Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 28 of 320
Found at i:7872397 original size:6 final size:6
Alignment explanation
Indices: 7872386--7872427 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
7872376 GAGACCTTTA
*
7872386 TTTTTC TTTTTC TTTTTC TTTCTTT TCTTTTC -TTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTT-TTC T-TTTTC TTTTTC TTTTT
7872428 GGGCCTGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 5 0.16
6 19 0.61
7 5 0.16
8 2 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:7872409 original size:4 final size:5
Alignment explanation
Indices: 7872387--7872426 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
7872377 AGACCTTTAT
7872387 TTTTC TTTTTC TTTT- TCTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC -TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC TTTT
7872427 TGGGCCTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.03
5 25 0.78
6 6 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:7872625 original size:7 final size:7
Alignment explanation
Indices: 7872610--7872644 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
7872600 ACAACAAGCA
*
7872610 TTCTATT
1 TTCTTTT
7872617 TTCTTTT
1 TTCTTTT
7872624 TT-TTTT
1 TTCTTTT
7872630 TTCTTTT
1 TTCTTTT
7872637 TTCTTTT
1 TTCTTTT
7872644 T
1 T
7872645 GCCATATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (7 bp):
TTCTTTT
Found at i:7872633 original size:13 final size:14
Alignment explanation
Indices: 7872610--7872644 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
7872600 ACAACAAGCA
*
7872610 TTCTATTTTCTTTT
1 TTCTTTTTTCTTTT
7872624 TT-TTTTTTCTTTT
1 TTCTTTTTTCTTTT
7872637 TTCTTTTT
1 TTCTTTTT
7872645 GCCATATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (14 bp):
TTCTTTTTTCTTTT
Found at i:7872959 original size:144 final size:147
Alignment explanation
Indices: 7872797--7873102 Score: 433
Period size: 147 Copynumber: 2.1 Consensus size: 147
7872787 TGGGAATTTT
* *
7872797 TTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGA-TTTTTAGTCATATTAA-A
1 TTTTTTAAAAAAAAAGAAAATTTAGATTTTTAAAATAAAAATAT-ATTTTTTAGTCATATTAAGA
** *
7872860 GGAAATTT-AA-TTCTTAAAACAAAGTTTTGATCTTTTTCAATTATTTCAAAATAAA-TTTTAGA
65 AAAAATTTAAATTTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAGTTTT-GA
*
7872922 TTTTTAAGAAAAATAGTGA
129 TTTTTAAGAAAAATAGTAA
* * * *
7872941 TTTTTAAAAAAAAAAGAAAATTTAGATTTTTAAAATAAAATTCTATTTTTTAGTCATTTTAAGAA
1 TTTTTTAAAAAAAAAGAAAATTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATATTAAGAA
* *
7873006 AAAATTTAAATTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTAAAATAAAGTTTTGATT
66 AAAATTTAAATTTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAGTTTTGATT
*
7873071 TTTAAGAAATATAGTAA
131 TTTAAGAAAAATAGTAA
*
7873088 TTTTTTAAAAGAAAA
1 TTTTTTAAAAAAAAA
7873103 TTTTGATTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
143 1 0.01
144 54 0.38
145 7 0.05
146 2 0.01
147 74 0.52
148 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (147 bp):
TTTTTTAAAAAAAAAGAAAATTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATATTAAGAA
AAAATTTAAATTTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAGTTTTGATT
TTTAAGAAAAATAGTAA
Found at i:7872960 original size:26 final size:26
Alignment explanation
Indices: 7872931--7872980 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
7872921 ATTTTTAAGA
7872931 AAAATAGT-GATTTTTAAAAAAAAAAG
1 AAAAT-GTAGATTTTTAAAAAAAAAAG
* *
7872957 AAAATTTAGATTTTTAAAATAAAA
1 AAAATGTAGATTTTTAAAAAAAAA
7872981 TTCTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (26 bp):
AAAATGTAGATTTTTAAAAAAAAAAG
Found at i:7876316 original size:47 final size:47
Alignment explanation
Indices: 7876245--7876383 Score: 260
Period size: 47 Copynumber: 3.0 Consensus size: 47
7876235 AATTTTGTTT
*
7876245 TATTTTAGGTAAAGCGATAGATAACCATTTATATGGCCTATGTATTC
1 TATTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTC
*
7876292 TGTTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTC
1 TATTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTC
7876339 TATTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTAT
1 TATTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTAT
7876384 GCAAAGAGAT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 89 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (47 bp):
TATTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTC
Found at i:7877736 original size:48 final size:48
Alignment explanation
Indices: 7877665--7877797 Score: 178
Period size: 48 Copynumber: 2.8 Consensus size: 48
7877655 CATTAAGGGA
* * * * * *
7877665 TACTTTGATTTAGCTTCAGGCCATTATATCGGCACTTCGGGTGTGAGT
1 TACTTTGATTTGGCTTCGGGCCATGATATCAGCACTTCAGGTGTGAAT
7877713 TACTTTGATTTGGCTTCGGGCCATGATATCAGCACTTCAGGTGTGAAT
1 TACTTTGATTTGGCTTCGGGCCATGATATCAGCACTTCAGGTGTGAAT
* *
7877761 T-TTATTGATTTGGCTTCGGGCCATGATATTAGCACTT
1 TACT-TTGATTTGGCTTCGGGCCATGATATCAGCACTT
7877798 GTGGAGCGAG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 75 0.99
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (48 bp):
TACTTTGATTTGGCTTCGGGCCATGATATCAGCACTTCAGGTGTGAAT
Found at i:7877816 original size:48 final size:47
Alignment explanation
Indices: 7877663--7877845 Score: 170
Period size: 48 Copynumber: 3.8 Consensus size: 47
7877653 TTCATTAAGG
* * * *
7877663 GATACTTTGATTTAGCTTCAGGCCATTATATCGGCACTTCGGGTGTGA
1 GATACATTGATTTAGCTTCGGGCCATGATATCAGCACTT-GGGTGTGA
* * * *
7877711 GTTACTTTGATTTGGCTTCGGGCCATGATATCAGCACTTCAGGTGTGA
1 GATACATTGATTTAGCTTCGGGCCATGATATCAGCACTT-GGGTGTGA
** * * * *
7877759 -ATTTTATTGATTTGGCTTCGGGCCATGATATTAGCACTTGTGGAGCGA
1 GA-TACATTGATTTAGCTTCGGGCCATGATATCAGCACTTG-GGTGTGA
* * *
7877807 GATACATTGAGTTAGCTTTGGGCCATGATATGAGCACTT
1 GATACATTGATTTAGCTTCGGGCCATGATATCAGCACTT
7877846 AATGTGCGAT
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
48 111 0.99
49 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (47 bp):
GATACATTGATTTAGCTTCGGGCCATGATATCAGCACTTGGGTGTGA
Found at i:7884098 original size:3 final size:3
Alignment explanation
Indices: 7884090--7884114 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7884080 TATGTATACA
7884090 TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT T
7884115 TTTTTAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:7893143 original size:40 final size:39
Alignment explanation
Indices: 7893091--7893180 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
7893081 ACTAAGTTGT
**
7893091 GAAATGTAGGTATGGTA-T-T--ATCCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTATAAATCCATACTGAGCTAA
*
7893126 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTAT-AAATCCATACTGAGCTAA
7893166 GAAATGTAGGTATGG
1 GAAATGTAGGTATGG
7893181 CATTTCCCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
35 17 0.36
36 1 0.02
37 1 0.02
40 28 0.60
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (39 bp):
GAAATGTAGGTATGGTATTATAAATCCATACTGAGCTAA
Found at i:7893144 original size:35 final size:35
Alignment explanation
Indices: 7893053--7893219 Score: 183
Period size: 35 Copynumber: 4.6 Consensus size: 35
7893043 CATGGCAAAG
* * *
7893053 TGTGAAATGTAGGTATGGTATCATACATACTAAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
7893088 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
7893123 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
** * *
7893163 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
**
7893198 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
7893220 TCAATGAGGA
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 80 0.70
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.25
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:7893191 original size:75 final size:75
Alignment explanation
Indices: 7893053--7893223 Score: 203
Period size: 75 Copynumber: 2.4 Consensus size: 75
7893043 CATGGCAAAG
** *
7893053 TGTGAAATGTAGGTATGG---TATC--ATACATACTAAGTTGTGAAATGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATCAAATACATACTAAGTTAAGAAATGTAGGTATGGCATTATC
