Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 390 of 427
Found at i:113147832 original size:2 final size:2
Alignment explanation
Indices: 113147827--113147867 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
113147817 GTTTCGTTTT
113147827 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113147868 TAACAATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113147906 original size:15 final size:16
Alignment explanation
Indices: 113147881--113147922 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
113147871 CAATAAAGAT
113147881 ATCTA-TTAATAA-AA
1 ATCTATTTAATAACAA
113147895 ATCTATTTAATAACAA
1 ATCTATTTAATAACAA
113147911 ATACTTATTTAA
1 AT-C-TATTTAA
113147923 CACTTGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.21
15 7 0.29
16 4 0.17
17 1 0.04
18 7 0.29
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
ATCTATTTAATAACAA
Found at i:113148581 original size:21 final size:23
Alignment explanation
Indices: 113148548--113148600 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
113148538 ATACAGGGAG
*
113148548 AAGTATAAGAGAAT-GAAAA-AAA
1 AAGT-TAAAAGAATAGAAAAGAAA
*
113148570 AAGTTAAAAGAATATAAAAGAAA
1 AAGTTAAAAGAATAGAAAAGAAA
*
113148593 AAATTAAA
1 AAGTTAAA
113148601 TTGCTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 8 0.31
22 8 0.31
23 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (23 bp):
AAGTTAAAAGAATAGAAAAGAAA
Found at i:113148949 original size:26 final size:27
Alignment explanation
Indices: 113148912--113148968 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
113148902 TAATTTTTAA
* * *
113148912 AAAAATAGAAAATTAAAATTATTTTCT
1 AAAAATAGAAAATAAAAATTACTTTCG
113148939 AAAAAT-GAAAATAAAAATTACTTTCG
1 AAAAATAGAAAATAAAAATTACTTTCG
113148965 AAAA
1 AAAA
113148969 CCAAATAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAAATAGAAAATAAAAATTACTTTCG
Found at i:113149542 original size:15 final size:15
Alignment explanation
Indices: 113149522--113149573 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
113149512 ACTATAAAAC
113149522 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
113149537 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
113149556 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
113149571 ATT
1 ATT
113149574 AATATCGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:113149559 original size:19 final size:19
Alignment explanation
Indices: 113149535--113149571 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
113149525 TATTATTAAT
*
113149535 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
113149554 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
113149572 TTAATATCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:113149624 original size:16 final size:17
Alignment explanation
Indices: 113149603--113149641 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
113149593 AATATGTGAA
113149603 AATATTATTTAAAA-TT
1 AATATTATTTAAAACTT
113149619 AATATT-TTTAAAACTT
1 AATATTATTTAAAACTT
*
113149635 ATTATTA
1 AATATTA
113149642 AAATAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATTATTTAAAACTT
Found at i:113150569 original size:29 final size:30
Alignment explanation
Indices: 113150511--113150606 Score: 108
Period size: 30 Copynumber: 3.2 Consensus size: 30
113150501 AATACGAAAA
* *
113150511 TTATATATG-AATTATGATTTAAGATATAATT
1 TTATATATGAAATTTTGATTT--GATCTAATT
* *
113150542 TTATATAT-AAATTTTGATTTTATGTAATT
1 TTATATATGAAATTTTGATTTGATCTAATT
*
113150571 TTATACATGAAATTTTGATTTGATCTAATT
1 TTATATATGAAATTTTGATTTGATCTAATT
113150601 TT-TATA
1 TTATATA
113150607 GATTATTAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
29 17 0.30
30 21 0.38
31 18 0.32
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.53
Consensus pattern (30 bp):
TTATATATGAAATTTTGATTTGATCTAATT
Found at i:113150691 original size:25 final size:23
Alignment explanation
Indices: 113150642--113150692 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
113150632 ATATCGTTTT
* *
113150642 ATATTTATATATTGCATACACAA
1 ATATTTATATATTCCATACAAAA
*
113150665 ATATTTATATATATCCAATATAAAA
1 ATATTTATATAT-TCC-ATACAAAA
113150690 ATA
1 ATA
113150693 AATTGATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 12 0.52
24 2 0.09
25 9 0.39
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATTTATATATTCCATACAAAA
Found at i:113153245 original size:44 final size:44
Alignment explanation
Indices: 113153182--113153269 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
113153172 AATAGAAAAA
*
113153182 AATGACAAGGGACCAAATTAGTATTTAAACCAAATTAGTGACAT
1 AATGACAAGGGACCAAATTAATATTTAAACCAAATTAGTGACAT
*
113153226 AATGACAAGGGACTAAATTAATATTTAAACCAAATTAGTGACAT
1 AATGACAAGGGACCAAATTAATATTTAAACCAAATTAGTGACAT
113153270 GTGTAAGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (44 bp):
AATGACAAGGGACCAAATTAATATTTAAACCAAATTAGTGACAT
Found at i:113153374 original size:3 final size:3
Alignment explanation
Indices: 113153366--113153418 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
113153356 AGATATTTAC
113153366 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
113153412 TCTA TTA
1 T-TA TTA
113153419 ATTGAGATAG
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:113153568 original size:16 final size:16
Alignment explanation
Indices: 113153544--113153574 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
113153534 TAAGTAAATA
*
113153544 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
113153560 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
113153575 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:113154972 original size:13 final size:13
Alignment explanation
Indices: 113154936--113154972 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
113154926 TGATAGTTTG
*
113154936 GTATGAATTTATAT
1 GTATG-ATTTGTAT
113154950 GTATGATTTGTAT
1 GTATGATTTGTAT
113154963 GTATGATTTG
1 GTATGATTTG
113154973 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:113155493 original size:20 final size:20
Alignment explanation
Indices: 113155470--113155528 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
113155460 TCCCACGGCC
113155470 ATGTCCCAAGCCACACGGGT
1 ATGTCCCAAGCCACACGGGT
113155490 ATGTCCCAAGCCACACGGGT
1 ATGTCCCAAGCCACACGGGT
*
113155510 ATGTCCCAGGCCACACGGG
1 ATGTCCCAAGCCACACGGG
113155529 CGTATGCCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.24, C:0.36, G:0.27, T:0.14
Consensus pattern (20 bp):
ATGTCCCAAGCCACACGGGT
Found at i:113160094 original size:21 final size:21
Alignment explanation
Indices: 113160070--113160109 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
113160060 GTTGAGTATG
113160070 GAGGAATTGCCATACGATGCT
1 GAGGAATTGCCATACGATGCT
* *
113160091 GAGGTATTGCCATATGATG
1 GAGGAATTGCCATACGATG
113160110 TTACATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (21 bp):
GAGGAATTGCCATACGATGCT
Found at i:113161923 original size:21 final size:21
Alignment explanation
Indices: 113161899--113162039 Score: 104
Period size: 21 Copynumber: 6.7 Consensus size: 21
113161889 ATGTTTTACT
*
113161899 TTCTATTTAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * * *
113161920 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAGCTCTTACGAGC
* * *
113161941 TTCCGTTCAGCT-TTATTGAGC
1 TTCTGTTTAGCTCTTA-CGAGC
* * * * *
113161962 TTCTATTCAACTCTTATGAGT
1 TTCTGTTTAGCTCTTACGAGC
*
113161983 TTCTGTTTAGCTCTTACAAGC
1 TTCTGTTTAGCTCTTACGAGC
* * * *
113162004 TTCTATTTAACTCATACGAGT
1 TTCTGTTTAGCTCTTACGAGC
113162025 TTCTGTTTAGCTCTT
1 TTCTGTTTAGCTCTT
113162040 GCAAGCTTTT
Statistics
Matches: 90, Mismatches: 28, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
20 2 0.02
21 85 0.94
22 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTACGAGC
Found at i:113161962 original size:42 final size:42
Alignment explanation
Indices: 113161898--113162066 Score: 196
Period size: 42 Copynumber: 4.0 Consensus size: 42
113161888 CATGTTTTAC
* *
113161898 TTTCTATTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAG
* * * * *
113161940 TTTCCGTTCAGCT-TTATTGAGCTTCTATTCAACTCTTATGAG
1 TTTCTGTTTAGCTCTTA-CGAGCTTCTATTTAACTCATATGAG
* *
113161982 TTTCTGTTTAGCTCTTACAAGCTTCTATTTAACTCATACGAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAG
* * * * *
113162024 TTTCTGTTTAGCTCTTGCAAGCTTTTATTCAACTCTTATGAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAG
113162066 T
1 T
113162067 AGGGGTGTTC
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 3 0.03
42 100 0.94
43 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAG
Found at i:113162047 original size:84 final size:83
Alignment explanation
Indices: 113161898--113162066 Score: 232
Period size: 84 Copynumber: 2.0 Consensus size: 83
113161888 CATGTTTTAC
* * *
113161898 TTTCTATTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTTTATTGAGCT
1 TTTCTATTTAGCTCTTACAAGCTTCTATTTAACTCATACGAGTTTCCGTTCAGC-TTATTGAGCT
113161963 TCTATTCAACTCTTATGAG
65 TCTATTCAACTCTTATGAG
