Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold74
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: 4633657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 25 characters in sequence are not A, C, G, or T
File 4 of 24
Found at i:749559 original size:10 final size:10
Alignment explanation
Indices: 749530--749619 Score: 53
Period size: 10 Copynumber: 8.9 Consensus size: 10
749520 AAAATTTTTA
*
749530 ATTTATTAAT
1 ATTTATTATT
749540 ATTTTGATTATT
1 A-TTT-ATTATT
*
749552 ATTTATTAAT
1 ATTTATTATT
*
749562 ATTT-TTAAT
1 ATTTATTATT
749571 -TTTATT-TT
1 ATTTATTATT
749579 ATTTAATT-TT
1 ATTT-ATTATT
*
749589 AATTGAATTATT
1 -ATT-TATTATT
*
749601 ATTTATTAAT
1 ATTTATTATT
*
749611 ATTTTTTAT
1 ATTTATTAT
749620 AAAATTAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
8 4 0.06
9 10 0.16
10 27 0.42
11 15 0.23
12 8 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATTATT
Found at i:750710 original size:4 final size:4
Alignment explanation
Indices: 750701--750727 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
750691 TTAAAACTTG
750701 AAAC AAAC AAAC AAAC AAAC AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAA
750728 GATAATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:757930 original size:39 final size:39
Alignment explanation
Indices: 757853--758007 Score: 276
Period size: 39 Copynumber: 4.0 Consensus size: 39
757843 TGGTATTTAA
*
757853 ACCTCCGACTAGAACTAGCAC-ATAGTATAGCACAAAGC
1 ACCTCCGACTAGAACTAGCACAATAGTATAGCACCAAGC
757891 ACCTCCGACTAGAACTAGCACAATAGTATAGCACCAAGC
1 ACCTCCGACTAGAACTAGCACAATAGTATAGCACCAAGC
*
757930 ACCTCCGTCTAGAACTAGCACAATAGTATAGCACCAAGC
1 ACCTCCGACTAGAACTAGCACAATAGTATAGCACCAAGC
*
757969 ACCTCCGTCTAGAACTAGCACAATAGTATAGCACCAAGC
1 ACCTCCGACTAGAACTAGCACAATAGTATAGCACCAAGC
758008 CACTAAGCTT
Statistics
Matches: 114, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
38 21 0.18
39 93 0.82
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.17
Consensus pattern (39 bp):
ACCTCCGACTAGAACTAGCACAATAGTATAGCACCAAGC
Found at i:762982 original size:22 final size:21
Alignment explanation
Indices: 762905--762985 Score: 70
Period size: 20 Copynumber: 4.1 Consensus size: 21
762895 TTTTATTATT
762905 AAAATATATTTAAA--AA-TTA
1 AAAATA-ATTTAAATTAAGTTA
762924 AAAATAA-TTAAATTTAA-TTA
1 AAAATAATTTAAA-TTAAGTTA
*
762944 AAAAT-ATTT-CATT-AGTTA
1 AAAATAATTTAAATTAAGTTA
762962 AATAATAATTTAAATTAAGTTA
1 AA-AATAATTTAAATTAAGTTA
762984 AA
1 AA
762986 CTTATTTAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
17 6 0.12
18 8 0.16
19 11 0.22
20 16 0.31
21 3 0.06
22 7 0.14
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAATAATTTAAATTAAGTTA
Found at i:770046 original size:2 final size:2
Alignment explanation
Indices: 770033--770063 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
770023 TTTATATGTG
*
770033 TA TA TA TT 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 T
770064 TCTTTCTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:772802 original size:13 final size:13
Alignment explanation
Indices: 772768--772810 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
772758 AAATTTAATT
*
772768 ATAAAAATATATAA
1 ATAATAATATA-AA
*
772782 ATATTAATATAAA
1 ATAATAATATAAA
*
772795 ATAATAATTTAAA
1 ATAATAATATAAA
772808 ATA
1 ATA
772811 TTTAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:772817 original size:21 final size:21
Alignment explanation
Indices: 772793--772837 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
772783 TATTAATATA
772793 AAATAATAATTTAAAATATTT
1 AAATAATAATTTAAAATATTT
*
772814 AAATAATAATTTAAAATTTTT
1 AAATAATAATTTAAAATATTT
772835 AAA
1 AAA
772838 CTCATCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATAATTTAAAATATTT
Found at i:776707 original size:23 final size:22
Alignment explanation
Indices: 776681--776732 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
776671 TATTTTTATT
* *
776681 TAAATTTTATTATATAAAATATA
1 TAAATTTTAATATA-AAAATAAA
*
776704 TAAATATTAATATAAAAATAAA
1 TAAATTTTAATATAAAAATAAA
*
776726 AAAATTT
1 TAAATTT
776733 AAACATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTTTAATATAAAAATAAA
Found at i:777618 original size:2 final size:2
Alignment explanation
Indices: 777613--777637 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
777603 AAAAAAAAAG
777613 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
777638 ACCCTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:779428 original size:3 final size:3
Alignment explanation
Indices: 779420--779472 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
779410 TGAAAAAAGA
779420 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
779468 AAT AA
1 AAT AA
779473 ACCTCAGAAG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:780351 original size:2 final size:2
Alignment explanation
Indices: 780346--780372 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
780336 TGTGTGTGTG
780346 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
780373 GTATTTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:782057 original size:15 final size:15
Alignment explanation
Indices: 782024--782056 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
782014 AAGTAGCCTC
782024 TTTTTCTTTCTTTAT
1 TTTTTCTTTCTTTAT
782039 TTTTTCTTT-TTT-T
1 TTTTTCTTTCTTTAT
782052 TTTTT
1 TTTTT
782057 TGGTGGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 3 0.17
15 9 0.50
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTCTTTAT
Found at i:782305 original size:19 final size:19
Alignment explanation
Indices: 782283--782322 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
782273 ATATATTCTT
782283 TATAAAT-TTAATTATAAAA
1 TATAAATATTAA-TATAAAA
782302 TATAAATATTAATATAAAA
1 TATAAATATTAATATAAAA
782321 TA
1 TA
782323 ATTTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATAAATATTAATATAAAA
Found at i:782337 original size:23 final size:23
Alignment explanation
Indices: 782306--782349 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
782296 ATAAAATATA
*
782306 AATATTAATATAA-AATAATTTTT
1 AATAATAATA-AATAATAATTTTT
782329 AATAATAATAAATAATAATTT
1 AATAATAATAAATAATAATTT
782350 AAATTTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAATAATAAATAATAATTTTT
Found at i:782354 original size:6 final size:6
Alignment explanation
Indices: 782345--782394 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
782335 AATAAATAAT
* *
782345 AATTTA AATTTA CTAA-TTA AA-TTA AATTTA AATTTA AATTAA AAATTA
1 AATTTA AATTTA --AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
782393 AA
1 AA
782395 AATTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 7 0.18
6 26 0.68
7 3 0.08
8 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:782383 original size:17 final size:17
Alignment explanation
Indices: 782348--782387 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
782338 AAATAATAAT
782348 TTAAATTTACTAATTAAA
1 TTAAATTTAC-AATTAAA
782366 TTAAATTTA-AATTTAAA
1 TTAAATTTACAA-TTAAA