*
7893113 CATACTGAGC
66 CATACCGAGC
* *
7893123 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
1 TGTGAAATGTAGGTATGGTATTATCAAATACATACTAAGTTAAGAAATGTAGGTATGGCATTAT-
*
7893187 CCATACCGAGT
65 CCATACCGAGC
**
7893198 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
7893224 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 59 0.69
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATACATACTAAGTTAAGAAATGTAGGTATGGCATTATC
CATACCGAGC
Found at i:7893423 original size:56 final size:56
Alignment explanation
Indices: 7893337--7893448 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
7893327 TCCAAATGAA
7893337 AGAGATTGAGTAGTTGTTATTGTTGAGCTCAACTATGTGAATTATTATAACAATGG
1 AGAGATTGAGTAGTTGTTATTGTTGAGCTCAACTATGTGAATTATTATAACAATGG
7893393 AGAGATTGAGTAGTTGTTATTGTTGAGCTCAACTATGTGAATTATTATAACAATGG
1 AGAGATTGAGTAGTTGTTATTGTTGAGCTCAACTATGTGAATTATTATAACAATGG
7893449 TTGTGAATCG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (56 bp):
AGAGATTGAGTAGTTGTTATTGTTGAGCTCAACTATGTGAATTATTATAACAATGG
Found at i:7903833 original size:18 final size:18
Alignment explanation
Indices: 7903812--7903850 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
7903802 ACTTCTTCGA
7903812 ATTTGTTTACCTATTATT
1 ATTTGTTTACCTATTATT
*
7903830 ATTTGTTTATCTATTATT
1 ATTTGTTTACCTATTATT
7903848 ATT
1 ATT
7903851 ATTCATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTGTTTACCTATTATT
Found at i:7920871 original size:18 final size:19
Alignment explanation
Indices: 7920837--7920872 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7920827 TGAGGAAAAT
7920837 CTCAAACACACAAATGAAA
1 CTCAAACACACAAATGAAA
*
7920856 CTCAAACAGA-AAATGAA
1 CTCAAACACACAAATGAA
7920873 GAAATAGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.22, G:0.08, T:0.11
Consensus pattern (19 bp):
CTCAAACACACAAATGAAA
Found at i:7924044 original size:14 final size:14
Alignment explanation
Indices: 7924025--7924066 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
7924015 ACTGTGTTTT
7924025 TATATATATATGTG
1 TATATATATATGTG
*
7924039 TATATATATATTTCG
1 TATATATATATGT-G
7924054 TATAT-TA-ATGTG
1 TATATATATATGTG
7924066 T
1 T
7924067 GTTGAAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 2 0.08
13 3 0.12
14 14 0.56
15 6 0.24
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (14 bp):
TATATATATATGTG
Found at i:7928694 original size:25 final size:23
Alignment explanation
Indices: 7928665--7928711 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
7928655 AATAAAAAAC
*
7928665 TTTAAAATATAATAAATCAAATATA
1 TTTAAAACATAA-AAA-CAAATATA
7928690 TTTAAAACATAAAAACAAATAT
1 TTTAAAACATAAAAACAAATAT
7928712 TAAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 11 0.52
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATATA
Found at i:7928728 original size:19 final size:20
Alignment explanation
Indices: 7928691--7928729 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7928681 TCAAATATAT
7928691 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
7928711 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
7928730 AAAAATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:7928966 original size:17 final size:18
Alignment explanation
Indices: 7928923--7928968 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
7928913 CTAAAGTTAC
*
7928923 TTAAAATTAAAAATAAAT
1 TTAATATTAAAAATAAAT
* *
7928941 TT-TTTTTAAAAAT-AAT
1 TTAATATTAAAAATAAAT
7928957 TTAATATTAAAA
1 TTAATATTAAAA
7928969 TCGAGCCGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATATTAAAAATAAAT
Found at i:7930573 original size:24 final size:20
Alignment explanation
Indices: 7930522--7930561 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7930512 TCGTGGGAGT
*
7930522 TAACAAGTCTACCAGAATGA
1 TAACAATTCTACCAGAATGA
7930542 TAACAATTCTACCAGAATGA
1 TAACAATTCTACCAGAATGA
7930562 CATAATCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (20 bp):
TAACAATTCTACCAGAATGA
Found at i:7932166 original size:25 final size:25
Alignment explanation
Indices: 7932138--7932186 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7932128 TTGCTTGAAC
7932138 TTCTCAA-TATATGGCTATTCGGAGT
1 TTCTCAATTA-ATGGCTATTCGGAGT
* *
7932163 TTCTCGATTAATGGCTCTTCGGAG
1 TTCTCAATTAATGGCTATTCGGAG
7932187 CTACTCGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (25 bp):
TTCTCAATTAATGGCTATTCGGAGT
Found at i:7934123 original size:43 final size:43
Alignment explanation
Indices: 7934059--7934142 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
7934049 TGAGGTATAT
* * *
7934059 AGCATTCGAGCTCGTTAAGAGGTCTGAGTTCATTATGGATGCA
1 AGCATCCGAGCTCGTTAAGAGGTCCGAGTTCATTATAGATGCA
* *
7934102 AGCATCCGAGCTTGTTGAGAGGTCCGAGTTCATTATAGATG
1 AGCATCCGAGCTCGTTAAGAGGTCCGAGTTCATTATAGATG
7934143 TGTTACATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
AGCATCCGAGCTCGTTAAGAGGTCCGAGTTCATTATAGATGCA
Found at i:7941937 original size:43 final size:43
Alignment explanation
Indices: 7941855--7941938 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
7941845 TAAGGTATAT
* *
7941855 AGCATCCGAGCTCGTTGAGAGGACCGAGATTATTATGGATGTA
1 AGCATCCGAGCTCGTTGAGAGGACCGAGATCATGATGGATGTA
* * * * *
7941898 AGCATCTGAGCTCGTTGAGAGGTCTGAGCTCATGGTGGATG
1 AGCATCCGAGCTCGTTGAGAGGACCGAGATCATGATGGATG
7941939 CGATTCATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (43 bp):
AGCATCCGAGCTCGTTGAGAGGACCGAGATCATGATGGATGTA
Found at i:7947830 original size:12 final size:12
Alignment explanation
Indices: 7947813--7947837 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7947803 ACCCAAAACC
7947813 CTTAGCCCAAAA
1 CTTAGCCCAAAA
7947825 CTTAGCCCAAAA
1 CTTAGCCCAAAA
7947837 C
1 C
7947838 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:7948356 original size:3 final size:3
Alignment explanation
Indices: 7948345--7948426 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
7948335 TTTATTTTTT
*
7948345 TTA TT- TTA TTA TT- TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
7948387 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
7948427 ATATGTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
2 9 0.14
3 47 0.72
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7948401 original size:21 final size:18
Alignment explanation
Indices: 7948349--7948430 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
7948339 TTTTTTTTAT
*
7948349 TTTATTATT-TTACTATTA
1 TTTA-TATTATTATTATTA
7948367 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
7948385 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
7948406 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
7948423 TTATATAT
1 TT-TATAT
7948431 GTCCTCTCCA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
17 8 0.14
18 26 0.46
19 5 0.09
20 5 0.09
21 12 0.21
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:7948729 original size:39 final size:39
Alignment explanation
Indices: 7948668--7948763 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 39
7948658 TTATGTATAT
* *
7948668 ATATATTTATATATAGTATTGTTTTT-TATTACTTTAATTTA
1 ATATTTTTAT-TATA-TATTGTTTTTGTATTACTAT-ATTTA
* *
7948709 ATATTTTTATTATATTTTGTTTTTGTATTTCTATATTTA
1 ATATTTTTATTATATATTGTTTTTGTATTACTATATTTA
* *
7948748 TTATTATTATTATATA
1 ATATTTTTATTATATA
7948764 GTAGTGTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 27 0.57
40 11 0.23
41 9 0.19
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (39 bp):
ATATTTTTATTATATATTGTTTTTGTATTACTATATTTA
Found at i:7948801 original size:10 final size:10
Alignment explanation
Indices: 7948781--7948838 Score: 71
Period size: 10 Copynumber: 5.8 Consensus size: 10
7948771 GTATTTCTAT
*
7948781 TATATACATA
1 TATATATATA
*
7948791 TATACATATA
1 TATATATATA
*
7948801 TATTTATATA
1 TATATATATA
*
7948811 TATATATATT
1 TATATATATA
*
7948821 TATATATATT
1 TATATATATA
7948831 TATATATA
1 TATATATA
7948839 GTATTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 42 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATATATA
Found at i:7948819 original size:8 final size:8
Alignment explanation
Indices: 7948781--7948838 Score: 71
Period size: 8 Copynumber: 7.2 Consensus size: 8
7948771 GTATTTCTAT
*
7948781 TATATACA
1 TATATATA
*
7948789 TATATACA
1 TATATATA
*
7948797 TATATATT
1 TATATATA
7948805 TATATATA
1 TATATATA
*
7948813 TATATATT
1 TATATATA
7948821 TATATATA
1 TATATATA
*
7948829 TTTATATA
1 TATATATA
7948837 TA
1 TA
7948839 GTATTATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (8 bp):
TATATATA
Found at i:7948845 original size:12 final size:11
Alignment explanation
Indices: 7948778--7948845 Score: 65
Period size: 10 Copynumber: 6.5 Consensus size: 11
7948768 TGTGTATTTC
*
7948778 TATTATATACA
1 TATTATATATA
*
7948789 TA-TATACATA
1 TATTATATATA
*
7948799 TA-TATTTATA
1 TATTATATATA
7948809 TA-TATATATA
1 TATTATATATA
7948819 T-TTATATATA
1 TATTATATATA
7948829 T-TTATATATA
1 TATTATATATA
7948839 GTATTAT
1 -TATTAT
7948846 TATTTACTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
10 42 0.86
11 3 0.06
12 4 0.08
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (11 bp):
TATTATATATA
Found at i:7948846 original size:16 final size:14
Alignment explanation
Indices: 7948781--7948838 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
7948771 GTATTTCTAT
* *
7948781 TATATACATATATA
1 TATATATATTTATA
*
7948795 CATATATATTTATA
1 TATATATATTTATA
*
7948809 TATATATA--TATT
1 TATATATATTTATA
7948821 TATATATATTTATA
1 TATATATATTTATA
7948835 TATA
1 TATA
7948839 GTATTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 11 0.31
14 25 0.69
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATATATTTATA
Found at i:7951278 original size:19 final size:19
Alignment explanation
Indices: 7951256--7951302 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
7951246 CTTCCTTTCT
7951256 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
7951275 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
7951294 TTTGCATTA
1 TTTGCATTA
7951303 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:7960194 original size:67 final size:68
Alignment explanation
Indices: 7960018--7960261 Score: 352
Period size: 67 Copynumber: 3.6 Consensus size: 68
7960008 AAATCAAATA
* **
7960018 TCTCTCCTGAAATGGCGTTAGAGCTGCTAAAAGCCACAGTAGATCTCCTTGAAG-TTCAGTGGAT
1 TCTC-CCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGAT
7960082 CTCT
65 CTCT
*
7960086 T-TCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATC
1 TCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGATC
7960150 TCT
66 TCT
* * * *
7960153 TCTCCCTGATATGGCGTTGGAGCGGCT-AAAGCCATAACAGATCTCCTTGAAGTTTCAGTGAATC
1 TCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGATC
7960217 TCT
66 TCT
* * *
7960220 TCTGCCTGAAATGGCGTT-GAACAGCTAAAAGCCACAACAGAT
1 TCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGAT
7960262 TCTGAATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
66 53 0.33
67 84 0.52
68 24 0.15
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (68 bp):
TCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGATC
TCT
Found at i:7960628 original size:13 final size:13
Alignment explanation
Indices: 7960610--7960652 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
7960600 CCAATACAAA
7960610 CCCAAAACCCTAG
1 CCCAAAACCCTAG
*
7960623 CCCAAAA-CTTAG
1 CCCAAAACCCTAG
* *
7960635 CCCAAAACACTAA
1 CCCAAAACCCTAG
7960648 CCCAA
1 CCCAA
7960653 CCCAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.44, C:0.42, G:0.05, T:0.09
Consensus pattern (13 bp):
CCCAAAACCCTAG
Found at i:7961055 original size:6 final size:6
Alignment explanation
Indices: 7961032--7961094 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
7961022 GAGAGCTTTT
* *
7961032 TTTATT TTT-TT TTT-TT TATT-TT TATATT ATTTATT ATTATT TTTA-T
1 TTTATT TTTATT TTTATT T-TTATT TTTATT -TTTATT TTTATT TTTATT
*
7961078 TTTATT ATTATT TTTAT
1 TTTATT TTTATT TTTAT
7961095 ATTATATGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 14 0.30
6 28 0.60
7 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:7961081 original size:26 final size:27
Alignment explanation
Indices: 7961046--7961138 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 27
7961036 TTTTTTTTTT
7961046 TTTATTTTTATATTATTTATTATTATT-
1 TTTA-TTTTATATTATTTATTATTATTC
*
7961073 TTTATTTTATTATTATTTTTATATTATATGTC
1 TTTATTTTA-TATTATTTAT-TA-T-TAT-TC
* * *
7961105 TATATTTTATATT-TATATTATTGTTC
1 TTTATTTTATATTATTTATTATTATTC
7961131 TTTATTTT
1 TTTATTTT
7961139 TTTTCTGACT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
26 14 0.26
27 15 0.28
28 3 0.06
29 3 0.06
30 6 0.11
31 5 0.09
32 8 0.15
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTATTTTATATTATTTATTATTATTC
Found at i:7961097 original size:11 final size:11
Alignment explanation
Indices: 7961028--7961139 Score: 55
Period size: 11 Copynumber: 9.5 Consensus size: 11
7961018 AATTGAGAGC
* *
7961028 TTTTTTTATTT
1 TTTTTATATTA
* *
7961039 TTTTTTTTTTA
1 TTTTTATATTA
7961050 TTTTTATATTA
1 TTTTTATATTA
*
7961061 TTTATTATTATTTT
1 TTT-TTA-TA-TTA
7961075 TATTTTATTATTA
1 T-TTTTA-TATTA
7961088 TTTTTATATTA
1 TTTTTATATTA
*
7961099 TATGTCTATATTTTA
1 T-T-T-T-TATATTA
*
7961114 TATTTATATTA
1 TTTTTATATTA
* *
7961125 TTGTTCT-TTA
1 TTTTTATATTA
7961135 TTTTT
1 TTTTT
7961140 TTTCTGACTA
Statistics
Matches: 80, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
10 7 0.09
11 37 0.46
12 10 0.12
13 7 0.09
14 10 0.12
15 9 0.11
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:7961097 original size:38 final size:39
Alignment explanation
Indices: 7961033--7961135 Score: 117
Period size: 38 Copynumber: 2.7 Consensus size: 39
7961023 AGAGCTTTTT
*
7961033 TTATTTTT-TTTT-TT-TTATTTTTATATTATTTAT-TA
1 TTATTTTTATTTTATTATTATTTTTATATTATATATCTA
*
7961068 TTATTTTTATTTTATTATTATTTTTATATTATATGTCTA
1 TTATTTTTATTTTATTATTATTTTTATATTATATATCTA
*
7961107 -TATTTTATATTTATATTATTGTTCTTTAT
1 TTATTTT-TATTT-TATTATTATT-TTTAT
7961136 TTTTTTTCTG
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
35 8 0.14
36 4 0.07
37 2 0.03
38 23 0.40
39 7 0.12
40 9 0.16
41 5 0.09
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (39 bp):
TTATTTTTATTTTATTATTATTTTTATATTATATATCTA
Found at i:7961112 original size:21 final size:19
Alignment explanation
Indices: 7961048--7961123 Score: 61
Period size: 21 Copynumber: 3.9 Consensus size: 19
7961038 TTTTTTTTTT
*
7961048 TATTTTTATATTATTTATTA
1 TATTTTTATATTATAT-TTA
7961068 TTATTTTTAT-TT-TA-TTA
1 -TATTTTTATATTATATTTA
7961085 TTATTTTTATATTATATGTCTA
1 -TATTTTTATATTATAT-T-TA
7961107 TA-TTTTATATTTATATT
1 TATTTTTATA-TTATATT
7961124 ATTGTTCTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
17 13 0.27
18 2 0.04
19 3 0.06
20 10 0.21
21 18 0.38
22 2 0.04
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (19 bp):
TATTTTTATATTATATTTA
Found at i:7961169 original size:11 final size:11
Alignment explanation
Indices: 7961028--7961182 Score: 57
Period size: 13 Copynumber: 12.8 Consensus size: 11
7961018 AATTGAGAGC
7961028 TTTTTTTAT-T
1 TTTTTTTATAT
7961038 TTTTTTT-T-T
1 TTTTTTTATAT
7961047 TTATTTTTATAT
1 TT-TTTTTATAT
*
7961059 TATTTATTATTATT
1 T-TTTTTTA-TA-T
7961073 TTTATTTTATTAT
1 TTT-TTTTA-TAT
*
7961086 TATTTTTATAT
1 TTTTTTTATAT
* *
7961097 TATATGTCTATAT
1 T-T-TTTTTATAT
7961110 TTTATATTTATAT
1 TTT-T-TTTATAT
7961123 TATTGTTCTT-TATT
1 T-TT-TT-TTATA-T
7961137 TTTTTTCTGACTACT
1 TTTTTT-T-A-TA-T
*
7961152 ATTTTTTATAT
1 TTTTTTTATAT
* *
7961163 TTTTTTTTTGT
1 TTTTTTTATAT
7961174 TTTTTTTAT
1 TTTTTTTAT
7961183 CACCCTTTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 35
0.69 0.09 0.22
Matches are distributed among these distances:
9 4 0.04
10 12 0.11
11 24 0.21
12 18 0.16
13 29 0.26
14 17 0.15
15 8 0.07
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (11 bp):
TTTTTTTATAT
Found at i:7973200 original size:72 final size:72
Alignment explanation
Indices: 7973083--7973266 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
