Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold5
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: 1536239
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.33
Warning! 124408 characters in sequence are not A, C, G, or T
File 6 of 14
Found at i:682281 original size:28 final size:28
Alignment explanation
Indices: 682250--682311 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
682240 TAATTACGTG
*
682250 ATATAT-AAT-CTTTTTTAATATCATTTAA
1 ATATATAAATACTTTTTTAA-A-AATTTAA
*
682278 ATATATAAATATTTTTTTAAAAATTTAA
1 ATATATAAATACTTTTTTAAAAATTTAA
682306 ATATAT
1 ATATAT
682312 TTATATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 18 0.60
29 4 0.13
30 8 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
ATATATAAATACTTTTTTAAAAATTTAA
Found at i:682298 original size:20 final size:22
Alignment explanation
Indices: 682272--682327 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
682262 TTTTAATATC
682272 ATTTAAATATATAAATAT-TTT
1 ATTTAAATATATAAATATATTT
* *
682293 -TTTAAAAATTTAAATATATTT
1 ATTTAAATATATAAATATATTT
682314 ATATTAAATATATA
1 AT-TTAAATATATA
682328 TTTAAATCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 15 0.54
21 3 0.11
22 1 0.04
23 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTAAATATATAAATATATTT
Found at i:683559 original size:26 final size:24
Alignment explanation
Indices: 683510--683560 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
683500 TATATATAAG
683510 TTTTAATTATTTAGATTAATTTAA
1 TTTTAATTATTTAGATTAATTTAA
* *
683534 TTTTATTTGATTTAGTATTTATTTAA
1 TTTTAATT-ATTTAG-ATTAATTTAA
683560 T
1 T
683561 AATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 6 0.26
26 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTTAATTATTTAGATTAATTTAA
Found at i:683763 original size:3 final size:3
Alignment explanation
Indices: 683755--683791 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
683745 AATTTTGCGC
683755 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
683792 AAAAATACGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:684400 original size:22 final size:21
Alignment explanation
Indices: 684354--684416 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
684344 ATAATATAAT
* *
684354 TTAATATAATATTTTTAA-TTA
1 TTAA-ATAATAATTTAAATTTA
684375 TTAAATAATAATTTAAATTTA
1 TTAAATAATAATTTAAATTTA
*
684396 CTTAAA-AATTATATTAAATTT
1 -TTAAATAATAAT-TTAAATTT
684417 CGGCCAAGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.31
21 12 0.33
22 13 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATAATAATTTAAATTTA
Found at i:684591 original size:22 final size:21
Alignment explanation
Indices: 684535--684600 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
684525 ATGCATGATT
684535 ATATTTATTTAATCAAATTATTTA
1 ATATTTATTTAA--AAATT-TTTA
*
684559 A-ATTGTGTTTAAAAATTTTTA
1 ATATT-TATTTAAAAATTTTTA
*
684580 ATTATTTATTTAATAATTTTT
1 A-TATTTATTTAAAAATTTTT
684601 TTATAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 5 0.14
22 18 0.50
23 6 0.17
24 7 0.19
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (21 bp):
ATATTTATTTAAAAATTTTTA
Found at i:684824 original size:2 final size:2
Alignment explanation
Indices: 684819--684847 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
684809 ATATATATAT
684819 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 A
684848 TTTCTGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:686247 original size:22 final size:22
Alignment explanation
Indices: 686219--686260 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
686209 TAAAAATAAA
**
686219 TTTTAAATATTTAATTATAATT
1 TTTTAAATATCAAATTATAATT
686241 TTTTAAATATCAAATTATAA