782383 TTAAA
1 TTAAA
782388 AATTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.10
17 10 0.48
18 9 0.43
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATTTACAATTAAA
Found at i:792981 original size:16 final size:16
Alignment explanation
Indices: 792929--792981 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
792919 CAATTAAAAA
*
792929 TATAAAAAT-ATGATGT
1 TATAAAAATAAT-ATAT
* *
792945 TGTAAAAATAATATAA
1 TATAAAAATAATATAT
*
792961 AATAAAAATAATATAT
1 TATAAAAATAATATAT
792977 TATAA
1 TATAA
792982 TATTATTAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 27 0.93
17 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
TATAAAAATAATATAT
Found at i:793535 original size:10 final size:10
Alignment explanation
Indices: 793522--793561 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
793512 AAGCATTAAT
793522 TTTTTATATA
1 TTTTTATATA
793532 TTTTTA-AT-
1 TTTTTATATA
793540 TTTTTATATA
1 TTTTTATATA
793550 TTATTTAT-TA
1 TT-TTTATATA
793560 TT
1 TT
793562 ATCTATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 6 0.22
9 4 0.15
10 12 0.44
11 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTATATA
Found at i:793538 original size:18 final size:19
Alignment explanation
Indices: 793517--793556 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
793507 TTATCAAGCA
793517 TTAATTTTTTATATATT-T
1 TTAATTTTTTATATATTAT
793535 TTAATTTTTTATATATTAT
1 TTAATTTTTTATATATTAT
793554 TTA
1 TTA
793557 TTATTATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTAATTTTTTATATATTAT
Found at i:800222 original size:30 final size:30
Alignment explanation
Indices: 800186--800244 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
800176 AAAAATAATC
**
800186 AAAATTTTGTTATTAATTATATTTT-TATTA
1 AAAATTTACTTATTAATTAT-TTTTATATTA
*
800216 AAAATTTACTTTTTAATTATTTTTATATT
1 AAAATTTACTTATTAATTATTTTTATATT
800245 TTAACACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
AAAATTTACTTATTAATTATTTTTATATTA
Found at i:803832 original size:2 final size:2
Alignment explanation
Indices: 803825--803874 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
803815 AACTGCATTC
* *
803825 AT AT AT AT AT AT AT AT AT GT AT GT 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
803867 AT AT AT AT
1 AT AT AT AT
803875 CATAGCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:813896 original size:18 final size:19
Alignment explanation
Indices: 813875--813910 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
813865 GTATTTATTT
813875 ATTTACTTAA-ATTTAAAC
1 ATTTACTTAATATTTAAAC
*
813893 ATTTATTTAATATTTAAA
1 ATTTACTTAATATTTAAA
813911 ATATTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTACTTAATATTTAAAC
Found at i:813940 original size:22 final size:22
Alignment explanation
Indices: 813921--813968 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
813911 ATATTTTAGT
813921 AAAA-AAATTAAATTTATTTAA
1 AAAATAAATTAAATTTATTTAA
*
813942 AAAATAAATTAGATTTTAATTTAA
1 AAAATAAATTA-AATTT-ATTTAA
813966 AAA
1 AAA
813969 GGTTTGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 6 0.26
23 4 0.17
24 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAAATTTATTTAA
Found at i:814035 original size:17 final size:17
Alignment explanation
Indices: 813994--814054 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
813984 TTATCTGTTT
*
813994 TTAATTATATAATATATA
1 TTAATTATAT-ATTTATA
814012 TTAATTATATATTTATA
1 TTAATTATATATTTATA
814029 -TACATTATATATTT-T-
1 TTA-ATTATATATTTATA
*
814044 TTTATTATATA
1 TTAATTATATA
814055 AAAAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.21
16 4 0.10
17 17 0.44
18 10 0.26
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAATTATATATTTATA
Found at i:814075 original size:21 final size:21
Alignment explanation
Indices: 814046--814097 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
814036 TATATTTTTT
814046 TATTATATAAAAAATAAA-ATA
1 TATT-TATAAAAAATAAATATA
*
814067 TATTGTAT-AAAGATAAATATA
1 TATT-TATAAAAAATAAATATA
814088 TATTTATAAA
1 TATTTATAAA
814098 TATTATCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
TATTTATAAAAAATAAATATA
Found at i:814095 original size:20 final size:20
Alignment explanation
Indices: 814059--814097 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
814049 TATATAAAAA
814059 ATAAAATATATTGTATAAAG
1 ATAAAATATATTGTATAAAG
814079 ATAAATATATATT-TATAAA
1 ATAAA-ATATATTGTATAAA
814098 TATTATCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
ATAAAATATATTGTATAAAG
Found at i:814096 original size:14 final size:14
Alignment explanation
Indices: 814079--814116 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
814069 TTGTATAAAG
*
814079 ATAAATATATAT-TT
1 ATAAATAT-TATCGT
814093 ATAAATATTATCGT
1 ATAAATATTATCGT
814107 ATAAATATTA
1 ATAAATATTA
814117 AAAAATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
ATAAATATTATCGT
Found at i:814209 original size:34 final size:32
Alignment explanation
Indices: 814145--814209 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 32
814135 TTTTATTTTA
* *
814145 TAAATTAAAAAAATTATTAAATTATTAATAAT
1 TAAATTAAAAAAATAATTAAATTATAAATAAT
814177 TAAATTTAAAAAATATAATATAAA-TATAAATAA
1 TAAA-TTAAAAAA-ATAAT-TAAATTATAAATAA
814210 ATTTAAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.14
33 8 0.29
34 12 0.43
35 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
TAAATTAAAAAAATAATTAAATTATAAATAAT
Found at i:814211 original size:10 final size:10
Alignment explanation
Indices: 814172--814291 Score: 59
Period size: 10 Copynumber: 11.8 Consensus size: 10
814162 TAAATTATTA
*
814172 ATAATTAAAT
1 ATAAATAAAT
*
814182 TTAAA-AAAT
1 ATAAATAAAT
814191 ATAATATAAAT
1 ATAA-ATAAAT
814202 ATAAATAAAT
1 ATAAATAAAT
*
814212 TTAAACTATTAAT
1 ATAAA-TA--AAT
*
814225 -T-TATAAAT
1 ATAAATAAAT
814233 ATAAATAAAAT
1 ATAAAT-AAAT
* * **
814244 TTATATTTAT
1 ATAAATAAAT
**
814254 ATATTTTAAAT
1 ATA-AATAAAT
*
814265 -TAACTAAAT
1 ATAAATAAAT
814274 ATAAATAAAT
1 ATAAATAAAT
814284 ATAAATAA
1 ATAAATAA
814292 TATTTATATT
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
8 3 0.04
9 13 0.16
10 40 0.48
11 23 0.28
12 1 0.01
13 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:814213 original size:30 final size:30
Alignment explanation
Indices: 814172--814246 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 30
814162 TAAATTATTA
*
814172 ATAATTAAATTTAAAAAATATAA-TATAAAT
1 ATAAATAAATTTAAAAAAT-TAATTATAAAT
**
814202 ATAAATAAATTTAAACTATTAATTTATAAAT
1 ATAAATAAATTTAAAAAATTAA-TTATAAAT
814233 ATAAATAAAATTTA
1 ATAAAT-AAATTTA
814247 TATTTATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 16 0.41
31 13 0.33
32 7 0.18
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
ATAAATAAATTTAAAAAATTAATTATAAAT
Found at i:814228 original size:83 final size:83
Alignment explanation
Indices: 814141--814297 Score: 191
Period size: 83 Copynumber: 1.9 Consensus size: 83
814131 TTATTTTTAT
814141 TTTATAAAT-TAAA-AAAATTATTAAA-TTAT-TAATAATTAAATTTAA-AAAATATAATATAAA
