Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 408 of 444
Found at i:118621237 original size:41 final size:39
Alignment explanation
Indices: 118621164--118621242 Score: 104
Period size: 41 Copynumber: 2.0 Consensus size: 39
118621154 AGTTGCAACA
* *
118621164 AATTATTTAAAAATATAAAATTATCAAAAATTATTAAAT
1 AATTATTAAAAAATATAAAATTATCAAAAATTAATAAAT
**
118621203 AATTATTAAAAAATCATAATAATTATCAGTAATTAATAAA
1 AATTATTAAAAAAT-ATAA-AATTATCAAAAATTAATAAA
118621243 AAAATTCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 13 0.38
40 4 0.12
41 17 0.50
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (39 bp):
AATTATTAAAAAATATAAAATTATCAAAAATTAATAAAT
Found at i:118621715 original size:24 final size:24
Alignment explanation
Indices: 118621664--118621716 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
118621654 TAATAATTGC
* *
118621664 TTTAGAATTTATTTTATATTCATT
1 TTTAAAATTTATTTTATATTCATA
*
118621688 TTTAAAATTTATTTTA-ATTTATAA
1 TTTAAAATTTATTTTATATTCAT-A
118621712 TTTAA
1 TTTAA
118621717 CACAAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTAAAATTTATTTTATATTCATA
Found at i:118621784 original size:22 final size:20
Alignment explanation
Indices: 118621738--118621792 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
118621728 TATTGTTAAT
118621738 TATAAATTTAAATATAATTA
1 TATAAATTTAAATATAATTA
*
118621758 TATAATATTTAAA-ATATATTT
1 TATAA-ATTTAAATATA-ATTA
118621779 TGATAAA-TTAAATA
1 T-ATAAATTTAAATA
118621793 GTTATCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 13 0.43
21 13 0.43
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TATAAATTTAAATATAATTA
Found at i:118622682 original size:19 final size:21
Alignment explanation
Indices: 118622640--118622684 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
118622630 CATAATTTAT
* *
118622640 ATTTTCTTTTTCATTTTTTGC
1 ATTTTCTTTTCCATTTTTTCC
118622661 ATTTT-TTTTCCA-TTTTTCC
1 ATTTTCTTTTCCATTTTTTCC
118622680 ATTTT
1 ATTTT
118622685 ATTTAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 6 0.27
21 5 0.23
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTTCTTTTCCATTTTTTCC
Found at i:118625288 original size:16 final size:17
Alignment explanation
Indices: 118625264--118625298 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
118625254 CACCTTTTCT
118625264 TTATATATTTTAT-ATA
1 TTATATATTTTATAATA
*
118625280 TTATTTATTTTATAATA
1 TTATATATTTTATAATA
118625297 TT
1 TT
118625299 CTTATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATATATTTTATAATA
Found at i:118625575 original size:22 final size:22
Alignment explanation
Indices: 118625550--118625592 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
118625540 CTTTCTTATA
*
118625550 TTTTTATATATTATTTATTTTG
1 TTTTTATATACTATTTATTTTG
*
118625572 TTTTTTTATACTATTTATTTT
1 TTTTTATATACTATTTATTTT
118625593 ACCATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATATACTATTTATTTTG
Found at i:118628522 original size:9 final size:9
Alignment explanation
Indices: 118628510--118628551 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
118628500 AAGATATAAT
118628510 AAAATATTA
1 AAAATATTA
118628519 AAAATA--A
1 AAAATATTA
118628526 ATAAATATTA
1 A-AAATATTA
118628536 AAAATATATA
1 AAAATAT-TA
118628546 AAAATA
1 AAAATA
118628552 ATATTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 2 0.07
8 5 0.17
9 12 0.41
10 10 0.34
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATATTA
Found at i:118628531 original size:17 final size:17
Alignment explanation
Indices: 118628497--118628547 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 17
118628487 AAGTGTTTTA
118628497 TAAAAGATATAATAAAATAT
1 TAAAA-ATA-AAT-AAATAT
118628517 TAAAAATAAATAAATAT
1 TAAAAATAAATAAATAT
*
118628534 TAAAAATATATAAA
1 TAAAAATAAATAAA
118628548 AATAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 19 0.63
18 3 0.10
19 3 0.10
20 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
TAAAAATAAATAAATAT
Found at i:118633427 original size:19 final size:19
Alignment explanation
Indices: 118633384--118633549 Score: 75
Period size: 19 Copynumber: 8.8 Consensus size: 19
118633374 TATTTTTATC
118633384 ATAAAAATTATTAAAA-AT
1 ATAAAAATTATTAAAATAT
*
118633402 CACAAAAATTATTAAAATAT
1 -ATAAAAATTATTAAAATAT
* * *
118633422 ATAAAAAGTAATCAAAAAATT
1 ATAAAAA-TTATTAAAATA-T
* *
118633443 ATAAAAAAT-TTAATATAT
1 ATAAAAATTATTAAAATAT
* *
118633461 AT-AAATTTATATAAACT-T
1 ATAAAAATTAT-TAAAATAT
118633479 AT--AAA-TATT-AAATA-
1 ATAAAAATTATTAAAATAT
*
118633493 AT-AAAATGTATTTAAAATTTT
1 ATAAAAAT-TA-TTAAAA-TAT
* *
118633514 ATAAAAACATATTAAAATTCT
1 ATAAAAA-TTATTAAAA-TAT
118633535 ATAAAAA-TATTAAAA
1 ATAAAAATTATTAAAA
118633550 ATTATAAATG
Statistics
Matches: 113, Mismatches: 19, Indels: 30
0.70 0.12 0.19
Matches are distributed among these distances:
14 5 0.04
15 4 0.04
16 3 0.03
17 8 0.07
18 9 0.08
19 41 0.36
20 11 0.10
21 26 0.23
22 6 0.05
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (19 bp):
ATAAAAATTATTAAAATAT
Found at i:118633520 original size:11 final size:11
Alignment explanation
Indices: 118633379--118633555 Score: 58
Period size: 10 Copynumber: 16.5 Consensus size: 11
118633369 CCTAATATTT
118633379 TTATCATAAAAA
1 TTAT-ATAAAAA
118633391 TTAT-TAAAAA
1 TTATATAAAAA
* *
118633401 -T-CACAAAAA
1 TTATATAAAAA
118633410 TTAT-T-AAAA
1 TTATATAAAAA
118633419 -TATATAAAAA
1 TTATATAAAAA
*
118633429 GTA-ATCAAAAAA
1 TTATAT--AAAAA
118633441 TTATA-AAAAA
1 TTATATAAAAA
118633451 TTTAATATATATAAA
1 -TT-ATATA-A-AAA
*
118633466 TT-TATATAAA
1 TTATATAAAAA
* *
118633476 CT-TATAAATA
1 TTATATAAAAA
*
118633486 TTAAATAATAAAA
1 TTATAT-A-AAAA
*
118633499 TGTAT-TTAAAA
1 T-TATATAAAAA
*
118633510 TTTTATAAAAA
1 TTATATAAAAA
* *
118633521 -CATATTAAAA
1 TTATATAAAAA
*
118633531 TTCTATAAAAA
1 TTATATAAAAA
118633542 -TAT-TAAAAA
1 TTATATAAAAA
118633551 TTATA
1 TTATA
118633556 AATGTATATA
Statistics
Matches: 120, Mismatches: 23, Indels: 45
0.64 0.12 0.24
Matches are distributed among these distances:
8 3 0.03
9 17 0.14
10 43 0.36
11 23 0.19
12 19 0.16
13 7 0.06
14 5 0.04
15 3 0.03
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (11 bp):
TTATATAAAAA
Found at i:118633528 original size:21 final size:20
Alignment explanation
Indices: 118633504--118633549 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
118633494 TAAAATGTAT
118633504 TTAAAATTTTATAAAAACATA
1 TTAAAATTTTATAAAAA-ATA
*
118633525 TTAAAATTCTAT-AAAAATA
1 TTAAAATTTTATAAAAAATA
118633544 TTAAAA
1 TTAAAA
118633550 ATTATAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 9 0.38
20 4 0.17
21 11 0.46
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAAAATTTTATAAAAAATA
Found at i:118633803 original size:9 final size:9
Alignment explanation
Indices: 118633779--118634001 Score: 89
Period size: 9 Copynumber: 23.8 Consensus size: 9
118633769 CTAGTTCAAG
118633779 TTTTTAATATA
1 TTTTT-ATA-A
118633790 TTTTTATAA
1 TTTTTATAA
*
118633799 TTTTTTACAA
1 -TTTTTATAA
*
118633809 TTTTTATTA
1 TTTTTATAA
*
118633818 TTTTTAAAGAA
1 TTTTT--ATAA
* *
118633829 TTCTAATAAA
1 TTTTTAT-AA
*
118633839 TTTTT-TTA
1 TTTTTATAA
*
118633847 TTTTAAATAA
1 TTTT-TATAA
*
118633857 ATTTTATTAA
1 TTTTTA-TAA
118633867 -TTTTAT-A
1 TTTTTATAA
118633874 TTTTTATAA
1 TTTTTATAA
*
118633883 TATTTATAA
1 TTTTTATAA
118633892 GTTTTTAT-A
1 -TTTTTATAA
*
118633901 TGTTTATAA
1 TTTTTATAA
*
118633910 TTTTAATAA
1 TTTTTATAA
*
118633919 GTTTATATCAA
1 -TTTTTAT-AA
*
118633930 TTTTAAT-A
1 TTTTTATAA
118633938 TTTTTAATAA
1 TTTTT-ATAA
** *
118633948 TGTTTCCTGAT
1 T-TTTTAT-AA
118633959 TTTTTATAA
1 TTTTTATAA
* *
118633968 CTTTTTGT-T
1 -TTTTTATAA
* *
118633977 TTTTTTTAT
1 TTTTTATAA
118633986 TTTTTATAA
1 TTTTTATAA
118633995 TTTTTAT
1 TTTTTAT
118634002 GAGAAAAATA
Statistics
Matches: 157, Mismatches: 36, Indels: 40
0.67 0.15 0.17
Matches are distributed among these distances:
7 1 0.01
8 29 0.18
9 57 0.36
10 53 0.34
11 17 0.11
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:118633857 original size:19 final size:20
Alignment explanation
Indices: 118633833--118633871 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
118633823 AAAGAATTCT
*
118633833 AATAAATTTT-TTTATTTTA
1 AATAAATTTTATTAATTTTA
118633852 AATAAATTTTATTAATTTTA
1 AATAAATTTTATTAATTTTA
118633872 TATTTTTATA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATAAATTTTATTAATTTTA
Found at i:118633922 original size:17 final size:17
Alignment explanation
Indices: 118633856--118633925 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
118633846 ATTTTAAATA
* *
118633856 AATTTTATTAATTTTAT
1 AATTTTAATAAGTTTAT
* *
118633873 -ATTTTTATAATATTTAT
1 AATTTTAATAA-GTTTAT
* *
118633890 AAGTTTTTATATGTTTAT
1 AA-TTTTAATAAGTTTAT
118633908 AATTTTAATAAGTTTAT
1 AATTTTAATAAGTTTAT
118633925 A
1 A
118633926 TCAATTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 8 0.19
17 19 0.44
18 8 0.19
19 8 0.19
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
AATTTTAATAAGTTTAT
Found at i:118643634 original size:17 final size:16
Alignment explanation