* * * *
113161982 TTTCTGTTTAGCTCTTACAAGCTTCTATTTAACTCATACGAGTTTCTGTTTAGC-TCTTGCAAGC
1 TTTCTATTTAGCTCTTACAAGCTTCTATTTAACTCATACGAGTTTCCGTTCAGCTTATTG--AGC
*
113162046 TTTTATTCAACTCTTATGAG
64 TTCTATTCAACTCTTATGAG
113162066 T
1 T
113162067 AGGGGTGTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 4 0.05
84 71 0.95
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (83 bp):
TTTCTATTTAGCTCTTACAAGCTTCTATTTAACTCATACGAGTTTCCGTTCAGCTTATTGAGCTT
CTATTCAACTCTTATGAG
Found at i:113162225 original size:18 final size:18
Alignment explanation
Indices: 113162197--113162246 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
113162187 ATAAGTATAA
* *
113162197 AATTAAACGAATTACCTG
1 AATTAACCGAATTACCCG
**
113162215 AATTTGCCGAATTACCCG
1 AATTAACCGAATTACCCG
113162233 AATTAACCGAATTA
1 AATTAACCGAATTA
113162247 TTTGTATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:113162280 original size:5 final size:6
Alignment explanation
Indices: 113162265--113162311 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
113162255 AAATTATATT
*
113162265 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTAAA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
113162312 ATTAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 28 0.76
7 8 0.22
8 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:113162286 original size:20 final size:20
Alignment explanation
Indices: 113162265--113162319 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
113162255 AAATTATATT
113162265 TTTTTATTTTT--ATTTTTA
1 TTTTTATTTTTAAATTTTTA
*
113162283 TTTTTAGTTTTAAATTTTTA
1 TTTTTATTTTTAAATTTTTA
113162303 TTTTTATTTATTAAATT
1 TTTTTATTT-TTAAATT
113162320 ATTTGTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 10 0.31
20 15 0.47
21 7 0.22
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTTATTTTTAAATTTTTA
Found at i:113162630 original size:21 final size:21
Alignment explanation
Indices: 113162606--113162731 Score: 126
Period size: 21 Copynumber: 6.0 Consensus size: 21
113162596 CACACCCCTA
* * *
113162606 CTTATGAGTTTTTATTTAGCT
1 CTTATGAGTTTCTGTTCAGCT
* * *
113162627 CTTACGAGCTTCTGTTCAACT
1 CTTATGAGTTTCTGTTCAGCT
*
113162648 CTTATGAGTTTCTGTTAAGCT
1 CTTATGAGTTTCTGTTCAGCT
* * **
113162669 TTTATGAGCTTCTGTTCAAAT
1 CTTATGAGTTTCTGTTCAGCT
* *
113162690 CTTAAGAGTTTTTGTTCAGCT
1 CTTATGAGTTTCTGTTCAGCT
*
113162711 CTTATGAGCTTCTGTTCAGCT
1 CTTATGAGTTTCTGTTCAGCT
113162732 TACGAGCTTC
Statistics
Matches: 81, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 81 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (21 bp):
CTTATGAGTTTCTGTTCAGCT
Found at i:113162652 original size:42 final size:42
Alignment explanation
Indices: 113162606--113162728 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
113162596 CACACCCCTA
* * * *
113162606 CTTATGAGTTTTTATTTAGCTCTTACGAGCTTCTGTTCAACT
1 CTTATGAGTTTTTGTTAAGCTCTTATGAGCTTCTGTTCAAAT
* *
113162648 CTTATGAGTTTCTGTTAAGCTTTTATGAGCTTCTGTTCAAAT
1 CTTATGAGTTTTTGTTAAGCTCTTATGAGCTTCTGTTCAAAT
* *
113162690 CTTAAGAGTTTTTGTTCAGCTCTTATGAGCTTCTGTTCA
1 CTTATGAGTTTTTGTTAAGCTCTTATGAGCTTCTGTTCA
113162729 GCTTACGAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (42 bp):
CTTATGAGTTTTTGTTAAGCTCTTATGAGCTTCTGTTCAAAT
Found at i:113167603 original size:40 final size:40
Alignment explanation
Indices: 113167556--113167631 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
113167546 GAAAAAAATG
113167556 TGATTAAATTGGAAAATTATAAAAGTTTATAAGAAAATAC
1 TGATTAAATTGGAAAATTATAAAAGTTTATAAGAAAATAC
113167596 TGATTAAATTGGAAAATTATAAAAGTTTATAAGAAA
1 TGATTAAATTGGAAAATTATAAAAGTTTATAAGAAA
113167632 TATTGGTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.53, C:0.01, G:0.13, T:0.33
Consensus pattern (40 bp):
TGATTAAATTGGAAAATTATAAAAGTTTATAAGAAAATAC
Found at i:113168203 original size:25 final size:25
Alignment explanation
Indices: 113168175--113168252 Score: 111
Period size: 25 Copynumber: 3.1 Consensus size: 25
113168165 CGTAGCGCGT
113168175 TCTCTGATTATTAGCATGTTAGTGC
1 TCTCTGATTATTAGCATGTTAGTGC
* *
113168200 TCTCTGATTTTTAGGATGTTAGTGC
1 TCTCTGATTATTAGCATGTTAGTGC
* * *
113168225 TCTCCGATTATTAGCATATTTGTGC
1 TCTCTGATTATTAGCATGTTAGTGC
113168250 TCT
1 TCT
113168253 TTGTATAGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.18, C:0.17, G:0.19, T:0.46
Consensus pattern (25 bp):
TCTCTGATTATTAGCATGTTAGTGC
Found at i:113178671 original size:25 final size:25
Alignment explanation
Indices: 113178643--113178704 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
113178633 TTTCTAACTA
* *
113178643 ATCACTAAATTGATAAAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
** *
113178668 ATCAATATTTTCATACAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
113178693 ATCATATAAATT
1 ATCA-ATAAATT
113178705 TTCAAGCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (25 bp):
ATCAATAAATTCATAAAATTTTCCT
Found at i:113180518 original size:16 final size:18
Alignment explanation
Indices: 113180487--113180526 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
113180477 TAAAATATGC
*
113180487 TTGATATTGTAATTGATT
1 TTGATATTGTAATTGAAT
113180505 TTGAT-TTG-AATTGAAT
1 TTGATATTGTAATTGAAT
113180521 TTGATA
1 TTGATA
113180527 GTATTGTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (18 bp):
TTGATATTGTAATTGAAT
Found at i:113189355 original size:16 final size:16
Alignment explanation
Indices: 113189334--113189365 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
113189324 AAAGAAAGAA
113189334 AGTGATGACAGTTTAT
1 AGTGATGACAGTTTAT
113189350 AGTGATGACAGTTTAT
1 AGTGATGACAGTTTAT
113189366 TTACTGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
AGTGATGACAGTTTAT
Found at i:113191802 original size:24 final size:24
Alignment explanation
Indices: 113191765--113191845 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
113191755 CAGTGGGGTG
* *
113191765 AGGTGCAGATGGACTGGAAGGCTC
1 AGGTGCAAAAGGACTGGAAGGCTC
* * *
113191789 TGGTGCAAAAGGACCAGAAGCAGGCTC
1 AGGTGCAAAAGGA-CTG--GAAGGCTC
*
113191816 AGGTGCAAAGGGACTGGAAGGCTC
1 AGGTGCAAAAGGACTGGAAGGCTC
*
113191840 GGGTGC
1 AGGTGC
113191846 TGGAAAAGGA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 22 0.50
25 2 0.05
26 2 0.05
27 18 0.41
ACGTcount: A:0.27, C:0.19, G:0.41, T:0.14
Consensus pattern (24 bp):
AGGTGCAAAAGGACTGGAAGGCTC
Found at i:113194473 original size:3 final size:3
Alignment explanation
Indices: 113194467--113194516 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
113194457 AGGCTTTTGG
113194467 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113194515 TA
1 TA
113194517 AATAATAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:113194842 original size:29 final size:31
Alignment explanation
Indices: 113194809--113194873 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
113194799 TCAATCATCA
*
113194809 ATTTTTTT-TAAA-TGTTTA-AT-TATTTTT
1 ATTTTTTTATAAATTATTTATATATATTTTT
113194836 ATTTTTTTATAAATTATTTATATATATTTTT
1 ATTTTTTTATAAATTATTTATATATATTTTT
113194867 ATTTTTT
1 ATTTTTT
113194874 AATATTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 8 0.24
28 4 0.12
29 5 0.15
30 2 0.06
31 14 0.42
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (31 bp):
ATTTTTTTATAAATTATTTATATATATTTTT
Found at i:113194850 original size:21 final size:23
Alignment explanation
Indices: 113194826--113194868 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
113194816 TTAAATGTTT
*
113194826 AATTATTT-T-TATTTTTTTATA
1 AATTATTTATATATATTTTTATA
113194847 AATTATTTATATATATTTTTAT
1 AATTATTTATATATATTTTTAT
113194869 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 1 0.05
23 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
AATTATTTATATATATTTTTATA
Found at i:113201699 original size:2 final size:2
Alignment explanation
Indices: 113201692--113201735 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
113201682 ATTAATAGTT
113201692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113201733 TA T
1 TA T
113201736 TAGGTTTCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:113202569 original size:127 final size:126
Alignment explanation
Indices: 113202293--113202641 Score: 377
Period size: 127 Copynumber: 2.7 Consensus size: 126
113202283 CGACAAATTC
* * * * * * *
113202293 TGCCCAATCGTGTTAGGTTTCGATTTTTCGTTCAGCTAAAATACGGAATATCCTTTGAAAATTTT
1 TGCCCAATCGTGTTGGGCTTCAATTTTCCATTCGGCTAAAATACGGAATATCCTTTGAAAATTTC
* * * * *
113202358 GTCCAATTTTTTTTTTTTAAAATTAAAAAGAGGTAATATTTCGTGTTTGGAAGGTTAGGAGGTCG
66 GTCC-A---TGTTTTTTTAAAATTAAAATGAGCTAATATTTCGTCTTGGGAAGGTTAGGAGGTCG
113202423 TGCCCAATCGTGTTGGGCTTCAATTTTCCATTCGGCTAAAATACGGAATATCCTTTGAAAATTTC
1 TGCCCAATCGTGTTGGGCTTCAATTTTCCATTCGGCTAAAATACGGAATATCCTTTGAAAATTTC
* *
113202488 GTCCATGTTTTTTTAAAAATTAAAATGAGACT-ATATTTC-TACTTGGGGA-GTTTGG-GGAATC
66 GTCCATGTTTTTTT-AAAATTAAAATGAG-CTAATATTTCGT-CTTGGGAAGGTTAGGAGG--TC
113202549 G
126 G
* * * *
113202550 TGCCCAATCGTGTTGGGCTTCAATTTTCCATCCGACTAAAATACAGAATATCCTTTTG-AAGTTT