1 TTTATAAATATAAATAAAA-T-TTAAATTTATAT-AT-ATTAAA-TTAACAAAATATAA-ATAAA
814201 TATAAATAA-ATTTAAACTATTAA
60 TATAAATAATATTTAAACTATTAA
* * *
814224 TTTATAAATATAAATAAAATTTATATTTATATATTTTAAATTAACTAAATATAAATAAATATAAA
1 TTTATAAATATAAATAAAATTTAAATTTATATATATTAAATTAACAAAATATAAATAAATATAAA
814289 TAATATTTA
66 TAATATTTA
814298 TATTATATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
82 18 0.28
83 31 0.48
84 11 0.17
85 5 0.08
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (83 bp):
TTTATAAATATAAATAAAATTTAAATTTATATATATTAAATTAACAAAATATAAATAAATATAAA
TAATATTTAAACTATTAA
Found at i:814338 original size:15 final size:16
Alignment explanation
Indices: 814306--814341 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
814296 TATATTATAT
*
814306 TTTAATCTGATCTAAA
1 TTTAATCTAATCTAAA
814322 TTTAATCTAAT-TAAA
1 TTTAATCTAATCTAAA
814337 TTTAA
1 TTTAA
814342 AAATACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTAATCTAATCTAAA
Found at i:814820 original size:47 final size:46
Alignment explanation
Indices: 814771--814862 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
814761 TTATTAAATA
* * *
814771 AAAATATAAGTATATTAA-AATTTAAATTTA-TTAAATATTATATTTT
1 AAAA-ATAAGTATATAAATAAATTAAATTAATTTAAATATTA-ATTTT
*
814817 AAAAATAATTATATAAATAAATTAAATTAATTTAAATATTAATTTT
1 AAAAATAAGTATATAAATAAATTAAATTAATTTAAATATTAATTTT
814863 GAGATTACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
45 11 0.28
46 19 0.47
47 10 0.25
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (46 bp):
AAAAATAAGTATATAAATAAATTAAATTAATTTAAATATTAATTTT
Found at i:816327 original size:31 final size:31
Alignment explanation
Indices: 816289--816351 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
816279 ACTCAAAAGT
*
816289 ATCTGTGATATCCAAGCTCTAACTCCAGTCA
1 ATCTGTGATATCCAAGCTCTAACTCAAGTCA
816320 ATCTGTGATATCCAAGCTCTAACTCAAGTCA
1 ATCTGTGATATCCAAGCTCTAACTCAAGTCA
816351 A
1 A
816352 ATTCAGGATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.29
Consensus pattern (31 bp):
ATCTGTGATATCCAAGCTCTAACTCAAGTCA
Found at i:821780 original size:19 final size:20
Alignment explanation
Indices: 821745--821793 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
821735 TATATAAATT
821745 TATAAATACATTAAAATTTA
1 TATAAATACATTAAAATTTA
*
821765 TATAAATATA-TAAAATTTA
1 TATAAATACATTAAAATTTA
* *
821784 AATATATACA
1 TATAAATACA
821794 AAATAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
TATAAATACATTAAAATTTA
Found at i:828282 original size:26 final size:26
Alignment explanation
Indices: 828253--828304 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
828243 TTAACGTATA
828253 TTCATATTCAATACATATTCAAACTT
1 TTCATATTCAATACATATTCAAACTT
828279 TTCATATTCAATACATATTCAAACTT
1 TTCATATTCAATACATATTCAAACTT
828305 ACGACATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
TTCATATTCAATACATATTCAAACTT
Found at i:830652 original size:8 final size:8
Alignment explanation
Indices: 830639--830670 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
830629 TTTTAATATA
830639 ATATAAAT
1 ATATAAAT
830647 ATATAAAT
1 ATATAAAT
830655 ATATAAAT
1 ATATAAAT
830663 ATTATAAA
1 A-TATAAA
830671 ATTTATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:830674 original size:43 final size:43
Alignment explanation
Indices: 830620--830729 Score: 104
Period size: 41 Copynumber: 2.6 Consensus size: 43
830610 ATATTTTTCG
*
830620 ATTATATAATTTTAATATAATATAAATA-TATAAATATATA-AA
1 ATTATAAAATTTTAATATAATATAAATATTA-AAATATATATAA
* * *
830662 TATTATAAAA-TTT-ATATAACATTAATATTAAAATTTATATAA
1 -ATTATAAAATTTTAATATAATATAAATATTAAAATATATATAA
*
830704 A-TATAATATTTTAAATATAATTATAA
1 ATTATAAAATTTT-AATATAA-TATAA
830730 TAATTCATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
40 6 0.11
41 24 0.44
42 7 0.13
43 14 0.26
44 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.45
Consensus pattern (43 bp):
ATTATAAAATTTTAATATAATATAAATATTAAAATATATATAA
Found at i:830680 original size:41 final size:44
Alignment explanation
Indices: 830620--830712 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
830610 ATATTTTTCG
* *
830620 ATTATATAATTTTAATATAATATAAATA-TATAAA-TATATAAAT
1 ATTATATAAATTTAATATAACATAAATATTA-AAATTATATAAAT
*
830663 ATTATA-AAATTT-ATATAACATTAATATTAAAATTTATATAAAT
1 ATTATATAAATTTAATATAACATAAATATTAAAA-TTATATAAAT
*
830706 ATAATAT
1 ATTATAT
830713 TTTAAATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
41 15 0.36
42 7 0.17
43 20 0.48
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (44 bp):
ATTATATAAATTTAATATAACATAAATATTAAAATTATATAAAT
Found at i:830688 original size:25 final size:24
Alignment explanation
Indices: 830646--830719 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 24
830636 ATAATATAAA
830646 TATATAAATATATAAATATTATAAAATT
1 TATAT-AA-ATAT-AATATT-TAAAATT
830674 TATATAACAT-TAATA-TTAAAATT
1 TATATAA-ATATAATATTTAAAATT
*
830697 TATATAAATATAATATTTTAAAT
1 TATATAAATATAATATTTAAAAT
830720 ATAATTATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.05
23 19 0.45
24 7 0.17
25 4 0.10
26 1 0.02
27 4 0.10
28 5 0.12
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
TATATAAATATAATATTTAAAATT
Found at i:830697 original size:23 final size:23
Alignment explanation
Indices: 830654--830713 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
830644 AATATATAAA
830654 TATATAAATAT--TA-TAAAATT
1 TATATAAATATAATATTAAAATT
830674 TATATAACAT-TAATATTAAAATT
1 TATATAA-ATATAATATTAAAATT
830697 TATATAAATATAATATT
1 TATATAAATATAATATT
830714 TTAAATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.23
21 2 0.06
22 4 0.11
23 21 0.60
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TATATAAATATAATATTAAAATT
Found at i:832536 original size:16 final size:16
Alignment explanation
Indices: 832509--832547 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
832499 TATACGAATT
832509 TAAATAAATATTAAATA
1 TAAAT-AATATTAAATA
*
832526 TAAATAATATTTAATA
1 TAAATAATATTAAATA
*
832542 TGAATA
1 TAAATA
832548 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAATAATATTAAATA
Found at i:832578 original size:18 final size:16
Alignment explanation
Indices: 832547--832581 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
832537 TAATATGAAT
832547 ATTTTTTATTTTTAAA
1 ATTTTTTATTTTTAAA
832563 ATTTTTTATATATTTAAA
1 ATTTTTTAT-T-TTTAAA
832581 A
1 A
832582 GATAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTTTATTTTTAAA
Found at i:832756 original size:41 final size:41
Alignment explanation
Indices: 832711--832796 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
832701 ATTCTTATCA
**
832711 AGCCATTCGGGCTATTGGGTTCTCGTCCTTTCTTTGGTTCC
1 AGCCATTCGGGCTATTGGGTTCTCGTCCTTTCTCAGGTTCC
*
832752 AGCCATTCGGGCTATTGGGTTGTCGTCCTTTCTCAGGTTCC
1 AGCCATTCGGGCTATTGGGTTCTCGTCCTTTCTCAGGTTCC
832793 AGCC
1 AGCC
832797 CCTCAAGCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.09, C:0.28, G:0.26, T:0.37
Consensus pattern (41 bp):
AGCCATTCGGGCTATTGGGTTCTCGTCCTTTCTCAGGTTCC
Found at i:832807 original size:41 final size:41
Alignment explanation