7973073 ACAACTTGAC
*
7973083 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7973148 ACTAACA
66 ACTAACA
7973155 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7973220 ACTAACA
66 ACTAACA
7973227 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
7973267 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:7973275 original size:3 final size:3
Alignment explanation
Indices: 7973267--7973307 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7973257 ATTACATCCA
7973267 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7973308 AACATGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7977642 original size:72 final size:72
Alignment explanation
Indices: 7977525--7977708 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
7977515 ACAACTTGAC
*
7977525 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7977590 ACTAACA
66 ACTAACA
7977597 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7977662 ACTAACA
66 ACTAACA
7977669 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
7977709 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:7977717 original size:3 final size:3
Alignment explanation
Indices: 7977709--7977770 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
7977699 ATTACATCCA
7977709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7977757 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
7977771 AACATGTGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7992528 original size:21 final size:21
Alignment explanation
Indices: 7992496--7992536 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7992486 GAACATTTGG
7992496 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
7992517 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
7992537 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:7999341 original size:28 final size:28
Alignment explanation
Indices: 7999297--7999351 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
7999287 GATGGGTCAC
* *
7999297 TCCGATAGGGTCGAAAGTCAAAATAAAT
1 TCCGATAAGGTCAAAAGTCAAAATAAAT
*
7999325 TCCGATAAGGTCAAAAGTGAAAATAAA
1 TCCGATAAGGTCAAAAGTCAAAATAAA
7999352 CTTTAGTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (28 bp):
TCCGATAAGGTCAAAAGTCAAAATAAAT
Found at i:8000173 original size:26 final size:27
Alignment explanation
Indices: 8000112--8000173 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
8000102 ACCTTGGGCT
* * *
8000112 GTTTTATTTTGTGTTTTTTTGCTTTCG
1 GTTTGATTTTGTGTTTCTCTGCTTTCG
* *
8000139 GTTTG-TTTTGTGTTTCTCTGTTTTTG
1 GTTTGATTTTGTGTTTCTCTGCTTTCG
8000165 G-TTGATTTT
1 GTTTGATTTT
8000174 TCTGGTAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.10
26 22 0.76
27 4 0.14
ACGTcount: A:0.03, C:0.06, G:0.21, T:0.69
Consensus pattern (27 bp):
GTTTGATTTTGTGTTTCTCTGCTTTCG
Found at i:8003189 original size:46 final size:45
Alignment explanation
Indices: 8003139--8003364 Score: 290
Period size: 46 Copynumber: 4.9 Consensus size: 45
8003129 TTTCTGAAAT
*
8003139 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
* * * *
8003184 TGAAATGTGTAAGACCATGGATGAAAGATACCATGGCAACATAATGG
1 -GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-A
* *
8003231 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TA
* * *
8003277 GAAATGAATAAGACCATGGTTGAAAGATGCCATGGCAACATGACA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
* * * *
8003322 GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 G-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
8003365 TTGAAGATAA
Statistics
Matches: 160, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
45 2 0.01
46 158 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (45 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
Found at i:8004187 original size:19 final size:19
Alignment explanation
Indices: 8004152--8004190 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8004142 AATATTTTCC
*
8004152 CATAAAAATGATTAAAAAT
1 CATAAAAATGATAAAAAAT
*
8004171 CATAAAAATTGAAAAAAAAT
1 CATAAAAA-TGATAAAAAAT
8004191 TATCTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (19 bp):
CATAAAAATGATAAAAAAT
Found at i:8004256 original size:29 final size:31
Alignment explanation
Indices: 8004199--8004256 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
8004189 ATTATCTCAA
*
8004199 AATATAAAATATTATATTTTTTTATATAATT
1 AATATAAAATATTATAATTTTTTATATAATT
8004230 AATA-AAACATATT-TAATTTTTT-TATAA
1 AATATAAA-ATATTATAATTTTTTATATAA
8004257 AAACGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 11 0.44
31 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
AATATAAAATATTATAATTTTTTATATAATT
Found at i:8004334 original size:28 final size:29
Alignment explanation
Indices: 8004293--8004347 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
8004283 ATAAAAAATA
*
8004293 AAAAAATATT-AAAATTGATATAAATTTAT
1 AAAAAATATTAAAAATT-AAATAAATTTAT
*
8004322 AAAAATTA-TAAAAATTAAATAAATTT
1 AAAAAATATTAAAAATTAAATAAATTT
8004348 GAACTAGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAAATATTAAAAATTAAATAAATTTAT
Found at i:8004346 original size:9 final size:9
Alignment explanation
Indices: 8004273--8004338 Score: 71
Period size: 9 Copynumber: 7.2 Consensus size: 9
8004263 ATTAAAGTTC
8004273 TATAAAAAT
1 TATAAAAAT
*
8004282 TATAAAAAA
1 TATAAAAAT
*
8004291 TA-AAAAAA
1 TATAAAAAT
*
8004299 TATTAAAAT
1 TATAAAAAT
*
8004308 TGATATAAATT
1 T-ATA-AAAAT
8004319 TATAAAAAT
1 TATAAAAAT
8004328 TATAAAAAT
1 TATAAAAAT
8004337 TA
1 TA
8004339 AATAAATTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
8 8 0.17
9 30 0.62
10 5 0.10
11 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:8011648 original size:53 final size:53
Alignment explanation
Indices: 8011568--8011674 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
8011558 AGTAAATAAG
*
8011568 TTAGTTATAGTTTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
1 TTAGTTATAGTCTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
8011621 TTAGTTATAGTCTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
1 TTAGTTATAGTCTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
8011674 T
1 T
8011675 ATCACGTATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.52
Consensus pattern (53 bp):
TTAGTTATAGTCTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
Found at i:8024551 original size:28 final size:26
Alignment explanation
Indices: 8024510--8024572 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 26
8024500 GAAATACTCT
* *
8024510 TTTCAATATTCAGTATAGTTTTCTTTC
1 TTTCAATTTTCAGTATAG-TTTCATTC
8024537 TATTCAATTTTCAGTATAGTTTCATTC
1 T-TTCAATTTTCAGTATAGTTTCATTC
8024564 TTTCAATTT
1 TTTCAATTT
8024573 ACAACAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 8 0.24
27 9 0.27
28 16 0.48
ACGTcount: A:0.24, C:0.14, G:0.06, T:0.56
Consensus pattern (26 bp):
TTTCAATTTTCAGTATAGTTTCATTC
Found at i:8027546 original size:90 final size:88
Alignment explanation
Indices: 8027377--8027599 Score: 254
Period size: 90 Copynumber: 2.5 Consensus size: 88
8027367 TTAAGGATGC
* * * * * *
8027377 AAAAAGCTCTCAAAATTTTTCAAAAAAGTAATTAAGCCCTACTTTTTTTTACACTTATTTTGGTA
1 AAAAAGCCCTCAAAACTTTTCAAAAAAGCAATTAAGCCTTACTTTTTTTTACACTCAATTTGGTA
* *
8027442 TTTGAATTTTCAAAATGCATAAA
66 CTTGAACTTTCAAAATGCATAAA
* *
8027465 AAAAAGCCCTCAAACCTTTTCAAGAAAAGCAATTAAGCTCTTACTTTTTTTTGCACTCAATTTGG
1 AAAAAGCCCTCAAAACTTTTCAA-AAAAGCAATTAAGC-CTTACTTTTTTTTACACTCAATTTGG
*
8027530 TACTT-AAGCTTTCAAAATGCATCAA
64 TACTTGAA-CTTTCAAAATGCATAAA
* * * *
8027555 AAAGA-CCCT-AAAACATTTAAAAAAAACAATTAAGCCCTTACTTTT
1 AAAAAGCCCTCAAAACTTTTCAAAAAAGCAATTAAG-CCTTACTTTT
8027600 ATTAAAAATT
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
87 21 0.18
88 30 0.26
89 19 0.17
90 45 0.39
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (88 bp):
AAAAAGCCCTCAAAACTTTTCAAAAAAGCAATTAAGCCTTACTTTTTTTTACACTCAATTTGGTA
CTTGAACTTTCAAAATGCATAAA
Found at i:8027722 original size:20 final size:20
Alignment explanation
