Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 169 of 313
Found at i:52842054 original size:11 final size:11
Alignment explanation
Indices: 52842034--52842058 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52842024 CCATATTTAA
52842034 TCTCAATTTGC
1 TCTCAATTTGC
52842045 TCTCAATTTGC
1 TCTCAATTTGC
52842056 TCT
1 TCT
52842059 TAAATTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.08, T:0.48
Consensus pattern (11 bp):
TCTCAATTTGC
Found at i:52842069 original size:11 final size:12
Alignment explanation
Indices: 52842038--52842074 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
52842028 ATTTAATCTC
*
52842038 AATTTGCTC-TC
1 AATTTGCTCTTA
52842049 AATTTGCTCTTA
1 AATTTGCTCTTA
52842061 AATTT-CTCTTA
1 AATTTGCTCTTA
52842072 AAT
1 AAT
52842075 CACTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (12 bp):
AATTTGCTCTTA
Found at i:52844151 original size:11 final size:11
Alignment explanation
Indices: 52844131--52844155 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52844121 CCATATTTAA
52844131 TCTCAATTTGC
1 TCTCAATTTGC
52844142 TCTCAATTTGC
1 TCTCAATTTGC
52844153 TCT
1 TCT
52844156 TAAATTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.08, T:0.48
Consensus pattern (11 bp):
TCTCAATTTGC
Found at i:52844166 original size:11 final size:12
Alignment explanation
Indices: 52844135--52844171 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
52844125 ATTTAATCTC
*
52844135 AATTTGCTC-TC
1 AATTTGCTCTTA
52844146 AATTTGCTCTTA
1 AATTTGCTCTTA
52844158 AATTT-CTCTTA
1 AATTTGCTCTTA
52844169 AAT
1 AAT
52844172 CACTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (12 bp):
AATTTGCTCTTA
Found at i:52846011 original size:18 final size:18
Alignment explanation
Indices: 52845988--52846030 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
52845978 TGCCAGGTGC
* *
52845988 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
52846006 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
52846024 GTTTCCT
1 GTATCCT
52846031 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:52846594 original size:14 final size:14
Alignment explanation
Indices: 52846571--52846624 Score: 76
Period size: 13 Copynumber: 4.0 Consensus size: 14
52846561 TTTAATTGAC
52846571 AAACCCTAAACCCT
1 AAACCCTAAACCCT
*
52846585 AAACCTTAAACCCT
1 AAACCCTAAACCCT
*
52846599 -AACCGTAAACCCT
1 AAACCCTAAACCCT
52846612 AAACCCT-AACCCT
1 AAACCCTAAACCCT
52846625 TAACTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
13 18 0.50
14 18 0.50
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.17
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:52846607 original size:20 final size:20
Alignment explanation
Indices: 52846571--52846624 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
52846561 TTTAATTGAC
*
52846571 AAACCCTAAACCCTAAACCTT
1 AAACCCT-AACCCTAAACCCT
*
52846592 AAACCCTAACCGTAAACCCT
1 AAACCCTAACCCTAAACCCT
52846612 AAACCCTAACCCT
1 AAACCCTAACCCT
52846625 TAACTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.17
Consensus pattern (20 bp):
AAACCCTAACCCTAAACCCT
Found at i:52846643 original size:7 final size:7
Alignment explanation
Indices: 52846571--52846624 Score: 76
Period size: 7 Copynumber: 8.0 Consensus size: 7
52846561 TTTAATTGAC
52846571 AAACCCT
1 AAACCCT
52846578 AAACCCT
1 AAACCCT
*
52846585 AAACCTT
1 AAACCCT
52846592 AAACCCT
1 AAACCCT
*
52846599 -AACCGT
1 AAACCCT
52846605 AAACCCT
1 AAACCCT
52846612 AAACCCT
1 AAACCCT
52846619 -AACCCT
1 AAACCCT
52846625 TAACTTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
6 11 0.26
7 31 0.74
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:52846652 original size:22 final size:22
Alignment explanation
Indices: 52846612--52846676 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
52846602 CGTAAACCCT
52846612 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
** *
52846633 AAACCCTAAACTTTTAACTTAT
1 AAACCCTAAACCCTTAACTTAA
52846655 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
52846677 CTTAAAAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 7 0.19
22 30 0.81
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:52846752 original size:22 final size:21
Alignment explanation
Indices: 52846717--52846772 Score: 94
Period size: 22 Copynumber: 2.6 Consensus size: 21
52846707 CCTAAAACTT
*
52846717 AAACTCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
52846738 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
52846760 AAACCCTAACCCT
1 AAACCCTAACCCT
52846773 AACCCTAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 12 0.36
22 21 0.64
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:52850041 original size:125 final size:125
Alignment explanation
Indices: 52849805--52850248 Score: 620
Period size: 126 Copynumber: 3.5 Consensus size: 125
52849795 CCCAAACATG
* * * * ***
52849805 CTACAGTAGTAAAAGCGCATCAACGTGGGCGCGATTTCACAAATTCTTCTCAATGTTGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTC-ATAAAGCATCCTG
* * *
52849870 CTTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGGC
65 CTTGAAGCATTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
*
52849931 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
52849996 TTGAAGCATTTTTAAACTATTTACTCAGAAACGTCAAGTCAAAATTATTTCTTCCAAGAC
66 TTGAAGCATTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * *
52850056 CTACTGTAGTAAAAGCGCGTCCACGAGGGCGCTG-TTTCACAAATTCTTCTTATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGC-GATTTCACAAATTCTTCTCATAAAGCATCCTG
*
52850120 CTTGAAGTATTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
65 CTTGAAGCA-TTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * * * * * *
52850182 CTACTGTAGCAAAAGCGAATACACGTGGGCGCGACTTCAAAAATTCTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
52850247 TT
66 TT
52850249 TGCTTTTTAG
Statistics
Matches: 284, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
125 133 0.47
126 151 0.53
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
Found at i:52852813 original size:6 final size:6
Alignment explanation
Indices: 52852802--52852827 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52852792 CTATGTTAGA
52852802 ATTTGC ATTTGC ATTTGC ATTTGC AT
1 ATTTGC ATTTGC ATTTGC ATTTGC AT
52852828 CCGAAACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTTGC
Found at i:52853494 original size:20 final size:20
Alignment explanation
Indices: 52853461--52853498 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52853451 GGTTCAACGG
52853461 GTAAGAAAGGGAATGGAACA
1 GTAAGAAAGGGAATGGAACA
* *
52853481 GTAAGTAAGTGAATGGAA
1 GTAAGAAAGGGAATGGAA
52853499 ATGTTCATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.34, T:0.16
Consensus pattern (20 bp):
GTAAGAAAGGGAATGGAACA
Found at i:52855430 original size:20 final size:19
Alignment explanation
Indices: 52855401--52855438 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
52855391 AATGAAAAAG
52855401 AAAATAAAAACAAACAAGAT
1 AAAATAAAAACAAA-AAGAT
*
52855421 AAAATCAAAACAAAAAGA
1 AAAATAAAAACAAAAAGA
52855439 AACACACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.76, C:0.11, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAATAAAAACAAAAAGAT
Found at i:52864744 original size:21 final size:23
Alignment explanation
Indices: 52864718--52864767 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
52864708 AGTTGAAAAC
*
52864718 AGAATAATAAA-AACAATTAAAT
1 AGAATAATAAAGAAAAATTAAAT
*
52864740 A-AAT-ATAAAGAAAAATTAATT
1 AGAATAATAAAGAAAAATTAAAT
52864761 AGAATAA
1 AGAATAA
52864768 GCTCAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 4 0.17
23 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (23 bp):
AGAATAATAAAGAAAAATTAAAT
Found at i:52886608 original size:6 final size:6
Alignment explanation
Indices: 52886597--52886646 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
52886587 AATTTGTTTC
* * * *
52886597 TCATTT TCATTT TCATTT TCATTT CCATTT CCATTT TCACTT CCATTT
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
52886645 TC
1 TC
52886647 GAGAAAACCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (6 bp):
TCATTT
Found at i:52886620 original size:18 final size:18
Alignment explanation
Indices: 52886597--52886646 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
52886587 AATTTGTTTC
*
52886597 TCATTTTCATTTTCATTT
1 TCATTTCCATTTTCATTT
*
52886615 TCATTTCCATTTCCATTT
1 TCATTTCCATTTTCATTT
*
52886633 TCACTTCCATTTTC
1 TCATTTCCATTTTC
52886647 GAGAAAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTTCCATTTTCATTT
Found at i:52887642 original size:17 final size:17
Alignment explanation
Indices: 52887622--52887659 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
52887612 ATTTAGGTTC
*
52887622 GTCTACTATTATAAGTT
1 GTCTACTAATATAAGTT
52887639 GTCTACTAATATAAGTT
1 GTCTACTAATATAAGTT
52887656 GTCT
1 GTCT
52887660 TTTTGTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (17 bp):
GTCTACTAATATAAGTT
Found at i:52889799 original size:13 final size:12
Alignment explanation
Indices: 52889767--52889802 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
