Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 35 of 59
Found at i:12772033 original size:42 final size:41
Alignment explanation
Indices: 12771907--12772035 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 41
12771897 TGTTGATGTG
* * *
12771907 GACCCAACTATGTGCGAGTAGGAGTGTGCATAAATCTATGAT
1 GACCCAACTATGTGCGAGT-GGAGTGCGCATAAGTCGATGAT
* * *
12771949 GACCCGACTATGTGCGAGTAGAGTGCGCATAAGTTAGA-GAT
1 GACCCAACTATGTGCGAGTGGAGTGCGCATAAG-TCGATGAT
* * *
12771990 GACCAAACTATGTGTGAGTGCGAGTGCGCATAAGCCGATGAT
1 GACCCAACTATGTGCGAGTG-GAGTGCGCATAAGTCGATGAT
12772032 GACC
1 GACC
12772036 TAGCCATGTG
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 32 0.44
42 40 0.56
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (41 bp):
GACCCAACTATGTGCGAGTGGAGTGCGCATAAGTCGATGAT
Found at i:12772105 original size:2 final size:2
Alignment explanation
Indices: 12772100--12772139 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
12772090 ATGATGATGA
* * *
12772100 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12772140 GTGTGTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12772568 original size:19 final size:19
Alignment explanation
Indices: 12772544--12772580 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12772534 AGGTTTGGTG
12772544 AGAAACCCTCGGCTAGTTA
1 AGAAACCCTCGGCTAGTTA
*
12772563 AGAAACCCTTGGCTAGTT
1 AGAAACCCTCGGCTAGTT
12772581 GATAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (19 bp):
AGAAACCCTCGGCTAGTTA
Found at i:12775705 original size:29 final size:25
Alignment explanation
Indices: 12775672--12775723 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 25
12775662 ATTAAATATA
12775672 AAAATTAAATAATCAAATAATATATTTAC
1 AAAA-TAAATAA--AAATAATA-ATTTAC
12775701 AAAATAAATAAAAATAATAATTT
1 AAAATAAATAAAAATAATAATTT
12775724 CAAGACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
26 8 0.35
28 7 0.30
29 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAATAAATAAAAATAATAATTTAC
Found at i:12789818 original size:39 final size:39
Alignment explanation
Indices: 12789764--12789840 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
12789754 ACCATCACTG
*
12789764 TCATGTGCACTCCCACACCGCACATGGCATATATCATCA
1 TCATGTGCACTCCCACACCACACATGGCATATATCATCA
** *
12789803 TCATGTGCTTTCCCACACTACACATGGCATATATCATC
1 TCATGTGCACTCCCACACCACACATGGCATATATCATC
12789841 GGCGTGTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (39 bp):
TCATGTGCACTCCCACACCACACATGGCATATATCATCA
Found at i:12789865 original size:39 final size:39
Alignment explanation
Indices: 12789765--12789865 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 39
12789755 CCATCACTGT
* ** *
12789765 CATGTGCACTCCCACACCGCACATGGCATATATCATCAT
1 CATGTGCTCTCCCACACAACACATGGCATATATCATCAG
* * *
12789804 CATGTGCTTTCCCACACTACACATGGCATATATCATCGG
1 CATGTGCTCTCCCACACAACACATGGCATATATCATCAG
* **
12789843 CGTGTGCTCTCTTACACAACACA
1 CATGTGCTCTCCCACACAACACA
12789866 CTATCGACAC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.26
Consensus pattern (39 bp):
CATGTGCTCTCCCACACAACACATGGCATATATCATCAG
Found at i:12792185 original size:42 final size:43
Alignment explanation
Indices: 12792136--12792229 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
12792126 TTTTATGTGA
12792136 TAATGATGACCCAGCTATGTGC-ATGT-GGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCGA-GTAGGGAGTGCACATGAGC
* *
12792178 TGATGATGACCTAGCTATGTGCGAGTAGGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGC
12792221 TAATGATGA
1 TAATGATGA
12792230 TGGGATGGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
42 22 0.47
43 25 0.53
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (43 bp):
TAATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGC
Found at i:12795429 original size:37 final size:39
Alignment explanation
Indices: 12795377--12795475 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
12795367 TAATGTTGTG
* *
12795377 TGATGATGTTGAAGTGTGCGAGTA-G-AGAGTGCACACA
1 TGATGATGATAAAGTGTGCGAGTATGAAGAGTGCACACA
* *
12795414 TGATGATGATAAAGTGTACGAGTATGAAGTGTGCACACA
1 TGATGATGATAAAGTGTGCGAGTATGAAGAGTGCACACA
*
12795453 TGATGATGATAGAGTGTGCGAGT
1 TGATGATGATAAAGTGTGCGAGT
12795476 GTGATGATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
37 21 0.39
38 1 0.02
39 32 0.59
ACGTcount: A:0.31, C:0.09, G:0.33, T:0.26
Consensus pattern (39 bp):
TGATGATGATAAAGTGTGCGAGTATGAAGAGTGCACACA
Found at i:12795480 original size:24 final size:24
Alignment explanation
Indices: 12795453--12795499 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12795443 TGTGCACACA
12795453 TGATGATGATAG-AGTGTGCGAGTG
1 TGATGATG-TAGAAGTGTGCGAGTG
*
12795477 TGATGATGTTGAAGTGTGCGAGT
1 TGATGATGTAGAAGTGTGCGAGT
12795500 AAGGAGTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.23, C:0.04, G:0.40, T:0.32
Consensus pattern (24 bp):
TGATGATGTAGAAGTGTGCGAGTG
Found at i:12818119 original size:25 final size:25
Alignment explanation
Indices: 12818090--12818173 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 25
12818080 CCCATTTATT
*
12818090 TTTATTTCCTATTGGGCCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
* * *
12818115 CTTATTTTTTATTGGGTCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
*
12818140 TTTATTTTCTATTAGGCCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
12818165 TTTATTTTC
1 TTTATTTTC
12818174 GATTTCTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.48
Consensus pattern (25 bp):
TTTATTTTCTATTGGGCCATGCCCA
Found at i:12818127 original size:32 final size:32
Alignment explanation
Indices: 12818062--12818123 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
12818052 CTTCTCCATT
* *
12818062 TTTCCTATTTGGGCTAAGCCCATTTATTTTTA
1 TTTCCTATTTGGGCCAAGCCCACTTATTTTTA
*
12818094 TTTCCTA-TTGGGCCATGCCCACTTATTTTT
1 TTTCCTATTTGGGCCAAGCCCACTTATTTTT
12818124 TATTGGGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (32 bp):
TTTCCTATTTGGGCCAAGCCCACTTATTTTTA
Found at i:12818376 original size:34 final size:34
Alignment explanation
Indices: 12818338--12818411 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
12818328 CATGCTGTCC
* *
12818338 AATTTTCCTACACAAACTATCACCAAACAGCTCT
1 AATTTTCCTACACAAACTAGCACCAAACAACTCT
* * * * *
12818372 AATTTTTCTGCACAAATTGGCAGCAAACAACTCT
1 AATTTTCCTACACAAACTAGCACCAAACAACTCT
12818406 AATTTT
1 AATTTT
12818412 TCAACATCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (34 bp):
AATTTTCCTACACAAACTAGCACCAAACAACTCT
Found at i:12827519 original size:11 final size:11
Alignment explanation
Indices: 12827503--12827535 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
12827493 AAACGCAAGG
12827503 AAATAATAATA
1 AAATAATAATA
*
12827514 AAATAATAATT
1 AAATAATAATA
12827525 AAATAATAATA
1 AAATAATAATA
12827536 TTTTTATCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATAATAATA
Found at i:12829833 original size:73 final size:73
Alignment explanation
Indices: 12829710--12829983 Score: 408
Period size: 73 Copynumber: 3.8 Consensus size: 73
12829700 AGACAGAATG
* *
12829710 CTCTTAGTTGACTAACTATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAACTCGATTTTTG
1 CTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAATTCGATTTTTG
* * *
12829775 GCAATAAG
66 GTAGTAAA
* *
12829783 CTCTCAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTC-AGTCTCTGAATTCGATTTCT
1 CTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTCTA-TCTCTGAATTCGATTTTT
12829847 GGTAGTAAA
65 GGTAGTAAA
* * *
12829856 CTTTTAGTCGACTAGCTATGCTTCTTAGTCGATTAAGTCGTCTC-AGTCTCTGAATTCGATTTTT
1 CTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTCTA-TCTCTGAATTCGATTTTT
12829920 GGTAGTAAA
65 GGTAGTAAA
* *
12829929 CTCTTAGTCGACTAACTATGCTTCTTAGTTGATTAAGTCGTCTCTATCTCTGAAT
1 CTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAAT
12829984 CCGGTTTCTT
Statistics
Matches: 184, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
72 1 0.01
73 182 0.99
74 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (73 bp):
CTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAATTCGATTTTTG
GTAGTAAA
Found at i:12838945 original size:14 final size:15
Alignment explanation
Indices: 12838898--12838945 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
12838888 CAAAACTAAG
*
12838898 CTTTTTCTTCCTTTCT
1 CTTTTT-TTTCTTTCT
*
12838914 C-TCTTTTTCTTTCT
1 CTTTTTTTTCTTTCT
12838928 CTTTTTTTTCTTTC-
1 CTTTTTTTTCTTTCT
12838942 CTTT
1 CTTT
12838946 CTCCTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 13 0.46
15 14 0.50
16 1 0.04
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTTTTTTTCTTTCT
Found at i:12839068 original size:19 final size:19
Alignment explanation
Indices: 12839044--12839089 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
12839034 GGTGCCTAGG
*
12839044 TGAAAATGGCATGAAAGCT
1 TGAAAATGGCATGAAAGCA
* *
12839063 TGAAAATAGCATGGAAGCA
1 TGAAAATGGCATGAAAGCA
12839082 TGAAAATG
1 TGAAAATG
12839090 AAGAAGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.46, C:0.09, G:0.26, T:0.20
Consensus pattern (19 bp):
TGAAAATGGCATGAAAGCA
Found at i:12856603 original size:43 final size:43
Alignment explanation
Indices: 12856555--12856664 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
12856545 TCACTAGCTC
* * *
12856555 ATGCGCACTCCCTGCTCGCACAT-GGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAAGC-GGGTCATC-CTCGGCTT
* * *
12856598 ATGCGCGCTCCTTACTCGCACATAAGCGGGTCATCCTTGGCTT
1 ATGCGCACTCCCTACTCGCACATAAGCGGGTCATCCTCGGCTT
12856641 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