Indices: 8027692--8027764 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 20
8027682 TATTTAAAAT
*
8027692 TAAAAAA-ATATAAAAATCG
1 TAAAAAATATATAAAAATTG
*
8027711 TAAAAAATATAT-AAAATTT
1 TAAAAAATATATAAAAATTG
* *
8027730 TATAAAATTTTATAAAAATTG
1 TA-AAAAATATATAAAAATTG
8027751 TAAAAAAT-TATAAA
1 TAAAAAATATATAAA
8027765 TATAAAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 20 0.44
20 17 0.38
21 8 0.18
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAAAATATATAAAAATTG
Found at i:8027727 original size:19 final size:19
Alignment explanation
Indices: 8027679--8027764 Score: 79
Period size: 18 Copynumber: 4.6 Consensus size: 19
8027669 TAAAAAATTC
* *
8027679 AAATATTTAAAATT-AAAA
1 AAATATATAAAATTGTAAA
*
8027697 AAATATA-AAAATCGTAAA
1 AAATATATAAAATTGTAAA
*
8027715 AAATATATAAAATTTTATAA
1 AAATATATAAAATTGTA-AA
* *
8027735 AATTTTATAAAAATTGTAAA
1 AAATATAT-AAAATTGTAAA
8027755 AAAT-TATAAA
1 AAATATATAAA
8027765 TATAAAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
17 5 0.09
18 19 0.35
19 10 0.18
20 13 0.24
21 8 0.15
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATATATAAAATTGTAAA
Found at i:8027747 original size:40 final size:35
Alignment explanation
Indices: 8027700--8027780 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 35
8027690 ATTAAAAAAA
8027700 TATAAAAATCGTAAAAAATATATAAAATTTTATAAAATTT
1 TATAAAAATCGTAAAAAAT-TAT-AAA---TATAAAATTT
*
8027740 TATAAAAATTGTAAAAAATTATAAATATAAAATTT
1 TATAAAAATCGTAAAAAATTATAAATATAAAATTT
8027775 TATAAA
1 TATAAA
8027781 GTCATAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
35 16 0.40
38 3 0.08
39 3 0.08
40 18 0.45
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.37
Consensus pattern (35 bp):
TATAAAAATCGTAAAAAATTATAAATATAAAATTT
Found at i:8027778 original size:10 final size:10
Alignment explanation
Indices: 8027720--8027780 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
8027710 GTAAAAAATA
8027720 TATAAAATTT
1 TATAAAATTT
8027730 TATAAAATTT
1 TATAAAATTT
*
8027740 TATAAAAATTG
1 TAT-AAAATTT
*
8027751 TAAAAAATTAT
1 TATAAAATT-T
8027762 AAATATAAAATTT
1 ---TATAAAATTT
8027775 TATAAA
1 TATAAA
8027781 GTCATAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 25 0.60
11 8 0.19
13 1 0.02
14 8 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TATAAAATTT
Found at i:8027803 original size:45 final size:47
Alignment explanation
Indices: 8027719--8027829 Score: 113
Period size: 45 Copynumber: 2.4 Consensus size: 47
8027709 CGTAAAAAAT
** **
8027719 ATATAAAATTTTATAAAATTTTATAAAAATTGTAAAAAAT-T-ATAA
1 ATATAAAATTTTATAAAATCATATAAAAATTACAAAAAATGTAATAA
* *
8027764 ATATAAAATTTTATAAAGTCATA-AGAAAATTACATAAAATGTAAATAA
1 ATATAAAATTTTATAAAATCATATA-AAAATTACAAAAAATGT-AATAA
*
8027812 ATAT-AAATTTTGTAAAAT
1 ATATAAAATTTTATAAAAT
8027830 TTTTTTATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 32 0.59
46 1 0.02
47 12 0.22
48 8 0.15
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (47 bp):
ATATAAAATTTTATAAAATCATATAAAAATTACAAAAAATGTAATAA
Found at i:8028037 original size:18 final size:19
Alignment explanation
Indices: 8028013--8028099 Score: 72
Period size: 18 Copynumber: 4.7 Consensus size: 19
8028003 AAAAAAATTC
8028013 TAATTTTTAATAAATTTTA
1 TAATTTTTAATAAATTTTA
* *
8028032 -AATTTTTATTAAAATTTAA
1 TAATTTTTAAT-AAATTTTA
* *
8028051 TAATTTTT-CTAAAATTTA
1 TAATTTTTAATAAATTTTA
* * * *
8028069 TTATTTATAAT-TATTTTT
1 TAATTTTTAATAAATTTTA
8028087 TAATTTTTAATAA
1 TAATTTTTAATAA
8028100 GAGCATGGGC
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
18 34 0.68
19 9 0.18
20 7 0.14
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATTTTTAATAAATTTTA
Found at i:8028046 original size:19 final size:20
Alignment explanation
Indices: 8028013--8028068 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
8028003 AAAAAAATTC
*
8028013 TAATTTTTAAT-AAATTTTA
1 TAATTTTTAATAAAATTTAA
*
8028032 -AATTTTTATTAAAATTTAA
1 TAATTTTTAATAAAATTTAA
*
8028051 TAATTTTT-CTAAAATTTA
1 TAATTTTTAATAAAATTTA
8028069 TTATTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 9 0.28
19 16 0.50
20 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTTTTAATAAAATTTAA
Found at i:8043105 original size:12 final size:11
Alignment explanation
Indices: 8043083--8043115 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
8043073 TTTTTATCTT
8043083 AAATTAAATTA
1 AAATTAAATTA
8043094 AAATTAAAATTA
1 AAATT-AAATTA
8043106 AAA-TAAATTA
1 AAATTAAATTA
8043116 TAATGGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 6 0.29
12 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATTAAATTA
Found at i:8043125 original size:6 final size:6
Alignment explanation
Indices: 8043116--8043143 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8043106 AAATAAATTA
8043116 TAATGG TAATGG TAATGG TAATGG TAAT
1 TAATGG TAATGG TAATGG TAATGG TAAT
8043144 TTTAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (6 bp):
TAATGG
Found at i:8044298 original size:21 final size:22
Alignment explanation
Indices: 8044240--8044299 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
8044230 AATTGATTGT
*
8044240 TTTATAAATGGTTTTTACTATTAA
1 TTTATAAAT-GTTATTA-TATTAA
**
8044264 TTTATAAACATTATT-TATTAA
1 TTTATAAATGTTATTATATTAA
8044285 TTTATAAATGTTATT
1 TTTATAAATGTTATT
8044300 CTGAAAGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 19 0.61
23 4 0.13
24 8 0.26
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTATAAATGTTATTATATTAA
Found at i:8044750 original size:31 final size:30
Alignment explanation
Indices: 8044686--8044743 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
8044676 TATAGTAATT
* *
8044686 AAGATAAGTTCTCAATTAAATTAATGTAGG
1 AAGATAAGTTCTCAATCAAATTAATATAGG
8044716 AAGATTAAGTTCTCAATCAAATTAATAT
1 AAGA-TAAGTTCTCAATCAAATTAATAT
8044744 GAGAAGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (30 bp):
AAGATAAGTTCTCAATCAAATTAATATAGG
Found at i:8045649 original size:17 final size:17
Alignment explanation
Indices: 8045609--8045649 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
8045599 ACTTTTCAAA
*
8045609 GAAAAGAGACAATTTAT
1 GAAAAGTGACAATTTAT
8045626 GAAAAGTGACAATTTAT
1 GAAAAGTGACAATTTAT
8045643 GAAAAGT
1 GAAAAGT
8045650 CATTGGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.24
Consensus pattern (17 bp):
GAAAAGTGACAATTTAT
Found at i:8047698 original size:43 final size:42
Alignment explanation
Indices: 8047651--8047753 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
8047641 TCCTAGACGT
* * *
8047651 GGTCTTACATGTAATCAAATATTGATGCC-ACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATA-CGATGCCGA-TGTCCCACACAG
* *
8047694 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCACACAT
1 GGTCTTACACGTAATCAAATACGATGCCGATGTCCCACACAG
8047736 GGTCTTACACGTATATCA
1 GGTCTTACACGTA-ATCA
8047754 TAAGTCGATG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 28 0.54
43 24 0.46
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCGATGTCCCACACAG
Found at i:8047740 original size:42 final size:43
Alignment explanation
Indices: 8047650--8047791 Score: 130
Period size: 44 Copynumber: 3.3 Consensus size: 43
8047640 ATCCTAGACG
* * * *
8047650 TGGTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCACACA
*
8047693 GGGTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCACACA
1 TGGTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCACACA
* * * *
8047735 TGGTCTTACACGTATATCATAA-GTCGATGCCAGC-GTCCCAAACG
1 TGGTCTTACACG-AAATCA-AATATCGATGCCA-CTGTCCCACACA
*
8047779 CGGTCTTACACGA
1 TGGTCTTACACGA
8047792 GAACACATAC
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
42 27 0.33
43 27 0.33
44 28 0.34
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCACACA
Found at i:8057406 original size:30 final size:31
Alignment explanation
Indices: 8057370--8057438 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
8057360 GGTTTCATTT
* *
8057370 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
8057400 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