Indices: 832721--832807 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
832711 AGCCATTCGG
** * **
832721 GCTATTGGGTTCTCGTCCTTTCTTTGGTTCCAGCCATTCGG
1 GCTATTGGGTTCTCGTCCTTTCTCAGGTTCCAGCCACTCAA
* *
832762 GCTATTGGGTTGTCGTCCTTTCTCAGGTTCCAGCCCCTCAA
1 GCTATTGGGTTCTCGTCCTTTCTCAGGTTCCAGCCACTCAA
832803 GCTAT
1 GCTAT
832808 AGGCTTCTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.10, C:0.29, G:0.23, T:0.38
Consensus pattern (41 bp):
GCTATTGGGTTCTCGTCCTTTCTCAGGTTCCAGCCACTCAA
Found at i:833301 original size:2 final size:2
Alignment explanation
Indices: 833289--833320 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
833279 AGAAACAAAC
*
833289 AT AT GT 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
833321 GTCAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:836504 original size:12 final size:11
Alignment explanation
Indices: 836478--836502 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
836468 AATAAAATAT
836478 AAATATTTTAA
1 AAATATTTTAA
836489 AAATATTTTAA
1 AAATATTTTAA
836500 AAA
1 AAA
836503 ATGAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATATTTTAA
Found at i:855528 original size:18 final size:18
Alignment explanation
Indices: 855491--855545 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
855481 ATTATAATTA
855491 AAAT-ATTTT-ATAT-TT
1 AAATAATTTTAATATATT
855506 AAATAAATTTTAATATATT
1 AAAT-AATTTTAATATATT
855525 -AATAATTTATAATATA-T
1 AAATAATTT-TAATATATT
855542 AAAT
1 AAAT
855546 TTTAAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.12
17 11 0.32
18 17 0.50
19 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATAATTTTAATATATT
Found at i:855560 original size:18 final size:18
Alignment explanation
Indices: 855508--855574 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
855498 TTATATTTAA
* *
855508 ATAAATTTTAATATATTA
1 ATAAATTTTAAAATATTT
*
855526 AT-AA-TTTATAATA--T
1 ATAAATTTTAAAATATTT
855540 ATAAATTTTAAAATATTT
1 ATAAATTTTAAAATATTT
* * *
855558 ATATATTATATAATATT
1 ATAAATTTTAAAATATT
855575 ATATTTTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 2 0.05
15 2 0.05
16 15 0.39
17 2 0.05
18 17 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAATTTTAAAATATTT
Found at i:855570 original size:34 final size:34
Alignment explanation
Indices: 855508--855601 Score: 108
Period size: 32 Copynumber: 2.9 Consensus size: 34
855498 TTATATTTAA
* *
855508 ATAAATTTTAATATATTAATA-ATT-TATAATAT
1 ATAAATTTTAAAATATTTATATATTATATAATAT
855540 ATAAATTTTAAAATATTTATATATTATATAATAT
1 ATAAATTTTAAAATATTTATATATTATATAATAT
* *
855574 -TATATTTT-AATTATTT-TCATATTATATA
1 ATAAATTTTAAAATATTTAT-ATATTATATA
855602 TACTGATATC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
31 1 0.02
32 36 0.65
33 10 0.18
34 8 0.15
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (34 bp):
ATAAATTTTAAAATATTTATATATTATATAATAT
Found at i:859739 original size:2 final size:2
Alignment explanation
Indices: 859734--859759 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
859724 GAGAGAATGT
859734 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
859760 AACAAGGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:861027 original size:22 final size:23
Alignment explanation
Indices: 860984--861034 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
860974 ATTTTTTTAT
*
860984 ATATTATATTTGTATATTAATTA
1 ATATTATATTTGTATATAAATTA
861007 ATATTA-ATTTG-ATAGTAAATTA
1 ATATTATATTTGTATA-TAAATTA
*
861029 CTATTA
1 ATATTA
861035 CTTATAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 16 0.64
23 6 0.24
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (23 bp):
ATATTATATTTGTATATAAATTA
Found at i:865325 original size:15 final size:15
Alignment explanation
Indices: 865305--865335 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
865295 AGGCCCATTG
865305 GATGATGAAGATGTT
1 GATGATGAAGATGTT
*
865320 GATGATGAAGGTGTT
1 GATGATGAAGATGTT
865335 G
1 G
865336 CAGAAGATGC
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:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (15 bp):
GATGATGAAGATGTT
Found at i:876213 original size:28 final size:27
Alignment explanation
Indices: 876161--876213 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
876151 ACATTTGATA
**
876161 AATAATTAAAAAACATCTTATTTAACG
1 AATAATTAAAAAACAAATTATTTAACG
*
876188 AATAATTAAAAATACAAATTCTTTAA
1 AATAATTAAAAA-ACAAATTATTTAA
876214 TTAATGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (27 bp):
AATAATTAAAAAACAAATTATTTAACG
Found at i:876951 original size:5 final size:5
Alignment explanation
Indices: 876941--876967 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
876931 CCGCGTAAAT
876941 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
876968 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:877583 original size:27 final size:28
Alignment explanation
Indices: 877531--877583 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
877521 TTTTTATTTT
* * *
877531 TATTTTTTATTTATAATTCAAGCATCAC
1 TATTTTCTATTTATAATACAAACATCAC
877559 TATTTTCTATTTA-AATACAAACATC
1 TATTTTCTATTTATAATACAAACATC
877584 CAGACATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (28 bp):
TATTTTCTATTTATAATACAAACATCAC
Found at i:881974 original size:69 final size:69
Alignment explanation
Indices: 881863--882009 Score: 294
Period size: 69 Copynumber: 2.1 Consensus size: 69
881853 TTTATTACAA
881863 ACACCAAGCCTTTTGGTTTCTGGAAGGGGTTCCCCATGACTTTAATACTAGTAATACTATTACTT
1 ACACCAAGCCTTTTGGTTTCTGGAAGGGGTTCCCCATGACTTTAATACTAGTAATACTATTACTT
881928 AACT
66 AACT
881932 ACACCAAGCCTTTTGGTTTCTGGAAGGGGTTCCCCATGACTTTAATACTAGTAATACTATTACTT
1 ACACCAAGCCTTTTGGTTTCTGGAAGGGGTTCCCCATGACTTTAATACTAGTAATACTATTACTT
881997 AACT
66 AACT
882001 ACACCAAGC
1 ACACCAAGC
882010 TAATAAGTGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 78 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (69 bp):
ACACCAAGCCTTTTGGTTTCTGGAAGGGGTTCCCCATGACTTTAATACTAGTAATACTATTACTT
AACT
Found at i:884005 original size:26 final size:27
Alignment explanation
Indices: 883976--884041 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
883966 ATATAATAAA
*
883976 ATTTGAATAAAATTATT-AATTATTAT
1 ATTTGAATAAAATTATTAAAATATTAT
*
884002 ATTT-AAT-ATATTATTACAAATATTAT
1 ATTTGAATAAAATTATTA-AAATATTAT
*
884028 A-TTGAATAACATTA
1 ATTTGAATAAAATTA
884042 AAGAATGACT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 7 0.21
25 5 0.15
26 16 0.48
27 5 0.15
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (27 bp):
ATTTGAATAAAATTATTAAAATATTAT
Found at i:884356 original size:3 final size:3
Alignment explanation
Indices: 884350--884378 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
884340 TTTTTTTTAC
884350 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
884379 CCAAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:889989 original size:2 final size:2
Alignment explanation
Indices: 889982--890026 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
889972 CTTTTTAAGC