52889757 TTCAAAAGTG
52889767 AAAAGAAATAAA
1 AAAAGAAATAAA
*
52889779 AAATGAAATAAA
1 AAAAGAAATAAA
52889791 AAGAAGAAATAA
1 AA-AAGAAATAA
52889803 TTTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (12 bp):
AAAAGAAATAAA
Found at i:52890658 original size:18 final size:18
Alignment explanation
Indices: 52890608--52890662 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
52890598 ATTTAGAGTT
* * *
52890608 ATTTCAATTTTAATCTTG
1 ATTTCGATTCTAATTTTG
52890626 ATTTCGATTCTAATTTTG
1 ATTTCGATTCTAATTTTG
*
52890644 ATTTTGATT-TCAATTTTG
1 ATTTCGATTCT-AATTTTG
52890662 A
1 A
52890663 AACACTCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (18 bp):
ATTTCGATTCTAATTTTG
Found at i:52890701 original size:18 final size:18
Alignment explanation
Indices: 52890680--52890714 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52890670 ACTGATTTTG
* *
52890680 ATTTTGATTTTGATTTCA
1 ATTTCGATTTGGATTTCA
52890698 ATTTCGATTTGGATTTC
1 ATTTCGATTTGGATTTC
52890715 GGTTTGGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (18 bp):
ATTTCGATTTGGATTTCA
Found at i:52893674 original size:17 final size:20
Alignment explanation
Indices: 52893662--52893698 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52893652 TATTATGTTT
52893662 TATTA-TATATTATATATTA
1 TATTATTATATTATATATTA
52893681 TATTATTATATTATATAT
1 TATTATTATATTATATAT
52893699 AAAGTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATTATATTATATATTA
Found at i:52893698 original size:7 final size:7
Alignment explanation
Indices: 52893662--52893691 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
52893652 TATTATGTTT
52893662 TATTATA
1 TATTATA
52893669 TATTATA
1 TATTATA
52893676 TATTATA
1 TATTATA
52893683 TTATTATA
1 -TATTATA
52893691 T
1 T
52893692 TATATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:52893699 original size:17 final size:17
Alignment explanation
Indices: 52893647--52893699 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
52893637 AATAATAAAG
* *
52893647 ATAT-TTATTATGTTTT
1 ATATATTATTATATTAT
52893663 AT-TATATATTATA-TAT
1 ATATAT-TATTATATTAT
52893679 -TATATTATTATATTAT
1 ATATATTATTATATTAT
52893695 ATATA
1 ATATA
52893700 AAGTAAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
15 9 0.30
16 11 0.37
17 10 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATATATTATTATATTAT
Found at i:52894536 original size:37 final size:37
Alignment explanation
Indices: 52894467--52894557 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 37
52894457 TATGTGTGGA
* *
52894467 ATTGAAATGAATAT-TGACTTGAAAATGGAAAAGTAAC
1 ATTGAATTGAAT-TGTGACTTGAAAATGAAAAAGTAAC
* * *
52894504 TTTTGAATTGAATTGTGA-TTGAAAGTGAAAAAGTGAC
1 -ATTGAATTGAATTGTGACTTGAAAATGAAAAAGTAAC
*
52894541 ATTGAATTGAAATGTGA
1 ATTGAATTGAATTGTGA
52894558 AATTGGAGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
36 15 0.33
37 17 0.38
38 13 0.29
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (37 bp):
ATTGAATTGAATTGTGACTTGAAAATGAAAAAGTAAC
Found at i:52896152 original size:22 final size:22
Alignment explanation
Indices: 52896121--52896164 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
52896111 TACACCAAAA
* *
52896121 TAGGCTTTTAGCGGTGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
52896143 TAGGCCTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
52896165 AGCACCGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:52896262 original size:21 final size:21
Alignment explanation
Indices: 52896226--52896291 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
52896216 ACTAAAGACT
**
52896226 TTCCCTCGCTTTAGCCTCTGC
1 TTCCCTCGCTGCAGCCTCTGC
*
52896247 TTCCCTCGCTGCAGCCTGT-C
1 TTCCCTCGCTGCAGCCTCTGC
*
52896267 TTTCTCTCGCTGCCA-CCTCTGC
1 -TTCCCTCGCTG-CAGCCTCTGC
52896289 TTC
1 TTC
52896292 TCTTGCTGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 33 0.89
22 3 0.08
ACGTcount: A:0.05, C:0.44, G:0.15, T:0.36
Consensus pattern (21 bp):
TTCCCTCGCTGCAGCCTCTGC
Found at i:52896292 original size:21 final size:20
Alignment explanation
Indices: 52896240--52896299 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
52896230 CTCGCTTTAG
*
52896240 CCTCTGCTTCCCTCGCTGCA
1 CCTCTGCTTCTCTCGCTGCA
*
52896260 GC-CTGTCTTTCTCTCGCTGCCA
1 CCTCTG-C-TTCTCTCGCTG-CA
*
52896282 CCTCTGCTTCTCTTGCTG
1 CCTCTGCTTCTCTCGCTG
52896300 TCCGCTAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 3 0.09
20 2 0.06
21 20 0.62
22 4 0.12
23 3 0.09
ACGTcount: A:0.03, C:0.43, G:0.17, T:0.37
Consensus pattern (20 bp):
CCTCTGCTTCTCTCGCTGCA
Found at i:52896409 original size:43 final size:43
Alignment explanation
Indices: 52896361--52896548 Score: 234
Period size: 43 Copynumber: 4.4 Consensus size: 43
52896351 AGACTTATAC
* * * *
52896361 CTTTAGCAGCGTTTTTGAGAGAAGCGCTGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGCGGGAAGCGCCGCTATAGATCAGGGT
*
52896404 CTTTAGCGGCATTTTTGCGGGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGCGGGAAGCGCCGCTATAGATCAGGGT
* * *
52896447 CTTTAGTGGCGTTCTTGCGGGAAGAGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGCGGGAAGCGCCGCTATAGATCAGGGT
* * * *
52896490 CTTTAGTGGCGTTTGTG-GTGTAAGCGCCGCTATAGATCAAGGT
1 CTTTAGCGGCGTTTTTGCG-GGAAGCGCCGCTATAGATCAGGGT
* *
52896533 CTTTAGGGGCGCTTTT
1 CTTTAGCGGCGTTTTT
52896549 CCCACAAACG
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 1 0.01
43 126 0.99
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGCGGGAAGCGCCGCTATAGATCAGGGT
Found at i:52896562 original size:86 final size:86
Alignment explanation
Indices: 52896389--52896568 Score: 213
Period size: 86 Copynumber: 2.1 Consensus size: 86
52896379 GAGAAGCGCT
* * *
52896389 GCTATAGATCAGGGTCTTTAGCGGCATTTTTGCGGGAAGCGCCGCTATAGATCAGGGTCTTTAGT
1 GCTATAGATCAGGGTCTTTAGCGGCATTTGTGCGGGAAGCGCCGCTATAGATCAAGGTCTTTAGG
* ***
52896454 GGCGTTCTTGCGGGAAGAGCC
66 GGCGTTCTTCCCACAAGAGCC
* * *
52896475 GCTATAGATCAGGGTCTTTAGTGGCGTTTGTG-GTGTAAGCGCCGCTATAGATCAAGGTCTTTAG
1 GCTATAGATCAGGGTCTTTAGCGGCATTTGTGCG-GGAAGCGCCGCTATAGATCAAGGTCTTTAG
52896539 GGGCGCTT-TTCCCACAA-ACGCC
65 GGGCG-TTCTTCCCACAAGA-GCC
*
52896561 GCAATAGA
1 GCTATAGA
52896569 CCCTGATCAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
85 2 0.03
86 76 0.95
87 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (86 bp):
GCTATAGATCAGGGTCTTTAGCGGCATTTGTGCGGGAAGCGCCGCTATAGATCAAGGTCTTTAGG
GGCGTTCTTCCCACAAGAGCC
Found at i:52896700 original size:87 final size:87
Alignment explanation
Indices: 52896554--52896715 Score: 220
Period size: 87 Copynumber: 1.9 Consensus size: 87
52896544 CTTTTCCCAC
* * *
52896554 AAACGCCGCAATAGACCCTGATCAATAGCGACTCTTCGGCCACAAACGCCACTAAAGACCCTGAT
1 AAACGCCGCAATAGACCCTGATCAATAGCGACGCTTCGGCCAAAAACGCCACTAAAGACCCTAAT
52896619 CTATAGCGGCGTTTTCCCGCAA
66 CTATAGCGGCGTTTTCCCGCAA
* * * * *
52896641 AAACGCCGCTAA-ATACCCTGATCTATAGCGGCGCTTC-TCTCAAAAACGCCGCTAAAGACCCTA
1 AAACGCCGC-AATAGACCCTGATCAATAGCGACGCTTCGGC-CAAAAACGCCACTAAAGACCCTA
52896704 ATCTATAGCGGC
64 ATCTATAGCGGC
52896716 ACTTTTACCA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
86 1 0.02
87 62 0.95
88 2 0.03
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (87 bp):
AAACGCCGCAATAGACCCTGATCAATAGCGACGCTTCGGCCAAAAACGCCACTAAAGACCCTAAT
CTATAGCGGCGTTTTCCCGCAA
Found at i:52896702 original size:43 final size:42
Alignment explanation
Indices: 52896540--52896740 Score: 197
Period size: 43 Copynumber: 4.6 Consensus size: 42
52896530 GGTCTTTAGG
* * *
52896540 GGCGCTTTTCCCACAAACGCCGC-AATAGACCCTGATCAATAGC
1 GGCGCTTCT-CCAAAAACGCCGCTAA-AGACCCTGATCTATAGC
* * * * *
52896583 GACTCTTCGGCCACAAACGCCACTAAAGACCCTGATCTATAGC
1 GGCGCTTC-TCCAAAAACGCCGCTAAAGACCCTGATCTATAGC
* * *
52896626 GGCGTTTTCCCGCAAAAACGCCGCTAAATACCCTGATCTATAGC
1 GGCG-CTTCTC-CAAAAACGCCGCTAAAGACCCTGATCTATAGC
*
52896670 GGCGCTTCTCTCAAAAACGCCGCTAAAGACCCTAATCTATAGC
1 GGCGCTTCTC-CAAAAACGCCGCTAAAGACCCTGATCTATAGC
* * *
52896713 GGCACTTTTACCAAAAACGCCACTAAAG
1 GGCGCTTCT-CCAAAAACGCCGCTAAAG
52896741 GCGAGCACCT
Statistics
Matches: 132, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
43 93 0.70
44 39 0.30
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (42 bp):
GGCGCTTCTCCAAAAACGCCGCTAAAGACCCTGATCTATAGC
Found at i:52896908 original size:10 final size:9
Alignment explanation
Indices: 52896877--52896906 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
52896867 TTAAACAAGT
52896877 AATATAATA
1 AATATAATA
52896886 AATATCAATA
1 AATAT-AATA
52896896 AATATAATA
1 AATATAATA
52896905 AA
1 AA
52896907 ATTCGTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
AATATAATA
Found at i:52902592 original size:16 final size:16
Alignment explanation
Indices: 52902571--52902604 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
52902561 ATAGTTAAGC
52902571 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
52902587 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
52902603 TA
1 TA
52902605 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:52902636 original size:25 final size:25
Alignment explanation
Indices: 52902585--52902640 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