Indices: 118643608--118643646 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
118643598 TTTTGATTGA
*
118643608 TTATTTTTTGAATGTT
1 TTATTTTTTGAATATT
118643624 TTATATTTTTGAATATT
1 TTAT-TTTTTGAATATT
118643641 TTATTT
1 TTATTT
118643647 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (16 bp):
TTATTTTTTGAATATT
Found at i:118644680 original size:21 final size:22
Alignment explanation
Indices: 118644656--118644697 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
118644646 GTGAAATATG
118644656 TAAA-ATATTACAAGAAAAAAT
1 TAAATATATTACAAGAAAAAAT
*
118644677 TAAATTATATTACAAGTAAAA
1 TAAA-TATATTACAAGAAAAA
118644698 TGAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
TAAATATATTACAAGAAAAAAT
Found at i:118644703 original size:22 final size:23
Alignment explanation
Indices: 118644660--118644704 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
118644650 AATATGTAAA
*
118644660 ATATTACAAGAAAAAATTAAATT
1 ATATTACAAGAAAAAATGAAATT
*
118644683 ATATTACAAG-TAAAATGAAATT
1 ATATTACAAGAAAAAATGAAATT
118644705 TAAACACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
ATATTACAAGAAAAAATGAAATT
Found at i:118647792 original size:28 final size:28
Alignment explanation
Indices: 118647706--118647803 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
118647696 AAATTAGCGC
* *
118647706 GCTTATCG-TATTATTTCGCACTTCAGT
1 GCTTATCGTTATTATTTTGCACTTTAGT
* ** *
118647733 GCTTATCATTGTAAAAATTTGCACTTTAGT
1 GCTTATC-GT-TATTATTTTGCACTTTAGT
*
118647763 GCTTATCGTTATTATTTTGCACTTTGGT
1 GCTTATCGTTATTATTTTGCACTTTAGT
118647791 GCTTATCGTTATT
1 GCTTATCGTTATT
118647804 TGCACTTTGT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
27 7 0.12
28 28 0.49
29 1 0.02
30 21 0.37
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.48
Consensus pattern (28 bp):
GCTTATCGTTATTATTTTGCACTTTAGT
Found at i:118650969 original size:30 final size:30
Alignment explanation
Indices: 118650924--118650982 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
118650914 CTTAACAAGT
118650924 AAATACCTCTAAAATAATAATAAAATTAAC
1 AAATACCTCTAAAATAATAATAAAATTAAC
* * *
118650954 AAATTCCTTTAAAATAATAATAAACTTAA
1 AAATACCTCTAAAATAATAATAAAATTAA
118650983 TAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAATAAAATTAAC
Found at i:118651707 original size:32 final size:32
Alignment explanation
Indices: 118651657--118651753 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 32
118651647 TATATGATAT
*
118651657 ACACAAAGTATATC-TAACCTTTCCAATTGTAC
1 ACACAAAGTGTA-CATAACCTTTCCAATTGTAC
* *
118651689 ACACAAAGTGTACATAACCTTTTCAAGTGTAC
1 ACACAAAGTGTACATAACCTTTCCAATTGTAC
* * *
118651721 ATACAAAGTGTACATAACATTTTCAAATTGTAC
1 ACACAAAGTGTACATAAC-CTTTCCAATTGTAC
118651754 CATTTGGATA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 1 0.02
32 44 0.80
33 10 0.18
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (32 bp):
ACACAAAGTGTACATAACCTTTCCAATTGTAC
Found at i:118654086 original size:19 final size:19
Alignment explanation
Indices: 118654059--118654096 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
118654049 TAATATTTTT
*
118654059 ATCATAAAAATTATTAAAA
1 ATCACAAAAATTATTAAAA
118654078 ATCACAAAAATTATTAAAA
1 ATCACAAAAATTATTAAAA
118654097 TATATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (19 bp):
ATCACAAAAATTATTAAAA
Found at i:118654273 original size:16 final size:16
Alignment explanation
Indices: 118654252--118654286 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
118654242 TGACCGAAAA
118654252 AATTCAAACCCACGTC
1 AATTCAAACCCACGTC
118654268 AATTCAAACCCACGTC
1 AATTCAAACCCACGTC
118654284 AAT
1 AAT
118654287 CAGTCGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.34, G:0.06, T:0.20
Consensus pattern (16 bp):
AATTCAAACCCACGTC
Found at i:118654863 original size:13 final size:13
Alignment explanation
Indices: 118654845--118654881 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
118654835 CTATTGTCTT
118654845 GCGAGCTCGATCC
1 GCGAGCTCGATCC
118654858 GCGAGCTCGATCC
1 GCGAGCTCGATCC
**
118654871 ATGAGCTCGAT
1 GCGAGCTCGAT
118654882 AAAATCCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (13 bp):
GCGAGCTCGATCC
Found at i:118656538 original size:31 final size:30
Alignment explanation
Indices: 118656491--118656553 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
118656481 TATTTTCTTG
*
118656491 TTAATTTTCTTATTATTTTAAAGGCATTTA
1 TTAATTTTATTATTATTTTAAAGGCATTTA
*
118656521 TTAATTTTTATTATTATTTTAGAGGCATTTA
1 TTAA-TTTTATTATTATTTTAAAGGCATTTA
118656552 TT
1 TT
118656554 TGTTAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTA
Found at i:118656697 original size:12 final size:11
Alignment explanation
Indices: 118656672--118656703 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
118656662 ATATATATTT
118656672 AAAATAATATA
1 AAAATAATATA
118656683 AAAATAATATA
1 AAAATAATATA
118656694 AAAATTAATA
1 AAAA-TAATA
118656704 CGGCCTGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATAATATA
Found at i:118673188 original size:53 final size:53
Alignment explanation
Indices: 118673099--118673212 Score: 183
Period size: 53 Copynumber: 2.2 Consensus size: 53
118673089 CCTACAGCTT
* * * *
118673099 GTGTAAGCATTGATGTAAAGGAAAGGTTACGGTTATATGTAAGGGCACACTTC
1 GTGTGAGCATTGATGTAAAAGAAAGGTTACGATTATATGTAAAGGCACACTTC
*
118673152 GTTTGAGCATTGATGTAAAAGAAAGGTTACGATTATATGTAAAGGCACACTTC
1 GTGTGAGCATTGATGTAAAAGAAAGGTTACGATTATATGTAAAGGCACACTTC
118673205 GTGTGAGC
1 GTGTGAGC
118673213 TTTCCCAAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (53 bp):
GTGTGAGCATTGATGTAAAAGAAAGGTTACGATTATATGTAAAGGCACACTTC
Found at i:118678709 original size:3 final size:3
Alignment explanation
Indices: 118678703--118678761 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
118678693 ATCTAAGATT
* ** *
118678703 TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA -AA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
118678746 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
118678762 GGTTTCATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:118678763 original size:33 final size:33
Alignment explanation
Indices: 118678708--118678786 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
118678698 AGATTTTATT
*
118678708 ATTATTATTAATTATTAGTATGGTTTTATATTAA
1 ATTATTATT-ATTATTAGTATGGTTTCATATTAA
*
118678742 ATTATTATTATTATTATTATGGTTTCATATTAA
1 ATTATTATTATTATTAGTATGGTTTCATATTAA
* *
118678775 GTTATAATTATT
1 ATTATTATTATT
118678787 TAATTGGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 32 0.78
34 9 0.22
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (33 bp):
ATTATTATTATTATTAGTATGGTTTCATATTAA
Found at i:118679051 original size:23 final size:24
Alignment explanation
Indices: 118679001--118679058 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
118678991 ATAATGACAA
*
118679001 TTGTAATAAAAAATATTGGTACAT
1 TTGTAATAAAAAATATTGGTACAC
*
118679025 TTGTAATAAATAGATA-T-GTACAC
1 TTGTAATAAA-AAATATTGGTACAC
118679048 TTGTAATAAAA
1 TTGTAATAAAA
118679059 TAACTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 15 0.48
24 11 0.35
25 4 0.13
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (24 bp):
TTGTAATAAAAAATATTGGTACAC
Found at i:118679293 original size:22 final size:21
Alignment explanation
Indices: 118679255--118679295 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
118679245 TAAACAAAGT
**
118679255 AAATAAAAGAATGAAAGAATG
1 AAATAAAAGAAACAAAGAATG
118679276 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
118679296 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:118680275 original size:21 final size:21
Alignment explanation
Indices: 118680207--118680279 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
118680197 TTTACTGATC
**
118680207 AGGCACTTTATGTGTCGTATTT
1 AGGCACTTCGTGTGTCGT-TTT
* * * *
118680229 CAGGCACCTCGCT-TGCCGTATC
1 -AGGCACTTCG-TGTGTCGTTTT
118680251 AGGCACTTCGTGTGTCGTTTT
1 AGGCACTTCGTGTGTCGTTTT
118680272 AGGCACTT
1 AGGCACTT
118680280 TATGTGTCAT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 1 0.03
21 23 0.61
22 1 0.03
23 12 0.32
24 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (21 bp):
AGGCACTTCGTGTGTCGTTTT
Found at i:118684380 original size:11 final size:11
Alignment explanation
Indices: 118684364--118684393 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
118684354 GAGTTAGTAT
118684364 TAAAATATTTA
1 TAAAATATTTA
118684375 TAAAATATTTA
1 TAAAATATTTA
118684386 TAAAATAT
1 TAAAATAT
118684394 AACGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAAATATTTA
Found at i:118707984 original size:19 final size:19
Alignment explanation
Indices: 118707950--118708009 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 19
118707940 GGTGAGAAGT
*
118707950 AAAAGTTTATGGGGAAAATA
1 AAAAGTTT-TGAGGAAAATA
118707970 AAAAGTTTTGAGG--AATA
1 AAAAGTTTTGAGGAAAATA
*
118707987 AAAA--TTTGAGGGAAAGTA
1 AAAAGTTTTGA-GGAAAATA
118708005 AAAAG
1 AAAAG
118708010 GGGAGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 5 0.15
16 2 0.06
17 8 0.24
18 7 0.21
19 4 0.12