889982 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
890024 AT A
1 AT A
890027 AAATAGAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:890867 original size:11 final size:10
Alignment explanation
Indices: 890840--890880 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
890830 ACTGAGAAAG
*
890840 AAAGAAAGAA
1 AAAGAAAAAA
*
890850 GAAGAAAAAA
1 AAAGAAAAAA
*
890860 AAAGGAAAAA
1 AAAGAAAAAA
890870 AAAGAAAAAA
1 AAAGAAAAAA
890880 A
1 A
890881 TATATATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:890948 original size:15 final size:15
Alignment explanation
Indices: 890912--890954 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
890902 TTTTATTACA
890912 ATATT-ATATTTT-T
1 ATATTAATATTTTAT
*
890925 ATATAAATATTTTAT
1 ATATTAATATTTTAT
*
890940 ATATTAATAATTTAT
1 ATATTAATATTTTAT
890955 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 4 0.16
14 7 0.28
15 14 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTAATATTTTAT
Found at i:892154 original size:23 final size:24
Alignment explanation
Indices: 892122--892166 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
892112 TTATATCATA
* *
892122 TTTATATTATTTTTTATGTTGTGT
1 TTTATATTATTTTCTATATTGTGT
892146 TTTAT-TTATTTTCTATATTGT
1 TTTATATTATTTTCTATATTGT
892167 ATTCATATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (24 bp):
TTTATATTATTTTCTATATTGTGT
Found at i:892425 original size:29 final size:27
Alignment explanation
Indices: 892393--892451 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
892383 TTTTTAAGTA
*
892393 TTAATATT-ATTTTTATTTACATAAAATAT
1 TTAATATTAATTATTA-TTA-ATAAAA-AT
*
892422 TTAATTTTAATTATTATTAATAAAAAT
1 TTAATATTAATTATTATTAATAAAAAT
892449 TTA
1 TTA
892452 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 6 0.22
29 10 0.37
30 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAATATTAATTATTATTAATAAAAAT
Found at i:893082 original size:2 final size:2
Alignment explanation
Indices: 893069--893098 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
893059 TTCCGTTCAA
*
893069 AT AT AT AG 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
893099 TACGTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:893393 original size:21 final size:20
Alignment explanation
Indices: 893359--893399 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
893349 ATATACTTGC
*
893359 ATTAATAAGGTATAATATTTA
1 ATTAATAAAGTAT-ATATTTA
*
893380 ATTAATAAATTATATATTTA
1 ATTAATAAAGTATATATTTA
893400 TGAGTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTAATAAAGTATATATTTA
Found at i:895648 original size:2 final size:2
Alignment explanation
Indices: 895641--895671 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
895631 GTTCAACTAT
895641 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 T
895672 TATCAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:895791 original size:2 final size:2
Alignment explanation
Indices: 895784--895813 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
895774 TGATACTTGA
895784 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
895814 CAAACAAACA
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:904324 original size:32 final size:27
Alignment explanation
Indices: 904260--904315 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
904250 ATAGTACATG
* *
904260 GATAAATGTAAAGTGGGGTATAAAAAT
1 GATAAATGTAAAGTAGAGTATAAAAAT
904287 GATAAATGTAAAGTAGAGTATAAAAAT
1 GATAAATGTAAAGTAGAGTATAAAAAT
904314 GA
1 GA
904316 CAAGATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (27 bp):
GATAAATGTAAAGTAGAGTATAAAAAT
Found at i:907335 original size:14 final size:14
Alignment explanation
Indices: 907311--907350 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
907301 TAACTCTTAT
*
907311 AAAAAATGAAAAAA
1 AAAAAAGGAAAAAA
**
907325 GGAAAAGGAAAAAA
1 AAAAAAGGAAAAAA
907339 AAAAAAGGAAAA
1 AAAAAAGGAAAA
907351 TACTCCAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAAAAGGAAAAAA
Found at i:908960 original size:2 final size:2
Alignment explanation
Indices: 908953--908991 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
908943 AGAAAATTGG
908953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
908992 CAAATTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:911994 original size:2 final size:2
Alignment explanation
Indices: 911987--912017 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
911977 TGAATGTCGC
911987 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
912018 AGAATTACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:919950 original size:10 final size:11
Alignment explanation
Indices: 919932--919981 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
919922 ATATTATATA
919932 TTTATATATTT
1 TTTATATATTT
919943 TTTA-ATATTT
1 TTTATATATTT
*
919953 TATTATCGTA-TT
1 T-TTAT-ATATTT
919965 TTTAT-TATTT
1 TTTATATATTT
919975 TTTATAT
1 TTTATAT
919982 TATATAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
9 2 0.06
10 14 0.42
11 12 0.36
12 3 0.09
13 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTATATATTT
Found at i:919958 original size:22 final size:20
Alignment explanation
Indices: 919932--919981 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
919922 ATATTATATA
919932 TTTATATATTTTTTAATATTT
1 TTTATATA-TTTTTAATATTT
* *
919953 TATTATCGTATTTTTATTATTT
1 T-TTAT-ATATTTTTAATATTT
919975 TTTATAT
1 TTTATAT
919982 TATATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.04
21 5 0.21
22 16 0.67
23 2 0.08
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATATATTTTTAATATTT
Found at i:922427 original size:2 final size:2
Alignment explanation
Indices: 922422--922459 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
922412 GTAACTCCTT
* *
922422 TA TA TA CA TA TA AA 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 TA TA TA
922460 ATCAAAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:923402 original size:2 final size:2
Alignment explanation
Indices: 923395--923437 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
923385 TCTCCCTATT
923395 TA TA TA TA TA TA TA TA TA 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 TA TA TA TA TA
923437 T
1 T
923438 TTTGTTGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:926084 original size:13 final size:15
Alignment explanation
Indices: 926066--926098 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
926056 AGATCATAAT
926066 TTAAAAA-TAAAA-A
1 TTAAAAATTAAAATA
926079 TTAAAAATTAAAATA
1 TTAAAAATTAAAATA
926094 TTAAA
1 TTAAA
926099 TTATTCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAAAATTAAAATA
Found at i:926099 original size:7 final size:7
Alignment explanation
Indices: 926066--926098 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
926056 AGATCATAAT
926066 TTAAAAA
1 TTAAAAA
926073 -TAAAAA
1 TTAAAAA
926079 TTAAAAA
1 TTAAAAA
926086 TTAAAATA
1 TTAAAA-A
926094 TTAAA
1 TTAAA
926099 TTATTCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 12 0.50