12856665 GCCGAGTCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
42 1 0.02
43 54 0.95
44 2 0.04
ACGTcount: A:0.17, C:0.35, G:0.23, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAAGCGGGTCATCCTCGGCTT
Found at i:12862620 original size:36 final size:36
Alignment explanation
Indices: 12862573--12862675 Score: 122
Period size: 35 Copynumber: 2.9 Consensus size: 36
12862563 ATATGTAGTT
*
12862573 CCACACCGCACATAGCTAGA-ATCATCTTGTGCACTC
1 CCACACCGCACATAGCTA-ATATCATCATGTGCACTC
*
12862609 CCACACCGCACA-AGGTAATATCATCATGTGCACTC
1 CCACACCGCACATAGCTAATATCATCATGTGCACTC
* *
12862644 CCACATCGCACATGGC-ATATATCATCAGTGTG
1 CCACACCGCACATAGCTA-ATATCATCA-TGTG
12862676 TGCACTCACA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
34 1 0.02
35 31 0.53
36 22 0.38
37 4 0.07
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (36 bp):
CCACACCGCACATAGCTAATATCATCATGTGCACTC
Found at i:12862729 original size:52 final size:52
Alignment explanation
Indices: 12862650--12862818 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 52
12862640 ACTCCCACAT
12862650 CGCACATGGCATATATCATCAGTGTGTGCACTCACATAGCACACCACTATCA
1 CGCACATGGCATATATCATCAGTGTGTGCACTCACATAGCACACCACTATCA
* *
12862702 TGCACATGGCATATATCATCAGTGTGTGCATCAGTGTCTGCACTCACACAGCACACCACTATCA
1 CGCACATGGCATATATCATCA------G--T--GTG--TGCACTCACATAGCACACCACTATCA
* *
12862766 CGCACATGGCATATATCATTAGTGTGTGCACTCAGATAGCACACCACTATCA
1 CGCACATGGCATATATCATCAGTGTGTGCACTCACATAGCACACCACTATCA
12862818 C
1 C
12862819 CGTCATGTGC
Statistics
Matches: 99, Mismatches: 6, Indels: 24
0.77 0.05 0.19
Matches are distributed among these distances:
52 45 0.45
54 3 0.03
56 1 0.01
58 2 0.02
60 1 0.01
62 3 0.03
64 44 0.44
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (52 bp):
CGCACATGGCATATATCATCAGTGTGTGCACTCACATAGCACACCACTATCA
Found at i:12862744 original size:64 final size:64
Alignment explanation
Indices: 12862666--12862800 Score: 225
Period size: 64 Copynumber: 2.1 Consensus size: 64
12862656 TGGCATATAT
* * *
12862666 CATCAGTGTGTGCACTCACATAGCACACCACTATCATGCACATGGCATATATCATCAGTGTGTG
1 CATCAGTGTCTGCACTCACACAGCACACCACTATCACGCACATGGCATATATCATCAGTGTGTG
*
12862730 CATCAGTGTCTGCACTCACACAGCACACCACTATCACGCACATGGCATATATCATTAGTGTGTG
1 CATCAGTGTCTGCACTCACACAGCACACCACTATCACGCACATGGCATATATCATCAGTGTGTG
12862794 CACTCAG
1 CA-TCAG
12862801 ATAGCACACC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 62 0.94
65 4 0.06
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (64 bp):
CATCAGTGTCTGCACTCACACAGCACACCACTATCACGCACATGGCATATATCATCAGTGTGTG
Found at i:12864208 original size:85 final size:84
Alignment explanation
Indices: 12864088--12864256 Score: 329
Period size: 85 Copynumber: 2.0 Consensus size: 84
12864078 TGGAAATTTT
12864088 TGACACCAAATAAAACATTAATATTTTAATATTATTTTATTAATAATTTTGACACCAAATTTTTC
1 TGACACCAAATAAAACATTAATATTTTAATATTATTTTATTAATAATTTTGACACCAAATTTTTC
12864153 ACTAGCCTTTTAGGGCTAC
66 ACTAGCCTTTTAGGGCTAC
12864172 NTGACACCAAATAAAACATTAATATTTTAATATTATTTTATTAATAATTTTGACACCAAATTTTT
1 -TGACACCAAATAAAACATTAATATTTTAATATTATTTTATTAATAATTTTGACACCAAATTTTT
12864237 CACTAGCCTTTTAGGGCTAC
65 CACTAGCCTTTTAGGGCTAC
12864257 AAAACATCTT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.40
Consensus pattern (84 bp):
TGACACCAAATAAAACATTAATATTTTAATATTATTTTATTAATAATTTTGACACCAAATTTTTC
ACTAGCCTTTTAGGGCTAC
Found at i:12866987 original size:54 final size:54
Alignment explanation
Indices: 12866895--12867106 Score: 270
Period size: 54 Copynumber: 3.9 Consensus size: 54
12866885 ATTCTTATAC
* *
12866895 CACCCCATCTC-ACTCAGCTCATGTGCATCCCCCCACATCGTGCATATAGCCAGA
1 CACCTCATCTCAAC-CAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGA
* * **
12866949 CACCTCATCTCAACCAGCTCATGTGCATCCTCCAACATCGTGCACATAGCTGGA
1 CACCTCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGA
* * * *
12867003 CACCTCATCTCAA-CAGTTTATGTGCATCCCCCTATATCGTGCACATAG-CAGTA
1 CACCTCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAG-A
*
12867056 CATCC-CATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCC
1 CA-CCTCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCC
12867107 GGAGTCATCG
Statistics
Matches: 135, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 1 0.01
53 40 0.30
54 91 0.67
55 3 0.02
ACGTcount: A:0.25, C:0.40, G:0.13, T:0.23
Consensus pattern (54 bp):
CACCTCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGA
Found at i:12867117 original size:21 final size:21
Alignment explanation
Indices: 12867091--12867158 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
12867081 CATCCCCCCA
*
12867091 CATCGTGCACATAGCCGGAGT
1 CATCGTGCACATAACCGGAGT
** * **
12867112 CATCGTGTGCATACCCCCA--
1 CATCGTGCACATAACCGGAGT
*
12867131 CATCGTGCACATAATCGGAGT
1 CATCGTGCACATAACCGGAGT
12867152 CATCGTG
1 CATCGTG
12867159 TGCATCCCCC
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
19 13 0.38
21 21 0.62
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (21 bp):
CATCGTGCACATAACCGGAGT
Found at i:12867132 original size:40 final size:40
Alignment explanation
Indices: 12867077--12867169 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
12867067 ACCCAGCTCA
*
12867077 TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACATAACCGGAGTCATCG
* *
12867117 TGTGCATACCCCCACATCGTGCACATAATCGGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACATAACCGGAGTCATCG
12867157 TGTGCATCCCCCC
1 TGTGCATCCCCCC
12867170 CATTATGCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.22
Consensus pattern (40 bp):
TGTGCATCCCCCCACATCGTGCACATAACCGGAGTCATCG
Found at i:12867299 original size:2 final size:2
Alignment explanation
Indices: 12867292--12867318 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12867282 TATGACATAG
12867292 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
12867319 CAATATTATA
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:12870607 original size:35 final size:34
Alignment explanation
Indices: 12870568--12870675 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 34
12870558 GTTGATCCCG
*
12870568 TGAAAAACTATTGTTGTAGGTTGTGGTTGAGCCTT
1 TGAAAAACAATTGTTG-AGGTTGTGGTTGAGCCTT
* * * *
12870603 TGAAAAACAACT-TTG-GGTTTTGGTTGA-ACTCA
1 TGAAAAACAATTGTTGAGGTTGTGGTTGAGCCT-T
*
12870635 TGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAACAATTGTTG--AGGTTGTGGTTGAGCCTT
12870670 TGAAAA
1 TGAAAA
12870676 CCCACTTTGG
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
31 2 0.04
32 23 0.40
34 3 0.05
35 27 0.47
36 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (34 bp):
TGAAAAACAATTGTTGAGGTTGTGGTTGAGCCTT
Found at i:12870735 original size:67 final size:68
Alignment explanation
Indices: 12870553--12870723 Score: 242
Period size: 67 Copynumber: 2.6 Consensus size: 68
12870543 AGTTAATGGG
* *
12870553 TTTTGGTTGATCCCG-TGAAAAACTATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACAACTT
1 TTTTGGTTGATCCCGATGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACAACTT
*
12870616 TGGG
65 TGGA
* * * *
12870620 TTTTGGTTGAACTC-ATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAACCCACTTT
1 TTTTGGTTGATCCCGATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACAACTTT
12870684 GGA
66 GGA
12870687 TTTTGGTTGATCCCGAT-AAAAACCATTGTGAAAGGTT
1 TTTTGGTTGATCCCGATGAAAAACCATTGTGAAAGGTT
12870724 TTGGCTAAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
66 2 0.02
67 88 0.96
68 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (68 bp):
TTTTGGTTGATCCCGATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACAACTTT
GGA
Found at i:12870905 original size:18 final size:19
Alignment explanation
Indices: 12870874--12870912 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
12870864 GTTGTGTGTT
* *
12870874 TTTTTGTTCTATTTTTCAG
1 TTTTTATTCTATTTTTAAG
12870893 TTTTTATTC-ATTTTTAAG
1 TTTTTATTCTATTTTTAAG
12870911 TT
1 TT
12870913 CTTTCTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (19 bp):
TTTTTATTCTATTTTTAAG
Found at i:12877199 original size:17 final size:19
Alignment explanation
Indices: 12877158--12877199 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
12877148 ATGTATATAT
12877158 ATGAATATATGTTGTGTATTG
1 ATGAATATATGTTGTG--TTG
12877179 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGTTG
12877196 ATGA
1 ATGA
12877200 TGTTGAAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (19 bp):
ATGAATATATGTTGTGTTG
Found at i:12877236 original size:37 final size:37
Alignment explanation
Indices: 12877194--12877275 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
12877184 TAATGTTGTG
* *
12877194 TGATGATGTTGAAGCGTGCCAGTAGGGAGTGCACACA
1 TGATGATGTTAAAGCGTGCCAATAGGGAGTGCACACA
* **
12877231 TGATGATGTTAAAGTGTGTGAATAGGGAGTGCACACA
1 TGATGATGTTAAAGCGTGCCAATAGGGAGTGCACACA
12877268 TGATGATG
1 TGATGATG
12877276 ATATTGCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (37 bp):
TGATGATGTTAAAGCGTGCCAATAGGGAGTGCACACA
Found at i:12877566 original size:21 final size:22
Alignment explanation
Indices: 12877540--12877593 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
12877530 CCAGCCCTAT
* *
12877540 TTCTCACTGTAGCGAAAA-GAA
1 TTCTCACTGCAGCGAAAATAAA
12877561 TTCTCACTGCAGCGAAAATAAA
1 TTCTCACTGCAGCGAAAATAAA
*
12877583 TTCTCGCTGCA
1 TTCTCACTGCA
12877594 ACGAGAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (22 bp):
TTCTCACTGCAGCGAAAATAAA
Found at i:12880717 original size:28 final size:27
Alignment explanation