20 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (19 bp):
AAAAGTTTTGAGGAAAATA
Found at i:118708312 original size:21 final size:21
Alignment explanation
Indices: 118708278--118708318 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
118708268 GGGAAAAAGT
*
118708278 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAGGTTTGA
118708299 GGGAAA-AGTAAAAAGGTTTG
1 GGGAAAGAGT-AAAAGGTTTG
118708319 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAAGAGTAAAAGGTTTGA
Found at i:118712123 original size:5 final size:5
Alignment explanation
Indices: 118712113--118712150 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
118712103 AATAATTAAG
118712113 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
118712151 TGTTATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:118712228 original size:31 final size:30
Alignment explanation
Indices: 118712193--118712253 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
118712183 GAAACAGAAT
*
118712193 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
118712224 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
118712254 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:118713825 original size:39 final size:39
Alignment explanation
Indices: 118713718--118713852 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
118713708 GACCTCGAGT
* * *
118713718 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
118713759 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
118713797 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
118713836 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
118713853 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:118720199 original size:39 final size:40
Alignment explanation
Indices: 118720092--118720226 Score: 118
Period size: 39 Copynumber: 3.4 Consensus size: 40
118720082 GACCTCGAGT
* **
118720092 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
118720133 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
*
118720171 CGATGAGACACTGGGTGTCAACTATTACTTC-GA-AGTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAG-AGC
*
118720210 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
118720227 CCATATTGGT
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
37 2 0.03
38 20 0.27
39 35 0.47
40 1 0.01
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:118723058 original size:12 final size:12
Alignment explanation
Indices: 118723027--118723060 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
118723017 TTAGTCCTAG
*
118723027 TTTAACAATATT
1 TTTAAAAATATT
118723039 TTTCAAAAATATT
1 TTT-AAAAATATT
118723052 TTTAAAAAT
1 TTTAAAAAT
118723061 TTAATTTCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTAAAAATATT
Found at i:118727108 original size:35 final size:35
Alignment explanation
Indices: 118727062--118727131 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
118727052 ATTTGATACC
* *
118727062 GTTATTTATATGAAATCAGGAATATTTTCGAACTA
1 GTTATCTATATGAAATCAAGAATATTTTCGAACTA
118727097 GTTATCTATATGAAATCAAGAATATTTTCGAACTA
1 GTTATCTATATGAAATCAAGAATATTTTCGAACTA
118727132 TCTCATACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (35 bp):
GTTATCTATATGAAATCAAGAATATTTTCGAACTA
Found at i:118730895 original size:12 final size:12
Alignment explanation
Indices: 118730878--118730904 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
118730868 GTTAAATTAA
118730878 AAAAATATAAAT
1 AAAAATATAAAT
118730890 AAAAATATAAAT
1 AAAAATATAAAT
118730902 AAA
1 AAA
118730905 TGAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATATAAAT
Found at i:118730931 original size:27 final size:27
Alignment explanation
Indices: 118730901--118730956 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
118730891 AAAATATAAA
118730901 TAAATGAATAATAATAGTAACATATTT
1 TAAATGAATAATAATAGTAACATATTT
118730928 TAAATGAATAATAATAGTAACATATTT
1 TAAATGAATAATAATAGTAACATATTT
118730955 TA
1 TA
118730957 TATAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (27 bp):
TAAATGAATAATAATAGTAACATATTT
Found at i:118738583 original size:27 final size:27
Alignment explanation
Indices: 118738553--118738607 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
118738543 CAATTTCAAC
118738553 TGAAATCTTATTTGATCAAGTCCATTT
1 TGAAATCTTATTTGATCAAGTCCATTT
118738580 TGAAATCTTATTTGATCAAGTCCATTT
1 TGAAATCTTATTTGATCAAGTCCATTT
118738607 T
1 T
118738608 AACCAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (27 bp):
TGAAATCTTATTTGATCAAGTCCATTT
Found at i:118757931 original size:21 final size:21
Alignment explanation
Indices: 118757907--118757950 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
118757897 TTGTCTGTTC
* * *
118757907 TTTCTTTCTTTTTCTATTTTA
1 TTTCTTTATTCTTCTATTATA
118757928 TTTCTTTATTCTTCTATTATA
1 TTTCTTTATTCTTCTATTATA
118757949 TT
1 TT
118757951 ATATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTCTTTATTCTTCTATTATA
Found at i:118762480 original size:24 final size:24
Alignment explanation
Indices: 118762453--118762590 Score: 138
Period size: 24 Copynumber: 5.7 Consensus size: 24
118762443 GAAATGACCT
118762453 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
118762477 TGGCACTATGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
* *
118762501 TAGCACTATGTGTGCAGATTT-ATA
1 TGGCACTATGTGTGCGGATTTGA-A
*
118762525 CGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* ** *
118762549 TCGTCGA-TATGTGTATGGATTATTAA
1 T-GGC-ACTATGTGTGCGGATT-TGAA
118762575 -GGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
118762591 GTTAACTTGG
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
23 1 0.01
24 73 0.78
25 15 0.16
26 4 0.04
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:118766940 original size:6 final size:6
Alignment explanation
Indices: 118766929--118766960 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
118766919 ACACTGTAGG
118766929 GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
118766961 CATAGTCAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:118767807 original size:12 final size:13
Alignment explanation
Indices: 118767789--118767822 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
118767779 CAACCCTAAT
118767789 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
*
118767802 -TTTTCTCTTTTC
1 TTTTTCTTTTTTC
118767814 TTTTTCTTT
1 TTTTTCTTT
118767823 CCTATTTCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:118771455 original size:16 final size:15
Alignment explanation
Indices: 118771410--118771455 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
118771400 TGATGTGAAT
*
118771410 AATAAAAAATATATAA
1 AATATAAAATAT-TAA
*
118771426 AATATAAAAAATTAA
1 AATATAAAATATTAA
118771441 AATATCAAAATATTA
1 AATAT-AAAATATTA
118771456 GAAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:118771484 original size:20 final size:21
Alignment explanation
Indices: 118771449--118771506 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
118771439 AAAATATCAA
*
118771449 AATATTAGAAAAATAATAAAT
1 AATATTAGAAAAATAAAAAAT
*
118771470 AATATT-GACAAATAAAAAAT
1 AATATTAGAAAAATAAAAAAT
118771490 AATA--A-AAAAATAAAAAA
1 AATATTAGAAAAATAAAAAA
118771507 ATAAAATAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 11 0.33
20 16 0.48
21 6 0.18
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (21 bp):
AATATTAGAAAAATAAAAAAT
Found at i:118771662 original size:22 final size:21
Alignment explanation
Indices: 118771601--118771734 Score: 78
Period size: 23 Copynumber: 6.1 Consensus size: 21
118771591 AATACTACAT
118771601 AAATATGTACAT-ATATATTA
1 AAATATGTACATAATATATTA
**
118771621 AAATAAATACATAATAATATTA
1 AAATATGTACATAAT-ATATTA
*
118771643 AAAGTATGCACATAATATA-TA
1 AAA-TATGTACATAATATATTA
* ** *
118771664 TACATATG-ATGTAGT-TATTGA
1 -AAATATGTACATAATATATT-A
*
118771685 AAATATGTACATAATACATGTAA
1 AAATATGTACATAATATAT-T-A
*
118771708 AAATATATACATCATATAGTATTA
1 AAATATGTACAT-A-ATA-TATTA
118771732 AAA
1 AAA
118771735 ATATAGTATT
Statistics
Matches: 85, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.02
20 21 0.25
21 13 0.15
22 16 0.19
23 22 0.26
24 5 0.06
25 4 0.05
26 2 0.02
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (21 bp):
AAATATGTACATAATATATTA
Found at i:118771827 original size:11 final size:11
Alignment explanation
Indices: 118771800--118771849 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
118771790 ACAATTATTA
118771800 ATAATAT-TAC
1 ATAATATATAC
*
118771810 AAAAATATATAC
1 -ATAATATATAC
118771822 ATAATATATTA-
1 ATAATATA-TAC
*
118771833 AAAATATATAC
1 ATAATATATAC
118771844 ATAATA
1 ATAATA
118771850 ATGATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 2 0.06
11 25 0.78
12 5 0.16
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATATATAC
Found at i:118771857 original size:26 final size:24
Alignment explanation
Indices: 118771810--118771975 Score: 184
Period size: 26 Copynumber: 6.9 Consensus size: 24
118771800 ATAATATTAC
118771810 AAAAATATATACAT-A-ATATATT
1 AAAAATATATACATAATATATATT
118771832 AAAAATATATACATAATAATGATATT