8 6 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAAAA
Found at i:926575 original size:31 final size:30
Alignment explanation
Indices: 926501--926581 Score: 110
Period size: 31 Copynumber: 2.7 Consensus size: 30
926491 TAAACTTTTG
926501 ATTTATATTAAAATAAA-TTTTTAATCTTTA
1 ATTTATA-TAAAATAAACTTTTTAATCTTTA
* * *
926531 ATTTGTGTCAAATAAATCTTTTTAATCTTTA
1 ATTTATATAAAATAAA-CTTTTTAATCTTTA
926562 ATTTATATAAAATAAACTTT
1 ATTTATATAAAATAAACTTT
926582 GCACATAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 8 0.19
30 9 0.21
31 26 0.60
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTATATAAAATAAACTTTTTAATCTTTA
Found at i:927328 original size:25 final size:25
Alignment explanation
Indices: 927291--927341 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
927281 ACAATCAATT
927291 TTATATTTTTAATAAATTTATTTAAA
1 TTATATTTTTAATAAATTTA-TTAAA
927317 TTAT-TTTTTAATAAATTTATTAAA
1 TTATATTTTTAATAAATTTATTAAA
927341 T
1 T
927342 AAATTGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 6 0.24
25 15 0.60
26 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATATTTTTAATAAATTTATTAAA
Found at i:927344 original size:13 final size:13
Alignment explanation
Indices: 927301--927346 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
927291 TTATATTTTT
927301 AATAAATTTATTTA
1 AATAAATTTA-TTA
* *
927315 AAT-TATTT-TTT
1 AATAAATTTATTA
927326 AATAAATTTATTA
1 AATAAATTTATTA
927339 AATAAATT
1 AATAAATT
927347 GATATCACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
11 5 0.19
12 4 0.15
13 14 0.54
14 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATAAATTTATTA
Found at i:927767 original size:16 final size:14
Alignment explanation
Indices: 927709--927770 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
927699 TTTGTTTTGC
927709 TTAATCATTTAAAT
1 TTAATCATTTAAAT
**
927723 TT-ATCAAGTAAAT
1 TTAATCATTTAAAT
927736 TTAATCATTTAAAT
1 TTAATCATTTAAAT
927750 TTATATCATTTCAAAT
1 TTA-ATCATTT-AAAT
927766 TTAAT
1 TTAAT
927771 GTTTGAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 11 0.27
14 14 0.34
15 9 0.22
16 7 0.17
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (14 bp):
TTAATCATTTAAAT
Found at i:936120 original size:20 final size:21
Alignment explanation
Indices: 936097--936136 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
936087 AATAAAAAAT
936097 ATTAAT-ATAAAATAATTTAA
1 ATTAATAATAAAATAATTTAA
*
936117 ATTAATAATCAAATAATTTA
1 ATTAATAATAAAATAATTTA
936137 TTTATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTAATAATAAAATAATTTAA
Found at i:936738 original size:26 final size:29
Alignment explanation
Indices: 936708--936781 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
936698 TTTTAATTCG
936708 TATA-TATTATTATTTTTTAAAAT-TTTAA
1 TATATTATTATTA-TTTTTAAAATATTTAA
*
936736 TATATTATAATTATTTTTAAAATATTTAA
1 TATATTATTATTATTTTTAAAATATTTAA
*
936765 -AT-TTATT-TTAATTTTAA
1 TATATTATTATTATTTTTAA
936782 TGTATTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 9 0.22
27 4 0.10
28 16 0.39
29 12 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATATTATTATTATTTTTAAAATATTTAA
Found at i:936767 original size:20 final size:21
Alignment explanation
Indices: 936730--936773 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
936720 TTTTTTAAAA
*
936730 TTTTAATATATTATAA-TTAT
1 TTTTAAAATATTATAATTTAT
936750 TTTTAAAATATT-TAAATTTAT
1 TTTTAAAATATTAT-AATTTAT
936771 TTT
1 TTT
936774 AATTTTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.62
21 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAAATATTATAATTTAT
Found at i:936847 original size:20 final size:22
Alignment explanation
Indices: 936817--936865 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
936807 TTATTAATTT
*
936817 TAAATATAATT-ATAATATAAA
1 TAAATATAATTAATAATAAAAA
*
936838 TAAA-ATAATTAATATTAAAAA
1 TAAATATAATTAATAATAAAAA
936859 TAAATAT
1 TAAATAT
936866 TTTAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 16 0.67
22 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATAATTAATAATAAAAA
Found at i:936859 original size:21 final size:21
Alignment explanation
Indices: 936817--936875 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
936807 TTATTAATTT
* *
936817 TAAATATAATT-ATAATATAAA
1 TAAA-ATAATTAATATTAAAAA
936838 TAAAATAATTAATATTAAAAA
1 TAAAATAATTAATATTAAAAA
*
936859 T-AAATATTTTAATATTA
1 TAAAATA-ATTAATATTA
936876 TAATTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAATAATTAATATTAAAAA
Found at i:937010 original size:17 final size:17
Alignment explanation
Indices: 936962--937020 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
936952 ATCAAGTTTA
* *
936962 TTTTGTATTATATA-AA
1 TTTTTTATTATATATAT
* * *
936978 TTTTATAATATTTATAT
1 TTTTTTATTATATATAT
936995 TTTTTTATTATATATAT
1 TTTTTTATTATATATAT
937012 TTTTTTATT
1 TTTTTTATT
937021 GTATTTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
16 11 0.31
17 24 0.69
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTTATTATATATAT
Found at i:937059 original size:25 final size:25
Alignment explanation
Indices: 937002--937059 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
936992 TATTTTTTTA
937002 TTATA-TATATTTTTTTATTGTATT
1 TTATATTATATTTTTTTATTGTATT
*
937026 TTATTTTATA-TTTTTTA-TGTAATGT
1 TTATATTATATTTTTTTATTGT-AT-T
937051 TTATATTAT
1 TTATATTAT
937060 GTTTAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 3 0.10
24 13 0.45
25 13 0.45
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (25 bp):
TTATATTATATTTTTTTATTGTATT
Found at i:937326 original size:28 final size:28
Alignment explanation
Indices: 937281--937370 Score: 83
Period size: 33 Copynumber: 3.1 Consensus size: 28
937271 AATAATTAAG
** *
937281 TTAAATTTTTTATTTAATTTATATTATA
1 TTAAATTTAATATATAATTTATATTATA
937309 TTAAATTTAATATGTAATAAAATTTATATTATA
1 TTAAATTTAATA--T-AT--AATTTATATTATA
* *
937342 TTAAATCTAATATAT-ATTTATATAATA
1 TTAAATTTAATATATAATTTATATTATA
937369 TT
1 TT
937371 TTATTATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
27 13 0.25
28 10 0.19
30 3 0.06
31 2 0.04
33 24 0.46
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAAATTTAATATATAATTTATATTATA
Found at i:937375 original size:16 final size:15
Alignment explanation
Indices: 937358--937420 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
937348 CTAATATATA
937358 TTTATATAATATTTT
1 TTTATATAATATTTT
* * *
937373 ATTATTTTAAT-TATT
1 TTTA-TATAATATTTT
*
937388 TTTATAAAATATTTT
1 TTTATATAATATTTT
937403 TATTATATAATTATTTT
1 T-TTATATAA-TATTTT
937420 T
1 T
937421 AATTTTATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
14 4 0.11
15 13 0.36
16 12 0.33
17 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTATATAATATTTT
Found at i:937399 original size:30 final size:30
Alignment explanation
Indices: 937349--937421 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
937339 ATATTAAATC
* * *
937349 TAATATATATTTATATAATA-TTTTATTATTT
1 TAAT-TATTTTTATAAAATATTTTTATTA-TA
937380 TAATTATTTTTATAAAATATTTTTATTATA
1 TAATTATTTTTATAAAATATTTTTATTATA
937410 TAATTATTTTTA