1 TGCCCAATCGTGTTGGGCTTCAATTTTCCATTCGGCTAAAATACGGAATATCC-TTTGAAAATTT
* * *
113202614 CATCCATG-TTTTCTCAAATTAAAATGAG
65 CGTCCATGTTTTTTTAAAATTAAAATGAG
113202642 GCAATGTTTT
Statistics
Matches: 192, Mismatches: 21, Indels: 17
0.83 0.09 0.07
Matches are distributed among these distances:
125 15 0.08
126 19 0.10
127 90 0.47
128 5 0.03
129 1 0.01
130 62 0.32
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (126 bp):
TGCCCAATCGTGTTGGGCTTCAATTTTCCATTCGGCTAAAATACGGAATATCCTTTGAAAATTTC
GTCCATGTTTTTTTAAAATTAAAATGAGCTAATATTTCGTCTTGGGAAGGTTAGGAGGTCG
Found at i:113215608 original size:19 final size:18
Alignment explanation
Indices: 113215576--113215612 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
113215566 AATAAATTAT
113215576 TTTAAAAACTTAAAAATG
1 TTTAAAAACTTAAAAATG
*
113215594 TTTAAAAAGTATAAAAATG
1 TTTAAAAACT-TAAAAATG
113215613 ATAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (18 bp):
TTTAAAAACTTAAAAATG
Found at i:113218774 original size:13 final size:13
Alignment explanation
Indices: 113218756--113218780 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113218746 ATACCCCTAA
113218756 CCTGTATCTGTTT
1 CCTGTATCTGTTT
113218769 CCTGTATCTGTT
1 CCTGTATCTGTT
113218781 GTCAGAACAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.24, G:0.16, T:0.52
Consensus pattern (13 bp):
CCTGTATCTGTTT
Found at i:113221521 original size:49 final size:48
Alignment explanation
Indices: 113221299--113221579 Score: 222
Period size: 47 Copynumber: 5.9 Consensus size: 48
113221289 TGGCAACATA
* *
113221299 TGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATTGGAGAGATG
1 TGATATGTGA-TTACGTATAAGACCATAGCTGGGCTATGGCA-T--CGA-ATG
* * * * ** *
113221352 TGATTATGTGCTTCCGTATAAGACCATATCTGGGATATAACATCG-GTG
1 TGA-TATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGAATG
* * * * *
113221400 TGATATATG-CTACTGTATAAGACCATATCTGGGATATGGCATC-AGTG
1 TGATATGTGATTAC-GTATAAGACCATAGCTGGGCTATGGCATCGAATG
* *
113221447 AGATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATG
1 TGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGA-ATG
*
113221495 TGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGG--T---AT-
1 TGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGAATG
* * * * *
113221537 TGATATGTGAATATGTGTAAGACCGTAGCTGGTCTATGGCATC
1 TGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATC
113221580 ATTATGTGAA
Statistics
Matches: 194, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
42 35 0.18
43 2 0.01
44 1 0.01
46 28 0.14
47 45 0.23
48 19 0.10
49 26 0.13
50 1 0.01
52 1 0.01
53 30 0.15
54 6 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (48 bp):
TGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGAATG
Found at i:113221555 original size:42 final size:41
Alignment explanation
Indices: 113221495--113221620 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 41
113221485 CATCGATATG
* * *
113221495 TGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGTA
1 TGATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCA
* *
113221536 TTGATATGTGAATATGTGTAAGACCGTAGCTGGTCTATGGCA
1 -TGATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCA
* * * **
113221578 TCATTATGTGAAGATGTGTAAGACCATAGTTGAACTATGGCA
1 TGA-TATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCA
113221620 T
1 T
113221621 CGAGAAAATA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 2 0.03
42 70 0.97
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (41 bp):
TGATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCA
Found at i:113223865 original size:46 final size:46
Alignment explanation
Indices: 113223813--113224023 Score: 298
Period size: 46 Copynumber: 4.6 Consensus size: 46
113223803 CCATAGTGTT
*
113223813 TTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATC
* *
113223859 TTTCAACCATGGTCTTATTCATTTC-TCGTCATGTTGCCATGGTATT
1 TTTCAACCATGGTCTTACTCATTTCAT-GTCATGTTGCCATGGTATC
** * *
113223905 TTTCAACCATGGTCTTGTTCATTTCATGTCACGTTGCCATGATATC
1 TTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATC
* * *
113223951 TTTCAATCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATC
* *
113223997 TTTCAACCATGGTATTACACATTTCAT
1 TTTCAACCATGGTCTTACTCATTTCAT
113224024 TTCAGAAAGC
Statistics
Matches: 148, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 146 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATC
Found at i:113227037 original size:20 final size:21
Alignment explanation
Indices: 113226984--113227061 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 21
113226974 ACCCAGTAGG
* *
113226984 GTTAAACTGAAACTTATAAGA
1 GTTAAACTGAAACTCATTAGA
* * *
113227005 GTTGAATTGAAACTCATTAGG
1 GTTAAACTGAAACTCATTAGA
*
113227026 GTT-AACTGAAACT-AATATGA
1 GTTAAACTGAAACTCATTA-GA
*
113227046 GTT-AACTGAAGCTCAT
1 GTTAAACTGAAACTCAT
113227062 GTGAGCTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 22 0.49
21 20 0.44
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
GTTAAACTGAAACTCATTAGA
Found at i:113227038 original size:41 final size:41
Alignment explanation
Indices: 113226980--113227061 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
113226970 GAAAACCCAG
* *
113226980 TAGGGTTAAACTGAAACTTATAAGAGTTGAATTGAAACTCAT
1 TAGGGTTAAACTGAAACTAATAAGAGTT-AACTGAAACTCAT
* *
113227022 TAGGGTT-AACTGAAACTAATATGAGTTAACTGAAGCTCAT
1 TAGGGTTAAACTGAAACTAATAAGAGTTAACTGAAACTCAT
113227062 GTGAGCTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 11 0.31
41 18 0.50
42 7 0.19
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (41 bp):
TAGGGTTAAACTGAAACTAATAAGAGTTAACTGAAACTCAT
Found at i:113227066 original size:20 final size:20
Alignment explanation
Indices: 113226988--113227055 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
113226978 AGTAGGGTTA
* *
113226988 AACTGAAACTTATAAGAGTT
1 AACTGAAACTAATATGAGTT
* * *
113227008 GAATTGAAACTCAT-TAGGGTT
1 -AACTGAAACTAATAT-GAGTT
113227029 AACTGAAACTAATATGAGTT
1 AACTGAAACTAATATGAGTT
113227049 AACTGAA
1 AACTGAA
113227056 GCTCATGTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (20 bp):
AACTGAAACTAATATGAGTT
Found at i:113232894 original size:3 final size:3
Alignment explanation
Indices: 113232886--113232919 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
113232876 GCCCTTTTAC
113232886 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
113232920 TATCGCTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:113246725 original size:46 final size:46
Alignment explanation
Indices: 113246675--113246848 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
113246665 GTTGAGCATC
*
113246675 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
* * *
113246721 CGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCAT
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G-AT
* * * * **
113246767 CCAAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCC
1 CGAA-CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
*
113246814 CGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
113246849 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.58
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
Found at i:113246829 original size:93 final size:93
Alignment explanation
Indices: 113246670--113246841 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
113246660 GGATGGTTGA
* * ** *
113246670 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
113246735 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
113246763 GCATCC-AAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GCATCCGAA-CTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
113246827 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
113246842 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:113251593 original size:17 final size:16
Alignment explanation
Indices: 113251560--113251603 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
113251550 TTATAGATTA
* *
113251560 AAAAATAAAGATTTTT
1 AAAAATAAATATATTT
113251576 AAAATATAAATATATTT
1 AAAA-ATAAATATATTT
*
113251593 AATAATAAATA
1 AAAAATAAATA
113251604 ATAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AAAAATAAATATATTT
Found at i:113252667 original size:2 final size:2
Alignment explanation
Indices: 113252660--113252703 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
113252650 ATTAATTTTA
113252660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113252702 AT
1 AT
113252704 GATGTTCTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113261160 original size:14 final size:14
Alignment explanation
Indices: 113261141--113261167 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
113261131 TCTTTTATAA
113261141 AACTAAATAATTTG
1 AACTAAATAATTTG
113261155 AACTAAATAATTT
1 AACTAAATAATTT
113261168 TTATAATATT
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:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (14 bp):
AACTAAATAATTTG
Found at i:113266969 original size:35 final size:35