1 AAAAATATATACATAAT-AT-ATATT
* * *
118771858 AAAAGTATGTACGTAATATAGTATT
1 AAAAATATATACATAATATA-TATT
*
118771883 AAAAATACATACATAATATAGTTATT
1 AAAAATATATACATAATATA--TATT
118771909 AAAAATATATACATAATATA-A-T
1 AAAAATATATACATAATATATATT
118771931 -AAAATATATGA-ATAATATGATATT
1 AAAAATATAT-ACATAATAT-ATATT
118771955 -AAAATATATACATAATATATA
1 AAAAATATATACATAATATATA
118771976 AAAAACATAA
Statistics
Matches: 124, Mismatches: 9, Indels: 21
0.81 0.06 0.14
Matches are distributed among these distances:
21 16 0.13
22 17 0.14
23 7 0.06
24 18 0.15
25 24 0.19
26 42 0.34
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (24 bp):
AAAAATATATACATAATATATATT
Found at i:118771885 original size:51 final size:48
Alignment explanation
Indices: 118771811--118771975 Score: 198
Period size: 51 Copynumber: 3.4 Consensus size: 48
118771801 TAATATTACA
118771811 AAAATATATACAT-A-ATATATTAAAAATATATACATAATAATGATATT
1 AAAATATATACATAATATATATTAAAAATATATACATAAT-ATGATATT
* * * *
118771858 AAAAGTATGTACGTAATATAGTATTAAAAATACATACATAATATAGTTATT
1 AAAA-TATATACATAATATA-TATTAAAAATATATACATAATAT-GATATT
118771909 AAAAATATATACATAATATA-A-T-AAAATATATGA-ATAATATGATATT
1 -AAAATATATACATAATATATATTAAAAATATAT-ACATAATATGATATT
118771955 AAAATATATACATAATATATA
1 AAAATATATACATAATATATA
118771976 AAAAACATAA
Statistics
Matches: 102, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
45 19 0.19
46 6 0.06
47 19 0.19
48 9 0.09
49 2 0.02
50 5 0.05
51 38 0.37
52 4 0.04
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (48 bp):
AAAATATATACATAATATATATTAAAAATATATACATAATATGATATT
Found at i:118771985 original size:16 final size:16
Alignment explanation
Indices: 118771964--118771996 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
118771954 TAAAATATAT
118771964 ACATAATATATAAAAA
1 ACATAATATATAAAAA
*
118771980 ACATAATATTTAAAAA
1 ACATAATATATAAAAA
118771996 A
1 A
118771997 TAATATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
ACATAATATATAAAAA
Found at i:118772017 original size:63 final size:63
Alignment explanation
Indices: 118771919--118772037 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 63
118771909 AAAAATATAT
*
118771919 ACATAATATAATAAAATATATGAATAATATGATATTAA-A-ATATATACATAATATATAAAAA
1 ACATAATATAATAAAATATATGAATAATATAATATTAATACATATATACATAATATATAAAAA
* *
118771980 ACATAATATTTAA-AAAATAATAT-ACATAATATAATATTAATACATATATGCGTAATAT
1 ACATAATA--TAATAAAAT-ATATGA-ATAATATAATATTAATACATATATACATAATAT
118772038 GGAGTATAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
61 8 0.16
62 6 0.12
63 21 0.43
64 1 0.02
65 13 0.27
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (63 bp):
ACATAATATAATAAAATATATGAATAATATAATATTAATACATATATACATAATATATAAAAA
Found at i:118772138 original size:2 final size:2
Alignment explanation
Indices: 118772127--118772157 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
118772117 TTAATAATGC
118772127 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118772158 AGTATTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:118772220 original size:27 final size:28
Alignment explanation
Indices: 118772158--118772223 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
118772148 TATATATATA
* * * *
118772158 AGTATTAAGTAAAAATAATAATAATGAG
1 AGTAATAAATAAAAATAATAATAATAAC
118772186 ATGCTAATAAATAAAAAT-ATAATAATAAC
1 A-G-TAATAAATAAAAATAATAATAATAAC
118772215 AGTAATAAA
1 AGTAATAAA
118772224 ATATAATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.22
28 2 0.06
29 11 0.34
30 12 0.38
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (28 bp):
AGTAATAAATAAAAATAATAATAATAAC
Found at i:118772242 original size:22 final size:22
Alignment explanation
Indices: 118772199--118772264 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
118772189 CTAATAAATA
*
118772199 AAAATATAATAATAACAGTAAT
1 AAAATATAATAATAACAATAAT
* *
118772221 AAAATATAATAGTATGAATAATATT
1 AAAATATAATA--AT-AACAATAAT
118772246 AAAAT-TAA-AATAA-AATAAT
1 AAAATATAATAATAACAATAAT
118772265 GAGAAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
19 5 0.14
20 2 0.05
21 2 0.05
22 11 0.30
23 1 0.03
24 5 0.14
25 11 0.30
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
AAAATATAATAATAACAATAAT
Found at i:118772961 original size:21 final size:22
Alignment explanation
Indices: 118772931--118772974 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
118772921 AAAAATCACC
118772931 TTTGTTTCTGATT-T-TGATTT
1 TTTGTTTCTGATTCTCTGATTT
118772951 TTTGTTTTCTGATTCTCTGATTT
1 TTTG-TTTCTGATTCTCTGATTT
118772974 T
1 T
118772975 GGGTTCGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 1 0.05
23 7 0.33
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.68
Consensus pattern (22 bp):
TTTGTTTCTGATTCTCTGATTT
Found at i:118773506 original size:25 final size:25
Alignment explanation
Indices: 118773475--118773522 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
118773465 TCTTTACTCA
*
118773475 TTGTCGTGTCACGAGAACAGAGTTG
1 TTGTCGTGTAACGAGAACAGAGTTG
*
118773500 TTGTCGTGTAACGAGAATAGAGT
1 TTGTCGTGTAACGAGAACAGAGT
118773523 AAAGACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (25 bp):
TTGTCGTGTAACGAGAACAGAGTTG
Found at i:118774210 original size:89 final size:87
Alignment explanation
Indices: 118774052--118774232 Score: 265
Period size: 89 Copynumber: 2.0 Consensus size: 87
118774042 ATTTTTTTTT
* * * *
118774052 TTGAAAACAGAAATTGGAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATG
118774117 AGTTGA-TTTTTGAAACACATAAA
66 AGTTGATTTTTTG-AA-ACATAAA
* *
118774140 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTTACCTCTCGCAATAT
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATAT
118774205 GAGTTGATTTTTTTGAAACATAAA
65 GAGTTGA-TTTTTTGAAACATAAA
118774229 TTGA
1 TTGA
118774233 GAATACCTCA
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
88 7 0.08
89 69 0.82
90 2 0.02
91 6 0.07
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (87 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTGAAACATAAA
Found at i:118774299 original size:75 final size:76
Alignment explanation
Indices: 118774140--118774310 Score: 206
Period size: 73 Copynumber: 2.3 Consensus size: 76
118774130 AACACATAAA
* * * *
118774140 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTTACCTCTCGCAATAT
1 TTGAAAAACATAAATTGAAAATACCTCA-CGTGTGAGCCAAGGCTCAAATCACCTCTCGCAATAT
*
118774205 GAGTTGATTTTT
65 GAGTTAATTTTT
* * *
118774217 TTG--AAACATAAATTGAGAATACCTCA-GTGTGA-CCTGAGGCTCAAATCAGCTCTCGCAATAT
1 TTGAAAAACATAAATTGAAAATACCTCACGTGTGAGCC-AAGGCTCAAATCACCTCTCGCAATAT
118774278 GAGTTAATTTTT
65 GAGTTAATTTTT
**
118774290 TTGAAAAACATAGTTTGAAAA
1 TTGAAAAACATAAATTGAAAA
118774311 CAGAATTTGG
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
72 2 0.03
73 42 0.52
75 33 0.41
77 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (76 bp):
TTGAAAAACATAAATTGAAAATACCTCACGTGTGAGCCAAGGCTCAAATCACCTCTCGCAATATG
AGTTAATTTTT
Found at i:118774370 original size:163 final size:163
Alignment explanation
Indices: 118774017--118774468 Score: 522
Period size: 163 Copynumber: 2.7 Consensus size: 163
118774007 CCTAGGACTT
* *
118774017 AACTCACCTCTAGCAATATGAGTTGATTTTTTTTTTTGAAAACAGAAATTG-GAAATACCTCGGC
1 AACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAACAGAAATTGAG-AATACCTC--A
* *
118774081 GTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGAAACACATAAATTGA
59 GTGTGA-CCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGA
* *
118774144 AAAGCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTC
122 AAAGCAGAAATTGAAAATACCTCAGCATGTGAACCAAGGCTC
* *
118774186 AACTTACCTCTCGCAATATGAGTTGATTTTTTTG-AAACATAAATTGAGAATACCTCAGTGTGAC
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAGAATACCTCAGTGTGAC
* * **
118774250 CTGAGGCTCAAATCAGCTCTCGCAATATGAGTTAATTTTTTTGAAAAACATAGTTTGAAAA-CAG
66 C-GAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAGCAG
* * * * *
118774314 AATTTGGAAATATCTCGGCATGTGAACCGAGGCTC
129 AAATTGAAAATACCTCAGCATGTGAACCAAGGCTC
* * * * ** *
118774349 AACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAACAGAATTTGAAAATACCTCGGCATGTC
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAGAATACCTCAGTGTGAC
*
118774414 CGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTG--AAACATAAATTGA
66 CGAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGA
118774469 GATTACCTTA
Statistics
Matches: 245, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
161 13 0.05
162 36 0.15
163 99 0.40
164 64 0.26
165 9 0.04
169 24 0.10
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (163 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAGAATACCTCAGTGTGAC
CGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAGCAGAA
ATTGAAAATACCTCAGCATGTGAACCAAGGCTC
Found at i:118774443 original size:73 final size:73
Alignment explanation
Indices: 118774306--118774545 Score: 293
Period size: 73 Copynumber: 3.2 Consensus size: 73
118774296 AACATAGTTT
* * *
118774306 GAAAACAGAATTTGGAAATATCTCGGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAG
1 GAAAACAGAAATTGAAAATACCTCGGCATGT---CCGAGGCTCAACTCACCTCTCGCAATATGAG
118774371 TTGATTTTTTG
63 TTGATTTTTTG
* * *
118774382 GAAAACAGAATTTGAAAATACCTCGGCATGTCCGAGGTTCAACTCACTTCTCGCAATATGAGTTG
1 GAAAACAGAAATTGAAAATACCTCGGCATGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
118774447 ATTTTTTT
66 ATTTTTTG
* * * ** ** *
118774455 G-AAACATAAATTGAGATTACCTTAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCGGCATGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT
118774519 GATTTTTTG
65 GATTTTTTG
*
118774528 GAAAACATAAATTGAAAA
1 GAAAACAGAAATTGAAAA
118774546 ATAGAATTTG
Statistics
Matches: 143, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
72 22 0.15
73 78 0.55
74 14 0.10
76 29 0.20
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (73 bp):
GAAAACAGAAATTGAAAATACCTCGGCATGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:118774458 original size:236 final size:235
Alignment explanation
Indices: 118774140--118774689 Score: 823
Period size: 236 Copynumber: 2.3 Consensus size: 235
118774130 AACACATAAA
* *
118774140 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTTACCTCTCGCAATAT
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGT---CCGAGGCTCAACTCACCTCTCGCAATAT
*
118774205 GAGTTGATTTTTTTGAAACATAAATTGAGAATACCTCAGTGTGACCTGAGGCTCAAATCAGCTCT
62 GAGTTGATTTTTTTGAAACATAAATTGAGAATACCTCAGTGTGACCTGAGGCTCAAATCACCTCT
** *
118774270 CGCAATATGAGTTAATTTTTTTGAAAAACATAGTTTG-AAAACAGAATTTGGAAATATCTCGGCA
127 CGCAATATGAGTTAA-TTTTTTGAAAAACATAAATTGAAAAACAGAATTTGAAAATATCTCGGCA
*
118774334 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
191 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
* * * * *
118774379 TTGGAAAACAGAATTTGAAAATACCTCGGCATGTCCGAGGTTCAACTCACTTCTCGCAATATGAG
1 TT-GAAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
118774444 TTGATTTTTTTGAAACATAAATTGAGATTACCTTAGTGTGACCTGAGGCTCAACTCACCTCTCGC
65 TTGATTTTTTTGAAACATAAATTGAGAATACCTCAGTGTGACCTGAGGCTCAAATCACCTCTCGC
* * *
118774509 AATATGAGTTGATTTTTTGGAAAACATAAATTGAAAAATAGAATTTGAAAATATCTCGGCATGTG
130 AATATGAGTTAATTTTTTGAAAAACATAAATTGAAAAACAGAATTTGAAAATATCTCGGCATGTG
118774574 AACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
195 AACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
* *
118774615 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGA
* *
118774680 ATTAATTTTT
64 GTTGATTTTT
118774690 GAAAACAGAA
Statistics
Matches: 280, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
235 22 0.08
236 194 0.69
237 34 0.12
239 25 0.09
240 5 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (235 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAACATAAATTGAGAATACCTCAGTGTGACCTGAGGCTCAAATCACCTCTCGCA
ATATGAGTTAATTTTTTGAAAAACATAAATTGAAAAACAGAATTTGAAAATATCTCGGCATGTGA
ACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
Found at i:118774675 original size:164 final size:158
Alignment explanation
Indices: 118774383--118774708 Score: 424
Period size: 164 Copynumber: 2.0 Consensus size: 158
118774373 GATTTTTTGG
* * *
118774383 AAAACAGAATTTGAAAATACCTCGGCATGTCCGAGGTTCAACTCACTTCTCGCAATATGAGTTGA
1 AAAACAGAATTTGAAAATACCTCGGCATGTCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
* * * * **
118774448 TTTTTTTGAAACATAAATTGAGATTACCTTAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
66 TTTTTTTGAAACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATA
* * *
118774513 TGAGTTGATTTTTTGGAAAACATAAATTGA
131 TGAATT-AATTTTT-GAAAACAGAAATTGA
* *
118774543 AAAATAGAATTTGAAAATATCTCGGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAACAGAATTTGAAAATACCTCGGCATGT---CCGAGGCTCAACTCACCTCTCGCAATATAAGT
* *
118774608 TGA-TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
63 TGATTTTTTTG-AA-ACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCG
118774672 CAATATGAATTAATTTTTGAAAACAGAAA-T-A
126 CAATATGAATTAATTTTTGAAAACAGAAATTGA
118774703 AAAACA
1 AAAACA
118774709 TCAGAATACC
Statistics
Matches: 144, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
160 34 0.24
161 1 0.01
162 17 0.12
163 40 0.28
164 52 0.36
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (158 bp):
AAAACAGAATTTGAAAATACCTCGGCATGTCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
TTTTTTTGAAACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATA
TGAATTAATTTTTGAAAACAGAAATTGA
Found at i:118782279 original size:27 final size:27
Alignment explanation
Indices: 118782249--118782304 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
118782239 TTAGTGTAGA
118782249 GAAGGTTTCAGCACCTTCTATCGCCTT
1 GAAGGTTTCAGCACCTTCTATCGCCTT
118782276 GAAGGTTTCAGCACCTTCTATCGCCTT
1 GAAGGTTTCAGCACCTTCTATCGCCTT
118782303 GA
1 GA
118782305 GCCTTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (27 bp):
GAAGGTTTCAGCACCTTCTATCGCCTT
Found at i:118786553 original size:8 final size:8
Alignment explanation
Indices: 118786518--118786565 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
118786508 TAATGATGCG
*
118786518 AATAATAA
1 AATATTAA
118786526 AAGTATATAA
1 AA-TAT-TAA
118786536 AATA-TAA
1 AATATTAA
118786543 AATATTAA
1 AATATTAA
*
118786551 AATATCAA
1 AATATTAA
118786559 AATATTA
1 AATATTA
118786566 GAAAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 7 0.21
8 18 0.53
9 4 0.12
10 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:118786562 original size:16 final size:15
Alignment explanation
Indices: 118786522--118786565 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 15
118786512 GATGCGAATA
118786522 ATAAAAGTATATAAAAT
1 ATAAAA-TAT-TAAAAT
118786539 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
118786554 ATCAAAATATTA
1 AT-AAAATATTA
118786566 GAAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.31
16 12 0.46
17 6 0.23
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:118786585 original size:21 final size:18
Alignment explanation
Indices: 118786557--118786601 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
118786547 TTAAAATATC
118786557 AAAATATTAGAAAAATAATA
1 AAAATATT-GAAAAATAA-A
*
118786577 AATAATATTGACAAATAAA
1 AA-AATATTGAAAAATAAA
118786596 AAAATA
1 AAAATA
118786602 AAATAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.17
19 3 0.13
20 10 0.43
21 6 0.26
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAATATTGAAAAATAAA
Found at i:118786602 original size:21 final size:21
Alignment explanation
Indices: 118786559--118786598 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
118786549 AAAATATCAA
*
118786559 AATATTAGAAAAATAATAAAT
1 AATATTAGAAAAATAAAAAAT
*
118786580 AATATT-GACAAATAAAAAA
1 AATATTAGAAAAATAAAAAA
118786599 ATAAAATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (21 bp):
AATATTAGAAAAATAAAAAAT
Found at i:118786711 original size:21 final size:21
Alignment explanation
Indices: 118786687--118786749 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
118786677 AATACTACAT
118786687 AAATATGTACATATATATTAA
1 AAATATGTACATATATATTAA
**
118786708 AAATAAATACATAGTAATATTAA
1 AAATATGTACATA-T-ATATTAA
* *
118786731 AAGTATGCACATAATATAT
1 AAATATGTACAT-ATATAT
118786750 AGAGGTGATC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
21 11 0.33
22 5 0.15
23 16 0.48
24 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.33
Consensus pattern (21 bp):
AAATATGTACATATATATTAA
Found at i:118786969 original size:26 final size:24
Alignment explanation
Indices: 118786929--118786988 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
118786919 TTATTTCATT
* * *
118786929 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
118786953 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
118786979 AAATAAATAT
1 AAATAAATAT
118786989 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:118787000 original size:22 final size:20
Alignment explanation
Indices: 118786959--118787006 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
118786949 ATAATAAATC
* *
118786959 AAATATATTTAAAAACATAA
1 AAATAAATTTAAAAAAATAA
118786979 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
118787001 AAATAA
1 AAATAA
118787007 TACAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:118787008 original size:21 final size:21
Alignment explanation
Indices: 118786959--118787017 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
118786949 ATAATAAATC
*
118786959 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
118786979 AAATAAATATTAAAACAAATAA
1 AAAT-AATATTAAAACAAATAA
**
118787001 AAATAATACAAAAACAA
1 AAATAATATTAAAACAA
118787018 TTCTTAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 4 0.12
21 17 0.52
22 12 0.36
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:118787095 original size:17 final size:17
Alignment explanation
Indices: 118787064--118787098 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
118787054 AAATACTTAT
**
118787064 ATTAAAAATTTAAAATA
1 ATTAAAAATAAAAAATA
118787081 ATTAAAAATAAAAAATA
1 ATTAAAAATAAAAAATA
118787098 A
1 A
118787099 AAAATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAAATAAAAAATA
Found at i:118787372 original size:25 final size:25