1 TTTTAAATATCAAATTATAA
686261 AACTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAATATCAAATTATAATT
Found at i:687037 original size:16 final size:16
Alignment explanation
Indices: 687013--687058 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
687003 AAATATGAAT
687013 ATACTAAAATTTATATG
1 ATAC-AAAATTTATATG
687030 ATACAAAATATTA-ATG
1 ATACAAAAT-TTATATG
687046 A-ATCAAAATTTAT
1 ATA-CAAAATTTAT
687059 TTAAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.15
16 15 0.58
17 7 0.27
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (16 bp):
ATACAAAATTTATATG
Found at i:688130 original size:16 final size:16
Alignment explanation
Indices: 688106--688141 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
688096 TTAAATTTTT
* *
688106 TTTATTTTTATTTAAA
1 TTTAATTTTAGTTAAA
688122 TTTAATTTTAGTTAAA
1 TTTAATTTTAGTTAAA
688138 TTTA
1 TTTA
688142 TAAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTAATTTTAGTTAAA
Found at i:688235 original size:31 final size:31
Alignment explanation
Indices: 688136--688235 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 31
688126 ATTTTAGTTA
* * *
688136 AATTTATAAATTTATTTTATTATTTAAAAAAT
1 AATTTAAAAATAT-TTTTATTATTTAAATAAT
* * *
688168 -ATTAAAAAATTATTTTTA-TAATTAAAT-TT
1 AATTTAAAAA-TATTTTTATTATTTAAATAAT
* *
688197 AAATTAAAAATATTTTTATTTTTTAAATAAT
1 AATTTAAAAATATTTTTATTATTTAAATAAT
688228 AATTTAAA
1 AATTTAAA
688236 CCAAATAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
29 9 0.17
30 21 0.40
31 20 0.38
32 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
AATTTAAAAATATTTTTATTATTTAAATAAT
Found at i:688540 original size:18 final size:18
Alignment explanation
Indices: 688517--688587 Score: 101
Period size: 18 Copynumber: 4.0 Consensus size: 18
688507 AACAACTACA
688517 ATATAAATATAATAAAAT
1 ATATAAATATAATAAAAT
* *
688535 ATATAAATATCAT-AAAC
1 ATATAAATATAATAAAAT
688552 ATAT-AATATAATAAAAT
1 ATATAAATATAATAAAAT
688569 ATATAAATATAATATAAAT
1 ATATAAATATAATA-AAAT
688588 TATTAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
16 7 0.15
17 14 0.30
18 21 0.46
19 4 0.09
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAAATATAATAAAAT
Found at i:688544 original size:8 final size:8
Alignment explanation
Indices: 688517--688579 Score: 65
Period size: 8 Copynumber: 7.4 Consensus size: 8
688507 AACAACTACA
688517 ATATAAAT
1 ATATAAAT
688525 ATAATAAAAT
1 AT-AT-AAAT
688535 ATATAAAT
1 ATATAAAT
*
688543 ATCATAAAC
1 AT-ATAAAT
688552 ATAT-AAT
1 ATATAAAT
688559 ATAATAAAAT
1 AT-AT-AAAT
688569 ATATAAAT
1 ATATAAAT
688577 ATA
1 ATA
688580 ATATAAATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
7 4 0.09
8 19 0.40
9 13 0.28
10 11 0.23
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATAAAT
Found at i:688562 original size:13 final size:12
Alignment explanation
Indices: 688516--688586 Score: 51
Period size: 13 Copynumber: 6.1 Consensus size: 12
688506 AAACAACTAC
*
688516 AATATAA-ATAT
1 AATATAATATAA
*
688527 AATAAAATATATA
1 AATATAATATA-A
*
688540 AATATCATA-AA
1 AATATAATATAA
*
688551 CATATAATAT--
1 AATATAATATAA
*
688561 AATAAAATATATA
1 AATATAATATA-A
688574 AATATAATATAA
1 AATATAATATAA
688586 A
1 A
688587 TTATTAAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
10 8 0.18
11 14 0.31
12 6 0.13
13 17 0.38
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAATATAA
Found at i:688948 original size:18 final size:18
Alignment explanation
Indices: 688915--688989 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
688905 ATGTCATTTA
688915 AATAAATATGATATAAATAT
1 AATAAA-AT-ATATAAATAT
*
688935 AATAAAATATATAAATAA
1 AATAAAATATATAAATAT
* *
688953 AAT-AAGTAT-TTAATAT