52902575 TAAGTTATGT
* *
52902585 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
52902610 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
52902635 ATTATG
1 ATTATG
52902641 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:52902654 original size:9 final size:9
Alignment explanation
Indices: 52902642--52902780 Score: 62
Period size: 9 Copynumber: 16.3 Consensus size: 9
52902632 AAAATTATGC
52902642 TATGTAAGT
1 TATGTAAGT
52902651 TATGTAAGT
1 TATGTAAGT
* **
52902660 CACATAAGT
1 TATGTAAGT
52902669 TATGTAAG-
1 TATGTAAGT
* * *
52902677 -AAGTTATT
1 TATGTAAGT
52902685 TATGTAAGT
1 TATGTAAGT
*
52902694 TAT-TTA-T
1 TATGTAAGT
* *
52902701 TATGAAAAT
1 TATGTAAGT
*
52902710 TAAGTAAGT
1 TATGTAAGT
*
52902719 TATGTAATT
1 TATGTAAGT
*
52902728 TACG-AA-T
1 TATGTAAGT
* **
52902735 AAT-TAAAAA
1 TATGT-AAGT
*
52902744 AATGTAAGT
1 TATGTAAGT
52902753 TATGTAAG-
1 TATGTAAGT
52902761 T-TGTAAGT
1 TATGTAAGT
52902769 TATGTAAGT
1 TATGTAAGT
52902778 TAT
1 TAT
52902781 CTATAATATT
Statistics
Matches: 93, Mismatches: 27, Indels: 20
0.66 0.19 0.14
Matches are distributed among these distances:
7 16 0.17
8 9 0.10
9 67 0.72
10 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.41
Consensus pattern (9 bp):
TATGTAAGT
Found at i:52902767 original size:16 final size:16
Alignment explanation
Indices: 52902746--52902778 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52902736 ATTAAAAAAA
52902746 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
52902762 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
52902778 T
1 T
52902779 ATCTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:52902821 original size:84 final size:84
Alignment explanation
Indices: 52902664--52902821 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 84
52902654 GTAAGTCACA
* * * * * *
52902664 TAAGTTATGTAAGAAGTTATTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTAATTT
1 TAAGTTATGTAAGAAGTAAGTTATGTAAGTTATCTATAATGAAAATTAACTAACTTATGTAATTT
*
52902729 ACGAATAATTAAAAAAATG
66 AAGAATAATTAAAAAAATG
** *
52902748 TAAGTTATGTAAGTTGTAAGTTATGTAAGTTATCTATAAT-ATTAATTAACTAACTTATGTAATT
1 TAAGTTATGTAAGAAGTAAGTTATGTAAGTTATCTATAATGA-AAATTAACTAACTTATGTAATT
*
52902812 TAAGTATAAT
65 TAAGAATAAT
52902822 ATTAATGTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
83 1 0.02
84 61 0.98
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (84 bp):
TAAGTTATGTAAGAAGTAAGTTATGTAAGTTATCTATAATGAAAATTAACTAACTTATGTAATTT
AAGAATAATTAAAAAAATG
Found at i:52902833 original size:56 final size:56
Alignment explanation
Indices: 52902770--52902955 Score: 189
Period size: 56 Copynumber: 3.2 Consensus size: 56
52902760 GTTGTAAGTT
* * *
52902770 ATGTAAGTTATCTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAATTATGTAATTTAAGTATAATATTA
* * *
52902826 ATGTAAGTTATGTATAATATTAATTAATTATGTAATTAATGTATTGCATTAA-TGTAA-GTT-
1 ATGTAAGTTATGTATAATATTAATTAATTA---AATT-ATGTAAT---TTAAGTATAATATTA
* * * *
52902886 ATGTAATTTATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAATTATGTAATTTAAGTATAATATTA
*
52902942 ATGCAAGTTATGTA
1 ATGTAAGTTATGTA
52902956 ATTTATGTAT
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
53 3 0.03
54 4 0.04
55 2 0.02
56 46 0.44
57 2 0.02
59 3 0.03
60 35 0.33
61 2 0.02
62 4 0.04
63 4 0.04
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAATTATGTAATTTAAGTATAATATTA
Found at i:52902865 original size:22 final size:22
Alignment explanation
Indices: 52902804--52902859 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
52902794 TAACTAACTT
* *
52902804 ATGTAATTTAAGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
52902826 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
52902848 AT-TAA-TTATGTA
1 ATGTAAGTTATGTA
52902860 ATTAATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 22 0.69
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:52902878 original size:51 final size:54
Alignment explanation
Indices: 52902770--52902890 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 54
52902760 GTTGTAAGTT
* *
52902770 ATGTAAGTTATCTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATT-A-TAACTTATGTAATTTAAGTATAACATTA
**
52902826 ATGTAAGTTATGTATAATATTAA-T-TAA-TTATGTAA-TTAATGTATTGCATTA
1 ATGTAAGTTATGTATAATATTAATTATAACTTATGTAATTTAA-GTATAACATTA
52902877 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
52902891 ATTTATGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
50 4 0.07
51 30 0.50
52 3 0.05
55 1 0.02
56 22 0.37
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.45
Consensus pattern (54 bp):
ATGTAAGTTATGTATAATATTAATTATAACTTATGTAATTTAAGTATAACATTA
Found at i:52902891 original size:31 final size:30
Alignment explanation
Indices: 52902826--52902975 Score: 137
Period size: 31 Copynumber: 4.8 Consensus size: 30
52902816 TATAATATTA
*
52902826 ATGTAAGTTATGTA-TAATATTAATTAA-TT
1 ATGTAATTTATGTATTAA-ATTAATTAAGTT
* **
52902855 ATGTAATTAATGTATTGCATTAATGTAAGTT
1 ATGTAATTTATGTATTAAATTAAT-TAAGTT
*
52902886 ATGTAATTTATGTATAATATTAATTAATTAAGTC
1 ATGTAATTTATGTAT--TA--AATTAATTAAGTT
*
52902920 ATGTAATTTATGTA-TAATATTAATGCAAGTT
1 ATGTAATTTATGTATTAA-ATTAAT-TAAGTT
52902951 ATGTAATTTATGTA-TAATATTAATT
1 ATGTAATTTATGTATTAA-ATTAATT
52902976 TTTTTATACA
Statistics
Matches: 101, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
29 19 0.19
30 10 0.10
31 46 0.46
33 1 0.01
34 19 0.19
35 6 0.06
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.47
Consensus pattern (30 bp):
ATGTAATTTATGTATTAAATTAATTAAGTT
Found at i:52902951 original size:65 final size:60
Alignment explanation
Indices: 52902826--52902975 Score: 201
Period size: 65 Copynumber: 2.4 Consensus size: 60
52902816 TATAATATTA
* ** *
52902826 ATGTAAGTTATGTATAATATTAATTAATTATGTAATTAATGTATTGCATTAATGTAAGTT
1 ATGTAATTTATGTATAATATTAATTAATTATGTAATTAATGTATAACATTAATGCAAGTT
* *
52902886 ATGTAATTTATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGCAAGTT
1 ATGTAATTTATGTATAATATTAATTAA-T---T-ATGTAATTAATGTATAACATTAATGCAAGTT
52902951 ATGTAATTTATGTATAATATTAATT
1 ATGTAATTTATGTATAATATTAATT
52902976 TTTTTATACA
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
60 26 0.33
61 1 0.01
64 1 0.01
65 51 0.65
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.47
Consensus pattern (60 bp):
ATGTAATTTATGTATAATATTAATTAATTATGTAATTAATGTATAACATTAATGCAAGTT
Found at i:52904707 original size:44 final size:44
Alignment explanation
Indices: 52904644--52904762 Score: 238
Period size: 44 Copynumber: 2.7 Consensus size: 44
52904634 AAATATTCAA
52904644 CAAATTTGTAATTAACATCGACAGAATAAACAAATTTTTATGCG
1 CAAATTTGTAATTAACATCGACAGAATAAACAAATTTTTATGCG
52904688 CAAATTTGTAATTAACATCGACAGAATAAACAAATTTTTATGCG
1 CAAATTTGTAATTAACATCGACAGAATAAACAAATTTTTATGCG
52904732 CAAATTTGTAATTAACATCGACAGAATAAAC
1 CAAATTTGTAATTAACATCGACAGAATAAAC
52904763 GAAAAATATT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (44 bp):
CAAATTTGTAATTAACATCGACAGAATAAACAAATTTTTATGCG
Found at i:52904780 original size:44 final size:43
Alignment explanation
Indices: 52904643--52904789 Score: 188
Period size: 44 Copynumber: 3.3 Consensus size: 43
52904633 AAAATATTCA
**
52904643 ACAAATTTGTAATTAACATCGACAGAATAAACAAATTTTTATGC
1 ACAAATTTGTAATTAACATCGACAGAATAAACAAA-TAATATGC
* **
52904687 GCAAATTTGTAATTAACATCGACAGAATAAACAAATTTTTATGC
1 ACAAATTTGTAATTAACATCGACAGAATAAACAAA-TAATATGC
* *
52904731 GCAAATTTGTAATTAACATCGACAGAATAAACGAAA-AATATTC
1 ACAAATTTGTAATTAACATCGACAGAATAAAC-AAATAATATGC
52904774 AACAAATTTGTAATTA
1 -ACAAATTTGTAATTA
52904790 CCTATGTTAA
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
43 4 0.04
44 89 0.93
45 3 0.03
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (43 bp):
ACAAATTTGTAATTAACATCGACAGAATAAACAAATAATATGC
Found at i:52905819 original size:21 final size:21
Alignment explanation
Indices: 52905774--52905820 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
52905764 TAAATTTTAG
52905774 TTTTTTTTATTTCCTTTTTACA
1 TTTTTTTTATTT-CTTTTTACA
*
52905796 TTTTTTTTATTT-TTTCTTATA
1 TTTTTTTTATTTCTTT-TTACA
52905817 TTTT
1 TTTT
52905821 GGTCCTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 8 0.35
22 12 0.52
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTTTATTTCTTTTTACA
Found at i:52907432 original size:114 final size:113
Alignment explanation
Indices: 52906985--52907436 Score: 699
Period size: 113 Copynumber: 4.0 Consensus size: 113
52906975 AGATAAAATG
* * * *
52906985 TTTTTGCGGCG-TTTTTAAACAACGCCGCTAAAGGCCTGAGCATTAGCGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-TACAGAAAC
* * *
52907049 GCCGCTAAAGATCCCAAAAACTCAGAAAACGGTGTCGTTGGGCTTAGGA
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTGGGTTTAGGC
52907098 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
*
52907163 CCGCTAAAGACCCCAAAAACTCAGAAAACGGCGTCGTTGGGTTTAGGC
66 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTGGGTTTAGGC
* * * * * *
52907211 TTTTTACGGCGCTTTTAAAAAAATGCCGCTAAAGACCTAAGCATTAGCGGCGCTCTGCTGAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
* *
52907276 CCGCTAAAGACCCTAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGC
66 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTGGGTTTAGGC
* *
52907324 TTTTTGCGGCGCTTTTAAAAAAACGCTGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAAAT
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAG-AAAC
**
52907389 ATCGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTGGGTTTAGG
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTGGGTTTAGG
52907437 GCGCCACTAA
Statistics
Matches: 308, Mismatches: 29, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
113 221 0.72
114 87 0.28
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (113 bp):
TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTGGGTTTAGGC
Found at i:52907507 original size:91 final size:91
Alignment explanation
Indices: 52907352--52907527 Score: 273
Period size: 91 Copynumber: 1.9 Consensus size: 91
52907342 AAAAACGCTG
* *
52907352 CTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAAATATCGCTAAAGACCCCAAAAACTCAGAAA
1 CTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAAACACCGCTAAAGACCCCAAAAACTCAGAAA
* *
52907417 ACGGTGTCGTTGGGTTTAGGGCGCCA
66 ACGGTGCCGTTGGGCTTAGGGCGCCA
* *
52907443 CTAAAGACCTGAGCATTAGCGGCGCTTTATAG-AAACGCCGCTAAAGACCCCCAAAAACTCAGAA
1 CTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAAACACCGCTAAAGA-CCCCAAAAACTCAGAA
*
52907507 AACGGTGCCGTTTGGCTTAGG
65 AACGGTGCCGTTGGGCTTAGG
52907528 CTTTTTGCGG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 12 0.16
91 65 0.84
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (91 bp):
CTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAAACACCGCTAAAGACCCCAAAAACTCAGAAA
ACGGTGCCGTTGGGCTTAGGGCGCCA
Found at i:52907653 original size:40 final size:40
Alignment explanation
Indices: 52907554--52907663 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 40
52907544 CAAAAAAACA
* * *
52907554 CCGCTAATGCTT-ATTTTTAGCGGCGTTTTTTAAAAATCG
1 CCGCTAATGCTTGATTTTTAGCGGCATTTTTCAAAAAGCG
** * ** *
52907593 CCGCTAATAATCGACCTTTAGCGGCATTTTTCCAAAAGCG
1 CCGCTAATGCTTGATTTTTAGCGGCATTTTTCAAAAAGCG
* *
52907633 CCGCTACTGCTTGATTTTTAGTGGCATTTTT
1 CCGCTAATGCTTGATTTTTAGCGGCATTTTT
52907664 TATCTAAACG
Statistics
Matches: 54, Mismatches: 16, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
39 9 0.17
40 45 0.83
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (40 bp):
CCGCTAATGCTTGATTTTTAGCGGCATTTTTCAAAAAGCG
Found at i:52915497 original size:19 final size:19
Alignment explanation
Indices: 52915473--52915509 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
52915463 TTTATTCATA
52915473 AAGTCTAAAAATTATAACT
1 AAGTCTAAAAATTATAACT
52915492 AAGTCTAAAAATTATAAC
1 AAGTCTAAAAATTATAAC
52915510 GTACCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
AAGTCTAAAAATTATAACT
Found at i:52919108 original size:6 final size:6
Alignment explanation
Indices: 52919097--52919135 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
52919087 AGTCCATTTG
*
52919097 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
52919136 CTTAGTCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:52920024 original size:21 final size:21
Alignment explanation
Indices: 52919986--52920025 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
52919976 CCCATAACTC
*
52919986 ATTTTTTTTCTTTAATTGAGA
1 ATTTTTCTTCTTTAATTGAGA
* *
52920007 ATTTTTCTTGTTTTATTGA
1 ATTTTTCTTCTTTAATTGA
52920026 CTCCCTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (21 bp):
ATTTTTCTTCTTTAATTGAGA
Found at i:52921678 original size:103 final size:104
Alignment explanation
Indices: 52921434--52921699 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
52921424 GTTGTACATA
** *
52921434 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
52921499 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
52921538 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
52921602 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
52921641 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
52921700 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:52924788 original size:23 final size:23
Alignment explanation
Indices: 52924761--52924807 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
52924751 TTGTAAATTT
* *
52924761 TCCTATAATTCAAATTTGTTCAA
1 TCCTACAATTCAAATCTGTTCAA
*
52924784 TCCTACAATTCACATCTGTTCAA
1 TCCTACAATTCAAATCTGTTCAA
52924807 T
1 T
52924808 TGTGTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.40
Consensus pattern (23 bp):
TCCTACAATTCAAATCTGTTCAA
Found at i:52925212 original size:36 final size:36
Alignment explanation
Indices: 52925161--52925244 Score: 141
Period size: 36 Copynumber: 2.3 Consensus size: 36
52925151 GTTAGCCATT
*
52925161 TATACCAGCAGCCATGTATAACAACATAAGCAACAA
1 TATACCAGCAACCATGTATAACAACATAAGCAACAA
* *
52925197 TATACTAGCAACCATGTATACCAACATAAGCAACAA
1 TATACCAGCAACCATGTATAACAACATAAGCAACAA
52925233 TATACCAGCAAC
1 TATACCAGCAAC
52925245 AATATTACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.46, C:0.26, G:0.10, T:0.18
Consensus pattern (36 bp):
TATACCAGCAACCATGTATAACAACATAAGCAACAA
Found at i:52925259 original size:36 final size:36
Alignment explanation
Indices: 52925161--52925263 Score: 111
Period size: 36 Copynumber: 2.9 Consensus size: 36
52925151 GTTAGCCATT
* * *
52925161 TATACCAGCAGCCATGTATA-ACAACATAAGCAACAA
1 TATACCAGCAACAATATATACA-AACATAAGCAACAA
* * * *
52925197 TATACTAGCAACCATGTATACCAACATAAGCAACAA
1 TATACCAGCAACAATATATACAAACATAAGCAACAA
52925233 TATACCAGCAACAATAT-TACAAAACATAAGC
1 TATACCAGCAACAATATATAC-AAACATAAGC
52925264 CGGTTTTCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
35 3 0.05
36 55 0.95
ACGTcount: A:0.49, C:0.24, G:0.09, T:0.18
Consensus pattern (36 bp):
TATACCAGCAACAATATATACAAACATAAGCAACAA
Found at i:52925599 original size:3 final size:3
Alignment explanation
Indices: 52925580--52925633 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
52925570 CTATTTTTCC
* * * * *
52925580 TCT TCT CCT TTT TCT TCT TCT TCT TCT TCT CCT TC- TCC TCA TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
52925627 TCT TCT T
1 TCT TCT T
52925634 TTACTTTTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:52929824 original size:7 final size:7
Alignment explanation
Indices: 52929812--52929837 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
52929802 AGTCCGGCAC
52929812 AGGCAAT
1 AGGCAAT
52929819 AGGCAAT
1 AGGCAAT
52929826 AGGCAAT
1 AGGCAAT
52929833 AGGCA
1 AGGCA
52929838 TTCGCAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.31, T:0.12
Consensus pattern (7 bp):
AGGCAAT
Found at i:52946615 original size:43 final size:43
Alignment explanation
Indices: 52946563--52946646 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
52946553 GATTTTCTAA
*
52946563 TAGGTTTCTCAATTGTA-ATTTTATTTCACTAGATTTCTTTCTT
1 TAGGTTTCTCAATTG-AGATTTTATTTCAATAGATTTCTTTCTT
* * *
52946606 TAGGTTTCTCGATTGAGATTTTGTTTCAATTGATTTCTTTC
1 TAGGTTTCTCAATTGAGATTTTATTTCAATAGATTTCTTTC
52946647 CTTTCTACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (43 bp):
TAGGTTTCTCAATTGAGATTTTATTTCAATAGATTTCTTTCTT
Found at i:52954425 original size:54 final size:54
Alignment explanation
Indices: 52954351--52954594 Score: 200
Period size: 54 Copynumber: 4.6 Consensus size: 54
52954341 GGGGTATAAC
* * * *
52954351 GGTTATTTTACCCTATAGGGGTATTTTGGTAATTTTACCCATCGATGGTATTTT
1 GGTTATTTTACCCTATAGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTT
* *
52954405 GGTTATTTTACCCTTTAGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTC
1 GGTTATTTTACCCTATAGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTT
* * * * ** ** * *
52954459 AGTAATTTTA--CGAT---GTTATTTTTATAATTTTACTTATCAGGGGTATTTC
1 GGTTATTTTACCCTATAGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTT
* * *
52954508 GGTAATTTTACCC-ATTA--GGTATTTCGATAATTTTATCCATCGAGGGTATTTT
1 GGTTATTTTACCCTA-TAGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTT
* * * *
52954560 -ATTCATTCTACCCTATAGGAGTATTTCGATCATTT
1 GGTT-ATTTTACCCTATAGGGGTATTTCGATAATTT
52954595 AACAACCTTT
Statistics
Matches: 151, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
49 38 0.25
50 1 0.01
51 3 0.02
52 38 0.25
53 1 0.01
54 70 0.46
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (54 bp):
GGTTATTTTACCCTATAGGGGTATTTCGATAATTTTACCCATCAAGGGTATTTT
Found at i:52954458 original size:27 final size:27
Alignment explanation
Indices: 52954355--52954558 Score: 129
Period size: 27 Copynumber: 7.8 Consensus size: 27
52954345 TATAACGGTT
* * *
52954355 ATTTTACCCTAT-AGGGGTATTTTGGTA
1 ATTTTACCC-ATCAAGGGTATTTCGATA
* * * * *
52954382 ATTTTACCCATCGATGGTATTTTGGTT
1 ATTTTACCCATCAAGGGTATTTCGATA
* * *
52954409 ATTTTACCCTTTAGGGGTATTTCGATA
1 ATTTTACCCATCAAGGGTATTTCGATA
52954436 ATTTTACCCATCAAGGGTATTTC-AGTA
1 ATTTTACCCATCAAGGGTATTTCGA-TA
* * **
52954463 ATTTTA-CGAT----GTTATTTTTATA
1 ATTTTACCCATCAAGGGTATTTCGATA
** * *
52954485 ATTTTACTTATCAGGGGTATTTCGGTA
1 ATTTTACCCATCAAGGGTATTTCGATA
*
52954512 ATTTTACCCAT-TA-GGTATTTCGATA
1 ATTTTACCCATCAAGGGTATTTCGATA
* *
52954537 ATTTTATCCATCGAGGGTATTT