Alignment explanation
Indices: 113266923--113266990 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
113266913 ATGAAAATAA
113266923 ATTTTTAATTAAATAAATTTAATTTAGACAACCTT
1 ATTTTTAATTAAATAAATTTAATTTAGACAACCTT
113266958 ATTTTTAATTAAATAAATTTAATTTAGACAACC
1 ATTTTTAATTAAATAAATTTAATTTAGACAACC
113266991 ACTTAGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (35 bp):
ATTTTTAATTAAATAAATTTAATTTAGACAACCTT
Found at i:113270079 original size:56 final size:56
Alignment explanation
Indices: 113269993--113270103 Score: 222
Period size: 56 Copynumber: 2.0 Consensus size: 56
113269983 AGATAAGTTA
113269993 GAAAGGATCAAATTGTCTTCCTTTCTATTCTCACTTTGTCCAACTTGTGAAACACG
1 GAAAGGATCAAATTGTCTTCCTTTCTATTCTCACTTTGTCCAACTTGTGAAACACG
113270049 GAAAGGATCAAATTGTCTTCCTTTCTATTCTCACTTTGTCCAACTTGTGAAACAC
1 GAAAGGATCAAATTGTCTTCCTTTCTATTCTCACTTTGTCCAACTTGTGAAACAC
113270104 CATCCCATGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (56 bp):
GAAAGGATCAAATTGTCTTCCTTTCTATTCTCACTTTGTCCAACTTGTGAAACACG
Found at i:113273380 original size:46 final size:46
Alignment explanation
Indices: 113273313--113273480 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 46
113273303 CGCCCCTAAG
113273313 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGCATCCATAAA
* * *
113273359 TGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTA-CAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTAGCATCCATAAA
* * * * *
113273406 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGCATCCATAAA
* *
113273452 TGAACTTGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGCTCGG
113273481 ATGCTCAACC
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 53 0.54
47 27 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGCATCCATAAA
Found at i:113273424 original size:93 final size:93
Alignment explanation
Indices: 113273314--113273484 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
113273304 GCCCCTAAGT
* *
113273314 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAATGAACTCGGACTCAACTCAA
*
113273379 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
113273407 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAATGAACTCGGACTCAACTCAA
113273472 CGAGTTCGGATGC
66 CGAGTTCGGATGC
113273485 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:113275878 original size:44 final size:45
Alignment explanation
Indices: 113275810--113275901 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 45
113275800 ATCAATCAAC
113275810 TACATGTTAGTCTTAATGCATTATTGTTGTCCTAGCCAACAATAA
1 TACATGTTAGTCTTAATGCATTATTGTTGTCCTAGCCAACAATAA
*
113275855 TACA-GTTAGTCTTAATGCATTATTGTTGTCCTGGCCAACAATAA
1 TACATGTTAGTCTTAATGCATTATTGTTGTCCTAGCCAACAATAA
113275899 TAC
1 TAC
113275902 TTGACTAAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (45 bp):
TACATGTTAGTCTTAATGCATTATTGTTGTCCTAGCCAACAATAA
Found at i:113276090 original size:41 final size:41
Alignment explanation
Indices: 113276033--113276113 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
113276023 GATAAATCAA
113276033 GTATGTTATTACAACCATCTCGTGATTGATCTTTGGGCATT
1 GTATGTTATTACAACCATCTCGTGATTGATCTTTGGGCATT
113276074 GTATGTTATTACAACCATCTCGTGATTGATCTTTGGGCAT
1 GTATGTTATTACAACCATCTCGTGATTGATCTTTGGGCAT
113276114 ACTCTTACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (41 bp):
GTATGTTATTACAACCATCTCGTGATTGATCTTTGGGCATT
Found at i:113280482 original size:3 final size:3
Alignment explanation
Indices: 113280474--113280511 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
113280464 ATTTAAAGTA
113280474 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 AA
113280512 GAGAATATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:113284434 original size:8 final size:8
Alignment explanation
Indices: 113284421--113284450 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
113284411 GAATTTAGAA
113284421 GAATTGGT
1 GAATTGGT
113284429 GAATTGGT
1 GAATTGGT
113284437 GAATTTGGT
1 GAA-TTGGT
113284446 GAATT
1 GAATT
113284451 AAAACAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (8 bp):
GAATTGGT
Found at i:113285733 original size:35 final size:35
Alignment explanation
Indices: 113285694--113285802 Score: 130
Period size: 35 Copynumber: 3.1 Consensus size: 35
113285684 GAAACGCAGA
* * *
113285694 TATGGTATCATCCATATTGAGTTGTGATAA-GTAGG
1 TATGGTATTATCCATAATGAGTTGTGA-AACATAGG
*
113285729 TATGGTATTAACCATAATGAGTTGTGAAACATAGG
1 TATGGTATTATCCATAATGAGTTGTGAAACATAGG
* ** *
113285764 TATGGTATTATCCATACTGAGTTAAGAAACGTAGG
1 TATGGTATTATCCATAATGAGTTGTGAAACATAGG
113285799 TATG
1 TATG
113285803 AGGTGTGAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 2 0.03
35 62 0.97
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (35 bp):
TATGGTATTATCCATAATGAGTTGTGAAACATAGG
Found at i:113300682 original size:16 final size:17
Alignment explanation
Indices: 113300643--113300683 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
113300633 TTTTATATTT
*
113300643 TTATATAATATTTTATA
1 TTATTTAATATTTTATA
113300660 TTA-TTAATATTTTA-A
1 TTATTTAATATTTTATA
113300675 TTATTTAAT
1 TTATTTAAT
113300684 CGTTGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 15 0.68
17 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTTAATATTTTATA
Found at i:113305120 original size:43 final size:43
Alignment explanation
Indices: 113305042--113305129 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
113305032 ATATACATAA
* *
113305042 TTTAAGTTTAAGAAATTATTTTTATACAATAATAATAAAATAT
1 TTTAAGTTTAAGAAATTATTTTTAAAAAATAATAATAAAATAT
* * * *
113305085 TTTAATTTTAAGACA-TATTTTTAAAAAATATATAATTATATAT
1 TTTAAGTTTAAGAAATTATTTTTAAAAAATA-ATAATAAAATAT
113305128 TT
1 TT
113305130 ATTATTAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 13 0.34
43 25 0.66
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
TTTAAGTTTAAGAAATTATTTTTAAAAAATAATAATAAAATAT
Found at i:113305985 original size:16 final size:16
Alignment explanation
Indices: 113305953--113305984 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
113305943 ATAAATTTTT
113305953 ATTTTATTAAATAAAA
1 ATTTTATTAAATAAAA
113305969 ATTTTA-TAAATAAAA
1 ATTTTATTAAATAAAA
113305984 A
1 A
113305985 AAGAATGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTTATTAAATAAAA
Found at i:113308152 original size:25 final size:24
Alignment explanation
Indices: 113308124--113308180 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
113308114 TTTTTTTTCA
* *
113308124 AAATTATT-AATAAATTTTTAACTT
1 AAATT-TTAAATAAACTTTCAACTT
113308148 CAAATTTTCAAATAAACTTTCAACTT
1 -AAATTTT-AAATAAACTTTCAACTT
113308174 AAATTTT
1 AAATTTT
113308181 GTATGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.07
25 12 0.43
26 14 0.50
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATTTTAAATAAACTTTCAACTT
Found at i:113308161 original size:26 final size:25
Alignment explanation
Indices: 113308132--113308180 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
113308122 CAAAATTATT
* *
113308132 AATAAATTTTTAACTTCAAATTTTCA
1 AATAAACTTTCAACTT-AAATTTTCA
113308158 AATAAACTTTCAACTTAAATTTT
1 AATAAACTTTCAACTTAAATTTT
113308181 GTATGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (25 bp):
AATAAACTTTCAACTTAAATTTTCA
Found at i:113309407 original size:13 final size:13
Alignment explanation
Indices: 113309389--113309417 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
113309379 ATGTTGAGGT
113309389 ATCCCAATAAACA
1 ATCCCAATAAACA
113309402 ATCCCAATAAACA
1 ATCCCAATAAACA
113309415 ATC
1 ATC
113309418 TTTTTTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (13 bp):
ATCCCAATAAACA
Found at i:113313234 original size:2 final size:2
Alignment explanation
Indices: 113313227--113313262 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
113313217 AAAACCTAAC
113313227 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
113313263 GTGAAATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:113324629 original size:2 final size:2
Alignment explanation
Indices: 113324622--113324651 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113324612 ATCAAAACTG
113324622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113324652 GAGATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113326519 original size:96 final size:97
Alignment explanation
Indices: 113326409--113326583 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 97
113326399 AATTTTAAGG
* * * ** *
113326409 TTTTAAGGAAAAAATTAAACAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTACT-AATTTT
1 TTTTAAGGAAAAAATCAAACAAATTAGAGTTTAGGGTTACTTAAGTAAATTAATTA-TAAATTTT
113326473 -AAAAAATTAGATTATGGTTTAATGTTTATAGT
65 AAAAAAATTAGATTATGGTTTAATGTTTATAGT
* * *
113326505 TTTTAAGGAAAAAATCAAATAAATTAGAGTTTAGGGTTACTTGAGTAAATTAGTTATAAATTTTA
1 TTTTAAGGAAAAAATCAAACAAATTAGAGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
113326570 AAAAAATTAGATTA
66 AAAAAATTAGATTA
113326584 GGATTTTAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