1 AATAAAATATATAAATAT
**
688969 AATAAAATATACGAATAT
1 AATAAAATATATAAATAT
688987 AAT
1 AAT
688990 TTAAATACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
16 8 0.17
17 10 0.22
18 20 0.43
19 2 0.04
20 6 0.13
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (18 bp):
AATAAAATATATAAATAT
Found at i:689690 original size:22 final size:23
Alignment explanation
Indices: 689659--689715 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
689649 ATAAAAAATT
*
689659 AAATTAAATTCAT-AAATTATTA
1 AAATTTAATTCATCAAATTATTA
* * * *
689681 AAATTTAATTTATCTATTTATTT
1 AAATTTAATTCATCAAATTATTA
689704 AAATTTAATTCA
1 AAATTTAATTCA
689716 AAACTAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTTAATTCATCAAATTATTA
Found at i:692264 original size:26 final size:26
Alignment explanation
Indices: 692235--692299 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 26
692225 TTTAAGGATA
692235 AAAAATTATTATAAAAT-TTAAATTTT
1 AAAAATTATTATAAAATATT-AATTTT
* *
692261 AAAAA-T-TTATTAAATATTATTTTT
1 AAAAATTATTATAAAATATTAATTTT
*
692285 AAAAATAATTATAAA
1 AAAAATTATTATAAA
692300 TAATCACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 18 0.56
25 3 0.09
26 11 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAAATTATTATAAAATATTAATTTT
Found at i:692267 original size:15 final size:17
Alignment explanation
Indices: 692237--692269 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
692227 TAAGGATAAA
692237 AAATTATTATAAAATTT
1 AAATTATTATAAAATTT
692254 AAATT-TTA-AAAATTT
1 AAATTATTATAAAATTT
692269 A
1 A
692270 TTAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATTATAAAATTT
Found at i:693918 original size:17 final size:17
Alignment explanation
Indices: 693885--693951 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
693875 TAATTTTTTA
693885 AAAATTTTATAATAATATT
1 AAAA-TTTAT-ATAATATT
693904 AAAATTTATATAATA-T
1 AAAATTTATATAATATT
* **
693920 AAATATTTA-A-CATGCT
1 AAA-ATTTATATAATATT
693936 AAAATTTATATAATAT
1 AAAATTTATATAATAT
693952 ATATCATTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
15 7 0.18
16 10 0.26
17 13 0.33
18 5 0.13
19 4 0.10
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (17 bp):
AAAATTTATATAATATT
Found at i:699393 original size:14 final size:14
Alignment explanation
Indices: 699374--699405 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
699364 GTAAATGATG
699374 ATAAATTAAGACTT
1 ATAAATTAAGACTT
*
699388 ATAAATTAAGATTT
1 ATAAATTAAGACTT
699402 ATAA
1 ATAA
699406 GTAGATAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (14 bp):
ATAAATTAAGACTT
Found at i:699818 original size:2 final size:2
Alignment explanation
Indices: 699813--699843 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
699803 ATATATATAT
699813 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
699844 TTTATGAAAT
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:701193 original size:22 final size:22
Alignment explanation
Indices: 701165--701206 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
701155 TAAAAATAAA
**
701165 TTTTAAATATTTAATTATAATT
1 TTTTAAATATCAAATTATAATT
701187 TTTTAAATATCAAATTATAA
1 TTTTAAATATCAAATTATAA
701207 AACTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAATATCAAATTATAATT
Found at i:701982 original size:16 final size:16
Alignment explanation
Indices: 701963--702003 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
701953 TGAATATATT
701963 AAAATTTATATG-ATAC
1 AAAATTTATATGAAT-C
701979 AAAATATTA-ATGAATC
1 AAAAT-TTATATGAATC
701995 AAAATTTAT
1 AAAATTTAT
702004 TTAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 14 0.64
17 5 0.23
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (16 bp):