Alignment explanation
Indices: 118787316--118787483 Score: 117
Period size: 26 Copynumber: 6.8 Consensus size: 25
118787306 ATGATGTAGT
*
118787316 TATTGAAAATATGTACATAATACATG-
1 TATT-AAAATATATACATAATA-ATGA
118787342 TA--AAAATATATACATAATAATGA
1 TATTAAAATATATACATAATAATGA
* *
118787365 TATTAAAAGTATGTACGTAATATAGTG-
1 TATTAAAA-TATATACATAATA-A-TGA
* * *
118787392 T-TAAAAATACATACATAAT-ATAGT
1 TATTAAAATATATACATAATAAT-GA
118787416 TATTAAAAATATATACATAAT-AT-A
1 TATT-AAAATATATACATAATAATGA
118787440 -A-TAAAATATATGA-ATAAT-ATGA
1 TATTAAAATATAT-ACATAATAATGA
118787462 TATTAAAAATATATACATAATA
1 TATT-AAAATATATACATAATA
118787484 TATAAAAAAC
Statistics
Matches: 115, Mismatches: 10, Indels: 34
0.72 0.06 0.21
Matches are distributed among these distances:
21 16 0.14
22 7 0.06
23 22 0.19
24 3 0.03
25 28 0.24
26 35 0.30
27 2 0.02
28 2 0.02
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (25 bp):
TATTAAAATATATACATAATAATGA
Found at i:118787397 original size:51 final size:48
Alignment explanation
Indices: 118787316--118787486 Score: 195
Period size: 51 Copynumber: 3.5 Consensus size: 48
118787306 ATGATGTAGT
* * *
118787316 TATTGAAAATATGTACATAATACATGTAAAAATATATACATAATAATGA
1 TATTAAAAATATATACATAATATATGTAAAAATATATACATAAT-ATGA
* * * * *
118787365 TATTAAAAGTATGTACGTAATATAGTGTTAAAAATACATACATAATATAGT
1 TATTAAAAATATATACATAATATA-TG-TAAAAATATATACATAATAT-GA
*
118787416 TATTAAAAATATATACATAATATA-AT-AAAATATATGA-ATAATATGA
1 TATTAAAAATATATACATAATATATGTAAAAATATAT-ACATAATATGA
118787462 TATTAAAAATATATACATAATATAT
1 TATTAAAAATATATACATAATATAT
118787487 AAAAAACATA
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
46 25 0.24
47 15 0.14
48 2 0.02
49 20 0.19
50 4 0.04
51 39 0.37
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (48 bp):
TATTAAAAATATATACATAATATATGTAAAAATATATACATAATATGA
Found at i:118787484 original size:25 final size:25
Alignment explanation
Indices: 118787316--118787484 Score: 156
Period size: 25 Copynumber: 6.9 Consensus size: 25
118787306 ATGATGTAGT
* * *
118787316 TATTGAAAATATGTACATAATA-CA
1 TATTAAAAATATATACATAATATGA
*
118787340 T-GTAAAAATATATACATAATAATGA
1 TATTAAAAATATATACATAAT-ATGA
* * *
118787365 TATTAAAAGTATGTACGTAATAT-A
1 TATTAAAAATATATACATAATATGA
* * *
118787389 GTGTTAAAAATACATACATAATATAGT
1 -TATTAAAAATATATACATAATAT-GA
118787416 TATTAAAAATATATACATAATAT-A
1 TATTAAAAATATATACATAATATGA
118787440 -A-T-AAAATATATGA-ATAATATGA
1 TATTAAAAATATAT-ACATAATATGA
118787462 TATTAAAAATATATACATAATAT
1 TATTAAAAATATATACATAATAT
118787485 ATAAAAAACA
Statistics
Matches: 116, Mismatches: 17, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
21 16 0.14
22 3 0.03
23 18 0.16
24 5 0.04
25 38 0.33
26 36 0.31
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (25 bp):
TATTAAAAATATATACATAATATGA
Found at i:118787497 original size:16 final size:16
Alignment explanation
Indices: 118787476--118787508 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
118787466 AAAAATATAT
118787476 ACATAATATATAAAAA
1 ACATAATATATAAAAA
*
118787492 ACATAATATTTAAAAA
1 ACATAATATATAAAAA
118787508 A
1 A
118787509 TAATATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
ACATAATATATAAAAA
Found at i:118788439 original size:21 final size:22
Alignment explanation
Indices: 118788409--118788452 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
118788399 AAAAATCACC
118788409 TTTGTTTCTGATT-T-TGATTT
1 TTTGTTTCTGATTCTCTGATTT
118788429 TTTGTTTTCTGATTCTCTGATTT
1 TTTG-TTTCTGATTCTCTGATTT
118788452 T
1 T
118788453 GGGTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 1 0.05
23 7 0.33
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.68
Consensus pattern (22 bp):
TTTGTTTCTGATTCTCTGATTT
Found at i:118790397 original size:37 final size:36
Alignment explanation
Indices: 118790344--118790427 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 36
118790334 TTATTACGAA
118790344 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCC-GACATAATCTCCACACGTAGTCATCGG
118790381 GTCTTACCCGATCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGA-CATAATCTCCACACGTAGTCATCGG
*
118790418 GTCTCACCCG
1 GTCTTACCCG
118790428 GAACATATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
36 2 0.04
37 43 0.96
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGACATAATCTCCACACGTAGTCATCGG
Found at i:118790422 original size:21 final size:21
Alignment explanation
Indices: 118790361--118790422 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
118790351 CCGGACATAA
118790361 TCTCCACACGTAGTCATCGGG
1 TCTCCACACGTAGTCATCGGG
* * **
118790382 TCT-TACCCG-A-TCAT--AA
1 TCTCCACACGTAGTCATCGGG
118790398 TCTCCACACGTAGTCATCGGG
1 TCTCCACACGTAGTCATCGGG
118790419 TCTC
1 TCTC
118790423 ACCCGGAACA
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 3 0.11
17 4 0.14
18 5 0.18
19 5 0.18
20 4 0.14
21 7 0.25
ACGTcount: A:0.21, C:0.34, G:0.18, T:0.27
Consensus pattern (21 bp):
TCTCCACACGTAGTCATCGGG
Found at i:118790584 original size:49 final size:49
Alignment explanation
Indices: 118790531--118791204 Score: 1170
Period size: 49 Copynumber: 13.8 Consensus size: 49
118790521 TTTCACATTA
*
118790531 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
118790580 GCCATTAGGTCTTATCACATATATATAC-CTTTTCACGTTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACAC-TTTCACATTCACCACATCG
*
118790629 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
118790678 GCCATTAGGCCTTATTACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
118790727 GCCATTAGGCCTTATCACATATATATACCCTTTCACATCCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
118790776 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
118790825 GCCATTAGGCCTTATTACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
118790874 GCCATTAGGCCTTATCACATATATATACACTTTCACATCCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
118790923 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
118790972 GCCATTAGGCCTTATTACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
118791021 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
118791070 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
118791119 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
118791168 GCCATTAGGCCTTATCACATATATATACACTTTCACA
1 GCCATTAGGCCTTATCACATATATATACACTTTCACA
118791205 AATTTTAATA
Statistics
Matches: 591, Mismatches: 32, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
48 1 0.00
49 589 1.00
50 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
Found at i:118795293 original size:31 final size:32
Alignment explanation
Indices: 118795257--118795332 Score: 84
Period size: 36 Copynumber: 2.3 Consensus size: 32
118795247 TATTTTTTTT
118795257 ATTTAATTTTA-CA-ATTTCAACCAAAGTTAAC
1 ATTTAATTTTATCATATTTCAACCAAAGTT-AC
*
118795288 ATTTAATTTTTATATCATTTTTCAACCAAAGTTAC
1 ATTTAA--TTT-TATCATATTTCAACCAAAGTTAC
*
118795323 ATTTAGTTTT
1 ATTTAATTTT
118795333 TATATCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
31 6 0.16
32 1 0.03
33 6 0.16
34 2 0.05
35 9 0.24
36 14 0.37
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (32 bp):
ATTTAATTTTATCATATTTCAACCAAAGTTAC
Found at i:118795345 original size:36 final size:36
Alignment explanation
Indices: 118795271--118795344 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 36
118795261 AATTTTACAA
118795271 TTTCAACCAAAGTTAACATTTAATTTTTATATCATT
1 TTTCAACCAAAGTTAACATTTAATTTTTATATCATT
*
118795307 TTTCAACCAAAGTT-ACATTTAGTTTTTATATCATT
1 TTTCAACCAAAGTTAACATTTAATTTTTATATCATT
118795342 TTT
1 TTT
118795345 TATAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 23 0.62
36 14 0.38
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (36 bp):
TTTCAACCAAAGTTAACATTTAATTTTTATATCATT
Found at i:118797157 original size:47 final size:50
Alignment explanation
Indices: 118796992--118797305 Score: 188
Period size: 47 Copynumber: 6.6 Consensus size: 50
118796982 GTTATGGGGG
* * * * **
118796992 AGCCAGTATAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAG--
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGAGGTGAGAT
* * * * * *
118797040 GGCTAGTGTAAGA-CGTGCCTGGGACAT-GCATCAGCC--GCA--TCATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAG-AGGTGA-GAT
* *
118797086 AGCCCA-TGTAAGACCACGGT-TGGGACATGGCATCGGCGTAGAGGTGAG-T
1 AG-CCAGTGTAAGACCA-TGTCTGGGACATGGCATCGGCCTAGAGGTGAGAT
* * *
118797135 -GCCAGTGTAAGA-CATGTCTGGGACAT-GTATCGGCCTCGA--TGATGTT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGAGGTGA-GAT
* * **
118797181 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGG-CTA-AGTTTCG-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGAGGTGAGAT
* * * *
118797226 -GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATG-GAGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGAGGTGAGAT
*
118797274 AGCCAGCGTAAGACCATGTCTGGGACATGGCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCA
118797306 GTGACAACTT
Statistics
Matches: 204, Mismatches: 37, Indels: 49
0.70 0.13 0.17
Matches are distributed among these distances:
43 1 0.00
44 16 0.08
45 17 0.08
46 37 0.18
47 70 0.34
48 28 0.14
49 31 0.15
50 2 0.01
51 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (50 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGAGGTGAGAT
Found at i:118797204 original size:94 final size:94
Alignment explanation
Indices: 118796992--118797305 Score: 327
Period size: 94 Copynumber: 3.3 Consensus size: 94
118796982 GTTATGGGGG
* * * * * *
118796992 AGCCAGTATAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
* * * *
118797057 CCTGGGACATGCATCAGCCGC-ATCATGAT
65 TCTGGGACATGCATCGGCCTCGATGATGAT
* * *
118797086 AGCCCA-TGTAAGACCACGGT-TGGGACATGGCATCGGCGTAGAGGTGAGTGCCAGTGTAAGACA
1 AG-CCAGTGTAAGACCA-TGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACA
* *
118797149 TGTCTGGGACATGTATCGGCCTCGATGATGTT
63 TGTCTGGGACATGCATCGGCCTCGATGATGAT
* * **
118797181 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTCGTGCTAGTGTAAGACCATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGA-CATG
*
118797243 TCTGGGACATGGCATTGGCCTCGATGGA-GAT
65 TCTGGGACAT-GCATCGGCCTCGAT-GATGAT
*
118797274 AGCCAGCGTAAGACCATGTCTGGGACATGGCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCA
118797306 GTGACAACTT
Statistics
Matches: 184, Mismatches: 26, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
91 16 0.09
92 16 0.09
93 36 0.20
94 93 0.51
95 23 0.12
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCGGCCTCGATGATGAT
Found at i:118798126 original size:55 final size:55
Alignment explanation
Indices: 118798059--118798177 Score: 145
Period size: 55 Copynumber: 2.2 Consensus size: 55
118798049 CTTAAATTTT
* * *
118798059 TAAA-TCAGTATTGTCTAC-GGTTAGGCCACACCGGCGTGTGTCATAGCCGTG-TC
1 TAAAGTCAGTATTGCCCACAGG-TAGGCCACACCGGCGTGTGTCATAGCCGTGCCC
* * *
118798112 TATAAGTCAGTATTGCCCACAGGTAGGCCACACGGGTGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACAGGTAGGCCACACCGGCGTGTGTCATAGCCGTGCCC
118798168 TAAAGTCAGT
1 TAAAGTCAGT
118798178 GTCACACACG
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 47 0.84
56 5 0.09
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACAGGTAGGCCACACCGGCGTGTGTCATAGCCGTGCCC
Found at i:118800845 original size:3 final size:3
Alignment explanation
Indices: 118800837--118800861 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
118800827 TTTATAAATA
118800837 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
118800862 GGTAAAATAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:118800870 original size:15 final size:15
Alignment explanation
Indices: 118800836--118800877 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
118800826 GTTTATAAAT
118800836 AAATAATAATA-ATA
1 AAATAATAATAGATA
*
118800850 ATAATAATAATAGGTA
1 A-AATAATAATAGATA
*
118800866 AAATAATGATAG
1 AAATAATAATAG
118800878 TAGGAATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 20 0.83
16 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
AAATAATAATAGATA
Found at i:118802306 original size:3 final size:3
Alignment explanation
Indices: 118802292--118802460 Score: 113
Period size: 3 Copynumber: 54.7 Consensus size: 3
118802282 CCTTTTTTAG
* ** * *
118802292 TTA TTT TTA TTA TTA AAA TTAA TTAA TTAA TTA ATA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TT-A TT-A TTA TTA TTA TTA TTA TTA
* * ** * * * * *
118802340 TTA CTA TTA TTTA TTA TCA CCA TTA TTT TTA CTG TTA ATA TTA TTT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
118802386 TTA TTA CTA TTT TTA TTA CTG TTCT TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
*
118802432 TTA TTA TTA TTA TTA TTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
118802461 GTCATTTATA
Statistics
Matches: 126, Mismatches: 37, Indels: 6
0.75 0.22 0.04
Matches are distributed among these distances:
3 110 0.87
4 16 0.13
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:118804542 original size:13 final size:13
Alignment explanation
Indices: 118804526--118804555 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
118804516 TAAATTTAAT
118804526 AAATAAAATATAA
1 AAATAAAATATAA
*
118804539 AAATATAATATAA
1 AAATAAAATATAA
118804552 AAAT
1 AAAT
118804556 CAATCAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATATAA
Found at i:118806442 original size:23 final size:23
Alignment explanation
Indices: 118806412--118806468 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
118806402 ATATATTTTA
**
118806412 AATTAATTTTTAAATTTAATAAT
1 AATTAATTTTTAAATGCAATAAT
118806435 AATTAATTTTTAAATGCAATAAT
1 AATTAATTTTTAAATGCAATAAT
*
118806458 AATTAGTTTTT
1 AATTAATTTTT
118806469 TCCTAAGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
AATTAATTTTTAAATGCAATAAT
Found at i:118810957 original size:31 final size:32
Alignment explanation
Indices: 118810919--118810981 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
118810909 TATCATTATA
118810919 GTTTAAGGTTTATG-GTTTAA-GATGGTTTAAG
1 GTTTAAGGTTTATGAG-TTAACGATGGTTTAAG
*
118810950 GTTTAAGGTTTATGAGTTAACTATGGTTTAAG
1 GTTTAAGGTTTATGAGTTAACGATGGTTTAAG
118810982 ATATATAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 18 0.62
32 11 0.38
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (32 bp):
GTTTAAGGTTTATGAGTTAACGATGGTTTAAG
Found at i:118810979 original size:25 final size:25
Alignment explanation
Indices: 118810949--118811061 Score: 76
Period size: 25 Copynumber: 4.6 Consensus size: 25
118810939 GATGGTTTAA
118810949 GGTTTAAGGTTTATGAGTTAACTAT
1 GGTTTAAGGTTTATGAGTTAACTAT
* * *
118810974 GGTTTAAGATATAT-AGTT---TAG
1 GGTTTAAGGTTTATGAGTTAACTAT
*
118810995 GGTTTAAGGTTTAGGAGTTAACTA-
1 GGTTTAAGGTTTATGAGTTAACTAT
* * * *
118811019 GTATTTGAAGTTTTATGA-TAAATTAT
1 G-GTTT-AAGGTTTATGAGTTAACTAT
*
118811045 GGGTTTAAGGATTATGA
1 -GGTTTAAGGTTTATGA
118811062 TTTAGGGTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
21 13 0.20
22 4 0.06
24 5 0.08
25 31 0.47
26 12 0.18
27 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (25 bp):
GGTTTAAGGTTTATGAGTTAACTAT
Found at i:118811173 original size:7 final size:7
Alignment explanation
Indices: 118811062--118811174 Score: 52
Period size: 7 Copynumber: 15.7 Consensus size: 7
118811052 AGGATTATGA
118811062 TTTAGGG
1 TTTAGGG
118811069 TTTATGGG
1 TTTA-GGG
118811077 -TTAGGG
1 TTTAGGG
118811083 -TT-GGAG
1 TTTAGG-G
*
118811089 TTTAAGG
1 TTTAGGG
* *
118811096 TGTAAGGTT
1 T-TTAGG-G
*
118811105 TTTGGGG
1 TTTAGGG
*
118811112 TTAAGGG
1 TTTAGGG
* *
118811119 TTAAGAG
1 TTTAGGG
118811126 TTTAGGG
1 TTTAGGG
*
118811133 TTTAGTG
1 TTTAGGG
*
118811140 TTTATGG
1 TTTAGGG
*
118811147 TATAGGGG
1 TTTA-GGG
*
118811155 TTAAGAGG
1 TTTAG-GG
118811163 TTTAGGG
1 TTTAGGG
118811170 TTTAG
1 TTTAG
118811175 ATTAATTAGT
Statistics
Matches: 78, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
5 2 0.03
6 6 0.08
7 49 0.63
8 20 0.26
9 1 0.01
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:118822982 original size:15 final size:16
Alignment explanation
Indices: 118822962--118822994 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
118822952 ATATATATTT
118822962 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
118822977 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
118822994 T
1 T
118822995 ATAACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:118823078 original size:22 final size:22
Alignment explanation
Indices: 118823039--118823097 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
118823029 ATTTTAAGAA
*
118823039 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
118823060 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
118823082 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
118823098 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:118823527 original size:14 final size:16
Alignment explanation
Indices: 118823498--118823529 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
118823488 ATTTGAACGA
118823498 AATAACATATACATGT
1 AATAACATATACATGT
118823514 AATAA-ATA-ACATGT
1 AATAACATATACATGT
118823528 AA
1 AA
118823530 CAATACTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAACATATACATGT
Found at i:118824189 original size:21 final size:21
Alignment explanation
Indices: 118824162--118824220 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
118824152 TAAATGAAAT
118824162 ATTTTAAAATAAATAAATAGA
1 ATTTTAAAATAAATAAATAGA
* * * *
118824183 GTTTTAAAATATATATATATA
1 ATTTTAAAATAAATAAATAGA
118824204 ATAATTTAAAATAAATA
1 AT--TTTAAAATAAATA
118824221 GTTTAAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 18 0.60
23 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (21 bp):
ATTTTAAAATAAATAAATAGA
Found at i:118824225 original size:14 final size:14
Alignment explanation
Indices: 118824203--118824236 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
118824193 ATATATATAT
118824203 AATAATTTAAAATA
1 AATAATTTAAAATA
*
118824217 AATAGTTTAAAATA
1 AATAATTTAAAATA
*
118824231 TATAAT
1 AATAAT
118824237 ATATAAAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
AATAATTTAAAATA
Found at i:118824472 original size:25 final size:26