95 1 0.01
96 53 0.78
97 14 0.21
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (97 bp):
TTTTAAGGAAAAAATCAAACAAATTAGAGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
AAAAAATTAGATTATGGTTTAATGTTTATAGT
Found at i:113326903 original size:126 final size:126
Alignment explanation
Indices: 113326689--113327224 Score: 781
Period size: 126 Copynumber: 4.3 Consensus size: 126
113326679 AGTTTCTACG
*
113326689 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAAATA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
*
113326754 GTGTCAAAAATGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGTTCCCACA
66 GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGTTCCCACA
* * **
113326815 TGGACGCTCTTTTGCTACAGTAGTATCTGGAAAAATAATTTTGAGAAGACGTGTCTATGCAAATA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
* * * *
113326880 GTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAATATTGAAAGAAGCTT-CCACG
66 GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAG-TTCCCACA
* *
113326941 TGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
* * * *
113327006 GTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGTTCCCACG
66 GT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGTTCCCACA
* * * * **
113327067 TGGATGCTCTTTTGCTACAGTGGTCTCTAAAAAAATAATTTTGAAAAGACGTGTCTGCATAAATA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
* * *
113327132 GTGTCAAAAACACTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCCA-A
66 GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGTTCCCACA
* *
113327192 GTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 -TGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
113327225 TAACTTGGGC
Statistics
Matches: 373, Mismatches: 32, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
125 4 0.01
126 365 0.98
127 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (126 bp):
TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGTTCCCACA
Found at i:113328602 original size:35 final size:35
Alignment explanation
Indices: 113328558--113328724 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
113328548 TCCTCATTGA
** *
113328558 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
113328593 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
113328633 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
113328668 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
113328703 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
113328725 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:113328641 original size:75 final size:73
Alignment explanation
Indices: 113328553--113328724 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
113328543 GGTTTTCCTC
** * * **
113328553 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
113328617 TCAGTATGG
65 TCAGTATGG
*
113328626 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
113328691 CTCAGTATGG
64 CTCAGTATGG
113328701 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
113328725 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:113333082 original size:62 final size:61
Alignment explanation
Indices: 113332922--113333302 Score: 199
Period size: 54 Copynumber: 6.5 Consensus size: 61
113332912 TCTATTTTAT
* * *
113332922 TACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAA--TTTTCAT-TT-
1 TACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAACAACCTTTT-ATATTA
* * * * *
113332980 T--ATTAAA-AATATAAAAGTAAATT-ATAA--TTACTTTATTTAAAACAACCTTTTATATTA
1 TACATGAAATAATATAAAA--ATATTCAAAATGTTGCCTTATTTAAAACAACCTTTTATATTA
* *
113333037 TCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAA---TTTACATT-
1 T-ACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAACAACCTTTTATATTA
* * * * * * * *
113333095 T-TATTAAA-AATATAAAAGTAAATT-ATAA--TTACTTTATTTAAAACAACCTTTTATCTAA
1 TACATGAAATAATATAAAA--ATATTCAAAATGTTGCCTTATTTAAAACAACCTTTTATATTA
* *
113333153 TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAA--TTTCCAT-TT-
1 -TACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAACAACCTTT-TATATTA
* * * * * * *
113333212 T--ATTAAA-AATATAAAAGTAAATT-ACAA--TTACTTTATTTAAAACAACCTTTTATCTAA
1 TACATGAAATAATATAAAA--ATATTCAAAATGTTGCCTTATTTAAAACAACCTTTTATATTA
* *
113333269 TTACAAGAAATAATATAAAAAGATTCAAAATGTT
1 -TACATGAAATAATATAAAAATATTCAAAATGTT
113333303 TGTACAAATA
Statistics
Matches: 241, Mismatches: 43, Indels: 74
0.67 0.12 0.21
Matches are distributed among these distances:
54 46 0.19
55 31 0.13
56 34 0.14
57 18 0.07
58 4 0.02
59 20 0.08
60 27 0.11
61 29 0.12
62 32 0.13
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (61 bp):
TACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAACAACCTTTTATATTA
Found at i:113333095 original size:116 final size:116
Alignment explanation
Indices: 113332920--113333302 Score: 676
Period size: 116 Copynumber: 3.3 Consensus size: 116
113332910 TTTCTATTTT
* * *
113332920 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTACATTTTATTA
* *
113332985 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
*
113333036 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTACATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTACATTTTATTA
113333101 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
*
113333152 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTACATTTTATTA
*
113333217 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
* *
113333268 ATTACAAGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
113333303 TGTACAAATA
Statistics
Matches: 256, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 256 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTACATTTTATTA
AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:113335486 original size:15 final size:15
Alignment explanation
Indices: 113335466--113335496 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
113335456 TTTTTATTTT
*
113335466 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
113335481 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
113335496 A
1 A
113335497 GATTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:113335535 original size:22 final size:22
Alignment explanation
Indices: 113335523--113335572 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
113335513 TAACGAGAGT
113335523 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
113335545 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
113335565 TTTGAGAG
1 TTTGAGAG
113335573 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:113335546 original size:11 final size:11
Alignment explanation
Indices: 113335523--113335574 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
113335513 TAACGAGAGT
*
113335523 TTTGAGAGGAA
1 TTTGAGAGAAA
*
113335534 TTTAAGAGAAA
1 TTTGAGAGAAA
113335545 TTTGAGAG--A
1 TTTGAGAGAAA
113335554 TTTGAGAGAAA
1 TTTGAGAGAAA
113335565 TTTGAGAGAA
1 TTTGAGAGAA
113335575 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:113335586 original size:31 final size:31
Alignment explanation
Indices: 113335523--113335586 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
113335513 TAACGAGAGT
* *
113335523 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
113335554 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
113335585 TT
1 TT
113335587 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:113339518 original size:10 final size:10
Alignment explanation
Indices: 113339498--113339527 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
113339488 TGACACAGGG
113339498 TTTTC-TCTT
1 TTTTCTTCTT
113339507 TTTTCTTCTT
1 TTTTCTTCTT
113339517 TTTTCTTCTT
1 TTTTCTTCTT
113339527 T
1 T
113339528 GAAGTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:113345190 original size:19 final size:22
Alignment explanation
Indices: 113345151--113345190 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
113345141 AGAAACCCAA
113345151 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
113345173 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
113345191 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:113345289 original size:27 final size:26
Alignment explanation
Indices: 113345252--113345366 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
113345242 AGCATGGCTG
* *
113345252 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
113345278 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
113345306 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
113345333 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
113345360 CCAGAAC
1 CCAGAAC
113345367 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:113345343 original size:54 final size:54
Alignment explanation
Indices: 113345252--113345366 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
113345242 AGCATGGCTG
*
113345252 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
113345306 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