AAAATTTATATGAATC
Found at i:703071 original size:16 final size:16
Alignment explanation
Indices: 703052--703088 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
703042 TAAATTTTTT
*
703052 TTTATTTTTATTTAAA
1 TTTATTTTTAGTTAAA
*
703068 TTTAATTTTAGTTAAA
1 TTTATTTTTAGTTAAA
703084 TTTAT
1 TTTAT
703089 AAATTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTATTTTTAGTTAAA
Found at i:703130 original size:30 final size:29
Alignment explanation
Indices: 703096--703173 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
703086 TATAAATTTA
*
703096 TTTTATTATTTAAAAAATATTAAAAATTAT
1 TTTTATTATTTAAATAATATTAAAAA-TAT
*
703126 TTTTA-TAATTAAATTTAA-ATTAAAAATAT
1 TTTTATTATTTAAA--TAATATTAAAAATAT
*
703155 TTTTATTTTTTAAATAATA
1 TTTTATTATTTAAATAATA
703174 ATTTAAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
28 3 0.08
29 16 0.40
30 19 0.47
31 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTTATTATTTAAATAATATTAAAAATAT
Found at i:703137 original size:29 final size:28
Alignment explanation
Indices: 703096--703160 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
703086 TATAAATTTA
*
703096 TTTTATTATTTAAA-AAATATTAAAAATTAT
1 TTTTA-TAATTAAATAAA-ATTAAAAA-TAT
*
703126 TTTTATAATTAAATTTAAATTAAAAATAT
1 TTTTATAATTAAA-TAAAATTAAAAATAT
703155 TTTTAT
1 TTTTAT
703161 TTTTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.52
30 13 0.42
31 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTTATAATTAAATAAAATTAAAAATAT
Found at i:703485 original size:18 final size:18
Alignment explanation
Indices: 703462--703532 Score: 101
Period size: 18 Copynumber: 4.0 Consensus size: 18
703452 AACAACTACA
703462 ATATAAATATAATAAAAT
1 ATATAAATATAATAAAAT
* *
703480 ATATAAATATCAT-AAAC
1 ATATAAATATAATAAAAT
703497 ATAT-AATATAATAAAAT
1 ATATAAATATAATAAAAT
703514 ATATAAATATAATATAAAT
1 ATATAAATATAATA-AAAT
703533 TATTAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
16 7 0.15
17 14 0.30
18 21 0.46
19 4 0.09
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAAATATAATAAAAT
Found at i:703489 original size:8 final size:8
Alignment explanation
Indices: 703462--703524 Score: 65
Period size: 8 Copynumber: 7.4 Consensus size: 8
703452 AACAACTACA
703462 ATATAAAT
1 ATATAAAT
703470 ATAATAAAAT
1 AT-AT-AAAT
703480 ATATAAAT
1 ATATAAAT
*
703488 ATCATAAAC
1 AT-ATAAAT
703497 ATAT-AAT
1 ATATAAAT
703504 ATAATAAAAT
1 AT-AT-AAAT
703514 ATATAAAT
1 ATATAAAT
703522 ATA
1 ATA
703525 ATATAAATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
7 4 0.09
8 19 0.40
9 13 0.28
10 11 0.23
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATAAAT
Found at i:703507 original size:13 final size:12
Alignment explanation
Indices: 703461--703531 Score: 51
Period size: 13 Copynumber: 6.1 Consensus size: 12
703451 AAACAACTAC
*
703461 AATATAA-ATAT
1 AATATAATATAA
*
703472 AATAAAATATATA
1 AATATAATATA-A
*
703485 AATATCATA-AA
1 AATATAATATAA
*
703496 CATATAATAT--
1 AATATAATATAA
*
703506 AATAAAATATATA
1 AATATAATATA-A
703519 AATATAATATAA
1 AATATAATATAA
703531 A
1 A
703532 TTATTAAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
10 8 0.18
11 14 0.31
12 6 0.13
13 17 0.38
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAATATAA
Found at i:703892 original size:18 final size:18
Alignment explanation
Indices: 703859--703932 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
703849 ATGTCATTTA
703859 AATAAATATGATATAAATAT
1 AATAAA-AT-ATATAAATAT
*
703879 AATAAAATATATAAATAA
1 AATAAAATATATAAATAT
*
703897 AAT-AAGTAT-T-AATAT
1 AATAAAATATATAAATAT
**
703912 AATAAAATATACGAATAT
1 AATAAAATATATAAATAT
703930 AAT
1 AAT
703933 TTAAATACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.15