8057431 CAGTCACT
1 CAGTCACT
8057439 GATTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.47
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:8057497 original size:21 final size:20
Alignment explanation
Indices: 8057469--8057513 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
8057459 GTTTCAACAG
8057469 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
8057489 AACTAGCTGATGTGGCTAGTT
1 AACT-GCTGATGTGGCAAGTT
8057510 AACT
1 AACT
8057514 TTCCACGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:8061901 original size:30 final size:32
Alignment explanation
Indices: 8061834--8061902 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
8061824 ACTATTAATC
* *
8061834 AGTGACTGTTTTGTCACTTTTTTATAACGTTA
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
*
8061866 A-TGACTGTTTTGTTA-TTTTTCA-AAAGTTA
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
8061895 AGTGACTG
1 AGTGACTG
8061903 AAATGAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 12 0.36
31 13 0.39
32 1 0.03
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (32 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
Found at i:8066530 original size:14 final size:14
Alignment explanation
Indices: 8066496--8066531 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8066486 TTAAATACTT
*
8066496 TCTAGTATACAATA
1 TCTAGTGTACAATA
8066510 TCTAGTGTACAATA
1 TCTAGTGTACAATA
8066524 TCTAGTGT
1 TCTAGTGT
8066532 TTGAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (14 bp):
TCTAGTGTACAATA
Found at i:8073525 original size:23 final size:24
Alignment explanation
Indices: 8073499--8073546 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
8073489 TGCGTAGTAT
8073499 AAAAATATA-TACGTAAT-ATAATG
1 AAAAATATATTA-GTAATAATAATG
*
8073522 AAAAGTATATTAGTAATAATAATG
1 AAAAATATATTAGTAATAATAATG
8073546 A
1 A
8073547 TAATGATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.31
Consensus pattern (24 bp):
AAAAATATATTAGTAATAATAATG
Found at i:8073735 original size:19 final size:18
Alignment explanation
Indices: 8073672--8073767 Score: 88
Period size: 18 Copynumber: 5.3 Consensus size: 18
8073662 AAGGATATAT
*
8073672 AATAATAATAATAAT-AA
1 AATAATAATAATAGTGAA
*
8073689 TAATAATAATAATAAT-AA
1 -AATAATAATAATAGTGAA
*
8073707 TAATAATAATAATAGTGGA
1 -AATAATAATAATAGTGAA
* * *
8073726 TATAAATAATAGTCGTGAA
1 AAT-AATAATAATAGTGAA
*
8073745 AATAATAATAATAGTGAC
1 AATAATAATAATAGTGAA
8073763 AATAA
1 AATAA
8073768 CAGAGATAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
18 51 0.77
19 15 0.23
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.30
Consensus pattern (18 bp):
AATAATAATAATAGTGAA
Found at i:8073736 original size:3 final size:3
Alignment explanation
Indices: 8073670--8073720 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
8073660 AAAAGGATAT
8073670 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8073718 ATA
1 ATA
8073721 GTGGATATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8079878 original size:42 final size:43
Alignment explanation
Indices: 8079813--8079971 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 43
8079803 AAATCGTACA
* *
8079813 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATC-AATATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
8079855 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
* * * * *
8079897 ATGCCGA-TGTCCCAGACATGGTCTTATACATAAATCTCAAAT-CG
1 ATGCCAACTGTCCCAGACAGGGTCTTACAC-GAAA--TCAAATATG
*
8079941 ATGCCAAC-GTCTCAGAC-GTGGTCTTACACGA
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACGA
8079972 TAACATATAT
Statistics
Matches: 97, Mismatches: 11, Indels: 17
0.78 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 54 0.56
43 11 0.11
44 24 0.25
45 6 0.06
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
Found at i:8090222 original size:20 final size:20
Alignment explanation
Indices: 8090186--8090224 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8090176 AATTTTTATT
*
8090186 TAAAGTATTAATGAATTTTG
1 TAAAGTATTAATAAATTTTG
8090206 TAAA-TATTAAATAAATTTT
1 TAAAGTATT-AATAAATTTT
8090225 TTATTATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
TAAAGTATTAATAAATTTTG
Found at i:8094817 original size:15 final size:16
Alignment explanation
Indices: 8094797--8094829 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
8094787 TTCTTTATTC
8094797 TTTTTTTT-A-TTAAT
1 TTTTTTTTCATTTAAT
8094811 TTTTTTTTCATTTAAT
1 TTTTTTTTCATTTAAT
8094827 TTT
1 TTT
8094830 ATTTAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTCATTTAAT
Found at i:8100846 original size:25 final size:25
Alignment explanation
Indices: 8100800--8100847 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8100790 ACTTATATTT
**
8100800 TATTAAAAATATAAAATTAATTTAC
1 TATTAAAAATATAAAAACAATTTAC
8100825 TATT-AAAATATTAAAAACAATTT
1 TATTAAAAATA-TAAAAACAATTT
8100848 CTTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
TATTAAAAATATAAAAACAATTTAC
Found at i:8101260 original size:18 final size:18
Alignment explanation
Indices: 8101234--8101277 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
8101224 GACTGAGAAA
* *
8101234 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
8101252 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
8101270 AGGATACA
1 AGGATACA
8101278 CACCTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:8102890 original size:25 final size:24
Alignment explanation
Indices: 8102841--8102892 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
8102831 ACTATTATAA
* *
8102841 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
8102865 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
8102890 AAA
1 AAA
8102893 TAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:8102911 original size:7 final size:7
Alignment explanation
Indices: 8102897--8102925 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
8102887 ATTAAATAAT
8102897 ATTT-AA
1 ATTTAAA
8102903 ATTTAAA
1 ATTTAAA
8102910 ATTTAAA
1 ATTTAAA
8102917 ATTTAAA
1 ATTTAAA
8102924 AT
1 AT
8102926 AATCTGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTAAA
Found at i:8103116 original size:21 final size:21
Alignment explanation
Indices: 8103083--8103126 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8103073 TATAAAGAGC
*
8103083 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
** *
8103104 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
8103125 TT
1 TT
8103127 GTAGAGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (21 bp):
TTTGAGAAATTTAAGGAGAAA
Found at i:8104902 original size:14 final size:13
Alignment explanation
Indices: 8104883--8104920 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
8104873 ATTTAATGTT
8104883 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
8104897 TAATTATTAAGGA
1 TAATTATTTAGGA
8104910 TAATTATTTAG
1 TAATTATTTAG
8104921 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:8104949 original size:10 final size:10
Alignment explanation
Indices: 8104934--8104985 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
8104924 TAAATTTAGG
8104934 ATTTATTTTT
1 ATTTATTTTT
*
8104944 ATTTATCTTT
1 ATTTATTTTT
* *
8104954 AATTATCTTT
1 ATTTATTTTT
* *
8104964 AATTATTTGT
1 ATTTATTTTT
8104974 ATTTATCTTTT
1 ATTTAT-TTTT
8104985 A
1 A
8104986 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:8104964 original size:20 final size:20
Alignment explanation
Indices: 8104934--8104983 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8104924 TAAATTTAGG
* *
8104934 ATTTATTTTTATTTATCTT-T
1 ATTTATCTTTAATTAT-TTGT
*
8104954 AATTATCTTTAATTATTTGT
1 ATTTATCTTTAATTATTTGT
8104974 ATTTATCTTT
1 ATTTATCTTT
8104984 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTTATCTTTAATTATTTGT
Found at i:8106908 original size:20 final size:20
Alignment explanation
Indices: 8106844--8106909 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
8106834 ATGACATACA
8106844 AAAAATTATAAAAAATATTTT
1 AAAAATTATAAAAAATA-TTT