1 TAATTATTTTTA
937422 ATTTTATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 26 0.68
31 12 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
TAATTATTTTTATAAAATATTTTTATTATA
Found at i:937411 original size:18 final size:19
Alignment explanation
Indices: 937390--937431 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
937380 TAATTATTTT
937390 TATAAAATATTTTT-ATTA
1 TATAAAATATTTTTAATTA
* *
937408 TAT-AATTATTTTTAATTT
1 TATAAAATATTTTTAATTA
937426 TATAAA
1 TATAAA
937432 TAAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 9 0.45
19 2 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAAAATATTTTTAATTA
Found at i:941527 original size:18 final size:17
Alignment explanation
Indices: 941478--941527 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
941468 AAAATAATGT
*
941478 TTTATATAA-TATTATA
1 TTTATATAATTATTTTA
* *
941494 TTTTTATACTTA-TTTA
1 TTTATATAATTATTTTA
941510 TATTATATAATTATTTTA
1 T-TTATATAATTATTTTA
941528 CCATACTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 11 0.42
17 11 0.42
18 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATAATTATTTTA
Found at i:942004 original size:7 final size:7
Alignment explanation
Indices: 941994--942018 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
941984 CCCCCCCCAA
941994 AAAAAAG
1 AAAAAAG
942001 AAAAAAG
1 AAAAAAG
942008 AAAAAAG
1 AAAAAAG
942015 AAAA
1 AAAA
942019 GATCAATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:942703 original size:18 final size:20
Alignment explanation
Indices: 942680--942719 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
942670 TTAAATTATT
942680 AATTAA-ATATTAA-TATAA
1 AATTAATATATTAATTATAA
*
942698 AATTAATATTTTAATTATAA
1 AATTAATATATTAATTATAA
942718 AA
1 AA
942720 ATATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATATATTAATTATAA
Found at i:942725 original size:19 final size:19
Alignment explanation
Indices: 942689--942763 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 19
942679 TAATTAAATA
*
942689 TTAATATAAAATTAATATT
1 TTAATATAAAAATAATATT
*
942708 TTAATTATAAAAAT-ATATAA
1 TTAA-TATAAAAATAATAT-T
*
942728 ATAATATTTTAAAAATAATATT
1 TTAATA---TAAAAATAATATT
942750 TAATAATATAAAAA
1 T--TAATATAAAAA
942764 ATAAAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
19 10 0.23
20 11 0.26
21 6 0.14
22 7 0.16
23 4 0.09
24 5 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAATATAAAAATAATATT
Found at i:942729 original size:42 final size:41
Alignment explanation
Indices: 942683--942772 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
942673 AATTATTAAT
* *
942683 TAAATATTAATATAAAATTAATATTTTAAT-TATAAAAATATA
1 TAAATAATAATATAAAAATAATA-TTTAATATATAAAAA-ATA
* *
942725 TAAATAATATTTTAAAAATAATATTTAATAATATAAAAAATA
1 TAAATAATAATATAAAAATAATATTTAAT-ATATAAAAAATA
942767 -AAATAA
1 TAAATAA
942773 AATTTTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
41 12 0.29
42 22 0.52
43 8 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (41 bp):
TAAATAATAATATAAAAATAATATTTAATATATAAAAAATA
Found at i:942742 original size:22 final size:22
Alignment explanation
Indices: 942715--942780 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 22
942705 ATTTTAATTA
942715 TAAAAATATATAAATAATATTT
1 TAAAAATATATAAATAATATTT
** * *
942737 TAAAAATA-ATATTTAATAATA
1 TAAAAATATATAAATAATATTT
*
942758 TAAAAA-ATA-AAATAAAATTT
1 TAAAAATATATAAATAATATTT
942778 TAA
1 TAA
942781 TTAATTTAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 10 0.29
21 16 0.47
22 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAATATATAAATAATATTT
Found at i:942745 original size:28 final size:28
Alignment explanation
Indices: 942691--942745 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
942681 ATTAAATATT
**
942691 AATATAAAATTAATATTTTAATTATAAA
1 AATATAAAATTAATATTTTAAAAATAAA
942719 AATATATAAA-TAATATTTTAAAAATAA
1 AATATA-AAATTAATATTTTAAAAATAA
942746 TATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AATATAAAATTAATATTTTAAAAATAAA
Found at i:942771 original size:41 final size:42
Alignment explanation
Indices: 942695--942780 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 42
942685 AATATTAATA
* *
942695 TAAAATTAATATTTTAATTATAAAAATATATAAATAATATTT
1 TAAAAATAATATTTTAATTATAAAAATATATAAATAAAATTT
942737 TAAAAATAATA-TTTAATAATATAAAAA-ATA-AAATAAAATTT
1 TAAAAATAATATTTTAAT--TATAAAAATATATAAATAAAATTT
942778 TAA
1 TAA
942781 TTAATTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
41 19 0.47
42 13 0.32
43 8 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (42 bp):
TAAAAATAATATTTTAATTATAAAAATATATAAATAAAATTT
Found at i:942793 original size:16 final size:16
Alignment explanation
Indices: 942772--942802 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
942762 AAATAAAATA
*
942772 AAATTTTAATTAATTT
1 AAATTTAAATTAATTT
942788 AAATTTAAATTAATT
1 AAATTTAAATTAATT
942803 CGAATATAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATTTAAATTAATTT
Found at i:945116 original size:2 final size:2
Alignment explanation
Indices: 945109--945141 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
945099 AATTTTTCTT
945109 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 T
945142 TAAAAGGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:947575 original size:2 final size:2
Alignment explanation
Indices: 947568--947594 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
947558 AATAGGACTT
947568 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
947595 TCTGTTAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:947738 original size:9 final size:9
Alignment explanation
Indices: 947710--947812 Score: 52
Period size: 9 Copynumber: 10.9 Consensus size: 9
947700 TTCATATTAC
947710 ATTTAAGTAT
1 ATTTAA-TAT
*
947720 AATATAATAT
1 -ATTTAATAT
947730 ATTTAATAT
1 ATTTAATAT
*
947739 ATTTATCGTAT
1 ATTTA--ATAT
947750 ATATT--TAT
1 AT-TTAATAT
*
947758 ATTTAA-AA
1 ATTTAATAT
947766 ATTTAATAT
1 ATTTAATAT
947775 ATTTAATTTAT
1 ATTTAA--TAT
*
947786 ATTGTATTCAT
1 ATT-TAAT-AT
947797 ATTT-ATAT
1 ATTTAATAT
*
947805 AATTAATA
1 ATTTAATA
947813 AAAAATATAA
Statistics
Matches: 73, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
7 2 0.03
8 17 0.23
9 24 0.33
10 5 0.07
11 21 0.29
12 4 0.05
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (9 bp):
ATTTAATAT
Found at i:947799 original size:45 final size:49
Alignment explanation
Indices: 947696--947804 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 49
947686 GCATGAAAAC
* *
947696 TGTATTCATA-TTACATTTAAGTATAATATAATATATTTAATATATTTAT
1 TGTATTCATATTTATATTTAAG-ATAATATAATATATTTAATATATATAT
* *
947745 CGTA-T-ATATTTATATTTAA-A-AATTTAATATATTTAAT-T-TATAT
1 TGTATTCATATTTATATTTAAGATAATATAATATATTTAATATATATAT
947788 TGTATTCATATTTATAT
1 TGTATTCATATTTATAT
947805 AATTAATAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
43 7 0.13
44 2 0.04
45 26 0.50
46 1 0.02
47 3 0.06
48 10 0.19
49 3 0.06
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (49 bp):
TGTATTCATATTTATATTTAAGATAATATAATATATTTAATATATATAT
