1 AAAAAGAAAG-AAGAAAG
7587778 AAAAAGAAAGAAGAAA
1 AAAAAGAAAGAAGAAA
7587794 CGCACGACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAGAAGAAAG
Found at i:7592845 original size:100 final size:101
Alignment explanation
Indices: 7592659--7592860 Score: 397
Period size: 100 Copynumber: 2.0 Consensus size: 101
7592649 TTATAGTGGT
7592659 TCGACCCCAATTGCCTACTCCACTACCTTAGCTTACCACAACTAAAGATTTCCCAAATTCACTTG
1 TCGACCCCAATTGCCTACTCCACTACCTTAGCTTACCACAACTAAAGATTTCCCAAATTCACTTG
7592724 TAACACCCCTTACCCGAGACCGTCGCCGGAATCGAG
66 TAACACCCCTTACCCGAGACCGTCGCCGGAATCGAG
7592760 TCGACCCCAATT-CCTACTCCACTACCTTAGCTTACCACAACTAAAGATTTCCCAAATTCACTTG
1 TCGACCCCAATTGCCTACTCCACTACCTTAGCTTACCACAACTAAAGATTTCCCAAATTCACTTG
7592824 TAACACCCCTTACCCGAGACCGTCGCCGGAATCGAG
66 TAACACCCCTTACCCGAGACCGTCGCCGGAATCGAG
7592860 T
1 T
7592861 ACGAGATGTT
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 89 0.88
101 12 0.12
ACGTcount: A:0.28, C:0.37, G:0.12, T:0.23
Consensus pattern (101 bp):
TCGACCCCAATTGCCTACTCCACTACCTTAGCTTACCACAACTAAAGATTTCCCAAATTCACTTG
TAACACCCCTTACCCGAGACCGTCGCCGGAATCGAG
Found at i:7596959 original size:23 final size:23
Alignment explanation
Indices: 7596932--7596978 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7596922 ATTCTTTACT
7596932 ATATTCTCATATTA-ACTTTATAA
1 ATATTCTCATATTATA-TTTATAA
* *
7596955 ATATTCTTATTTTATATTTATAA
1 ATATTCTCATATTATATTTATAA
7596978 A
1 A
7596979 CTTCTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTCTCATATTATATTTATAA
Found at i:7605900 original size:20 final size:21
Alignment explanation
Indices: 7605858--7605911 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
7605848 TATACTGGTG
* * *
7605858 GCGGTAAGATTAGTTATTTTA
1 GCGGTGAGATTAGGTATTGTA
7605879 GCGGTGAGATT-GGTATTGTA
1 GCGGTGAGATTAGGTATTGTA
*
7605899 GCAGTGAGATTAG
1 GCGGTGAGATTAG
7605912 AAATAGCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.26, C:0.06, G:0.33, T:0.35
Consensus pattern (21 bp):
GCGGTGAGATTAGGTATTGTA
Found at i:7608183 original size:19 final size:20
Alignment explanation
Indices: 7608152--7608201 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
7608142 ATCAGCATAC
7608152 ATACAAACATAGCA-TTTAAA
1 ATAC-AACATAGCATTTTAAA
* *
7608172 ATACAGCATAGCATTTTTAA
1 ATACAACATAGCATTTTAAA
7608192 ATACAACATA
1 ATACAACATA
7608202 AAACTGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (20 bp):
ATACAACATAGCATTTTAAA
Found at i:7609780 original size:23 final size:23
Alignment explanation
Indices: 7609750--7609793 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7609740 AGTTTTTATA
7609750 TTTTTATATTTAAGAATTTAACC
1 TTTTTATATTTAAGAATTTAACC
* *
7609773 TTTTTATATTTTAGATTTTAA
1 TTTTTATATTTAAGAATTTAA
7609794 AATTTAAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTTTATATTTAAGAATTTAACC
Done.