* *
8106865 GAAAAA-T-TAAAAATTA-TC
1 -AAAAATTATAAAAAATATTT
8106883 ATAAAATTATAAAAAATATTT
1 A-AAAATTATAAAAAATATTT
8106904 AAAAAT
1 AAAAAT
8106910 ATTTTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 1 0.03
18 5 0.14
19 1 0.03
20 21 0.58
21 3 0.08
22 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAAAATATTT
Found at i:8107407 original size:15 final size:15
Alignment explanation
Indices: 8107384--8107423 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
8107374 TTTAAAATTT
*
8107384 AAATTTAAATTTGAA
1 AAATATAAATTTGAA
*
8107399 AAATATAAATTTTAA
1 AAATATAAATTTGAA
*
8107414 AAATAAAAAT
1 AAATATAAAT
8107424 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAATATAAATTTGAA
Found at i:8107420 original size:6 final size:6
Alignment explanation
Indices: 8107411--8107441 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
8107401 ATATAAATTT
8107411 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
8107442 TTATTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:8110923 original size:22 final size:23
Alignment explanation
Indices: 8110893--8110946 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
8110883 GCATATTTAG
*
8110893 TATATATTAATCTA-ATTTTATT
1 TATAAATTAATCTATATTTTATT
*
8110915 TATAAATTAATCTATTTTTTATT
1 TATAAATTAATCTATATTTTATT
8110938 T-TAATATTA
1 TATAA-ATTA
8110947 TACATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TATAAATTAATCTATATTTTATT
Found at i:8116108 original size:22 final size:22
Alignment explanation
Indices: 8116083--8116128 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
8116073 TAATAAGATA
* *
8116083 TGTTCCGATATATGTTGAGCTT
1 TGTTACGATATATGTTAAGCTT
* *
8116105 TGTTATGATTTATGTTAAGCTT
1 TGTTACGATATATGTTAAGCTT
8116127 TG
1 TG
8116129 ATATGTAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (22 bp):
TGTTACGATATATGTTAAGCTT
Found at i:8116848 original size:94 final size:94
Alignment explanation
Indices: 8116687--8116871 Score: 280
Period size: 94 Copynumber: 2.0 Consensus size: 94
8116677 GTAAGAGTTC
* ** *
8116687 TGCAAGTTTTATGTTTTTGTAATGCTCAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
1 TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
*
8116752 ATGTAACTCTTCCAAATTTGGCCATATTA
66 ATGTAACTCTTCCAAATTCGGCCATATTA
* * * *
8116781 TGCAAGTTTTATGTTTTTCTAACACACAATTAAGTTGGTTAAAACAAGAGTTTTTAAATAAATTA
1 TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
*
8116846 ATGTAACTCTTCCAGATTCGGCCATA
66 ATGTAACTCTTCCAAATTCGGCCATA
8116872 ACGTTTAGGC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (94 bp):
TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
ATGTAACTCTTCCAAATTCGGCCATATTA
Found at i:8121009 original size:21 final size:20
Alignment explanation
Indices: 8120985--8121024 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8120975 TCATGTTGAT
8120985 TTCGTACTTTGGCCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
* *
8121006 TTCGTTTTTGGCCCGTTTT
1 TTCGTCTTTGGCCCATTTT
8121025 TTGTTCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.05, C:0.25, G:0.17, T:0.53
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:8129895 original size:19 final size:19
Alignment explanation
Indices: 8129873--8129924 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
8129863 ATATATATTT
8129873 TTTTATAATTTTTAATAAA
1 TTTTATAATTTTTAATAAA
*
8129892 TTTTA-AATTTTATAATAAC
1 TTTTATAATTTT-TAATAAA
*
8129911 TTTTTTGAATTTTT
1 TTTTAT-AATTTTT
8129925 TAAAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 6 0.21
19 15 0.54
20 1 0.04
21 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTAATAAA
Found at i:8131928 original size:32 final size:30
Alignment explanation
Indices: 8131890--8131950 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
8131880 ATAATATTAA
*
8131890 AATTATAATTAAAA-TAATATAAAGTATAAAAT
1 AATTATAA-TAAAACAAATA-AAAGT-TAAAAT
8131922 AATTATAATAAAACAAATAAAAGTTAAAA
1 AATTATAATAAAACAAATAAAAGTTAAAA
8131951 AGTATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 5 0.19
31 10 0.37
32 12 0.44
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (30 bp):
AATTATAATAAAACAAATAAAAGTTAAAAT
Found at i:8131959 original size:39 final size:39
Alignment explanation
Indices: 8131910--8131991 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
8131900 AAAATAATAT
8131910 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
1 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
* *
8131949 AAAGTATAAAATAATTATAATAAAACAAATAAAATTTAG
1 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
8131988 AAAG
1 AAAG
8131992 ATGAATTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (39 bp):
AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
Found at i:8135605 original size:11 final size:11
Alignment explanation
Indices: 8135589--8135649 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
8135579 CTCAATAACT
8135589 TTAATATTAAA
1 TTAATATTAAA
*
8135600 TTAATATCAATA
1 TTAATATTAA-A
*
8135612 TT-AGATTAAA
1 TTAATATTAAA
8135622 TTTAATATTAAA
1 -TTAATATTAAA
* *
8135634 -TATTATTTAA
1 TTAATATTAAA
8135644 TTAATA
1 TTAATA
8135650 GAATATTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 9 0.23
11 20 0.51
12 10 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:8135613 original size:17 final size:17
Alignment explanation
Indices: 8135591--8135634 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
8135581 CAATAACTTT
8135591 AATATTAAATT-AATATC
1 AATATTAAATTAAAT-TC
* *
8135608 AATATTAGATTAAATTT
1 AATATTAAATTAAATTC
8135625 AATATTAAAT
1 AATATTAAAT
8135635 ATTATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
AATATTAAATTAAATTC
Found at i:8135643 original size:23 final size:22
Alignment explanation
Indices: 8135594--8135638 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
8135584 TAACTTTAAT
*
8135594 ATTAAATTAATATCAATATTAG
1 ATTAAATTAATATAAATATTAG
8135616 ATTAAATTTAATATTAAATATTA
1 ATTAAA-TTAATA-TAAATATTA
8135639 TTTAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 6 0.30
24 8 0.40
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTAAATTAATATAAATATTAG
Found at i:8135719 original size:20 final size:18
Alignment explanation
Indices: 8135672--8135720 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
8135662 CAAGATAAAC
8135672 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
8135689 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
8135709 ATTAAATTAATA
1 ATTAAATTAATA
8135721 AAACACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:8137252 original size:21 final size:21
Alignment explanation
Indices: 8137226--8137271 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8137216 TTTTAGATAT
*
8137226 TTATGTATTT-TTGTTTTTATC
1 TTATGTATTTATT-TATTTATC
8137247 TTATGTATTTATTTATTTATC
1 TTATGTATTTATTTATTTATC
8137268 TTAT
1 TTAT
8137272 TTTAGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.70
Consensus pattern (21 bp):
TTATGTATTTATTTATTTATC
Found at i:8138055 original size:21 final size:20
Alignment explanation
Indices: 8138037--8138073 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8138027 ACACGGGCAT
8138037 GTGT-GACCTTCACATGGGC
1 GTGTAGACCTTCACATGGGC
*
8138056 GTGTAGACCTCCACATGG
1 GTGTAGACCTTCACATGG
8138074 CCTGCGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (20 bp):
GTGTAGACCTTCACATGGGC
Found at i:8141572 original size:20 final size:20
Alignment explanation
Indices: 8141549--8141597 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
8141539 GAACCACTCT
*
8141549 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCC
* * *
8141569 ATTTACTTACTTTCTATTTC
1 ATTTACTTACTTACCATTCC
8141589 ATTTACTTA
1 ATTTACTTA
8141598 GCATAAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:8142468 original size:40 final size:40
Alignment explanation
Indices: 8142254--8142464 Score: 244
Period size: 40 Copynumber: 5.3 Consensus size: 40
8142244 AGATCAACTG
* * *
8142254 AACAAACCAGACAAAAGCTCATAGGAGCTAATCCAACTAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