113345360 CCAGAAC
1 CCAGAAC
113345367 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:113345795 original size:8 final size:8
Alignment explanation
Indices: 113345780--113345816 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
113345770 AAAATACTGA
113345780 CTTTTCGG
1 CTTTTCGG
*
113345788 CATTTCGG
1 CTTTTCGG
113345796 CTTTTCGG
1 CTTTTCGG
113345804 CTTTTCGG
1 CTTTTCGG
113345812 CTTTT
1 CTTTT
113345817 GCCAATCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.03, C:0.24, G:0.22, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:113347330 original size:11 final size:12
Alignment explanation
Indices: 113347300--113347331 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
113347290 TCCCCCTCCA
113347300 TTCTCTC-TCCC
1 TTCTCTCTTCCC
113347311 TTCTCTCTTCCC
1 TTCTCTCTTCCC
113347323 -TCTCTCTTC
1 TTCTCTCTTC
113347332 TTTTTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (12 bp):
TTCTCTCTTCCC
Found at i:113347781 original size:16 final size:16
Alignment explanation
Indices: 113347757--113347790 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
113347747 TTTAATCCTT
*
113347757 TTTAGTTATTTTACTA
1 TTTAATTATTTTACTA
*
113347773 TTTAATTATTTTAGTA
1 TTTAATTATTTTACTA
113347789 TT
1 TT
113347791 ATTATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTAATTATTTTACTA
Found at i:113347890 original size:13 final size:13
Alignment explanation
Indices: 113347850--113347893 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
113347840 CTAATATGTA
113347850 TATATATATTATG
1 TATATATATTATG
* *
113347863 TGTAT-T-TTATA
1 TATATATATTATG
113347874 TATATATATTATG
1 TATATATATTATG
113347887 TATATAT
1 TATATAT
113347894 TTTTAATGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 8 0.32
12 2 0.08
13 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TATATATATTATG
Found at i:113348019 original size:3 final size:3
Alignment explanation
Indices: 113348011--113348069 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
113348001 ATTGTGTATA
** *
113348011 TAT TAT TAT TAAT TAT TAT TAT TGC TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113348057 TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TA
113348070 GTGTATATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:113352712 original size:1 final size:1
Alignment explanation
Indices: 113352697--113352763 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
113352687 GACAGTCATG
* * * * * * * * *
113352697 AAAAGAAAAAGAAAAAAAACAAAAAAAAAGAAAAAAGAAAAAAAAAGACAAGAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
113352762 AA
1 AA
113352764 GAAATCAAAT
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:113355235 original size:72 final size:73
Alignment explanation
Indices: 113355152--113355304 Score: 227
Period size: 72 Copynumber: 2.1 Consensus size: 73
113355142 TTAATTTTTA
* *
113355152 CTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
*
113355217 GATTTATG
66 AATTTATG
** * *
113355225 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
*
113355289 AATTTCTG
66 AATTTATG
113355297 CTTTTCAA
1 CTTTTCAA
113355305 TTCCTACTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
72 64 0.90
73 7 0.10
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (73 bp):
CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
AATTTATG
Found at i:113355303 original size:14 final size:14
Alignment explanation
Indices: 113355284--113355318 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
113355274 CGCTGAGGTA
* *
113355284 TTTTCAATTTCTGC
1 TTTTCAATTCCTAC
113355298 TTTTCAATTCCTAC
1 TTTTCAATTCCTAC
113355312 TTTTCAA
1 TTTTCAA
113355319 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTAC
Found at i:113355422 original size:75 final size:75
Alignment explanation
Indices: 113355315--113355457 Score: 259
Period size: 75 Copynumber: 1.9 Consensus size: 75
113355305 TTCCTACTTT
113355315 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
113355380 TTTATGTTTG
66 TTTATGTTTG
* * *
113355390 TCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
113355455 TTT
66 TTT
113355458 CTGCTTTTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (75 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
TTTATGTTTG
Found at i:113355461 original size:164 final size:163
Alignment explanation
Indices: 113354896--113355637 Score: 832
Period size: 164 Copynumber: 4.4 Consensus size: 163
113354886 CTGCTTTCAG
* * * * * *
113354896 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCGTATGCCGAGGTATTTTCATTTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---GCACGCTGAGGTATTTTCAATTT
* * * * *
113354960 TTGCTTTTTTAATTCAT-GTTTTC-AGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
63 CTGC-TTTTCAATTCCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * *
113355023 AGACACGTTGAGGTAATTTCAATTTATG-CTTCAAAAA
127 GGACACGCTGAGGTAATTTCAATTTATGTTTTC-AAAA
* * * *
113355060 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
* * ***
113355124 CTTTTTCAAATCCTGTCTTTAATTTTTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTT
66 C-TTTTC-AA---T-TC-CT-ACTTTT-C---AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
113355189 GAGCCTCAAGACACGTTGAGGTAATTTCGATTTATGTTTTC--AA
119 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAA
*
113355232 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
113355297 CTTTTCAATTCCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
66 CTTTTCAATTCCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
113355362 ACGCTGAGGTAATTTCAATTTATGTTTGTCAAAA
131 ACGCTGAGGTAATTTCAATTTATGTTT-TCAAAA
*
113355396 AAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
* *
113355461 CTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
66 CTTTTCAATTCCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
113355526 ACGCTGAGGTATTTTTTGATTTCTGCTTTCCAATTTATTTTTTTCAAAA
131 ACGCTGAGGTA-------A-------TTT-CAATTTA-TGTTTTCAAAA
* *
113355575 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
113355638 AGTTTGTCAA
Statistics
Matches: 511, Mismatches: 32, Indels: 55
0.85 0.05 0.09
Matches are distributed among these distances:
161 72 0.14
162 24 0.05
164 175 0.34
165 8 0.02
166 3 0.01
167 3 0.01
168 1 0.00
169 4 0.01
170 1 0.00
171 3 0.01
172 68 0.13
173 1 0.00
174 65 0.13
175 3 0.01
178 3 0.01
179 73 0.14
180 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (163 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
CTTTTCAATTCCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTATGTTTTCAAAA
Found at i:113355467 original size:14 final size:14
Alignment explanation
Indices: 113355448--113355482 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
113355438 CGCTGAGGTA
113355448 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
113355462 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
113355476 TTTTCAA
1 TTTTCAA
113355483 AAAAATCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:113355576 original size:90 final size:89
Alignment explanation
Indices: 113355377--113355637 Score: 423
Period size: 90 Copynumber: 2.9 Consensus size: 89
113355367 GAGGTAATTT
* * *
113355377 CAATTTATGTTTGTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
1 CAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
113355442 GAGGTATTTTCAATTTCTGCTTTT
66 GAGGTATTTTCAATTTCTGCTTTC
* *
113355466 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 CAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
**
113355531 GAGGTATTTTTTGATTTCTGCTTTC
66 GAGGTA-TTTTCAATTTCTGCTTTC
*
113355556 CAATTTATTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 CAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
113355621 GAGGTAATTTCAATTTC
66 GAGGTATTTTCAATTTC
113355638 AGTTTGTCAA
Statistics
Matches: 157, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
89 74 0.47
90 83 0.53
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (89 bp):
CAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTGCTTTC
Found at i:113355847 original size:74 final size:73
Alignment explanation
Indices: 113355703--113355845 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 73
113355693 ACTTTTTCAA
* **
113355703 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAAAATCTG-
113355768 TTTTGGAAG
65 TTTTGGAAG
*
113355777 AATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAAATCT
1 AATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCAC--GCCGAGGTATTTTCAAAATCT
113355842 GTTT
64 GTTT
113355846 GGCAAATTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
74 40 0.63
75 3 0.05
76 20 0.32
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (73 bp):
AATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAAAATCTGT
TTTGGAAG
Found at i:113356110 original size:73 final size:73
Alignment explanation
Indices: 113356004--113356183 Score: 308
Period size: 73 Copynumber: 2.5 Consensus size: 73
113355994 TTCTACTTTT
* *