Indices: 12880685--12880738 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
12880675 TTTTTGAGCA
* **
12880685 TAGGGGTAAAATGGTAATTTTGCCACCT
1 TAGGGGCAAAATCATAATTTT-CCACCT
12880713 TAGGGGCAAAATCATAATTTTCCACC
1 TAGGGGCAAAATCATAATTTTCCACC
12880739 ACCAGGACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (27 bp):
TAGGGGCAAAATCATAATTTTCCACCT
Found at i:12891292 original size:19 final size:19
Alignment explanation
Indices: 12891265--12891301 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12891255 GCTTCGAACT
12891265 AGATCAAATAGAGAATTTA
1 AGATCAAATAGAGAATTTA
*
12891284 AGATGAAATAGAGAATTT
1 AGATCAAATAGAGAATTT
12891302 TAAAATCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27
Consensus pattern (19 bp):
AGATCAAATAGAGAATTTA
Found at i:12896032 original size:4 final size:4
Alignment explanation
Indices: 12896023--12896101 Score: 62
Period size: 4 Copynumber: 20.5 Consensus size: 4
12896013 GCTGGACAGT
*
12896023 GAAA GAAA GAAA TAAA GAAA GAAA -AAA -AAA GAAAA GAAAA GAAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA G-AAA G-AAA GAAA
* *
12896072 AAAA AAAA G-AA -AAA GAAA -AAA -AAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
12896102 GTGGGCATGG
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
3 16 0.24
4 36 0.55
5 14 0.21
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:12896050 original size:1 final size:1
Alignment explanation
Indices: 12896044--12896095 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
12896034 ATAAAGAAAG
* * * * * *
12896044 AAAAAAAAAGAAAAGAAAAGAAAAGAAAAAAAAAAAGAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12896096 GAAAGAGTGG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:12896055 original size:10 final size:10
Alignment explanation
Indices: 12896028--12896099 Score: 81
Period size: 10 Copynumber: 6.7 Consensus size: 10
12896018 ACAGTGAAAG
12896028 AAAGAAATAAA
1 AAAGAAA-AAA
12896039 GAAAGAAAAAA
1 -AAAGAAAAAA
*
12896050 AAAGAAAAGA
1 AAAGAAAAAA
12896060 AAAGAAAAGAAA
1 AAAG-AAA-AAA
*
12896072 AAAAAAAAGAA
1 AAAGAAAA-AA
12896083 AAAGAAAAAA
1 AAAGAAAAAA
12896093 AAAGAAA
1 AAAGAAA
12896100 GAGTGGGCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
10 23 0.43
11 18 0.34
12 12 0.23
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:12896057 original size:5 final size:5
Alignment explanation
Indices: 12896036--12896099 Score: 73
Period size: 5 Copynumber: 13.4 Consensus size: 5
12896026 AGAAAGAAAT
*
12896036 AAAG- AAAGA AAAAA AAAGA AAAGA AAAGA AAAG- AAA-A AAA-A AAAGAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG-A
*
12896083 AAAGA AAAAA AAAGA AA
1 AAAGA AAAGA AAAGA AA
12896100 GAGTGGGCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
4 14 0.27
5 33 0.63
6 5 0.10
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:12896085 original size:28 final size:27
Alignment explanation
Indices: 12896024--12896099 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 27
12896014 CTGGACAGTG
12896024 AAAGAAAGAAATAAAGAAAGAAAAAAAAAGA
1 AAAGAAA-AAA-AAAG-AA-AAAAAAAAAGA
*
12896055 AAAGAAAAGAAAAGAAAAAAAAAAAGAA
1 AAAGAAAAAAAAAGAAAAAAAAAAAG-A
12896083 AAAGAAAAAAAAAGAAA
1 AAAGAAAAAAAAAGAAA
12896100 GAGTGGGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 10 0.24
28 19 0.45
29 4 0.10
30 2 0.05
31 7 0.17
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (27 bp):
AAAGAAAAAAAAAGAAAAAAAAAAAGA
Found at i:12896101 original size:37 final size:36
Alignment explanation
Indices: 12896023--12896101 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 36
12896013 GCTGGACAGT
* * *
12896023 GAAAG-AAAGAAATAAAGAAAGAAAAAAAAAGAAAA
1 GAAAGAAAAGAAAAAAAAAAAGAAAAAAAAAAAAAA
12896058 GAAAAGAAAAGAAAAAAAAAAAGAAAAAGAAAAAAAAA
1 G-AAAGAAAAGAAAAAAAAAAAGAAAAA-AAAAAAAAA
12896096 GAAAGA
1 GAAAGA
12896102 GTGGGCATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 1 0.03
36 4 0.11
37 24 0.63
38 9 0.24
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (36 bp):
GAAAGAAAAGAAAAAAAAAAAGAAAAAAAAAAAAAA
Found at i:12902321 original size:20 final size:20
Alignment explanation
Indices: 12902298--12902340 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
12902288 ACTTCAAGAC
12902298 AGAAACAACTTAATCGACTA
1 AGAAACAACTTAATCGACTA
** * *
12902318 AGAAGGAAGTTAGTCGACTA
1 AGAAACAACTTAATCGACTA
12902338 AGA
1 AGA
12902341 GCTCACTGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (20 bp):
AGAAACAACTTAATCGACTA
Found at i:12902884 original size:32 final size:32
Alignment explanation
Indices: 12902844--12902949 Score: 133
Period size: 32 Copynumber: 3.2 Consensus size: 32
12902834 TTGTAAGTTG
12902844 TGGTTGAGCCTATGAAAAACCACTTTGGGTTT
1 TGGTTGAGCCTATGAAAAACCACTTTGGGTTT
** *
12902876 TGGTTGAGCCCGTGAAAAACCA-TTGTGAAAGGTTG
1 TGGTTGAGCCTATGAAAAACCACTT-TG---GGTTT
*
12902911 TGGTTGAGCCTTTGAAAAACCACTTTGGGTTT
1 TGGTTGAGCCTATGAAAAACCACTTTGGGTTT
12902943 TGGTTGA
1 TGGTTGA
12902950 TCTTGGCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
31 2 0.03
32 33 0.52
35 26 0.41
36 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (32 bp):
TGGTTGAGCCTATGAAAAACCACTTTGGGTTT
Found at i:12902920 original size:35 final size:34
Alignment explanation
Indices: 12902819--12902932 Score: 110
Period size: 35 Copynumber: 3.4 Consensus size: 34
12902809 TGATTGATCT
*
12902819 CGTGAAAAACCTTTGTTGTAA-GTTGTGGTTGAGCC
1 CGTGAAAAACCATTG-TG-AAGGTTGTGGTTGAGCC
** *
12902854 TATGAAAAACCACTT-TG--GGTTTTGGTTGAGCC
1 CGTGAAAAACCA-TTGTGAAGGTTGTGGTTGAGCC
12902886 CGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCC
1 CGTGAAAAACCATTGTG-AAGGTTGTGGTTGAGCC
**
12902921 TTTGAAAAACCA
1 CGTGAAAAACCA
12902933 CTTTGGGTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
31 2 0.03
32 25 0.39
34 2 0.03
35 33 0.52
36 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (34 bp):
CGTGAAAAACCATTGTGAAGGTTGTGGTTGAGCC
Found at i:12902961 original size:32 final size:31
Alignment explanation
Indices: 12902844--12902964 Score: 95
Period size: 32 Copynumber: 3.7 Consensus size: 31
12902834 TTGTAAGTTG
12902844 TGGTTGAGCCTAT-GAAAAACCACTTTGGGTTT
1 TGGTTGA-CCT-TGGAAAAACCACTTTGGGTTT
* *
12902876 TGGTTGAGCC-CGTGAAAAACCA-TTGTGAAAGGTTG
1 TGGTTGA-CCTTG-GAAAAACCACTT-TG---GGTTT
*
12902911 TGGTTGAGCCTTTGAAAAACCACTTTGGGTTT
1 TGGTTGA-CCTTGGAAAAACCACTTTGGGTTT
*
12902943 TGGTTGATCTTGGCAAAAACCA
1 TGGTTGACCTTGG-AAAAACCA
12902965 TTGTGAAAGG
Statistics
Matches: 73, Mismatches: 7, Indels: 18
0.74 0.07 0.18
Matches are distributed among these distances:
31 6 0.08
32 40 0.55
35 25 0.34
36 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (31 bp):
TGGTTGACCTTGGAAAAACCACTTTGGGTTT
Found at i:12902988 original size:67 final size:67
Alignment explanation
Indices: 12902801--12902976 Score: 257
Period size: 67 Copynumber: 2.6 Consensus size: 67
12902791 AAGCTAGTTA
* * *
12902801 TTGGGTTTTGATTGATCTCGTGAAAAACCTTTGTTGTAA-GTTGTGGTTGAGCCTATGAAAAACC
1 TTGGGTTTTGGTTGATCTCGTGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTATGAAAAACC
12902865 ACT
65 ACT
* * *
12902868 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCTCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTATGAAAAACCA
12902933 CT
66 CT
*
12902935 TTGGGTTTTGGTTGATCTTG-GCAAAAACCATTGTGAAAGGTT
1 TTGGGTTTTGGTTGATCTCGTG-AAAAACCATTGTGAAAGGTT
12902977 TTGGCTAAGC
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
66 5 0.05
67 93 0.95
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCTCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTATGAAAAACCA
CT
Found at i:12905510 original size:44 final size:44
Alignment explanation
Indices: 12905436--12905528 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
12905426 TCAACTCATG
12905436 TACACTCCCTACACGCACAAGGCAATATCATCATGTGCACTCCC
1 TACACTCCCTACACGCACAAGGCAATATCATCATGTGCACTCCC
***
12905480 TACACTCCCTACACGCACATTTC-ATAATCATCATGTGCACTCCC
1 TACACTCCCTACACGCACAAGGCAAT-ATCATCATGTGCACTCCC
12905524 TACAC
1 TACAC
12905529 ACACATTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 2 0.04
44 43 0.96
ACGTcount: A:0.29, C:0.39, G:0.09, T:0.24
Consensus pattern (44 bp):
TACACTCCCTACACGCACAAGGCAATATCATCATGTGCACTCCC
Found at i:12905557 original size:35 final size:35
Alignment explanation
Indices: 12905482--12905558 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
12905472 GCACTCCCTA
* ***
12905482 CACTCCCTACACGCACATTTCATAATCATCATGTG
1 CACTCCCTACACACACATTTCATAATCATCACACG
12905517 CACTCCCTACACACACATTTCA-ATATCATCACACG
1 CACTCCCTACACACACATTTCATA-ATCATCACACG
*
12905552 TACTCCC
1 CACTCCC
12905559 GCCCACATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.30, C:0.39, G:0.05, T:0.26
Consensus pattern (35 bp):
CACTCCCTACACACACATTTCATAATCATCACACG
Found at i:12907616 original size:37 final size:37
Alignment explanation
Indices: 12907553--12907667 Score: 153
Period size: 37 Copynumber: 3.1 Consensus size: 37
12907543 GTTGTGTGAG
* * *
12907553 GATGTTGAAGTGTACAAGT-GAAGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAG-GGAGTGCACACATGAT
12907590 GATGTT-AGAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGTTGA-AGTGTGCGAGTAGGGAGTGCACACATGAT
* *
12907627 GATGTTGAAGTGTGTGAGTAGGGAGTGAACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
12907664 GATG
1 GATG
12907668 AATGGATATG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
36 1 0.01
37 67 0.96
38 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.36, T:0.25
Consensus pattern (37 bp):
GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