* * *
8142294 AACACACCAAACAGAAGCTCAAAAGAGCTAATCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
* **
8142334 AACACACCATACAGAAGCTCATAAGAGCTAATCCAACCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
** * *
8142374 AACATGCTAGACAGAATCTCATAAGAGCTAATCCAA-TCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACT-AA
* * * *
8142414 AGCACACTAGATAGAAACTCATAAGAGCTAATCCAACTAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
*
8142454 AACACGCCAGA
1 AACACACCAGA
8142465 TAGAGAGTAT
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 144 0.99
41 1 0.01
ACGTcount: A:0.48, C:0.27, G:0.12, T:0.13
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
Found at i:8146269 original size:18 final size:18
Alignment explanation
Indices: 8146246--8146284 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
8146236 CAACTATTGA
8146246 CTTAGTTAATAATTAGGG
1 CTTAGTTAATAATTAGGG
8146264 CTTAGTTAATAATTAGGG
1 CTTAGTTAATAATTAGGG
8146282 CTT
1 CTT
8146285 CAATTGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (18 bp):
CTTAGTTAATAATTAGGG
Found at i:8149040 original size:18 final size:18
Alignment explanation
Indices: 8149011--8149062 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
8149001 TTATTATGGC
*
8149011 GAACTGTGTTAATTTGGT
1 GAACTGTATTAATTTGGT
* * *
8149029 TATCTGTATTAATATGGT
1 GAACTGTATTAATTTGGT
*
8149047 GAACTGTACTAATTTG
1 GAACTGTATTAATTTG
8149063 CCAAACTGTG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (18 bp):
GAACTGTATTAATTTGGT
Found at i:8149291 original size:22 final size:21
Alignment explanation
Indices: 8149266--8149314 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
8149256 ATATGAGTAA
*
8149266 TATGTACTGCAAATTGTGATAT
1 TATGTACTACAAATTGTG-TAT
* **
8149288 TATGAACTATGAATTGTGTAT
1 TATGTACTACAAATTGTGTAT
8149309 TATGTA
1 TATGTA
8149315 ATAATGTATG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (21 bp):
TATGTACTACAAATTGTGTAT
Found at i:8151365 original size:92 final size:92
Alignment explanation
Indices: 8151208--8151404 Score: 322
Period size: 92 Copynumber: 2.1 Consensus size: 92
8151198 GTATCCTATG
* * *
8151208 TTCATCGGTTCAGGGCATTCTATTACAGAACAATACGTAAATATCTCACTATCTCGTATTCCTTA
1 TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
*
8151273 TGCAAGAATTAGTTCAACAACCAAACA
66 TCCAAGAATTAGTTCAACAACCAAACA
* *
8151300 TTCATCGGTTCAGGGCATTCCATCGCAGAACAATATGTAAATATCTCACTATCTCATATTCCTTA
1 TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
*
8151365 TCCAAGCATTAGTTCAACAACCAAACA
66 TCCAAGAATTAGTTCAACAACCAAACA
*
8151392 TTCATCGGCTCAG
1 TTCATCGGTTCAG
8151405 AATATCTCAA
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 97 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (92 bp):
TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
TCCAAGAATTAGTTCAACAACCAAACA
Found at i:8152245 original size:23 final size:23
Alignment explanation
Indices: 8152219--8152298 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 23
8152209 TTTTAGTTAT
8152219 AATTTACTTATTTACCTAATTAC
1 AATTTACTTATTTACCTAATTAC
* ** * *
8152242 AATTTTAACCTTTACATTATTTTAGTTAT
1 AA-TTT-A-C-TTA-TTTA-CCTAATTAC
8152271 AATTTACTTATTTACCTAATTAC
1 AATTTACTTATTTACCTAATTAC
8152294 AATTT
1 AATTT
8152299 TAACCTTTAC
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 12 0.29
24 6 0.15
25 4 0.10
26 2 0.05
27 4 0.10
28 6 0.15
29 7 0.17
ACGTcount: A:0.34, C:0.14, G:0.01, T:0.51
Consensus pattern (23 bp):
AATTTACTTATTTACCTAATTAC
Found at i:8152267 original size:52 final size:52
Alignment explanation
Indices: 8152206--8152313 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
8152196 AATTTGACTT
8152206 TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
1 TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
8152258 TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
1 TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
8152310 TTAT
1 TTAT
8152314 GAATTATAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (52 bp):
TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
Found at i:8153152 original size:17 final size:17
Alignment explanation
Indices: 8153132--8153170 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8153122 ATGATGTGGT
*
8153132 ATGAATTG-TCATTTTGC
1 ATGAATTGAT-ATTTTAC
8153149 ATGAATTGATATTTTAC
1 ATGAATTGATATTTTAC
8153166 ATGAA
1 ATGAA
8153171 CAACTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (17 bp):
ATGAATTGATATTTTAC
Found at i:8161339 original size:12 final size:11
Alignment explanation
Indices: 8161317--8161372 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
8161307 TTTTAAAATT
*
8161317 TATACATAATA
1 TATAAATAATA
8161328 TAATAAATAATA
1 T-ATAAATAATA
* *
8161340 TA-CAATAAAA
1 TATAAATAATA
8161350 TATAAATAATA
1 TATAAATAATA
8161361 TAATAAATAATA
1 T-ATAAATAATA
8161373 CAAATAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 9 0.24
12 20 0.54
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAATAATA
Found at i:8161341 original size:21 final size:20
Alignment explanation
Indices: 8161317--8161372 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
8161307 TTTTAAAATT
8161317 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
8161338 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
8161359 TATA-ATAAATAATA
1 TATACATAAATAATA
8161373 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:8161348 original size:14 final size:13
Alignment explanation
Indices: 8161322--8161387 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
8161312 AAATTTATAC
8161322 ATAATAT-AATAA
1 ATAATATAAATAA
8161334 ATAATATACAAT-A
1 ATAATATA-AATAA
8161347 A-AATATAAATAA
1 ATAATATAAATAA
* *
8161359 TATAATAAATAATAC
1 -ATAATATA-AATAA
8161374 A-AATA-AAATAA
1 ATAATATAAATAA
8161385 ATA
1 ATA
8161388 TTTTTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.18
12 16 0.36
13 7 0.16
14 9 0.20
15 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAATAA
Found at i:8161359 original size:33 final size:32
Alignment explanation
Indices: 8161317--8161383 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
8161307 TTTTAAAATT
* *
8161317 TATACATAATATAATAAATAATATACAATAAAA
1 TATAAATAATATAATAAATAATACA-AATAAAA
8161350 TATAAATAATATAATAAATAATACAAATAAAA
1 TATAAATAATATAATAAATAATACAAATAAAA
8161382 TA
1 TA
8161384 AATATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
TATAAATAATATAATAAATAATACAAATAAAA
Found at i:8161368 original size:18 final size:18
Alignment explanation
Indices: 8161330--8161388 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
8161320 ACATAATATA
8161330 ATAAATAATATACAATAAAAT
1 ATAAATAATAT--AAT-AAAT
8161351 ATAAATAATATAATAAAT
1 ATAAATAATATAATAAAT
* *
8161369 AATACA-AATAAAATAAAT
1 -ATAAATAATATAATAAAT
8161387 AT
1 AT
8161389 TTTTTTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 7 0.20
21 11 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATATAATAAAT
Found at i:8161444 original size:25 final size:26
Alignment explanation
Indices: 8161416--8161466 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
8161406 AGGTTTAAAG
8161416 TAAAATAAATAA-TATACAAAATATT
1 TAAAATAAATAACTATACAAAATATT
*
8161441 TAAAATAAATAACTTATATAAAATAT
1 TAAAATAAATAAC-TATACAAAATAT
8161467 ATATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
27 11 0.48
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAAATAAATAACTATACAAAATATT
Found at i:8161460 original size:29 final size:30
Alignment explanation
Indices: 8161409--8161468 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
8161399 ATAAATAAGG
*
8161409 TTTAAAGTAAAATAAATAATATACAAA-ATA
1 TTTAAAATAAAATAAATAATATA-AAATATA
* *
8161439 TTTAAAAT-AAATAACTTATATAAAATATA
1 TTTAAAATAAAATAAATAATATAAAATATA
8161468 T
1 T
8161469 ATATAAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 3 0.12
29 16 0.62
30 7 0.27
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (30 bp):
TTTAAAATAAAATAAATAATATAAAATATA
Done.