1 ATTTTACCCATCAAGGGTATTT
52954559 TATTCATTCT
Statistics
Matches: 136, Mismatches: 31, Indels: 20
0.73 0.17 0.11
Matches are distributed among these distances:
22 14 0.10
23 3 0.02
25 21 0.15
26 7 0.05
27 91 0.67
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (27 bp):
ATTTTACCCATCAAGGGTATTTCGATA
Found at i:52962434 original size:33 final size:34
Alignment explanation
Indices: 52962384--52962452 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
52962374 CATGCAGAAT
* * * *
52962384 CAGTTTGGGCCTGAGCCCTATATAGT-ATCAGTA
1 CAGTGTGGGCCTGAGCCCAATAGAGTAATCAATA
*
52962417 CAGTGTGGGCCTTAGCCCAATAGAGTAATCAATA
1 CAGTGTGGGCCTGAGCCCAATAGAGTAATCAATA
52962451 CA
1 CA
52962453 ATGCAGTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 22 0.73
34 8 0.27
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (34 bp):
CAGTGTGGGCCTGAGCCCAATAGAGTAATCAATA
Found at i:52962592 original size:26 final size:25
Alignment explanation
Indices: 52962560--52962635 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 25
52962550 AATATCGCAG
* *
52962560 CAAAGCTGCCAGTAATAGTGATATAG
1 CAAAGCTGCCAGTAACAGT-ATATAA
* * *
52962586 TACAGCTGCCAGTAACAGTAATACAA
1 CAAAGCTGCCAGTAACAGT-ATATAA
52962612 CAAAGCTGCCAGTAACAGTATATA
1 CAAAGCTGCCAGTAACAGTATATA
52962636 TGGCAAAGCC
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 4 0.10
26 37 0.90
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (25 bp):
CAAAGCTGCCAGTAACAGTATATAA
Found at i:52962650 original size:27 final size:26
Alignment explanation
Indices: 52962594--52962652 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
52962584 AGTACAGCTG
**
52962594 CCAGTAACAGTAATACAACAAAGCTG
1 CCAGTAACAGTAATACAACAAAGCCA
***
52962620 CCAGTAACAGTATATATGGCAAAGCCA
1 CCAGTAACAGTA-ATACAACAAAGCCA
52962647 CCAGTA
1 CCAGTA
52962653 TAGTATACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (26 bp):
CCAGTAACAGTAATACAACAAAGCCA
Found at i:52963920 original size:27 final size:27
Alignment explanation
Indices: 52963890--52964258 Score: 340
Period size: 27 Copynumber: 13.8 Consensus size: 27
52963880 TATAACAGTT
*
52963890 ATTTTACCCTAT-GAGGGTATTTTAGTC
1 ATTTTACCCT-TCGAGGGTATTTTGGTC
* ** *
52963917 ATTTTACCTTTTAAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTC
* * **
52963944 ATTTTACCCTTCAAGGGTATTTCGACC
1 ATTTTACCCTTCGAGGGTATTTTGGTC
*
52963971 ATTTTACCCTTCGTA-GGTATTTTAGTC
1 ATTTTACCCTTCG-AGGGTATTTTGGTC
*
52963998 ATTTTACCCTTCAAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTTGGTC
* * * *
52964025 ATTTTACCTTTTGAAGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTTGGTC
* * * *
52964052 ATTTTACCTTTCGGGGGTATTTTAGTT
1 ATTTTACCCTTCGAGGGTATTTTGGTC
* * *
52964079 ATTTTACTCTTCGGGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTTGGTC
*
52964106 ATTTTACCCTTCGA--GAATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTTGGTC
* * *** *
52964131 ATTTTACCTTTTGAGGGTATTTCAATT
1 ATTTTACCCTTCGAGGGTATTTTGGTC
*
52964158 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTTGGTC
* * *
52964185 ATTTTACCATT--TGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTTGGTC
52964210 ATTTTACCCTTTAC-A-GGTATTTTGGTC
1 ATTTTACCC-TT-CGAGGGTATTTTGGTC
*
52964237 ATTTTACCCTTCAAGGGTATTT
1 ATTTTACCCTTCGAGGGTATTT
52964259 CGATCATTGT
Statistics
Matches: 278, Mismatches: 54, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
25 43 0.15
26 7 0.03
27 227 0.82
28 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTGGTC
Found at i:52964014 original size:81 final size:79
Alignment explanation
Indices: 52963890--52964266 Score: 384
Period size: 79 Copynumber: 4.7 Consensus size: 79
52963880 TATAACAGTT
* * * *
52963890 ATTTTACCCTAT-GAGGGTATTTTAGTCATTTTACCTTTTAAGGGTATTTTGGTAATTTTACCCT
1 ATTTTACCCT-TCGA-GGTATTTTAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCT
**
52963954 TCAAGGGTATTTCGACC
64 TC-AGGGTATTTCGGTC
* *
52963971 ATTTTACCCTTCGTAGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTTGGTCATTTTACCTTT
1 ATTTTACCCTTCG-AGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACC-CT
* *
52964036 TGAAGGTATTTCGGTC
64 TCAGGGTATTTCGGTC
* * * * **
52964052 ATTTTACCTTTCGGGGGTATTTTAGTTATTTTACTCTTCGGGGGTATTTCGGTCATTTTACCCTT
1 ATTTTACCCTTC-GAGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTT
* * *
52964117 C-GAGAATTTTGGTC
65 CAGGGTATTTCGGTC
* * * * * * *
52964131 ATTTTACCTTTTGAGGGTATTTCAATTATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCATT
1 ATTTTACCCTTCGA-GGTATTTTAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTT
*
52964196 -TGGGTATTTCGGTC
65 CAGGGTATTTCGGTC
* *
52964210 ATTTTACCCTTTAC-AGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTCGATCATT
1 ATTTTACCC-TT-CGAGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTCGGTCATT
52964267 GTGGCCCATT
Statistics
Matches: 249, Mismatches: 39, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
78 1 0.00
79 119 0.48
80 6 0.02
81 119 0.48
82 4 0.02
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (79 bp):
ATTTTACCCTTCGAGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTC
AGGGTATTTCGGTC
Found at i:52969498 original size:21 final size:21
Alignment explanation
Indices: 52969474--52969524 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
52969464 TTTCGTGGTT
52969474 AAAGGTCCTAAGAGGAGTTGG
1 AAAGGTCCTAAGAGGAGTTGG
*
52969495 AAAGGTCCTGAGAGGAGTTGG
1 AAAGGTCCTAAGAGGAGTTGG
*
52969516 AAAAGTCCT
1 AAAGGTCCT
52969525 GGGTTCAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (21 bp):
AAAGGTCCTAAGAGGAGTTGG
Found at i:52971033 original size:27 final size:27
Alignment explanation
Indices: 52970992--52971321 Score: 445
Period size: 27 Copynumber: 12.3 Consensus size: 27
52970982 GGCTTGGGTC
*
52970992 GTAAAATTA-CTGAAATACCTTCGAAGG
1 GTAAAATTATC-GAAATACCCTCGAAGG
* *
52971019 GTAAAATTATCGAAATACCCCCGAAAG
1 GTAAAATTATCGAAATACCCTCGAAGG
* *
52971046 GTAAAATTATTGGAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
* *
52971073 GTAAAAGTACCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
52971100 GTAAAATTATCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
52971127 GTAAAATTATCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
* *
52971154 GTAAAATTATCGAAACACTCT-GAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
* *
52971180 GTAAAATTACCGAAATACCCTCGAAAG
1 GTAAAATTATCGAAATACCCTCGAAGG
* *
52971207 GTAAAATTATCGAAATACCTTTGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
* *
52971234 GTAAAATTA-CTGAAATACCCCCAAAGG
1 GTAAAATTATC-GAAATACCCTCGAAGG
52971261 GTAAAATTATCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
*
52971288 GTAAAATTAT-GAAAATACCC-CCATAGG
1 GTAAAATTATCG-AAATACCCTCGA-AGG
52971315 GTAAAAT
1 GTAAAAT
52971322 GATTGTTATA
Statistics
Matches: 267, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 27 0.10
27 238 0.89
28 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGAAGG
Found at i:52971828 original size:34 final size:34
Alignment explanation
Indices: 52971790--52971860 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
52971780 ATTTACCACC
* *
52971790 GTTACCATTATGGGCTAAGGCCCATACTGATACT
1 GTTACCATTAAGGGCTAAGGCCCAGACTGATACT
** * * *
52971824 GTTACTGTTAAGGGCTTAGGCCTAGACTGATTCT
1 GTTACCATTAAGGGCTAAGGCCCAGACTGATACT
52971858 GTT
1 GTT
52971861 TCTTTAATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (34 bp):
GTTACCATTAAGGGCTAAGGCCCAGACTGATACT
Found at i:52974482 original size:13 final size:14
Alignment explanation
Indices: 52974463--52974520 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 14
52974453 TAAAGTTAAA
52974463 ATATATATTATAAT
1 ATATATATTATAAT
52974477 ATTATAATATTAT-AT
1 A-TAT-ATATTATAAT
*
52974492 CT-TA-ATTATTAAGT
1 ATATATATTA-TAA-T
52974506 ATATATATTATAAT
1 ATATATATTATAAT
52974520 A
1 A
52974521 AGTAAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
11 4 0.11
12 2 0.06
13 2 0.06
14 6 0.17
15 10 0.29
16 11 0.31
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
ATATATATTATAAT
Found at i:52974530 original size:22 final size:21
Alignment explanation
Indices: 52974458--52974530 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
52974448 AAACTTAAAG
52974458 TTAAA-ATATATATTATAATA
1 TTAAATATATATATTATAATA
52974478 TTATAATAT-TATATCT-TAATTA
1 TTA-AATATATATAT-TATAA-TA
*
52974500 TTAAGTATATATATTATAATAA
1 TTAAATATATATATTATAAT-A
*
52974522 GTAAATATA
1 TTAAATATA
52974531 ATAAATAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 3 0.07
21 16 0.37
22 24 0.56
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (21 bp):
TTAAATATATATATTATAATA
Found at i:52974563 original size:20 final size:21
Alignment explanation
Indices: 52974533--52974580 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
52974523 TAAATATAAT
52974533 AAATA-AAAGAAACA-AAAAG
1 AAATAGAAAGAAACAGAAAAG
*
52974552 AAATAGAAAGAAACAGAATAG
1 AAATAGAAAGAAACAGAAAAG
52974573 AAAT-GAAA
1 AAATAGAAA
52974581 TAGGGAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 13 0.50
21 8 0.31
ACGTcount: A:0.73, C:0.04, G:0.15, T:0.08
Consensus pattern (21 bp):
AAATAGAAAGAAACAGAAAAG