Alignment explanation
Indices: 118824444--118824501 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
118824434 CTTATTTCAT
*
118824444 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
118824469 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
118824495 -AAATAAA
1 TAAATAAA
118824502 TATTAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:118824487 original size:26 final size:24
Alignment explanation
Indices: 118824456--118824504 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
118824446 AATAAAAAAT
*
118824456 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAAT-AAATATA
118824482 TTTAAAAACATAAAAATAAATAT
1 TTTAAAAACATAAAAATAAATAT
118824505 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAATAAATATA
Found at i:118824516 original size:22 final size:22
Alignment explanation
Indices: 118824475--118824533 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
118824465 ATAATAAATC
* *
118824475 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
118824495 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
118824517 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
118824534 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:118824609 original size:15 final size:16
Alignment explanation
Indices: 118824579--118824611 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
118824569 AAATAGTTAT
118824579 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
118824596 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
118824611 A
1 A
118824612 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:118825278 original size:21 final size:22
Alignment explanation
Indices: 118825252--118825310 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
118825242 GTTTTAAGAA
*
118825252 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
118825273 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
118825295 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
118825311 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:118825325 original size:26 final size:24
Alignment explanation
Indices: 118825281--118825330 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
118825271 ATTTGTTTTA
*
118825281 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
118825305 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
118825331 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:118828277 original size:28 final size:28
Alignment explanation
Indices: 118828245--118828301 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
118828235 TGAATGAATG
118828245 AATGAATATTTGTAAGATAAAAGCACGC
1 AATGAATATTTGTAAGATAAAAGCACGC
118828273 AATGAATATTTGTAAGATAAAAGCACGC
1 AATGAATATTTGTAAGATAAAAGCACGC
118828301 A
1 A
118828302 TATGGTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.25
Consensus pattern (28 bp):
AATGAATATTTGTAAGATAAAAGCACGC
Found at i:118828887 original size:19 final size:17
Alignment explanation
Indices: 118828865--118828904 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
118828855 ATAAATTTTA
*
118828865 TAATTTAACTTAAATTAAT
1 TAATTCAAC-TAAA-TAAT
118828884 TAATTCAACTAAATAAT
1 TAATTCAACTAAATAAT
118828901 TAAT
1 TAAT
118828905 CCATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATTCAACTAAATAAT
Found at i:118835996 original size:19 final size:19
Alignment explanation
Indices: 118835954--118835996 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
118835944 GTAGTTTATC
**
118835954 ATTTATAGTCTAAAAAGTA
1 ATTTATAGTCTAAAAACAA
*
118835973 A-TTATATTCTAAAAACAA
1 ATTTATAGTCTAAAAACAA
118835991 ATTTAT
1 ATTTAT
118835997 CATTATGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (19 bp):
ATTTATAGTCTAAAAACAA
Found at i:118841924 original size:31 final size:31
Alignment explanation
Indices: 118841841--118841923 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
118841831 TTAAAAGCTC
* * * * *
118841841 AATGATTTAAATAAAAACTTTAGAATAGTTT
1 AATGACTTAAATGAAAATTTTTGAATAATTT
118841872 AATGACTTAAATGAAAATTTTTGAATAATTT
1 AATGACTTAAATGAAAATTTTTGAATAATTT
* * *
118841903 AGTGAC-TAAATTATAATTTTT
1 AATGACTTAAATGAAAATTTTT
118841924 TTAAATTAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 13 0.30
31 31 0.70
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.42
Consensus pattern (31 bp):
AATGACTTAAATGAAAATTTTTGAATAATTT
Found at i:118846545 original size:57 final size:57
Alignment explanation
Indices: 118846482--118846661 Score: 189
Period size: 57 Copynumber: 3.1 Consensus size: 57
118846472 ATAGAAATGG
* * * *
118846482 TGAAAATGGAGAAATAAAAACATTCGGAAATGATTATGATTTTCTCGAAAATAAAAA
1 TGAAAATGGAGAAATAAAATCATTTGAAAATGATTATGATTTTCTCCAAAATAAAAA
* ** *
118846539 TGAAAATGAAAATAGAGAAATGAAATCATTTTCAAATGATTATGGTTTTCTCCAAAATAAAAA
1 TGAAAATG------GAGAAATAAAATCATTTGAAAATGATTATGATTTTCTCCAAAATAAAAA
* * * * *
118846602 TGAAAATGGAGAAATAGAATCATTTGAAAATGAATGTAATTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATAAAATCATTTGAAAATGATTATGATTTTCTCCAAAATAAAAA
118846659 TGA
1 TGA
118846662 CCTGAAAAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
57 51 0.50
63 50 0.50
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.28
Consensus pattern (57 bp):
TGAAAATGGAGAAATAAAATCATTTGAAAATGATTATGATTTTCTCCAAAATAAAAA
Found at i:118846576 original size:63 final size:63
Alignment explanation
Indices: 118846482--118846619 Score: 186
Period size: 63 Copynumber: 2.2 Consensus size: 63
118846472 ATAGAAATGG
* * *
118846482 TGAAAATGGAGAAATAAAAACATTCGGAAATGATTATGATTTTCTCGAAAATAAAAATGAAAA
1 TGAAAATAGAGAAATAAAAACATTCGCAAATGATTATGATTTTCTCCAAAATAAAAATGAAAA
* * ** *
118846545 TGAAAATAGAGAAATGAAATCATTTTCAAATGATTATGGTTTTCTCCAAAATAAAAATGAAAA
1 TGAAAATAGAGAAATAAAAACATTCGCAAATGATTATGATTTTCTCCAAAATAAAAATGAAAA
118846608 TGGAGAAATAGA
1 T-GA-AAATAGA
118846620 ATCATTTGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
63 56 0.86
64 2 0.03
65 7 0.11
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.27
Consensus pattern (63 bp):
TGAAAATAGAGAAATAAAAACATTCGCAAATGATTATGATTTTCTCCAAAATAAAAATGAAAA
Found at i:118848359 original size:30 final size:30
Alignment explanation
Indices: 118848320--118848376 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
118848310 TTTTATAAAT
118848320 AATTAATATTT-ATTAC-TTAAAAATATTTAA
1 AATTAATATTTCA-TACATT-AAAATATTTAA
*
118848350 AATTTATATTTCATACATTAAAATATT
1 AATTAATATTTCATACATTAAAATATT
118848377 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTAATATTTCATACATTAAAATATTTAA
Found at i:118854058 original size:3 final size:3
Alignment explanation
Indices: 118854050--118854102 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
118854040 TAACTGTAAC
118854050 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
118854098 ATA AT
1 ATA AT
118854103 GTTAAAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:118866943 original size:23 final size:23
Alignment explanation
Indices: 118866917--118866975 Score: 100
Period size: 23 Copynumber: 2.5 Consensus size: 23
118866907 TGAACTCCGC
118866917 GAATATTTAAAAAGGCTAGAGCT
1 GAATATTTAAAAAGGCTAGAGCT
118866940 GAATATTTAAAAAGGCTAGAGCT
1 GAATATTTAAAAAGGCTAGAGCT
*
118866963 GAACTATCTAAAA
1 GAA-TATTTAAAA
118866976 CCCTAAACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 26 0.76
24 8 0.24
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (23 bp):
GAATATTTAAAAAGGCTAGAGCT
Found at i:118875422 original size:21 final size:22
Alignment explanation
Indices: 118875373--118875422 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
118875363 GTTCCCAAAC
118875373 TATTTTTAAGGCCCCGTAAGCT
1 TATTTTTAAGGCCCCGTAAGCT
* *
118875395 CA-GTTTAAGG-CCCGTAAG-T
1 TATTTTTAAGGCCCCGTAAGCT
118875414 GTATTTTTA
1 -TATTTTTA
118875423 GTCTGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 5
0.71 0.13 0.16
Matches are distributed among these distances:
19 1 0.05
20 9 0.41
21 11 0.50
22 1 0.05
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (22 bp):
TATTTTTAAGGCCCCGTAAGCT
Found at i:118881444 original size:21 final size:21
Alignment explanation
Indices: 118881420--118881485 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
118881410 GTCTTGAATT
118881420 TGTTAGATGTTGAATTTATTA
1 TGTTAGATGTTGAATTTATTA
*
118881441 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATGTTGAATTTATTA
*
118881466 TGTTAGATATTGAATTTATT
1 TGTTAGATGTTGAATTTATT
118881486 TAGTTGGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 14 0.37
22 2 0.05
23 4 0.11
24 2 0.05
25 16 0.42
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.55
Consensus pattern (21 bp):
TGTTAGATGTTGAATTTATTA
Found at i:118882939 original size:22 final size:22
Alignment explanation
Indices: 118882914--118882955 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
118882904 ACAATTTAAA
118882914 ATATAAATTTATTAATATATAT
1 ATATAAATTTATTAATATATAT
118882936 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
118882956 GTAAAAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATAAATTTATTAATATATAT
Done.