Found at i:12922456 original size:42 final size:43
Alignment explanation
Indices: 12922369--12922486 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 43
12922359 GTGATGACAT
* *
12922369 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
*
12922412 TGACCCGGTTATGTGCGAGTA-GGAGTGCGCATAACCCG-GTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAG-GA
** * *
12922454 TGACCCAACCATGTGTGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
12922487 GAGCTGGTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
41 1 0.02
42 34 0.52
43 30 0.46
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
Found at i:12922496 original size:43 final size:43
Alignment explanation
Indices: 12922379--12922499 Score: 147
Period size: 42 Copynumber: 2.8 Consensus size: 43
12922369 TGACTCGGCT
****
12922379 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAACC
*
12922422 ATGTGCGAGTA-GGAGTGCGCATAACCCGGTGATGACCCAACC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAACC
* * *
12922464 ATGTGTGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
12922500 TGATGATGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 34 0.51
43 32 0.48
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAACC
Found at i:12927392 original size:14 final size:14
Alignment explanation
Indices: 12927373--12927399 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12927363 TAAGGGTAAA
12927373 ATGGAAAGACCATT
1 ATGGAAAGACCATT
12927387 ATGGAAAGACCAT
1 ATGGAAAGACCAT
12927400 AGGGGCAAAA
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:0.15, G:0.22, T:0.19
Consensus pattern (14 bp):
ATGGAAAGACCATT
Found at i:12928488 original size:43 final size:43
Alignment explanation
Indices: 12928426--12928536 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
12928416 ATTGACTCAT
12928426 CTATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGACCCAG
1 CTATGTGCGAGTAGGGAGTGCGCATAA-CCAAGAGATGACCCAG
* ** *
12928469 TTATGTGCGAGTAGGGAGTGCGCATAACCCGGAGATTACCCAG
1 CTATGTGCGAGTAGGGAGTGCGCATAACCAAGAGATGACCCAG
*
12928512 CCATGTGCGAGTAGGGAGTGCGCAT
1 CTATGTGCGAGTAGGGAGTGCGCAT
12928537 GAGCTGGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 3 0.05
43 58 0.95
ACGTcount: A:0.25, C:0.21, G:0.35, T:0.19
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAACCAAGAGATGACCCAG
Found at i:12930269 original size:73 final size:70
Alignment explanation
Indices: 12930192--12930366 Score: 217
Period size: 73 Copynumber: 2.4 Consensus size: 70
12930182 TTGACCCAAG
*
12930192 TTTCTGGTAGTGAGTACTTAGTCGACTAACTT-CTTTCTTAGTCGATTAAGTTGTTTCTGTCTTG
1 TTTCTGGTAGTGA-T-CTTAGTCGACTAACTTAC-TTCTTAGTCGATTAAGTTG-TTATGTCTTG
12930256 AAGTCCAGA
62 AAGTCCAGA
* * *
12930265 TTTCTGGTAGTAGACTCTTAATCAACTAACTTACTTCTTGGTCGATTAAGTTGTTATGTCTTGAA
1 TTTCTGGTAGT-GA-TCTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGTTATGTCTTGAA
12930330 GTCCAGA
64 GTCCAGA
* *
12930337 TTTTTGGCAGTTGATTCTTAGTCGACTAAC
1 TTTCTGGTAG-TGA-TCTTAGTCGACTAAC
12930367 CCATTTTTTG
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
72 41 0.46
73 44 0.49
74 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (70 bp):
TTTCTGGTAGTGATCTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGTTATGTCTTGAAGT
CCAGA
Found at i:12930365 original size:72 final size:73
Alignment explanation
Indices: 12930208--12930366 Score: 223
Period size: 72 Copynumber: 2.2 Consensus size: 73
12930198 GTAGTGAGTA
* *
12930208 CTTAGTCGACTAACTTCTTTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAGATTTCTGGT
1 CTTAGTCGACTAACTTCTTTCTTAGTCGATTAAGTTGTTTATGTCTTGAAGTCCAGATTTCTGGC
12930273 AGTAGACT
66 AGTAGACT
* * * *
12930281 CTTAATCAACTAACTTAC-TTCTTGGTCGATTAAGTTG-TTATGTCTTGAAGTCCAGATTTTTGG
1 CTTAGTCGACTAACTT-CTTTCTTAGTCGATTAAGTTGTTTATGTCTTGAAGTCCAGATTTCTGG
* *
12930344 CAGTTGATT
65 CAGTAGACT
12930353 CTTAGTCGACTAAC
1 CTTAGTCGACTAAC
12930367 CCATTTTTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
72 42 0.56
73 32 0.43
74 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (73 bp):
CTTAGTCGACTAACTTCTTTCTTAGTCGATTAAGTTGTTTATGTCTTGAAGTCCAGATTTCTGGC
AGTAGACT
Found at i:12930378 original size:72 final size:73
Alignment explanation
Indices: 12930208--12930388 Score: 213
Period size: 72 Copynumber: 2.5 Consensus size: 73
12930198 GTAGTGAGTA
* *
12930208 CTTAGTCGACTAACTTC-TTTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAGATTTCTGG
1 CTTAGTCGACTAAC-TCATTTCTTGGTCGATTAAGTTGTTTATGTCTTGAAGTCCAGATTTCTGG
*
12930272 TAGTAGACT
65 CAGTAGACT
* * * * *
12930281 CTTAATCAACTAACTTACTTCTTGGTCGATTAAGTTG-TTATGTCTTGAAGTCCAGATTTTTGGC
1 CTTAGTCGACTAACTCATTTCTTGGTCGATTAAGTTGTTTATGTCTTGAAGTCCAGATTTCTGGC
* *
12930345 AGTTGATT
66 AGTAGACT
* * * *
12930353 CTTAGTCGACTAACCCATTTTTTGGTTGACTAAGTT
1 CTTAGTCGACTAACTCATTTCTTGGTCGATTAAGTT
12930389 TTTTCTATTT
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
72 59 0.66
73 30 0.34
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (73 bp):
CTTAGTCGACTAACTCATTTCTTGGTCGATTAAGTTGTTTATGTCTTGAAGTCCAGATTTCTGGC
AGTAGACT
Found at i:12932844 original size:35 final size:35
Alignment explanation
Indices: 12932774--12933022 Score: 279
Period size: 35 Copynumber: 7.1 Consensus size: 35
12932764 CACTTGATTA
* *
12932774 AAATTGTTTAATTAA-T--TTGTGCCTAATTAACT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
12932806 AAATTGTTTAATTAAATCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
12932841 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
**** * *
12932876 AAATTAAACAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
12932911 AAATTTGTTTAATTAAGTCATTGGGCCTAGTTGATT
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATTAATT
* ** * *
12932947 AAAATTGTTTAATTAAATTGTTGGACTTAATTAATT
1 -AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * *
12932983 AAATTGTTTAATTAAGTTATTGAGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
12933018 AAATT
1 AAATT
12933023 AAGCAATTAA
Statistics
Matches: 184, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
32 15 0.08
33 1 0.01
35 114 0.62
36 51 0.28
37 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:12932990 original size:71 final size:70
Alignment explanation
Indices: 12932774--12933022 Score: 297
Period size: 71 Copynumber: 3.6 Consensus size: 70
12932764 CACTTGATTA
* * *
12932774 AAATTGTTTAATTAA-T--TTGTGCCTAATTAACTAAATTGTTTAATTAAATCATTGGGCCTAAT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTGTTTAATTAAATTATTGGGCCTAAT
12932836 TAATT
66 TAATT
* **** *
12932841 AAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTAAACAATTAAGTTATTGGGCCTAAT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTGTTTAATTAAATTATTGGGCCTAAT
*
12932906 TGATT
66 TAATT
* * * * *
12932911 AAATTTGTTTAATTAAGTCATTGGGCCTAGTTGATTAAAATTGTTTAATTAAATTGTTGGACTTA
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATTAATT-AAATTGTTTAATTAAATTATTGGGCCTA
12932976 ATTAATT
64 ATTAATT
* * *
12932983 AAATTGTTTAATTAAGTTATTGAGCCTAATTGATTAAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATT
12933023 AAGCAATTAA
Statistics
Matches: 152, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
67 14 0.09
68 1 0.01
70 50 0.33
71 58 0.38
72 29 0.19
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (70 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTGTTTAATTAAATTATTGGGCCTAAT
TAATT
Found at i:12932997 original size:142 final size:139
Alignment explanation
Indices: 12932767--12933043 Score: 385
Period size: 142 Copynumber: 2.0 Consensus size: 139
12932757 TCTCAAGCAC
* *
12932767 TTGATTAAAATTGTTTAATTAATTTGTGCCTAATTAACTAAATTGTTTAATTAAATCATTGGGCC
1 TTGATTAAAATTGTTTAATTAATTTGGGCCTAATTAACTAAATTGTTTAATTAAATCATTGGACC
*
12932832 TAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTAAACAATTAAGTT-AT
66 TAATTAATTAAATTATTTAATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAGTTAAT
12932896 TGGGCCTAA
131 TGGGCCTAA
* * * * **
12932905 TTGATTAAATTTGTTTAATTAAGTCATTGGGCCTAGTTGATTAAAATTGTTTAATTAAATTGTTG
1 TTGATTAAAATTGTTTAATTAA-T--TTGGGCCTAATTAACT-AAATTGTTTAATTAAATCATTG
* * * * *
12932970 GACTTAATTAATTAAATTGTTTAATTAAGTTATTGAGCCTAATTGATTAAATTAAGCAATTAAGT
62 GACCTAATTAATTAAATTATTTAATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAGT
12933035 TAATTGGGC
127 TAATTGGGC
12933044 TTCTAAAGGA
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
138 21 0.17
139 1 0.01
141 12 0.10
142 79 0.66
143 7 0.06
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (139 bp):
TTGATTAAAATTGTTTAATTAATTTGGGCCTAATTAACTAAATTGTTTAATTAAATCATTGGACC
TAATTAATTAAATTATTTAATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAGTTAAT
TGGGCCTAA
Found at i:12933041 original size:107 final size:105
Alignment explanation
Indices: 12932815--12933043 Score: 253
Period size: 107 Copynumber: 2.2 Consensus size: 105
12932805 TAAATTGTTT
* * * *
12932815 AATTAAATCATTGGGCCTAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAAT
1 AATTAAGTAATTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGACCTAATTAATTAAAT
* * *
12932880 TAAACAATTAAGTTATTGGGCCTAATTGATTAAATTTGTTT
66 TAAACAATTAAGTTATTGAGCCTAATTGATTAAATTAG-TC
* * * * ** *
12932921 AATTAAGTCATTGGGCCTAGTTGATTAAAATTGTTTAATTAAATTGTTGGACTTAATTAATTAAA
1 AATTAAGTAATTGGGCCTAATTAATT-AAATTATTTAATTAAATCATTGGACCTAATTAATTAAA
****
12932986 TTGTTTAATTAAGTTATTGAGCCTAATTGATTAAATTAAG-C
65 TTAAACAATTAAGTTATTGAGCCTAATTGATTAAATT-AGTC
12933027 AATTAAGTTAATTGGGC
1 AATTAAG-TAATTGGGC
12933044 TTCTAAAGGA