113356004 TCAA-AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCACGACACGATGAGGTAATTTCAATT
1 TCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACGACACGATGAGGTAATTTAAATT
113356068 TCTGTTTG
66 TCTGTTTG
* *
113356076 TCAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTAAATT
1 TCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACGACACGATGAGGTAATTTAAATT
113356141 TCTGTTTG
66 TCTGTTTG
*
113356149 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
113356184 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
72 4 0.04
73 97 0.96
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (73 bp):
TCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACGACACGATGAGGTAATTTAAATT
TCTGTTTG
Found at i:113356340 original size:89 final size:89
Alignment explanation
Indices: 113356206--113356368 Score: 265
Period size: 89 Copynumber: 1.8 Consensus size: 89
113356196 CTACTTTTTC
* * * *
113356206 AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAAGTAGTTTCAATTTCT
113356271 GCTTT-TCAATTCTTACTTTTCAAA
66 G-TTTGTCAATTCTTACTTTTCAAA
*
113356295 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTAGTTTCAATTTCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAAGTAGTTTCAATTTCT
113356360 GTTTGTCAA
66 GTTTGTCAA
113356369 AAATCAACTC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
88 3 0.04
89 65 0.96
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (89 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAAGTAGTTTCAATTTCT
GTTTGTCAATTCTTACTTTTCAAA
Found at i:113356442 original size:14 final size:14
Alignment explanation
Indices: 113356423--113356451 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
113356413 TGCTGGGGTC
113356423 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
113356437 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
113356451 T
1 T
113356452 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:113356503 original size:161 final size:161
Alignment explanation
Indices: 113356201--113356652 Score: 540
Period size: 161 Copynumber: 2.8 Consensus size: 161
113356191 AATTTCTACT
* * *
113356201 TTTTC-AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCGGGGCAC--GCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
* * ** *
113356263 CAATTTCTGCTTTTCAATTCTTACTTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAG
66 CAATTTCTGTTTTTCAA-T-TT-CTATTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
113356328 CCTCAGGACACGCTGAAGTAGTTTCAATTT-CTG-
128 CCTCAGGACACGCTGAAGTAGTTTCAATTTAC-GC
* * * *
113356361 TTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGGGGTCTTT
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTT
* *
113356426 TCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 TCAATTTCTGTTTTTCAATTTCTATTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
113356491 TCGAGG-CACGCTGAGGTATTTTCAATTTACGC
130 TC-AGGACACGCTGAAGTAGTTTCAATTTACGC
* * * * *
113356523 TTTTTAATAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
** ** * * *
113356588 CAAAATCTGTTTGGCAAATTCTATT-TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
66 CAATTTCTGTTTTTCAATTTCTATTCATC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
113356652 T
130 T
113356653 TTGCTCACGT
Statistics
Matches: 252, Mismatches: 32, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
160 5 0.02
161 171 0.68
162 48 0.19
163 1 0.00
164 27 0.11
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (161 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
CAATTTCTGTTTTTCAATTTCTATTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGACACGCTGAAGTAGTTTCAATTTACGC
Found at i:113356725 original size:89 final size:86
Alignment explanation
Indices: 113356523--113356728 Score: 225
Period size: 88 Copynumber: 2.3 Consensus size: 86
113356513 CAATTTACGC
* * * *
113356523 TTTTTAATAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTT
1 TTTTTAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCCGAGCTATTTT
113356588 CAAAATCTGTTTGGCAAATTCTA
65 CAAAATCTGTTT-GCAAATTCTA
* * * *
113356611 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTT
1 TTTT-TAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCCGAGCTA-TTT
** **
113356676 TCAATTTCTGTTT-TTAATGTCTA
64 TCAAAATCTGTTTGCAAAT-TCTA
*
113356699 GTTTTTAAAAGTCAATTCATATTGCGAGAA
1 -TTTTTAAAA-TCAACTCATATTGCGAGAA
113356729 ATAACTTGAG
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
87 3 0.03
88 58 0.59
89 38 0.38
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (86 bp):
TTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCCGAGCTATTTTC
AAAATCTGTTTGCAAATTCTA
Found at i:113357722 original size:11 final size:11
Alignment explanation
Indices: 113357708--113357742 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
113357698 TTCCTTCCCG
113357708 CTCCCTTCTCT
1 CTCCCTTCTCT
113357719 CTCCCTTCTCT
1 CTCCCTTCTCT
113357730 CTTCCC-TCTCT
1 C-TCCCTTCTCT
113357741 CT
1 CT
113357743 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:113358196 original size:16 final size:16
Alignment explanation
Indices: 113358172--113358205 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
113358162 TTTAATCATT
*
113358172 TTTAGTTATTTTACTA
1 TTTAATTATTTTACTA
*
113358188 TTTAATTATTTTAGTA
1 TTTAATTATTTTACTA
113358204 TT
1 TT
113358206 ATTATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTAATTATTTTACTA
Found at i:113358442 original size:3 final size:3
Alignment explanation
Indices: 113358434--113358498 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
113358424 ATTGTGTATA
** *
113358434 TAT TAT TAT TAAT TAT TAT TAT TGC TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113358480 TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TA
113358499 GTGTATATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:113358877 original size:22 final size:21
Alignment explanation
Indices: 113358829--113358877 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
113358819 TATTATTACC
113358829 TATTA-ATTTTTTATATTATT
1 TATTATATTTTTTATATTATT
* *
113358849 AAGTTATATTTTTTATATTCTTT
1 TA-TTATATTTTTTATATT-ATT
113358872 TATTAT
1 TATTAT
113358878 TATCATTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.04
21 3 0.13
22 16 0.70
23 3 0.13
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTATATTTTTTATATTATT
Found at i:113360112 original size:26 final size:26
Alignment explanation
Indices: 113360083--113360192 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
113360073 CATGTAATTC
*
113360083 TTATCATGAAACATTTACGTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
113360109 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
113360135 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
113360161 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113360187 TTATCA
1 TTATCA
113360193 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:113362476 original size:236 final size:235
Alignment explanation
Indices: 113362059--113362536 Score: 785
Period size: 236 Copynumber: 2.0 Consensus size: 235
113362049 CAGTAGTCGA
* * *
113362059 CACATATAGTGTCTCATCGACACACAATCGGAATATCCCTAAACACTTCCAATCCTATGGTATGC
1 CACATATAATGTCTCATCGACACACAATCAGAATATCCCTAAACACTTCCAATCCTATGGCATGC
* * *
113362124 CAACTATATCCGACTAGCCCGATATAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
66 CAACAATATCCAACTAGCCCGATACAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
* * *
113362189 CATTTGTAATTTAGTTTCAATCCAATTTAATATATTTTTCCATATCAATCCACATACAAATCAAT
131 CATTTGCAATTTAGTTTCAATCCAATTTAATACATTTTTCCATACCAATCCACATACAAATCAAT
* *
113362254 TTCAATGCAATATACAATTTTTCGATTTTTCACTCAATATT
196 TTCAATGCAATATAC-ATTTTTCAATTTTCCACTCAATATT
* ** * * *
113362295 CACATATAATGTCTCATCGACACGCGGTCAGAATATTCCTGAACACTTCCAATCCTATGGCGTGC
1 CACATATAATGTCTCATCGACACACAATCAGAATATCCCTAAACACTTCCAATCCTATGGCATGC
113362360 CAACAATATCCAACTAGCCCGATACAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
66 CAACAATATCCAACTAGCCCGATACAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
*
113362425 CATTTGCAATTTAGTTTCAATCCAATTTAATACATTTTTCCATACCAATCCACATGCAAATCAAT
131 CATTTGCAATTTAGTTTCAATCCAATTTAATACATTTTTCCATACCAATCCACATACAAATCAAT
113362490 TTCAATGCAATATACATTTTTCAATTTTCCACTCAATATT
196 TTCAATGCAATATACATTTTTCAATTTTCCACTCAATATT
113362530 CACATAT
1 CACATAT
113362537 TCTATTCAAT
Statistics
Matches: 224, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
235 30 0.13
236 194 0.87
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (235 bp):
CACATATAATGTCTCATCGACACACAATCAGAATATCCCTAAACACTTCCAATCCTATGGCATGC
CAACAATATCCAACTAGCCCGATACAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
CATTTGCAATTTAGTTTCAATCCAATTTAATACATTTTTCCATACCAATCCACATACAAATCAAT
TTCAATGCAATATACATTTTTCAATTTTCCACTCAATATT
Found at i:113362601 original size:3 final size:3
Alignment explanation
Indices: 113362593--113362640 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
113362583 ATTCAATACC