Found at i:52975768 original size:17 final size:15
Alignment explanation
Indices: 52975748--52975782 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
52975738 GAATTGAATA
52975748 ATTGTATGATTATAGTT
1 ATTGTATG-TTATA-TT
52975765 ATTGTATGTTATATT
1 ATTGTATGTTATATT
52975780 ATT
1 ATT
52975783 TTACTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (15 bp):
ATTGTATGTTATATT
Found at i:52981343 original size:16 final size:16
Alignment explanation
Indices: 52981322--52981353 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52981312 CAAGTATCTC
52981322 AATTGGGGTTTTGATA
1 AATTGGGGTTTTGATA
*
52981338 AATTGGTGTTTTGATA
1 AATTGGGGTTTTGATA
52981354 TTTTAGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (16 bp):
AATTGGGGTTTTGATA
Found at i:52983903 original size:18 final size:19
Alignment explanation
Indices: 52983863--52983930 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 19
52983853 TTCCGCGATA
*
52983863 AATAACGTTTTGAAA-ATT
1 AATAACGTTTTGAAATATG
*
52983881 TATAACGTTTTGAAATA-G
1 AATAACGTTTTGAAATATG
*
52983899 AATAAC-TTATG-AATATG
1 AATAACGTTTTGAAATATG
*
52983916 AATCACG-TTTGAAAT
1 AATAACGTTTTGAAAT
52983931 TGATCAACAC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 4 0.10
17 13 0.32
18 22 0.55
19 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (19 bp):
AATAACGTTTTGAAATATG
Found at i:52991793 original size:14 final size:14
Alignment explanation
Indices: 52991774--52991800 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52991764 GGTTGTGCTT
52991774 TGACTTTTAATTTG
1 TGACTTTTAATTTG
52991788 TGACTTTTAATTT
1 TGACTTTTAATTT
52991801 TGGTTTTTAT
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:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGACTTTTAATTTG
Found at i:52997440 original size:26 final size:26
Alignment explanation
Indices: 52997392--52997463 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
52997382 TATTATCCCT
**
52997392 ATTTTACCCC-AACAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
*
52997417 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACA
* *
52997443 ATTTTACCCTTGGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
52997464 CAAGAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 10 0.24
26 31 0.76
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:52997633 original size:17 final size:17
Alignment explanation
Indices: 52997611--52997645 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
52997601 TGCAAATGGA
*
52997611 TCATTTCCATTTTCATT
1 TCATTTCCATTTCCATT
52997628 TCATTTCCATTTCCATT
1 TCATTTCCATTTCCATT
52997645 T
1 T
52997646 TTGGAAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (17 bp):
TCATTTCCATTTCCATT
Found at i:53002924 original size:7 final size:7
Alignment explanation
Indices: 53002912--53002939 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
53002902 CCAAGTAGAA
53002912 TAGATCC
1 TAGATCC
53002919 TAGATCC
1 TAGATCC
53002926 TAGATCC
1 TAGATCC
53002933 TAGATCC
1 TAGATCC
53002940 ATTCATGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
TAGATCC
Found at i:53004571 original size:23 final size:23
Alignment explanation
Indices: 53004536--53004580 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
53004526 TTGATCTCCT
**
53004536 GATTGTTCTATTTGATT-ATTTTC
1 GATTGTTAAATTTG-TTGATTTTC
53004559 GATTGTTAAATTTGTTGATTTT
1 GATTGTTAAATTTGTTGATTTT
53004581 TAGTTTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.60
Consensus pattern (23 bp):
GATTGTTAAATTTGTTGATTTTC
Found at i:53009097 original size:60 final size:59
Alignment explanation
Indices: 53008972--53009107 Score: 166
Period size: 59 Copynumber: 2.3 Consensus size: 59
53008962 TTAATTATGG
* * * *
53008972 TTTCTTTTTTGGTTACTCAACTATGAAAAATTACAAAATAGTACCCAACTATTAGTAAA
1 TTTCTTTTTTGGTCACCCAAATATGAAAAATTACAAAATAATACCCAACTATTAGTAAA
* * * **
53009031 TTTCTTTTTTGATCACCCAAATATGAAAAATTACTAAATAATCACCCAACTATTCG-ATT
1 TTTCTTTTTTGGTCACCCAAATATGAAAAATTACAAAATAAT-ACCCAACTATTAGTAAA
53009090 TTGTCTTTTTTGGTCACC
1 TT-TCTTTTTTGGTCACC
53009108 AGTTGGCTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 39 0.60
60 26 0.40
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (59 bp):
TTTCTTTTTTGGTCACCCAAATATGAAAAATTACAAAATAATACCCAACTATTAGTAAA
Found at i:53010792 original size:12 final size:12
Alignment explanation
Indices: 53010768--53010825 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
53010758 GCAGTTTAGT
*
53010768 TACAGAATCAGA
1 TACATAATCAGA
* *
53010780 TGCATATTCAGA
1 TACATAATCAGA
* *
53010792 TACAGAATCAAA
1 TACATAATCAGA
*
53010804 TGCATAATCAGA
1 TACATAATCAGA
53010816 TACATAATCA
1 TACATAATCA
53010826 AATCCTACCC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (12 bp):
TACATAATCAGA
Found at i:53010795 original size:24 final size:24
Alignment explanation
Indices: 53010768--53010828 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
53010758 GCAGTTTAGT
* *
53010768 TACAGAATCAGATGCATATTCAGA
1 TACAGAATCAAATGCATAATCAGA
53010792 TACAGAATCAAATGCATAATCAGA
1 TACAGAATCAAATGCATAATCAGA
*
53010816 TACATAATCAAAT
1 TACAGAATCAAAT
53010829 CCTACCCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (24 bp):
TACAGAATCAAATGCATAATCAGA
Found at i:53012433 original size:59 final size:60
Alignment explanation
Indices: 53012370--53012495 Score: 173
Period size: 60 Copynumber: 2.1 Consensus size: 60
53012360 ATTCTATCTA
* * * * * * *
53012370 AAAAATTCAACAAATTTA-TCCTCAATATTTACAAGATTTGTCATTTTAGTTTAAATTCT
1 AAAAATTCAACAAATTTAGCCCTCAACATTTACAAAATTTGTCAATGTAGTTCAAATTAT
*
53012429 AAAAATTCAATAAATTTAGCCCTCAACATTTACAAAATTTGTCAATGTAGTTCAAATTAT
1 AAAAATTCAACAAATTTAGCCCTCAACATTTACAAAATTTGTCAATGTAGTTCAAATTAT
53012489 AAAAATT
1 AAAAATT
53012496 TCAAAGTCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 17 0.29
60 41 0.71
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (60 bp):
AAAAATTCAACAAATTTAGCCCTCAACATTTACAAAATTTGTCAATGTAGTTCAAATTAT
Found at i:53012703 original size:15 final size:15
Alignment explanation
Indices: 53012685--53012714 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53012675 TATTTATTCT
53012685 TTTTATTTTTAATCA
1 TTTTATTTTTAATCA
*
53012700 TTTTATTTTTTATCA
1 TTTTATTTTTAATCA
53012715 AAATATTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATTTTTAATCA
Found at i:53016834 original size:18 final size:17
Alignment explanation
Indices: 53016811--53016844 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
53016801 TATTTTGATA
53016811 TTTTAATAAAATGTAATC
1 TTTTAA-AAAATGTAATC
*
53016829 TTTTAAACAATGTAAT
1 TTTTAAAAAATGTAAT
53016845 GTGATTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTTAAAAAATGTAATC
Found at i:53016924 original size:11 final size:11
Alignment explanation
Indices: 53016906--53016938 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
53016896 TACACCAATG
53016906 AATAACAAACA
1 AATAACAAACA
*
53016917 ATTAACAAACA
1 AATAACAAACA
53016928 AAT-ACAAACA
1 AATAACAAACA
53016938 A
1 A
53016939 GCATAACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (11 bp):
AATAACAAACA
Found at i:53017441 original size:24 final size:24
Alignment explanation
Indices: 53017427--53017537 Score: 86
Period size: 24 Copynumber: 4.7 Consensus size: 24
53017417 AAATATGAGA
53017427 TAACTTT-AAATAATAATACATAG
1 TAACTTTAAAATAATAATACATAG
* *
53017450 TAACTTTAAAATAATAATACACAA
1 TAACTTTAAAATAATAATACATAG
* * * * *
53017474 TAATTTTAAAACAACAATACACAA
1 TAACTTTAAAATAATAATACATAG
* * *
53017498 TAGA-TTTAAAAGAA-CATACATAA
1 TA-ACTTTAAAATAATAATACATAG
53017521 TGAA-TTTAAAATAATAA
1 T-AACTTTAAAATAATAA
53017538 AACACATACA
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
23 25 0.34
24 48 0.65
25 1 0.01
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.30
Consensus pattern (24 bp):
TAACTTTAAAATAATAATACATAG
Found at i:53017545 original size:30 final size:30
Alignment explanation
Indices: 53017511--53017573 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
53017501 ATTTAAAAGA
53017511 ACATACATAATGAATTTAAAATAATAAAAC
1 ACATACATAATGAATTTAAAATAATAAAAC
53017541 ACATACATAATGAATTTAAAATAATAAAAC
1 ACATACATAATGAATTTAAAATAATAAAAC
53017571 ACA
1 ACA
53017574 AATTCTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.25
Consensus pattern (30 bp):
ACATACATAATGAATTTAAAATAATAAAAC
Found at i:53020159 original size:25 final size:23
Alignment explanation
Indices: 53020125--53020219 Score: 91
Period size: 25 Copynumber: 3.9 Consensus size: 23
53020115 TGGTTTTCTT
*
53020125 GAGCTTCCCGTTATTTGGCTCTCA
1 GAGCTTCCCGATA-TTGGCTCTCA
*
53020149 CGAGCTTCCCGATAATTAGCTCTCA
1 -GAGCTTCCCGAT-ATTGGCTCTCA
* * *
53020174 TGAGCTGCCTGATTAATGGCTCTCTA
1 -GAGCTTCCCGA-TATTGGCTCTC-A
53020200 GAGCTTCCCGATATTGGCTC
1 GAGCTTCCCGATATTGGCTC
53020220 ACATAAGCTT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
24 8 0.14
25 46 0.81
26 3 0.05
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (23 bp):
GAGCTTCCCGATATTGGCTCTCA
Found at i:53020178 original size:50 final size:49
Alignment explanation
Indices: 53020124--53020279 Score: 131