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
106 30 0.29
107 72 0.70
108 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.41
Consensus pattern (105 bp):
AATTAAGTAATTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGACCTAATTAATTAAAT
TAAACAATTAAGTTATTGAGCCTAATTGATTAAATTAGTC
Found at i:12941280 original size:73 final size:73
Alignment explanation
Indices: 12941100--12941280 Score: 213
Period size: 73 Copynumber: 2.5 Consensus size: 73
12941090 GCAGTGAGCA
* * * *
12941100 CTTAGTCGACTAACTTC-CTTTTTAGTCGATTAAGTTTTTTCTGTCTTGAAGTCTAGATATCTAG
1 CTTAGTCGACTAAC-CCACTTCTTGGTCGATTAAGTTGTTTCTGTCTTGAAGTCTAGATATCTAG
12941164 TAGTAGACT
65 TAGTAGACT
** * * * *
12941173 CTTAGTCGACTAACTTACTTCTTGGTCAATTAAGTTGGTTT-TGTCTTGAAGTGTAGATTTCTGG
1 CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGTT-GTTTCTGTCTTGAAGTCTAGATATCTAG
12941237 TAGTAGACT
65 TAGTAGACT
* * *
12941246 CTTAGTTGACTAACCCATTTCTTGGTCGACTAAGT
1 CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGT
12941281 CTTTTCTATA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
72 1 0.01
73 88 0.96
74 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (73 bp):
CTTAGTCGACTAACCCACTTCTTGGTCGATTAAGTTGTTTCTGTCTTGAAGTCTAGATATCTAGT
AGTAGACT
Found at i:12943202 original size:22 final size:21
Alignment explanation
Indices: 12943163--12943203 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12943153 CCTAGGTGGA
*
12943163 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGTG
*
12943184 AAAATTCAATGAAACAAGTG
1 AAAATTCAAGGAAA-AAGTG
12943204 AAAAAAGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.51, C:0.07, G:0.22, T:0.20
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGTG
Found at i:12943208 original size:21 final size:20
Alignment explanation
Indices: 12943161--12943208 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
12943151 ACCCTAGGTG
*
12943161 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
* *
12943181 GTGAAAATTCAATGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
12943203 GAAAAA
1 GAAAAA
12943209 AGGTAAGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.56, C:0.06, G:0.21, T:0.17
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:12946724 original size:38 final size:40
Alignment explanation
Indices: 12946675--12946778 Score: 167
Period size: 38 Copynumber: 2.6 Consensus size: 40
12946665 ATAGTGCCCG
* *
12946675 TGTGCACGATGTGGGGGGATGTACATGATGGCACTGA-T-
1 TGTGCACGATGTGGGGGGATGCACATGATGGCACCGATTA
*
12946713 TGTGCATGATGTGGGGGGATGCACATGATGGCACCGATTA
1 TGTGCACGATGTGGGGGGATGCACATGATGGCACCGATTA
12946753 TGTGCACGATGTGGGGGGATGCACAT
1 TGTGCACGATGTGGGGGGATGCACAT
12946779 AAGCCGGGTG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 34 0.57
39 1 0.02
40 25 0.42
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACATGATGGCACCGATTA
Found at i:12948773 original size:54 final size:54
Alignment explanation
Indices: 12948697--12948861 Score: 231
Period size: 54 Copynumber: 3.1 Consensus size: 54
12948687 TTTCTAGCAA
* *
12948697 ACATCCCATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACCTAGCCGG
1 ACATCCCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGG
** * *
12948751 ATGTCCCATCTCACCCAGCTCATGTGCATCCCACCACATTGTTCACATAGCCGG
1 ACATCCCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGG
* * * * *
12948805 ACATCCCATCTTAGCCAGCTCATGTGCATCCTACCACATCATGCACATAGACGG
1 ACATCCCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGG
12948859 ACA
1 ACA
12948862 GTATCACCAT
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.25, C:0.39, G:0.14, T:0.21
Consensus pattern (54 bp):
ACATCCCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGG
Found at i:12950337 original size:19 final size:19
Alignment explanation
Indices: 12950313--12950354 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
12950303 GGTGGTAAGG
12950313 TGAAAATAGCATGGGAGCA
1 TGAAAATAGCATGGGAGCA
* * *
12950332 TGAAAATGGCGTGTGAGCA
1 TGAAAATAGCATGGGAGCA
12950351 TGAA
1 TGAA
12950355 GGAGAAGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.19
Consensus pattern (19 bp):
TGAAAATAGCATGGGAGCA
Found at i:12952606 original size:34 final size:34
Alignment explanation
Indices: 12952568--12952646 Score: 149
Period size: 34 Copynumber: 2.3 Consensus size: 34
12952558 TGAAATAAAA
12952568 TAATATTTTATTCAATAAAATAATATTAAATTAT
1 TAATATTTTATTCAATAAAATAATATTAAATTAT
*
12952602 TAATATTTTATTTAATAAAATAATATTAAATTAT
1 TAATATTTTATTCAATAAAATAATATTAAATTAT
12952636 TAATATTTTAT
1 TAATATTTTAT
12952647 ATGTTGTTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (34 bp):
TAATATTTTATTCAATAAAATAATATTAAATTAT
Found at i:12952625 original size:20 final size:19
Alignment explanation
Indices: 12952561--12952628 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
12952551 AAAATTTTGA
12952561 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
12952580 CAATAAAATAATA--TTA--
1 -AATAAAATAATATTTTATT
* *
12952596 AAT-TATTAATATTTTATTT
1 AATAAAATAATATTTTA-TT
12952615 AATAAAATAATATT
1 AATAAAATAATATT
12952629 AAATTATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 3 0.08
18 3 0.08
19 3 0.08
20 20 0.53
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAAAATAATATTTTATT
Found at i:12953334 original size:18 final size:20
Alignment explanation
Indices: 12953293--12953330 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
12953283 GCGGCCATGT
12953293 GAGATGAAAGAAATGAAAAA
1 GAGATGAAAGAAATGAAAAA
12953313 GAGAT-AAA-AAA-GAAAAA
1 GAGATGAAAGAAATGAAAAA
12953330 G
1 G
12953331 GAGAGGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 3 0.17
20 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (20 bp):
GAGATGAAAGAAATGAAAAA
Found at i:12953723 original size:34 final size:34
Alignment explanation
Indices: 12953650--12953724 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
12953640 TTTGGCTGTT
* *
12953650 GAAAATTTGAGCTGTTTGCTGCGAGTTTGTGCAA
1 GAAAATTAGAGCTATTTGCTGCGAGTTTGTGCAA
* * *
12953684 AAAAATTAGAGCTATTTGCTAG-TAGTTTGTGCAG
1 GAAAATTAGAGCTATTTGCT-GCGAGTTTGTGCAA
12953718 GAAAATT
1 GAAAATT
12953725 GGACAGCTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (34 bp):
GAAAATTAGAGCTATTTGCTGCGAGTTTGTGCAA
Found at i:12953893 original size:22 final size:22
Alignment explanation
Indices: 12953862--12953909 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
12953852 GAAAGGAAAG
* *
12953862 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAAAGGAAGCCACGATGGT
*
12953884 GAAGAAAGGAAGCCATGATGGT
1 GAAGAAAGGAAGCCACGATGGT
12953906 GAAG
1 GAAG
12953910 GGAGTGACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.42, T:0.10
Consensus pattern (22 bp):
GAAGAAAGGAAGCCACGATGGT
Found at i:12953990 original size:16 final size:16
Alignment explanation
Indices: 12953965--12954003 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
12953955 GAAGAGAGAG
12953965 AAAG-AAAGAAAAAGA
1 AAAGAAAAGAAAAAGA
*
12953980 AAAGAAAAGAAATAGA
1 AAAGAAAAGAAAAAGA
*
12953996 AAATAAAA
1 AAAGAAAA
12954004 ATAGGCATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (16 bp):
AAAGAAAAGAAAAAGA
Found at i:12957995 original size:37 final size:37
Alignment explanation
Indices: 12957953--12958060 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
12957943 GAGGATGCTA
12957953 AAGTGTGCGAGTAGGGAGTGCACACATGATGATGTT-
1 AAGTGTGCGAGTAGGGAGTGCACACATGATGATGTTG
12957989 AGAGTGTGCGAGTAGGGAGTGCACACATGATGATGTTG
1 A-AGTGTGCGAGTAGGGAGTGCACACATGATGATGTTG
*
12958027 AAATGTGCGAGTAGGGAGTGCACACATGATGATG
1 AAGTGTGCGAGTAGGGAGTGCACACATGATGATG
12958061 AATGCATATG
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
36 1 0.01
37 67 0.97
38 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.37, T:0.23
Consensus pattern (37 bp):
AAGTGTGCGAGTAGGGAGTGCACACATGATGATGTTG
Found at i:12972043 original size:37 final size:37
Alignment explanation
Indices: 12972002--12972116 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
12971992 GTTGTGTGAG
12972002 GATGTTGAAGTGTGCGAGTAGAGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGAGAGTGCACACATGAT
* * *
12972039 GATGTTGGAGTGTGAGAGTAGGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGAGAGTGCACACATGAT
* * *
12972076 GATGTTGAAATGTGCGAGTGGAGAGTGAACACATGAT
1 GATGTTGAAGTGTGCGAGTAGAGAGTGCACACATGAT
12972113 GATG
1 GATG
12972117 AATGCATATG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.30, C:0.09, G:0.37, T:0.24
Consensus pattern (37 bp):
GATGTTGAAGTGTGCGAGTAGAGAGTGCACACATGAT
Found at i:12973577 original size:44 final size:44
Alignment explanation
Indices: 12973509--12973592 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
12973499 TCATTGTGTG
** *
12973509 ATGAGATTGAAATGTGTTAGTAGGGAGCACACATGATGATAATT
1 ATGAGATTGAAATGTGCGAGTAGGGAGAACACATGATGATAATT
* *
12973553 ATGATATTGAATTGTGCGAGTAGGGAGAACACATGATGAT
1 ATGAGATTGAAATGTGCGAGTAGGGAGAACACATGATGAT
12973593 GATATTGCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (44 bp):
ATGAGATTGAAATGTGCGAGTAGGGAGAACACATGATGATAATT
Found at i:12975487 original size:43 final size:43
Alignment explanation
Indices: 12975367--12975487 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
12975357 TGACTTGGCT
* * * *
12975367 ATGTGAGAGTAGGGAGTGTGCATAAGCC-GATGATGACCCGACT
1 ATGTGCGAGTAGGGAGTGCGCATAA-CCTGATGATGACCAGACC
*
12975410 ATGTTCGAGTAGGGAGTGCGCATAACCT-AGTGATGACCTAG-CC
1 ATGTGCGAGTAGGGAGTGCGCATAACCTGA-TGATGACC-AGACC
12975453 ATGTGCGAGTAGGGAGTGCGCATGAA-CTGATGATG
1 ATGTGCGAGTAGGGAGTGCGCAT-AACCTGATGATG