Found at i:949703 original size:2 final size:2
Alignment explanation
Indices: 949696--949737 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
949686 TCTAAAACCC
949696 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
949738 GAATGAGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:950369 original size:31 final size:33
Alignment explanation
Indices: 950304--950369 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 33
950294 TTTAATATAA
*
950304 ATATAAAATAAACATATTAATATTTTAAAATTT
1 ATATAAAATAAACATATTAATATATTAAAATTT
* * *
950337 ATATAATATAAA-TTATTAAT-TATTAAATTTT
1 ATATAAAATAAACATATTAATATATTAAAATTT
950368 AT
1 AT
950370 GTCAATAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 11 0.38
32 7 0.24
33 11 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (33 bp):
ATATAAAATAAACATATTAATATATTAAAATTT
Found at i:950455 original size:22 final size:26
Alignment explanation
Indices: 950406--950454 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
950396 TTAATTTCAA
950406 TAATTAAAAATAAATTTTAACAATTT
1 TAATTAAAAATAAATTTTAACAATTT
*
950432 TAATTATAAA-AAA-TTTAA-AATTT
1 TAATTAAAAATAAATTTTAACAATTT
950455 ATGTAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 5 0.23
25 3 0.14
26 9 0.41
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATTAAAAATAAATTTTAACAATTT
Found at i:950477 original size:10 final size:10
Alignment explanation
Indices: 950464--950514 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
950454 TATGTAAATA
950464 TAAAATATAT
1 TAAAATATAT
950474 T-AAATATAAT
1 TAAAATAT-AT
* *
950484 TATAATATAA
1 TAAAATATAT
950494 TAAAATATA-
1 TAAAATATAT
950503 TAAATATATAT
1 TAAA-ATATAT
950514 T
1 T
950515 TAATATGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 10 0.29
10 18 0.53
11 6 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAATATAT
Found at i:950479 original size:16 final size:16
Alignment explanation
Indices: 950442--950510 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 16
950432 TAATTATAAA
* *
950442 AAATTTAAAATTTATGT
1 AAATATAAAATATAT-T
950459 AAATATAAAATATATT
1 AAATATAAAATATATT
* *
950475 AAATAT-AATTATAAT
1 AAATATAAAATATATT
*
950490 ATA-ATAAAATATA-T
1 AAATATAAAATATATT
950504 AAATATA
1 AAATATA
950511 TATTTAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
14 5 0.12
15 18 0.42
16 7 0.16
17 13 0.30
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (16 bp):
AAATATAAAATATATT
Found at i:950492 original size:11 final size:10
Alignment explanation
Indices: 950466--950520 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
950456 TGTAAATATA
950466 AAATAT-ATT
1 AAATATAATT
950475 AAATATAATT
1 AAATATAATT
*
950485 ATAATATAATA
1 A-AATATAATT
950496 AAATAT-A-T
1 AAATATAATT
950504 AAATATATATT
1 AAATATA-ATT
*
950515 TAATAT
1 AAATAT
950521 GATAGACAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 6 0.16
9 7 0.18
10 10 0.26
11 15 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAATATAATT
Found at i:950518 original size:29 final size:30
Alignment explanation
Indices: 950463--950520 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
950453 TTATGTAAAT
950463 ATAAAATATATTAAATATAATTATAATATA
1 ATAAAATATATTAAATATAATTATAATATA
950493 ATAAAATATA-TAAATATATATT-TAATAT
1 ATAAAATATATTAAATATA-ATTATAATAT
950521 GATAGACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATATATTAAATATAATTATAATATA
Found at i:951119 original size:15 final size:15
Alignment explanation
Indices: 951099--951144 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
951089 TATTATTTTT
*
951099 AAAATTTTTTTTAAA
1 AAAATTATTTTTAAA
**
951114 AAAATTATTTAAAAA
1 AAAATTATTTTTAAA
951129 AAAATTATTTTTAAA
1 AAAATTATTTTTAAA
951144 A
1 A
951145 TTTTTTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTATTTTTAAA
Found at i:951154 original size:21 final size:21
Alignment explanation
Indices: 951130--951170 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
951120 ATTTAAAAAA
951130 AAATTATTTTTAAAATTTTTT
1 AAATTATTTTTAAAATTTTTT
* **
951151 AAATTTTTTTTTTAATTTTT
1 AAATTATTTTTAAAATTTTT
951171 AATATAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
AAATTATTTTTAAAATTTTTT
Found at i:952457 original size:17 final size:17
Alignment explanation
Indices: 952409--952460 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
952399 ATGTTATAAT
*
952409 TATATTAAATAAATTATA
1 TATATT-AATAATTTATA
*
952427 TAT-TTATATAAATTTTTA
1 TATATTA-AT-AATTTATA
952445 TATATTAATAATTTAT
1 TATATTAATAATTTAT
952461 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 1 0.04
17 10 0.36
18 14 0.50
19 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATTAATAATTTATA
Found at i:952472 original size:32 final size:36
Alignment explanation
Indices: 952409--952474 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 36
952399 ATGTTATAAT
*
952409 TATATTAAATAAATTATATATTTATATAAATTTTTA
1 TATATTAAATAAATTATATATTTATAAAAATTTTTA
952445 TATATT-AAT-AATT-TAT-TTTATAAAAATTTT
1 TATATTAAATAAATTATATATTTATAAAAATTTT
952475 AAATAAGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 13 0.45
33 3 0.10
34 4 0.14
35 3 0.10
36 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
TATATTAAATAAATTATATATTTATAAAAATTTTTA
Found at i:952475 original size:31 final size:36
Alignment explanation
Indices: 952409--952475 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 36
952399 ATGTTATAAT
*
952409 TATATTAAATAAATTATATATTTATATAAATTTTTA
1 TATATTAAATAAATTATATATTTATATAAAATTTTA
952445 TATATT-AAT-AATT-TAT-TTTATA-AAAATTTTA
1 TATATTAAATAAATTATATATTTATATAAAATTTTA
952476 AATAAGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 8 0.27
32 6 0.20
33 3 0.10
34 4 0.13
35 3 0.10
36 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (36 bp):
TATATTAAATAAATTATATATTTATATAAAATTTTA
Found at i:952477 original size:60 final size:65
Alignment explanation
Indices: 952413--952530 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 65
952403 TATAATTATA
*
952413 TTAAATAAATTATATATTTATATAA-ATTT-TTATATA-TTA-ATAAT-TTATTTTATAAAAATT
1 TTAAATAAATTATATATTCATATAATATTTATTATATATTTATATAATATTATTTTATAAAAATT
* * * *
952473 TTAAATAAGTTATTTATTCATATAATATTTATTTTATATTTATATTATATTATTTTAT
1 TTAAATAAATTATATATTCATATAATATTTATTATATATTTATATAATATTATTTTAT
952531 TATTTCATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
60 22 0.46
61 4 0.08
62 6 0.12
63 3 0.06
64 4 0.08
65 9 0.19
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (65 bp):
TTAAATAAATTATATATTCATATAATATTTATTATATATTTATATAATATTATTTTATAAAAATT
Found at i:952511 original size:11 final size:11
Alignment explanation
Indices: 952497--952535 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
952487 TATTCATATA
952497 ATATTTATTTT
1 ATATTTATTTT
*
952508 ATATTTATATT
1 ATATTTATTTT
952519 ATA-TTATTTT
1 ATATTTATTTT
952529 ATTATTT
1 A-TATTT
952536 CATAGCTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 7 0.29
11 15 0.62
12 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTTATTTT
Done.