Period size: 49 Copynumber: 3.2 Consensus size: 49
53020114 ATGGTTTTCT
* *
53020124 TGAGCTTCCCG-TTATTTGGCTCTC-ACGAGCTTCCCGATAATTAGCTCTCA
1 TGAGCTTCCCGATTA-ATGGCTCTCTA-GAGCTTCCCGAT-ATTAGCTCACA
* * *
53020174 TGAGCTGCCTGATTAATGGCTCTCTAGAGCTTCCCGATATTGGCTCACA
1 TGAGCTTCCCGATTAATGGCTCTCTAGAGCTTCCCGATATTAGCTCACA
* * * ** * *
53020223 TAAGCTTCCTGATT-ACGGCTCT-TATGAGCTTCCCCTTACATGGCTCACA
1 TGAGCTTCCCGATTAATGGCTCTCTA-GAGCTTCCCGATA-TTAGCTCACA
53020272 TGAGCTTC
1 TGAGCTTC
53020280 TCGTTATATG
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
47 2 0.02
48 18 0.20
49 37 0.41
50 29 0.32
51 4 0.04
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (49 bp):
TGAGCTTCCCGATTAATGGCTCTCTAGAGCTTCCCGATATTAGCTCACA
Found at i:53020252 original size:24 final size:24
Alignment explanation
Indices: 53020140--53020255 Score: 92
Period size: 25 Copynumber: 4.8 Consensus size: 24
53020130 TCCCGTTATT
* * *
53020140 TGGCTCTCACGAGCTTCCCGATAA
1 TGGCTCTCATGAGCTTCCTGATTA
* *
53020164 TTAGCTCTCATGAGCTGCCTGATTAA
1 -TGGCTCTCATGAGCTTCCTGATT-A
*
53020190 TGGCTCTC-TAGAGCTTCCCGA-TA
1 TGGCTCTCAT-GAGCTTCCTGATTA
* *
53020213 TTGGCTCACATAAGCTTCCTGATTA
1 -TGGCTCTCATGAGCTTCCTGATTA
* *
53020238 CGGCTCTTATGAGCTTCC
1 TGGCTCTCATGAGCTTCC
53020256 CCTTACATGG
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
23 1 0.01
24 32 0.45
25 37 0.52
26 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCTGATTA
Found at i:53021320 original size:83 final size:87
Alignment explanation
Indices: 53021162--53021329 Score: 218
Period size: 83 Copynumber: 2.0 Consensus size: 87
53021152 TAACACGGCT
* * * *
53021162 GTGTGTCCCCTGTATCTTAAAAATTTGCATAAGTCAGTATACTTAAAATTGTTCACACGGCCTAG
1 GTGTGTCCCCTGCATCTTAAAAATTTGCATAAGACAGAATACTTAAAATTATTCACACGGCCTAG
* *
53021227 CACATGGGCGTGTGGTTTGGAC
66 CACACGGGCGTGTGGCTTGGAC
* * * *
53021249 GTGTGTCCCCTGCATCTTATAAA-TTGCA-AA-ACAGAATGC-TCAAATTATTCACATGGCCTAG
1 GTGTGTCCCCTGCATCTTAAAAATTTGCATAAGACAGAATACTTAAAATTATTCACACGGCCTAG
53021310 CACACGGGCGTGTGGCTTGG
66 CACACGGGCGTGTGGCTTGG
53021330 CTGTGTAACC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
83 37 0.52
84 6 0.08
85 2 0.03
86 5 0.07
87 21 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (87 bp):
GTGTGTCCCCTGCATCTTAAAAATTTGCATAAGACAGAATACTTAAAATTATTCACACGGCCTAG
CACACGGGCGTGTGGCTTGGAC
Found at i:53021848 original size:15 final size:15
Alignment explanation
Indices: 53021828--53021864 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
53021818 TCATCTAACC
53021828 AAGCTGATTCCGATG
1 AAGCTGATTCCGATG
53021843 AAGCTGATTCCGATG
1 AAGCTGATTCCGATG
53021858 AAGCTGA
1 AAGCTGA
53021865 AAGTAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (15 bp):
AAGCTGATTCCGATG
Found at i:53027054 original size:50 final size:48
Alignment explanation
Indices: 53027000--53027163 Score: 145
Period size: 49 Copynumber: 3.3 Consensus size: 48
53026990 CCTGACATGC
* * * *
53027000 GGCTCTCTTGAGCTTCTAGTTATTTAGCTCTCACGAGTTTCCCGATAGTT
1 GGCTCTCATGAGCTTCTAATTA-ATAGCTCTCACGAGCTTCCCGATA-TT
* **
53027050 GGCTCTCATGAGCTTCCTAATTAATGGCTCTCTGGAGCTTCCCGATATT
1 GGCTCTCATGAGCTT-CTAATTAATAGCTCTCACGAGCTTCCCGATATT
* * * *
53027099 GGCTCGCATGAGCTTCCTAATT-ATGGCTCTTATGAGCTTCCC-ATTATAT
1 GGCTCTCATGAGCTT-CTAATTAATAGCTCTCACGAGCTTCCCGA-TAT-T
53027148 GGCT-TACATGAGCTTC
1 GGCTCT-CATGAGCTTC
53027164 CCATTATATG
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 21 0.21
49 37 0.38
50 33 0.34
51 6 0.06
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (48 bp):
GGCTCTCATGAGCTTCTAATTAATAGCTCTCACGAGCTTCCCGATATT
Found at i:53027077 original size:25 final size:25
Alignment explanation
Indices: 53027049--53027164 Score: 116
Period size: 24 Copynumber: 4.7 Consensus size: 25
53027039 TCCCGATAGT
53027049 TGGCTCTCATGAGCTTCCTAATTAA
1 TGGCTCTCATGAGCTTCCTAATTAA
** *
53027074 TGGCTCTC-TGGAGCTTCCCGA-TAT
1 TGGCTCTCAT-GAGCTTCCTAATTAA
*
53027098 TGGCTCGCATGAGCTTCCTAATT-A
1 TGGCTCTCATGAGCTTCCTAATTAA
* *
53027122 TGGCTCTTATGAGCTTCC-CATTATA
1 TGGCTCTCATGAGCTTCCTAATTA-A
53027147 TGGCT-TACATGAGCTTCC
1 TGGCTCT-CATGAGCTTCC
53027165 CATTATATGA
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
23 3 0.04
24 36 0.49
25 35 0.47
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (25 bp):
TGGCTCTCATGAGCTTCCTAATTAA
Found at i:53027115 original size:49 final size:48
Alignment explanation
Indices: 53027038--53027164 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 48
53027028 TCTCACGAGT
*
53027038 TTCCCGATAGTTGGCTCTCATGAGCTTCCTAATTAATGGCTCTCT-GGAGC
1 TTCCCGATA-TTGGCTCACATGAGCTTCCTAATT-ATGGCTCT-TAGGAGC
* *
53027088 TTCCCGATATTGGCTCGCATGAGCTTCCTAATTATGGCTCTTATGAGC
1 TTCCCGATATTGGCTCACATGAGCTTCCTAATTATGGCTCTTAGGAGC
*
53027136 TTCCC-ATTATATGGCTTACATGAGCTTCC
1 TTCCCGA-TAT-TGGCTCACATGAGCTTCC
53027165 CATTATATGA
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
47 2 0.03
48 20 0.29
49 39 0.56
50 9 0.13
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (48 bp):
TTCCCGATATTGGCTCACATGAGCTTCCTAATTATGGCTCTTAGGAGC
Found at i:53027210 original size:25 final size:25
Alignment explanation
Indices: 53027049--53027210 Score: 129
Period size: 25 Copynumber: 6.6 Consensus size: 25
53027039 TCCCGATAGT
* *
53027049 TGGCTCTCATGAGCTTCCTAATTA-A
1 TGGCTCGCATGAGCTTCC-CATTATA
*
53027074 TGGCTCTC-TGGAGCTTCCCGA-TAT-
1 TGGCTCGCAT-GAGCTTCCC-ATTATA
* *
53027098 TGGCTCGCATGAGCTTCCTAAT-TA
1 TGGCTCGCATGAGCTTCCCATTATA
**
53027122 TGGCTCTTATGAGCTTCCCATTATA
1 TGGCTCGCATGAGCTTCCCATTATA
**
53027147 TGGCTTACATGAGCTTCCCATTATA
1 TGGCTCGCATGAGCTTCCCATTATA
* * * *
53027172 TGACTCGAAAGAGCTTCCCAATTACA
1 TGGCTCGCATGAGCTTCCC-ATTATA
53027198 T-GCTCGCATGAGC
1 TGGCTCGCATGAGC
53027211 ATACCTGTAT
Statistics
Matches: 110, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.02
24 37 0.34
25 65 0.59
26 6 0.05
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
TGGCTCGCATGAGCTTCCCATTATA
Found at i:53029811 original size:34 final size:34
Alignment explanation
Indices: 53029766--53029847 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
53029756 AAATATACAA
*
53029766 ATATCATATCAGAATGTCACATTACCAGAAACAT
1 ATATCATATCAGAATGTAACATTACCAGAAACAT
* * * * *
53029800 ATATCAAATCAGATTGTAATATTTCTAGAAACAT
1 ATATCATATCAGAATGTAACATTACCAGAAACAT
53029834 ATATCATATCAGAA
1 ATATCATATCAGAA
53029848 CAAATCCTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (34 bp):
ATATCATATCAGAATGTAACATTACCAGAAACAT
Found at i:53034257 original size:15 final size:15
Alignment explanation
Indices: 53034237--53034275 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
53034227 GATTGGCAAT
53034237 ACATTTAATTTATAC
1 ACATTTAATTTATAC
53034252 ACATTTAATTTATAC
1 ACATTTAATTTATAC
*
53034267 ACATATAAT
1 ACATTTAAT
53034276 CAAAATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (15 bp):
ACATTTAATTTATAC
Found at i:53045529 original size:56 final size:56
Alignment explanation
Indices: 53045426--53045542 Score: 123
Period size: 56 Copynumber: 2.1 Consensus size: 56
53045416 ATTAATATAA
* * * *
53045426 TATTTATCAAAATAAGTATTAGATTTAATATTAAATATATTAAATTAATAGAATATT
1 TATTTATCAAAATAAGAATTAAATTTAATATTAAATAAATTAAATTAAAAGAA-ATT
* * *
53045483 TATTTAT-AAGATAAGAATTAAATTTAAT-TTAATAATAAATT-TATTAAAATAAATT
1 TATTTATCAAAATAAGAATTAAATTTAATATT-A-AATAAATTAAATTAAAAGAAATT
53045538 TATTT
1 TATTT
53045543 TTGGAATAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
55 10 0.20
56 27 0.53
57 14 0.27
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (56 bp):
TATTTATCAAAATAAGAATTAAATTTAATATTAAATAAATTAAATTAAAAGAAATT
Found at i:53045535 original size:14 final size:15
Alignment explanation
Indices: 53045501--53045541 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
53045491 AGATAAGAAT
53045501 TAAATTTAATTTAATAA
1 TAAATTT-A-TTAATAA
53045518 TAAATTTATTAA-AA
1 TAAATTTATTAATAA
53045532 TAAATTTATT
1 TAAATTTATT
53045542 TTTGGAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.50
15 4 0.17
16 1 0.04
17 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAATTTATTAATAA
Found at i:53046010 original size:18 final size:18
Alignment explanation
Indices: 53045984--53046025 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
53045974 TTTAATTAAT
53045984 TTGATTAATTTAATTTTGA
1 TTGA-TAATTTAATTTTGA
53046003 TTGATAATTTAATTTTGA
1 TTGATAATTTAATTTTGA
53046021 TTGAT
1 TTGAT
53046026 CGAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (18 bp):
TTGATAATTTAATTTTGA
Found at i:53056945 original size:96 final size:96
Alignment explanation
Indices: 53056832--53057122 Score: 550
Period size: 96 Copynumber: 3.1 Consensus size: 96
53056822 CTCTACTTAT
*
53056832 AGAGAA-A-AGTACAAGAGTTATGCTTGAATAAGTTCTGATTAAATAATAATAATTTAATAGAAA
1 AGAGAATATAGTACAAGAGTTATGCTTGAATAAGTCCTGATTAAATAATAATAATTTAATAGAAA
53056895 ATACAACTCCTACTTAAACTATAAGAGAAAG
66 ATACAACTCCTACTTAAACTATAAGAGAAAG
53056926 AGAGAATATAGTACAAGAGTTATGCTTGAATAAGTCCTGATTAAATAATAATAATTTAATAGAAA
1 AGAGAATATAGTACAAGAGTTATGCTTGAATAAGTCCTGATTAAATAATAATAATTTAATAGAAA
53056991 ATACAACTCCTACTTAAACTATAAGAGAAAG
66 ATACAACTCCTACTTAAACTATAAGAGAAAG