12975488 GTGGGATGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 3 0.04
43 60 0.90
44 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAACCTGATGATGACCAGACC
Found at i:12975493 original size:26 final size:25
Alignment explanation
Indices: 12975464--12975514 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
12975454 TGTGCGAGTA
12975464 GGGA-GTGCGCATGAACTGATGATGGT
1 GGGAGGTGCGCATG-A-TGATGATGGT
*
12975490 GGGATGGTGTGCATGATGATGATGG
1 GGGA-GGTGCGCATGATGATGATGG
12975515 GATCGTGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 13 0.59
27 1 0.05
28 8 0.36
ACGTcount: A:0.22, C:0.08, G:0.45, T:0.25
Consensus pattern (25 bp):
GGGAGGTGCGCATGATGATGATGGT
Found at i:12975531 original size:26 final size:23
Alignment explanation
Indices: 12975480--12975538 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
12975470 GCGCATGAAC
* *
12975480 TGATGATGGTGGGATGGTGTGCA
1 TGATGATGATGGGATCGTGTGCA
12975503 TGATGATGATGGGATCGTGTGCA
1 TGATGATGATGGGATCGTGTGCA
*
12975526 TGATGATGTTGGG
1 TGATGATGATGGG
12975539 TATATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.19, C:0.05, G:0.44, T:0.32
Consensus pattern (23 bp):
TGATGATGATGGGATCGTGTGCA
Found at i:12982566 original size:43 final size:43
Alignment explanation
Indices: 12982512--12982635 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
12982502 ATTGATTCGG
* *
12982512 CTATGTACGAGTAGGGAGTGCGCATAAGCCGATGATGACCCAG
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCAA
* * * *
12982555 TTATGTGCGAGTAGGGAGTGCACATAACCCGGTGATGACCCAA
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCAA
* * * * *
12982598 CCATGTGCGAGTGGGGAGTGTGCATGAGCTGATGATGA
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGA
12982636 TGGGATAGTG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.21
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCAA
Found at i:12982657 original size:23 final size:23
Alignment explanation
Indices: 12982627--12982685 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
12982617 GTGCATGAGC
*
12982627 TGATGATGATGGGATAGTGTGCA
1 TGATGATGATGGGATAGTGTCCA
*
12982650 TGATGATGATGGGATGGTGTCCA
1 TGATGATGATGGGATAGTGTCCA
*
12982673 TGATGATGTTGGG
1 TGATGATGATGGG
12982686 TATATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.05, G:0.41, T:0.32
Consensus pattern (23 bp):
TGATGATGATGGGATAGTGTCCA
Found at i:12987779 original size:40 final size:36
Alignment explanation
Indices: 12987733--12987838 Score: 124
Period size: 38 Copynumber: 2.8 Consensus size: 36
12987723 CCGGCTCATA
*
12987733 TACATCCCCCCACATAGTGCACATAGCCGGCACCATCGTG
1 TACATCCCCCCACATCGTGCACATAG--GG--CCATCGTG
* *
12987773 TGCATCCCCCCACATCGTGCACAATTAGTGCCATCGTG
1 TACATCCCCCCACATCGTGCAC-A-TAGGGCCATCGTG
12987811 TACATCCCCCCACATCGTGCACAT-GGGC
1 TACATCCCCCCACATCGTGCACATAGGGC
12987839 ACTATCATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
35 3 0.05
36 1 0.02
37 1 0.02
38 29 0.49
40 21 0.36
41 1 0.02
42 3 0.05
ACGTcount: A:0.23, C:0.40, G:0.18, T:0.20
Consensus pattern (36 bp):
TACATCCCCCCACATCGTGCACATAGGGCCATCGTG
Found at i:13000762 original size:43 final size:42
Alignment explanation
Indices: 13000714--13000849 Score: 175
Period size: 43 Copynumber: 3.2 Consensus size: 42
13000704 TTATGTGATA
**
13000714 ATGATGACCTAGCTATGTGCGATGT-GGGAGTGCACATGAGTTG
1 ATGATGACCT-GCTATGTGCGA-GTAGGGAGTGCACATGAGCCG
* *
13000757 ATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATGAGCCG
1 ATGATGACCTG-CTATGTGCGAGTAGGGAGTGCACATGAGCCG
* *
13000800 ATGATGACTCTGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG
1 ATGATGAC-CTGCTATGTGCGAGTAGGGAGTGCACATGAGCCG
13000843 ATGATGA
1 ATGATGA
13000850 TGACCCAGCT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
42 3 0.04
43 79 0.94
44 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (42 bp):
ATGATGACCTGCTATGTGCGAGTAGGGAGTGCACATGAGCCG
Found at i:13005568 original size:19 final size:19
Alignment explanation
Indices: 13005544--13005585 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13005534 GGTGGTAAGG
13005544 TGAAAATAGCATGGAAGCA
1 TGAAAATAGCATGGAAGCA
* *
13005563 TGAAAATGGCATGGGAGCA
1 TGAAAATAGCATGGAAGCA
13005582 TGAA
1 TGAA
13005586 GGAGAAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.31, T:0.17
Consensus pattern (19 bp):
TGAAAATAGCATGGAAGCA
Found at i:13019209 original size:20 final size:20
Alignment explanation
Indices: 13019163--13019210 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
13019153 TTAAAAATCA
*
13019163 AGCAAGGTATCAAGCATGGC
1 AGCAAGTTATCAAGCATGGC
13019183 AGCAAGTTATCAAGCATGGC
1 AGCAAGTTATCAAGCATGGC
13019203 AGCAAGTT
1 AGCAAGTT
13019211 TCTCACTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (20 bp):
AGCAAGTTATCAAGCATGGC
Found at i:13023141 original size:20 final size:20
Alignment explanation
Indices: 13023112--13023154 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13023102 ATTAGGTTAC
13023112 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATTTTAA
* *
13023132 TTTTATGTTATTCCTTTTAA
1 TTTTAAGTTATTCATTTTAA
13023152 TTT
1 TTT
13023155 GGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTAAGTTATTCATTTTAA
Found at i:13038443 original size:38 final size:39
Alignment explanation
Indices: 13038401--13038503 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 39
13038391 ATAGTGCCCG
*
13038401 TGTGCACGATGTGGGGGGATGTACACGAT-AGCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGAGC-CGGATA
* * * *
13038439 TGTGCACGATGTGGGGGGATGCACATGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGAT-GAGCCGGATA
13038479 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
13038504 TGAGCCGGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 27 0.48
39 3 0.05
40 26 0.46
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.23
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGTACACGATGAGCCGGATA
Found at i:13038494 original size:40 final size:38
Alignment explanation
Indices: 13038401--13038506 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 38
13038391 ATAGTGCCCG
* *
13038401 TGTGCACGATGTGGGGGGATGTACACGATAGCACTGAT
1 TGTGCACGATGTGGGGGGATGTACATGATAGCACGGAT
* * *
13038439 TGTGCACGATGTGGGGGGATGCACATGATGGTGC-CGGCT
1 TGTGCACGATGTGGGGGGATGTACATGAT--AGCACGGAT
13038478 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
13038507 GCCGGGAGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 27 0.46
39 3 0.05
40 29 0.49
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.24
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATAGCACGGAT
Found at i:13038879 original size:21 final size:21
Alignment explanation
Indices: 13038839--13038879 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13038829 TAACAAATTT
**
13038839 GCTGCAGCGAAATTCATTCTC
1 GCTGCAGCGAAAAACATTCTC
*
13038860 GCTGCAGCGAAAAACTTTCT
1 GCTGCAGCGAAAAACATTCT
13038880 GTTTTGTCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
GCTGCAGCGAAAAACATTCTC
Found at i:13041291 original size:18 final size:17
Alignment explanation
Indices: 13041234--13041291 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
13041224 TTTTAAGTTA
* *
13041234 TTTTATTTTATTTCATTT
1 TTTTAATTTATTT-TTTT
* *
13041252 TTTTACTTTAATTTTTAT
1 TTTTAATTT-ATTTTTTT
13041270 TTTTAATTTATTTTTTT
1 TTTTAATTTATTTTTTT
13041287 CTTTT
1 -TTTT
13041292 TGCAAGTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 7 0.21
18 22 0.67
19 4 0.12
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTAATTTATTTTTTT
Found at i:13041498 original size:72 final size:72
Alignment explanation
Indices: 13041372--13041509 Score: 161
Period size: 72 Copynumber: 1.9 Consensus size: 72
13041362 CCTGGAAAGT
* *** * *
13041372 GCTAAAATCTAGGCTGAAACAAAATGTTTCAGGGTCGCGGCTCTTAGAGGGAGAGTCGCGACGCT
1 GCTAAAATCTAGGCTAAAACAAAATGTTTCAGCACCGCGGCCCTTAGAGGGAGAGCCGCGACGCT
13041437 GGATGAG
66 GGATGAG
* * * * *
13041444 GCTAAAATTTGGGCTAAAACAAAATGTTTTAGCACCGCGGCCCTTA-ATGTGAGAGCCTCGACGC
1 GCTAAAATCTAGGCTAAAACAAAATGTTTCAGCACCGCGGCCCTTAGA-GGGAGAGCCGCGACGC
13041508 TG
65 TG
13041510 AACAACGACC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
71 1 0.02
72 53 0.98
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (72 bp):
GCTAAAATCTAGGCTAAAACAAAATGTTTCAGCACCGCGGCCCTTAGAGGGAGAGCCGCGACGCT
GGATGAG
Found at i:13043663 original size:22 final size:22
Alignment explanation
Indices: 13043623--13043675 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
13043613 GGGGGAGTAG
*
13043623 TTTAGAATTTTGTTAGTTTATT-
1 TTTAGTATTTTGTTAGTTT-TTA
13043645 TTTAGTATTTTGCTT-GTTTTTA
1 TTTAGTATTTTG-TTAGTTTTTA
13043667 TTTA-TATTT
1 TTTAGTATTT
13043676 GCAAGTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 7 0.25
22 19 0.68
23 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.11, T:0.68
Consensus pattern (22 bp):
TTTAGTATTTTGTTAGTTTTTA
Found at i:13046146 original size:14 final size:14
Alignment explanation
Indices: 13046127--13046153 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13046117 TTGGTTTTAA
13046127 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
13046141 TTTTAGTTAATTA
1 TTTTAGTTAATTA
13046154 ATAAATTTTG
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:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:13046377 original size:37 final size:37
Alignment explanation
Indices: 13046335--13046443 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
13046325 TAATGTTGTG
*