113362593 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
113362641 CTTACCATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:113363268 original size:19 final size:19
Alignment explanation
Indices: 113363240--113363284 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
113363230 AAATCCCTAG
113363240 TTTTCCCTTTTTCTT-TTTC
1 TTTTCCC-TTTTCTTCTTTC
*
113363259 TTTTCTCTTTTCTTCTTTC
1 TTTTCCCTTTTCTTCTTTC
113363278 -TTTCCCT
1 TTTTCCCT
113363285 GCTAACCGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCCCTTTTCTTCTTTC
Found at i:113363307 original size:4 final size:4
Alignment explanation
Indices: 113363298--113363344 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
113363288 AACCGTGGCC
* * *
113363298 TTCT TTCT TTCT TTCT TTTT TTCT TTAT TTCAT TTCT TTAT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TT
113363345 TATTTTAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
4 32 0.89
5 4 0.11
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:113363335 original size:13 final size:13
Alignment explanation
Indices: 113363317--113363341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113363307 TCTTTCTTTT
113363317 TTTCTTTATTTCA
1 TTTCTTTATTTCA
113363330 TTTCTTTATTTC
1 TTTCTTTATTTC
113363342 TTTTATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:113363348 original size:9 final size:8
Alignment explanation
Indices: 113363301--113363349 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
113363291 CGTGGCCTTC
*
113363301 TTTCTTTC
1 TTTCTTTA
*
113363309 TTTCTTTT
1 TTTCTTTA
113363317 TTTCTTTA
1 TTTCTTTA
113363325 TTTC---A
1 TTTCTTTA
113363330 TTTCTTTA
1 TTTCTTTA
113363338 TTTCTTTTA
1 TTTC-TTTA
113363347 TTT
1 TTT
113363350 TAATTACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
5 5 0.14
8 23 0.66
9 7 0.20
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTCTTTA
Found at i:113367475 original size:21 final size:21
Alignment explanation
Indices: 113367450--113367518 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
113367440 TATAATGATT
113367450 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
113367471 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
113367491 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
113367511 ATTATTAT
1 ATTATTAT
113367519 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:113367531 original size:15 final size:14
Alignment explanation
Indices: 113367505--113367535 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
113367495 TATGGTTTTA
113367505 TATTAGATTATTAT
1 TATTAGATTATTAT
113367519 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
113367534 TA
1 TA
113367536 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:113370756 original size:18 final size:18
Alignment explanation
Indices: 113370717--113370849 Score: 200
Period size: 18 Copynumber: 7.5 Consensus size: 18
113370707 AATGATATGT
113370717 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
113370734 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
113370752 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
113370769 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
113370787 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
113370804 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
113370822 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
113370841 AATCTTAGA
1 AATCTTAGA
113370850 AGATATGATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 45 0.43
18 48 0.46
19 11 0.11
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:113370756 original size:35 final size:35
Alignment explanation
Indices: 113370708--113370849 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
113370698 ATAATCCTCA
* *
113370708 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
113370744 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
113370779 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
113370814 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
113370850 AGATATGATT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 84 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:113371376 original size:15 final size:16
Alignment explanation
Indices: 113371333--113371391 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
113371323 CAATATATTT
*
113371333 TATATATTTTATATAA
1 TATATTTTTTATATAA
113371349 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
113371365 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
113371383 TTATATTTT
1 -TATATTTT
113371392 AAATTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 6 0.17
16 10 0.29
17 10 0.29
18 1 0.03
19 8 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:113371395 original size:30 final size:29
Alignment explanation
Indices: 113371326--113371400 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
113371316 TCTAAACCAA
113371326 TATATTTT--ATATATTTTATATAATTAT
1 TATATTTTAAATATATTTTATATAATTAT
* *
113371353 TAT-TCTTATAAATATATTTTTTATTATATAT
1 TATAT-TT-TAAATATATTTTATATAAT-TAT
*
113371384 TATATTTTAAATTTATT
1 TATATTTTAAATATATT
113371401 ATTAAATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 1 0.03
27 5 0.13
28 1 0.03
30 23 0.59
31 8 0.21
32 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATTTTAAATATATTTTATATAATTAT
Found at i:113371416 original size:26 final size:26
Alignment explanation
Indices: 113371368--113371417 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
113371358 TTATAAATAT
* * * *
113371368 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
113371394 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
113371418 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:113377200 original size:14 final size:13
Alignment explanation
Indices: 113377177--113377236 Score: 57
Period size: 14 Copynumber: 4.4 Consensus size: 13
113377167 CTTCTATTTC
*
113377177 AAAAATAAAAGAAA
1 AAAAAGAAAA-AAA
*
113377191 AAAAAGAAAATAA
1 AAAAAGAAAAAAA
*
113377204 AAAGAGAAAAAAA
1 AAAAAGAAAAAAA
*
113377217 TAAAGAGAAAAAAGA
1 -AAAAAGAAAAAA-A
113377232 AAAAA
1 AAAAA
113377237 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
13 13 0.33
14 25 0.64
15 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:113377205 original size:13 final size:12
Alignment explanation
Indices: 113377188--113377235 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
113377178 AAAATAAAAG
113377188 AAAAAAAAGAAA
1 AAAAAAAAGAAA
*
113377200 ATAAAAAGAGAAA
1 A-AAAAAAAGAAA
113377213 AAAATAAAGAGAAA
1 AAAA-AAA-AGAAA
113377227 AAAGAAAAA
1 AAA-AAAAA
113377236 ATGGAGAGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.13
13 14 0.47
14 11 0.37
15 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:113377215 original size:21 final size:21
Alignment explanation
Indices: 113377178--113377236 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
113377168 TTCTATTTCA
113377178 AAAAT-AAAAGA-AAAAAAAG
1 AAAATAAAAAGAGAAAAAAAG
*
113377197 AAAATAAAAAGAGAAAAAAAT
1 AAAATAAAAAGAGAAAAAAAG
*
113377218 AAAGAGAAAAA-AGAAAAAA
1 AAA-ATAAAAAGAGAAAAAA
113377237 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.14
20 6 0.17
21 18 0.51
22 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAATAAAAAGAGAAAAAAAG
Found at i:113377237 original size:20 final size:21
Alignment explanation
Indices: 113377183--113377237 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
113377173 TTTCAAAAAT
* *
113377183 AAAAGAAAAAAAAGAAAATAA
1 AAAAGAAAAAATAGAAAAGAA
*
113377204 AAAGAGAAAAAAATA-AAGAGAA
1 AAA-AG-AAAAAATAGAAAAGAA
113377226 AAAAGAAAAAAT
1 AAAAGAAAAAAT
113377238 GGAGAGGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.24
21 5 0.17
22 10 0.34
23 7 0.24
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAAATAGAAAAGAA
Found at i:113378331 original size:119 final size:119
Alignment explanation
Indices: 113378120--113378459 Score: 617
Period size: 119 Copynumber: 2.9 Consensus size: 119
113378110 GAACAGATCG
*
113378120 AAGATAGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
113378185 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
66 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
* * *
113378239 AAGATAGTAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGACATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
113378304 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
66 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
* * *
113378358 AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTGGTATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
113378423 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTG
66 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTG
113378460 TGTAACGGCC
Statistics
Matches: 211, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 211 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (119 bp):
AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
Done.