53057022 AGAGAATATAGTACAAGAGTTATGCTTGAATAAGTCCTGATTAAATAATAATAATTTAATAGAAA
1 AGAGAATATAGTACAAGAGTTATGCTTGAATAAGTCCTGATTAAATAATAATAATTTAATAGAAA
*
53057087 ATACAACTCCTACTTAAACTATAAGAGAGAG
66 ATACAACTCCTACTTAAACTATAAGAGAAAG
53057118 AGAGA
1 AGAGA
53057123 GAAGGGTGGC
Statistics
Matches: 193, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
94 6 0.03
95 1 0.01
96 186 0.96
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.27
Consensus pattern (96 bp):
AGAGAATATAGTACAAGAGTTATGCTTGAATAAGTCCTGATTAAATAATAATAATTTAATAGAAA
ATACAACTCCTACTTAAACTATAAGAGAAAG
Found at i:53065217 original size:18 final size:18
Alignment explanation
Indices: 53065179--53065217 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
53065169 AAATTAAAGT
*
53065179 ATTAATTAAACTAATTAA
1 ATTAATTAAACTAATGAA
* *
53065197 ATTAATTAACCTAATGGA
1 ATTAATTAAACTAATGAA
53065215 ATT
1 ATT
53065218 TCCTATGCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTAATTAAACTAATGAA
Found at i:53065706 original size:12 final size:12
Alignment explanation
Indices: 53065676--53065709 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
53065666 TTAACGAACT
*
53065676 ATAAATAAAAGG
1 ATAAAGAAAAGG
53065688 ATAAAAGAAAAGG
1 AT-AAAGAAAAGG
53065701 ATAAAGAAA
1 ATAAAGAAA
53065710 TTTCTCATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (12 bp):
ATAAAGAAAAGG
Found at i:53074801 original size:60 final size:60
Alignment explanation
Indices: 53074713--53074833 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
53074703 ATTTTTTAGA
53074713 TCGATATTCGGGATACAACCAAATAGTTGTAACCCTGAAAGACCAACACAAAACCATTTT
1 TCGATATTCGGGATACAACCAAATAGTTGTAACCCTGAAAGACCAACACAAAACCATTTT
53074773 TCGATATTCGGGATACAACCAAATAGTTGTAACCCTGAAAGACCAACACAAAACCATTTT
1 TCGATATTCGGGATACAACCAAATAGTTGTAACCCTGAAAGACCAACACAAAACCATTTT
53074833 T
1 T
53074834 ACTTGCTCGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (60 bp):
TCGATATTCGGGATACAACCAAATAGTTGTAACCCTGAAAGACCAACACAAAACCATTTT
Found at i:53088080 original size:15 final size:15
Alignment explanation
Indices: 53088035--53088142 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
53088025 CCAATATCTC
53088035 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
53088050 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
53088065 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
53088080 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
53088095 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
53088110 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
53088125 GATACCCATATCTTT
1 GATACCCATATCTTT
53088140 GAT
1 GAT
53088143 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 14 0.20
15 41 0.59
16 14 0.20
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:53088149 original size:30 final size:30
Alignment explanation
Indices: 53088035--53088149 Score: 212
Period size: 30 Copynumber: 3.8 Consensus size: 30
53088025 CCAATATCTC
*
53088035 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
53088065 GATACCCATATCTTTGACTTTCCATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
53088095 GATACCCATATCTTTGACTTTCCATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
*
53088125 GATACCCATATCTTTGATTTTCCAT
1 GATACCCATATCTTTGACTTTCCAT
53088150 AAATATGGAT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.24, C:0.23, G:0.07, T:0.45
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCCATTATTT
Found at i:53092764 original size:30 final size:30
Alignment explanation
Indices: 53092718--53092811 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
53092708 TTTTATTATG
*
53092718 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
53092749 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
53092779 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
53092809 CCA
1 CCA
53092812 TAAATATTGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:53092773 original size:15 final size:15
Alignment explanation
Indices: 53092728--53092805 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
53092718 CCAATATCTC
53092728 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
53092743 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
53092758 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
53092773 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
53092788 GATACCCATATCTTT
1 GATACCCATATCTTT
53092803 GAT
1 GAT
53092806 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:53093168 original size:24 final size:23
Alignment explanation
Indices: 53093138--53093182 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
53093128 TTTTTTTATG
53093138 ATTTTTAATGATTTTTAAAAATAA
1 ATTTTTAAT-ATTTTTAAAAATAA
*
53093162 ATTTTTAATTTTTTTAAAAAT
1 ATTTTTAATATTTTTAAAAAT
53093183 TAGTTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTTTAATATTTTTAAAAATAA
Found at i:53096220 original size:7 final size:7
Alignment explanation
Indices: 53096208--53096232 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53096198 AAAAATTAAC
53096208 AAATTTT
1 AAATTTT
53096215 AAATTTT
1 AAATTTT
53096222 AAATTTT
1 AAATTTT
53096229 AAAT
1 AAAT
53096233 AAGAAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:53104371 original size:25 final size:25
Alignment explanation
Indices: 53104326--53104398 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
53104316 TGTTAGTGAA
* *
53104326 TTATTTATAAATAAATATTAATAACT
1 TTATTTA-ATATAAATTTTAATAACT
**
53104352 TTATTTAATATAAATTTTAATATTT
1 TTATTTAATATAAATTTTAATAACT
*
53104377 TAATATTTAATATATATTTTAA
1 T--TATTTAATATAAATTTTAA
53104399 ACTGTAGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 15 0.38
26 7 0.17
27 18 0.45
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATTTAATATAAATTTTAATAACT
Found at i:53104727 original size:17 final size:19
Alignment explanation
Indices: 53104690--53104727 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
53104680 TAGCTTTCAT
*
53104690 AACACTAAATTAAGCCATA
1 AACACTAAATTAAGACATA
53104709 AACAC-AAATTAA-ACATA
1 AACACTAAATTAAGACATA
53104726 AA
1 AA
53104728 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 7 0.39
19 5 0.28
ACGTcount: A:0.61, C:0.18, G:0.03, T:0.18
Consensus pattern (19 bp):
AACACTAAATTAAGACATA
Found at i:53105207 original size:26 final size:23
Alignment explanation
Indices: 53105172--53105225 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 23
53105162 CCTATTTAGT
*
53105172 TTTTGGTGATTACAATTTATTTTTAA
1 TTTTGGTGATT--AA-TTATTTTGAA
*
53105198 TTTTGTTGATTAATTATTTTGAA
1 TTTTGGTGATTAATTATTTTGAA
53105221 TTTTG
1 TTTTG
53105226 AACTTAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.54
24 2 0.08
26 10 0.38
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.61
Consensus pattern (23 bp):
TTTTGGTGATTAATTATTTTGAA
Found at i:53106872 original size:15 final size:15
Alignment explanation
Indices: 53106854--53106886 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
53106844 CAAATGCTAA
53106854 AATAATAAATACATC
1 AATAATAAATACATC
53106869 AATAATAAATACATC
1 AATAATAAATACATC
53106884 AAT
1 AAT
53106887 GGCATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAAATACATC
Found at i:53106912 original size:13 final size:12
Alignment explanation
Indices: 53106894--53106932 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
53106884 AATGGCATAA
53106894 AAATAATATAAAC
1 AAATAA-ATAAAC
53106907 AAATAAATAAAC
1 AAATAAATAAAC
53106919 GAAATAAA-AAAC
1 -AAATAAATAAAC
53106931 AA
1 AA
53106933 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:53107474 original size:28 final size:28
Alignment explanation
Indices: 53107416--53107474 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
53107406 ATATATTTTT
* *
53107416 AAAAAATAATTAAATATGAAAAATAATA
1 AAAAAATAATTAAATATAAAAAATAAGA
53107444 AAAAAACTAATT-AATA-AAAAAATAAAGA
1 AAAAAA-TAATTAAATATAAAAAAT-AAGA
53107472 AAA
1 AAA
53107475 TGAAAAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.22
28 16 0.59
29 5 0.19
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (28 bp):
AAAAAATAATTAAATATAAAAAATAAGA
Found at i:53108887 original size:40 final size:40
Alignment explanation
Indices: 53108838--53108981 Score: 121
Period size: 40 Copynumber: 3.3 Consensus size: 40
53108828 CAATCTAATC
53108838 CTCTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCT
1 CTCTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCT
* *
53108878 CTCTGCAACTTC-AGAGAGATAAGATCCAAGATTTGTGGTTCTAATCCGCT
1 CTCTGCAACTTCAAG-GAGATAAGA--CTAGA--TGT-G-----ATCTGCT
* *
53108928 C-CATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCT
1 CTC--TGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCT
53108969 CTCTGCAACTTCA
1 CTCTGCAACTTCA
53108982 GATAGATAAG
Statistics
Matches: 83, Mismatches: 6, Indels: 30
0.70 0.05 0.25
Matches are distributed among these distances:
39 2 0.02
40 31 0.37
41 7 0.08
42 5 0.06
44 3 0.04
45 1 0.01
46 1 0.01
47 2 0.02
49 5 0.06
50 7 0.08
51 18 0.22
52 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (40 bp):
CTCTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCT
Done.