13046335 TGATGATGTTGAAGTGTGTGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
*
13046372 TGATGATGTTAAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
13046409 TGATGATGTTGAAGTGTGCAAGTAGGAAGTGCACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACA
13046444 TGACGATGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.29, C:0.09, G:0.36, T:0.26
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:13051083 original size:2 final size:2
Alignment explanation
Indices: 13051076--13051100 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13051066 TATGATGTGG
13051076 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13051101 CTATGTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13051377 original size:12 final size:12
Alignment explanation
Indices: 13051362--13051391 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
13051352 TACTAGTTGA
13051362 TATATGCTTAAG
1 TATATGCTTAAG
13051374 TATATGCTTAAG
1 TATATGCTTAAG
13051386 TATATG
1 TATATG
13051392 TATATGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (12 bp):
TATATGCTTAAG
Found at i:13057176 original size:50 final size:49
Alignment explanation
Indices: 13057087--13057182 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 49
13057077 GATTCATGCT
* *
13057087 TTTTAATGGAAAGTGATAACCTTCATAGAGTCCACAAAGGGATTCTTTCC
1 TTTTAATGGAAAGCGATAACCTTCACAGAGTCCACAAA-GGATTCTTTCC
*
13057137 TTTTAATGGAAAGCGATAACCATTACACA-A-TCCATAAAGGATTCTT
1 TTTTAATGGAAAGCGATAACC-TT-CACAGAGTCCACAAAGGATTCTT
13057183 GTTTTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 8 0.20
50 27 0.66
51 3 0.07
52 3 0.07
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (49 bp):
TTTTAATGGAAAGCGATAACCTTCACAGAGTCCACAAAGGATTCTTTCC
Found at i:13057893 original size:72 final size:73
Alignment explanation
Indices: 13057743--13057897 Score: 172
Period size: 72 Copynumber: 2.2 Consensus size: 73
13057733 TATAGTCAAC
* * * * * *
13057743 TATGCTTCCTCTATAGTCGACTATGGCTGTGTAATCTTGATTTTTTTTGGCCTTTAAGTTGTCAA
1 TATGCTTCCTCTACAATCAACTATGGCTGTGTAATCTTGACTTTTCTTGGCCTTTAACTTGTCAA
*
13057808 GGTTGACT
66 GGTCGACT
* * * *
13057816 T-TGCTTCCTTTACAATCAACTATGGTTGTGTAATCTTGACTTTTCTT-GCCTTTTGACTTGTCG
1 TATGCTTCCTCTACAATCAACTATGGCTGTGTAATCTTGACTTTTCTTGGCC-TTTAACTTGTCA
*
13057879 GGGTCGA-T
65 AGGTCGACT
13057887 TATGCTTCCTC
1 TATGCTTCCTC
13057898 CATAGTCGAC
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
71 5 0.07
72 61 0.91
73 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (73 bp):
TATGCTTCCTCTACAATCAACTATGGCTGTGTAATCTTGACTTTTCTTGGCCTTTAACTTGTCAA
GGTCGACT
Found at i:13057917 original size:57 final size:57
Alignment explanation
Indices: 13057850--13057965 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
13057840 GTTGTGTAAT
13057850 CTTGACTTTTCTTGCCTTTTGACTTGTCGGGGTCGATTATGCTTCCTCCATAGTCGA
1 CTTGACTTTTCTTGCCTTTTGACTTGTCGGGGTCGATTATGCTTCCTCCATAGTCGA
13057907 CTTGACTTTTCTTGCCTTTTGACTTGTCGGGGTCGATTATGCTTCCTCCATAGTCGA
1 CTTGACTTTTCTTGCCTTTTGACTTGTCGGGGTCGATTATGCTTCCTCCATAGTCGA
13057964 CT
1 CT
13057966 ATAGTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (57 bp):
CTTGACTTTTCTTGCCTTTTGACTTGTCGGGGTCGATTATGCTTCCTCCATAGTCGA
Found at i:13060521 original size:28 final size:28
Alignment explanation
Indices: 13060489--13060553 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
13060479 TGACAGTTTT
* * *
13060489 AACATTTTTGTCTTAATTTGGACAAGAA
1 AACATATTTGTCTCAATTTAGACAAGAA
13060517 AACATATTTGTCTCAATTTAGACAAGATA
1 AACATATTTGTCTCAATTTAGACAAGA-A
13060546 AA-ATATTT
1 AACATATTT
13060554 TTTTTGTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 30 0.91
29 3 0.09
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (28 bp):
AACATATTTGTCTCAATTTAGACAAGAA
Found at i:13060741 original size:17 final size:17
Alignment explanation
Indices: 13060719--13060751 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13060709 ATAATAATAA
13060719 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
13060736 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
13060752 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:13062977 original size:28 final size:28
Alignment explanation
Indices: 13062945--13063009 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
13062935 TGACAGCTTT
* *
13062945 AACATTTTTATCTTAATTTAGACAAGAA
1 AACATATTTATCTCAATTTAGACAAGAA
* *
13062973 AACATATTTGTCTCAATTTAGATAAGATA
1 AACATATTTATCTCAATTTAGACAAGA-A
13063002 AA-ATATTT
1 AACATATTT
13063010 TTTTGTCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (28 bp):
AACATATTTATCTCAATTTAGACAAGAA
Found at i:13063196 original size:17 final size:17
Alignment explanation
Indices: 13063174--13063206 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13063164 ATAACAATAA
13063174 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
13063191 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
13063207 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:13064991 original size:2 final size:2
Alignment explanation
Indices: 13064984--13065044 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
13064974 AATAATAATN
*
13064984 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
13065026 TA TA TT TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
13065045 TGTAATGACC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13065994 original size:60 final size:61
Alignment explanation
Indices: 13065871--13066293 Score: 572
Period size: 60 Copynumber: 7.0 Consensus size: 61
13065861 AAACATCATC
* * * *
13065871 ACCTA-TTGTGGGAACTTCCCACACCACCATATATAAATCGAGGCTTCAGGTCCCTCTTTT
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
*
13065931 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCA-GTCCCCCTTTT
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
* *
13065991 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCAGGGCTTCAGGTCCCCC-TTG
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
* * *
13066051 ACCTACTTGTGGGAACTACCCATGCCACCATATATAAATCAGGGCTTTAGGTCCCCCTTTTT
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCC-TTTT
* * *
13066113 ACCTACTTATGGGAACTACCCATGCCACCCA-ATATAAATCGGGGCTTCAGAT-CCCCTTTT
1 ACCTACTTGTGGGAACTACCCACGCCA-CCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
* * * * * *
13066173 TCCTACTCGTGGGAACTACCCACGTCAGCATATATAAATCGGGGCTTCAAGAT-GCCC-TTT
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTC-AGGTCCCCCTTTT
* * *
13066233 ACCTACTAGTGGGAGCTACCCACGTCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
13066294 TTTAATCAAA
Statistics
Matches: 326, Mismatches: 28, Indels: 17
0.88 0.08 0.05
Matches are distributed among these distances:
59 5 0.02
60 212 0.65
61 60 0.18
62 46 0.14
63 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (61 bp):
ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
Found at i:13066187 original size:182 final size:181
Alignment explanation
Indices: 13065871--13066294 Score: 588
Period size: 182 Copynumber: 2.3 Consensus size: 181
13065861 AAACATCATC
* * *
13065871 ACCTA-TTGTGGGAACTTCCCACACCACCATATATAAATCGAGGCTTCAGGTCCCTC-TTTTACC
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCG-GGCTTCAGGTCCCCCTTTTTACC
* *
13065934 TACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGTCCCCCTTTTACCTACTT
65 TACTCATGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGTCCCCCTTTTACCTACTC
*
13065999 GTGGGAACTACCCACGCCACCATATATAAATCAGGGCTTC-AGGTCCCCCTTG
130 GTGGGAACTACCCACGCCACCATATATAAATCAGGGCTTCAAGAT-CCCCTTG
* *
13066051 ACCTACTTGTGGGAACTACCCATGCCACCATATATAAATCAGGGCTTTAGGTCCCCCTTTTTACC
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATC-GGGCTTCAGGTCCCCCTTTTTACC
* * *
13066116 TACTTATGGGAACTACCCATGCCACCCA-ATATAAATCGGGGCTTCAGAT-CCCCTTTTTCCTAC
65 TACTCATGGGAACTACCCACGCCA-CCATATATAAATCGGGGCTTCAG-TCCCCCTTTTACCTAC
* * * * *
13066179 TCGTGGGAACTACCCACGTCAGCATATATAAATCGGGGCTTCAAGATGCCCTTT
128 TCGTGGGAACTACCCACGCCACCATATATAAATCAGGGCTTCAAGATCCCCTTG
* * *
13066233 ACCTACTAGTGGGAGCTACCCACGTCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTTT
1 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATC-GGGCTTCAGGTCCCCCTTTTT
13066295 TTAATCAAAA
Statistics
Matches: 216, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
180 5 0.02
181 44 0.20
182 160 0.74
183 7 0.03
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (181 bp):
ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGCTTCAGGTCCCCCTTTTTACCT
ACTCATGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGTCCCCCTTTTACCTACTCG
TGGGAACTACCCACGCCACCATATATAAATCAGGGCTTCAAGATCCCCTTG
Found at i:13066907 original size:2 final size:2
Alignment explanation
Indices: 13066900--13066937 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
13066890 TACCCACTTA
* *
13066900 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13066938 TTTTTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:13066994 original size:3 final size:3
Alignment explanation
Indices: 13066986--13067064 Score: 58
Period size: 3 Copynumber: 26.3 Consensus size: 3
13066976 CCCTTTCTCT
* * * *
13066986 TTC TTC TTC TTT TTC TTC TTC TTTC TTTC TTC TTCC TGC TTT TTT TTC
1 TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TT-C TTC TTC TTC TTC
13067034 TT- TT- TTC TT- TT- TTC TTC TTTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC T
13067065 CCTTAGCACG
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
2 8 0.12
3 45 0.69
4 12 0.18
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:13067011 original size:7 final size:7
Alignment explanation
Indices: 13066978--13067064 Score: 80
Period size: 7 Copynumber: 13.3 Consensus size: 7
13066968 CTATTACTCC
13066978 CTTTC-T
1 CTTTCTT
13066984 CTTTCTT
1 CTTTCTT
13066991 C-TTCTT
1 CTTTCTT
13066997 -TTTCTT
1 CTTTCTT
13067003 C-TTCTTT
1 CTTTC-TT
13067010 CTTTCTT
1 CTTTCTT
* *
13067017 CTTCCTG
1 CTTTCTT
13067024 CTTT-TT
1 CTTTCTT
13067030 -TTTCTT
1 CTTTCTT
*
13067036 TTTTCTT
1 CTTTCTT
*
13067043 TTTTCTT
1 CTTTCTT
13067050 CTTTCTT
1 CTTTCTT
13067057 C-TTCTT
1 CTTTCTT
13067063 CT
1 CT
13067065 CCTTAGCACG
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
5 3 0.04
6 27 0.40
7 35 0.51
8 3 0.04
ACGTcount: A:0.00, C:0.26, G:0.01, T:0.72
Consensus pattern (7 bp):
CTTTCTT
Found at i:13067109 original size:14 final size:14
Alignment explanation
Indices: 13067090--13067116 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13067080 GCTCCCTTTC
13067090 TCTTTCTTCTTCCA
1 TCTTTCTTCTTCCA
13067104 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
13067117 TCTCCTCGAC
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:0.04, C:0.37, G:0.00, T:0.59
Consensus pattern (14 bp):
TCTTTCTTCTTCCA
Found at i:13067174 original size:18 final size:18
Alignment explanation
Indices: 13067151--13067226 Score: 80
Period size: 18 Copynumber: 4.1 Consensus size: 18
13067141 TCTCTCTTCC
13067151 TTCTTCTTTTTCTTTCTT
1 TTCTTCTTTTTCTTTCTT
* *
13067169 TTCTTCTTTTTCCTTCTA
1 TTCTTCTTTTTCTTTCTT
* * * *
13067187 TCCTTCTCCTTCCTTTCCT
1 TTCTTCT-TTTTCTTTCTT
13067206 TTCTTCTTTCTTCTTTCTT
1 TTCTTCTTT-TTCTTTCTT
13067225 TT
1 TT
13067227 TTTTTTCCTC
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
18 23 0.52
19 21 0.48
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTTCTTTTTCTTTCTT
Found at i:13067233 original size:11 final size:11
Alignment explanation
Indices: 13067145--13067225 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
13067135 TCTCTCTCTC
*
13067145 TCTTCCTTC-T
1 TCTTTCTTCTT
13067155 TCTTT-TTCTT
1 TCTTTCTTCTT
13067165 TCTTTTCTTCTT
1 TC-TTTCTTCTT
* *
13067177 T-TTCCTTCTA
1 TCTTTCTTCTT
* *
13067187 TCCTTCTCCTT
1 TCTTTCTTCTT
*
13067198 CCTTTCCTT-TCT
1 TCTTT-CTTCT-T
13067210 TCTTTCTTCTT
1 TCTTTCTTCTT
13067221 TCTTT
1 TCTTT
13067226 TTTTTTTCCT
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
9 3 0.06
10 15 0.28
11 21 0.40
12 14 0.26
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (11 bp):
TCTTTCTTCTT
Found at i:13071117 original size:37 final size:37
Alignment explanation
Indices: 13071075--13071193 Score: 170
Period size: 37 Copynumber: 3.2 Consensus size: 37
13071065 TAATGTTGTG
13071075 TGATGATGTTGAAGTGTGAGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGAGAGTAGGGAGTGCACACA
* * * *
13071112 TGATGATGAT-AGAGTGTGCGAGTAAGGAGTGCACACG
1 TGATGATGTTGA-AGTGTGAGAGTAGGGAGTGCACACA
13071149 TGATGATGTTGAAGTGT-ACGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGA-GAGTAGGGAGTGCACACA
13071186 TGATGATG
1 TGATGATG
13071194 ATATCGTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.01
37 69 0.97
38 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.37, T:0.24
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGAGAGTAGGGAGTGCACACA
Found at i:13075369 original size:18 final size:19
Alignment explanation
Indices: 13075332--13075370 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13075322 AGACCTAAGG
* *
13075332 AATAAATGAATGATGGTAA
1 AATAAATGAATAAAGGTAA
13075351 AATAAATGAA-AAAGGTAA
1 AATAAATGAATAAAGGTAA
13075369 AA
1 AA
13075371 AGACTGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.21
Consensus pattern (19 bp):
AATAAATGAATAAAGGTAA
Found at i:13076472 original size:43 final size:43
Alignment explanation
Indices: 13076416--13076511 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 43
13076406 TGTGATAATT
* * * *
13076416 ATGA-CCAACTATGTGTGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGATGTAGGAATGCACATGAGCTGATG
13076458 ATGACCCAGCTATGTGCGATGTAGGAATGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGATGTAGGAATGCACATGAGCTGATG
13076501 ATGACCCAGCT
1 ATGACCCAGCT
13076512 GAGGGAAAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 4 0.08
43 45 0.92
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGATGTAGGAATGCACATGAGCTGATG
Found at i:13081851 original size:17 final size:17
Alignment explanation
Indices: 13081811--13081852 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
13081801 TTTGAAGACA
13081811 ATTTATAAAATCATTTC
1 ATTTATAAAATCATTTC
* *
13081828 ATTTA-AACA-CATTTT
1 ATTTATAAAATCATTTC
13081843 ATTTATAAAA
1 ATTTATAAAA
13081853 CCTAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTATAAAATCATTTC
Found at i:13086840 original size:20 final size:21
Alignment explanation
Indices: 13086794--13086843 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
13086784 CTTTCTGATT
* *
13086794 GCCATCTATTGATAGATGGGA
1 GCCATCTATGGATAGATCGGA
*
13086815 GCCATCTATGGATAGATCTG-
1 GCCATCTATGGATAGATCGGA
13086835 GCCATCTAT
1 GCCATCTAT
13086844 CCATAGATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (21 bp):
GCCATCTATGGATAGATCGGA
Found at i:13104456 original size:29 final size:28
Alignment explanation
Indices: 13104411--13104585 Score: 154
Period size: 29 Copynumber: 5.9 Consensus size: 28
13104401 GGCAGCTTTG
*
13104411 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATATTTGTCTTAATTTAGACAAGAAA
*
13104439 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATATTT-GTCTTAATTTAGACAAGAAA
* *
13104468 ATATATTTGCCTTAATTTAAGACAAGAAA
1 ACATATTTGTCTTAATTT-AGACAAGAAA
** * * * *
13104497 ATTTTTTTTTGTTTTAATTTAGTCAACAAA
1 A--CATATTTGTCTTAATTTAGACAAGAAA
*
13104527 ACATATTTATCTTAATTTAGACAAGATAA
1 ACATATTTGTCTTAATTTAGACAAGA-AA
13104556 A-ATATTTTTTTGTCTTAATTATAGACAAGA
1 ACATA----TTTGTCTTAATT-TAGACAAGA
13104586 GTTGTCTTAA
Statistics
Matches: 120, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
28 38 0.32
29 40 0.33
30 9 0.08
31 13 0.11
32 11 0.09
33 9 0.08
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (28 bp):
ACATATTTGTCTTAATTTAGACAAGAAA
Found at i:13104533 original size:59 final size:58
Alignment explanation
Indices: 13104411--13104583 Score: 204
Period size: 59 Copynumber: 2.9 Consensus size: 58
13104401 GGCAGCTTTG
* * * * *
13104411 ACATGTTTGTCTTAATTTAGACAAGAAAACA-TGTTTGGTCTTAATTTAGACAAGAAA
1 ACATATTTGTCTTAATTTAGACAAGAAAATATTTTTTTGTCTTAATTTAGACAACAAA
* * * * *
13104468 ATATATTTGCCTTAATTTAAGACAAGAAAATTTTTTTTTGTTTTAATTTAGTCAACAAA
1 ACATATTTGTCTTAATTT-AGACAAGAAAATATTTTTTTGTCTTAATTTAGACAACAAA
*
13104527 ACATATTTATCTTAATTTAGACAAGATAAAATATTTTTTTGTCTTAATTATAGACAA
1 ACATATTTGTCTTAATTTAGACAAG--AAAATATTTTTTTGTCTTAATT-TAGACAA
13104584 GAGTTGTCTT
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
57 15 0.16
58 18 0.19
59 36 0.38
60 20 0.21
61 6 0.06
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (58 bp):
ACATATTTGTCTTAATTTAGACAAGAAAATATTTTTTTGTCTTAATTTAGACAACAAA
Found at i:13104749 original size:17 final size:17
Alignment explanation
Indices: 13104727--13104759 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13104717 ATAATAATGA
13104727 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
13104744 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
13104760 TTATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:13113534 original size:43 final size:41
Alignment explanation
Indices: 13113473--13113577 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 41
13113463 GTTGCAGAGT
* *
13113473 CTCGTAAGAGGAGTATTTTTCAATTATTTTAAAATTGTGGAGC
1 CTCGT-AGAGGAGTATTTTTCAA-AATTTTAAAATTGTGGAAC
*
13113516 CTCGTATGAGGAGTATTTTTCAAAATTTTAAAGTTGTGGAAC
1 CTCGTA-GAGGAGTATTTTTCAAAATTTTAAAATTGTGGAAC
*
13113558 CTAGTAGAAGGAGTATTTTT
1 CTCGTAG-AGGAGTATTTTT
13113578 TTTTTAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
41 1 0.02
42 34 0.61
43 21 0.38
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (41 bp):
CTCGTAGAGGAGTATTTTTCAAAATTTTAAAATTGTGGAAC
Found at i:13113797 original size:41 final size:41
Alignment explanation
Indices: 13113720--13113801 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
13113710 TACAAAGTTC
* *
13113720 TTTTAAAGTTGTCGACCCTTGTAAGAGGAGTGTTTTTCAAA
1 TTTTAAAGTTGTCGACCCTTATAAGAGGAGTATTTTTCAAA
* ** * *
13113761 TTTTAAAGTTGTGGAGTCTTATAAGTGTAGTATTTTTCAAA
1 TTTTAAAGTTGTCGACCCTTATAAGAGGAGTATTTTTCAAA
13113802 AAAAAAAGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (41 bp):
TTTTAAAGTTGTCGACCCTTATAAGAGGAGTATTTTTCAAA
Found at i:13113806 original size:107 final size:107
Alignment explanation
Indices: 13113585--13113785 Score: 287
Period size: 107 Copynumber: 1.9 Consensus size: 107
13113575 TTTTTTTTAA
* * * *
13113585 AAAAAAAACAAAAACAATTTCAGAGTTCTTTTAAAGTTGTAGAGCCTTGTAGGACGAGTAATTTT
1 AAAAAAAACAAAAACAATTACAAAGTTCTTTTAAAGTTGTAGACCCTTGTAAGACGAGTAATTTT
* * *
13113650 CAAAATTTTAATGTTGTGGAGTTTTGTAAGAAGAGTTCTTTT
66 CAAAATTTTAAAGTTGTGGAGTCTTATAAGAAGAGTTCTTTT
* * * **
13113692 AAAAAAAATAAAAACAATTACAAAGTTCTTTTAAAGTTGTCGACCCTTGTAAGAGGAGTGTTTTT
1 AAAAAAAACAAAAACAATTACAAAGTTCTTTTAAAGTTGTAGACCCTTGTAAGACGAGTAATTTT
13113757 C-AAATTTTAAAGTTGTGGAGTCTTATAAG
66 CAAAATTTTAAAGTTGTGGAGTCTTATAAG
13113786 TGTAGTATTT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
106 25 0.30
107 57 0.70
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (107 bp):
AAAAAAAACAAAAACAATTACAAAGTTCTTTTAAAGTTGTAGACCCTTGTAAGACGAGTAATTTT
CAAAATTTTAAAGTTGTGGAGTCTTATAAGAAGAGTTCTTTT
Done.