16 6 0.13
17 5 0.11
18 20 0.43
19 2 0.04
20 6 0.13
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (18 bp):
AATAAAATATATAAATAT
Found at i:703911 original size:33 final size:33
Alignment explanation
Indices: 703857--703922 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
703847 ACATGTCATT
*
703857 TAAATAAATATGATATAAATATAATAAAATATA
1 TAAATAAATAAGATATAAATATAATAAAATATA
*
703890 TAAATAAAATAAG-TATTAATATAATAAAATATA
1 TAAAT-AAATAAGATATAAATATAATAAAATATA
703923 CGAATATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (33 bp):
TAAATAAATAAGATATAAATATAATAAAATATA
Found at i:704216 original size:412 final size:407
Alignment explanation
Indices: 703444--704216 Score: 1158
Period size: 412 Copynumber: 1.9 Consensus size: 407
703434 TTATCTCTAA
* **
703444 GTCATTTAAACAACTACAATATAAATATAATAAAATATATAAATATCATAAACATATAATATAAT
1 GTCATTTAAACAAATACAATATAAATATAATAAAATATATAAATAAAATAAACATATAATATAAT
* * * * * **
703509 AAAATATATAAATATAATATAAATTATTAAATTATTAAATTTAATCCTAAGTATATGTTTTTTCA
66 AAAATATACAAATATAATATAAATTAATAAATTATCAAATTTAATCATAAGTATATGATTTTAAA
*
703574 ATTAATTTACTGGGCAAAAAAATTTGATTATTTGTTCTTGGTCTATCAACTAATAATTAAGCCAA
131 ATTAATTTACTGGGCAAAAAAATTTGATTATTTGTTCTTAGTCTATCAACTAATAATTAAGCCAA
*
703639 TTAATTATTCTGTTTGGGGGAGATTAATTATTTATTAGTTTAAACCAATAATTTTGATTATTATT
196 TTAATTATTCTGTTTGAGGGAGATTAATTATTTATTAGTTTAAACCAATAATTTTGATTATTATT
*
703704 TTCTGGGAAATAGCAGTCGAAGAAACATGATCATGTCGTTTGCCAAAAAAGGCTGAAACTTATGA
261 TTCTGGGAAATAGCAATCGAAGAAACATGATCATGTCGTTTGCCAAAAAAGGCTGAAACTTATGA
* *
703769 AATTTAGAAGGAAGATTATGAGAAAAATAAAAGCTTAATTTCAAATTCAATTATTTATGTTTAAG
326 AATTTAGAAGGAACATTATGAGAAAAACAAAAGCTTAATTTCAAATTCAATTATTTATGTTTAAG
703834 TTTAACTTAGATCACAT
391 TTTAACTTAGATCACAT
* ** **
703851 GTCATTTAAATAAATATGATATAAATATAATAAAATATATAAATAAAATAAGTAT-TAATATAAT
1 GTCATTTAAACAAATACAATATAAATATAATAAAATATATAAATAAAATAAACATATAATATAAT
* * *
703915 AAAATATACGAATATAATTTAAA-TACATGAATTATCAAATTTAATCATAAGTATATGATTTTAA
66 AAAATATACAAATATAATATAAATTA-ATAAATTATCAAATTTAATCATAAGTATATGATTTTAA
* * * *
703979 AATTAATTACATTCTTGGGGAAAAAATTTTGGTTATTTGTTCTTAGTCTATCAAACTAATAAATT
130 AATTAATT---TAC-TGGGCAAAAAAATTTGATTATTTGTTCTTAGTCTATC-AACTAAT-AATT
704044 AAGCCAATTAATTATTCTGTTTGAGGGAGATTAATTATTTATTAGTTTAAACCAATAATTTTGAT
189 AAGCCAATTAATTATTCTGTTTGAGGGAGATTAATTATTTATTAGTTTAAACCAATAATTTTGAT
* **
704109 TATTATTTTCTGGGAAATAGCAATCGAAAGAAACATGATCATGTTG-TTGCC-TGAAAGGCTGAA
254 TATTATTTTCTGGGAAATAGCAATCG-AAGAAACATGATCATGTCGTTTGCCAAAAAAGGCTGAA
*
704172 ACTTATGAAATTTAGAAGGAACATTATGAGCAAAAACCAAAGCTT
318 ACTTATGAAATTTAGAAGGAACATTATGAG-AAAAACAAAAGCTT
704217 TGTAGAAAGA
Statistics
Matches: 326, Mismatches: 31, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
405 2 0.01
406 68 0.21
407 47 0.14
409 2 0.01
410 33 0.10
411 46 0.14
412 110 0.34
413 18 0.06
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.37
Consensus pattern (407 bp):
GTCATTTAAACAAATACAATATAAATATAATAAAATATATAAATAAAATAAACATATAATATAAT
AAAATATACAAATATAATATAAATTAATAAATTATCAAATTTAATCATAAGTATATGATTTTAAA
ATTAATTTACTGGGCAAAAAAATTTGATTATTTGTTCTTAGTCTATCAACTAATAATTAAGCCAA
TTAATTATTCTGTTTGAGGGAGATTAATTATTTATTAGTTTAAACCAATAATTTTGATTATTATT
TTCTGGGAAATAGCAATCGAAGAAACATGATCATGTCGTTTGCCAAAAAAGGCTGAAACTTATGA
AATTTAGAAGGAACATTATGAGAAAAACAAAAGCTTAATTTCAAATTCAATTATTTATGTTTAAG
TTTAACTTAGATCACAT
Found at i:704622 original size:22 final size:23
Alignment explanation
Indices: 704592--704647 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
704582 TAAAAGATTT
*
704592 AATTAAATTCAT-AAATTATTAA
1 AATTTAATTCATCAAATTATTAA
* * * *
704614 AATTTAATTTATCTATTTATTTA
1 AATTTAATTCATCAAATTATTAA
704637 AATTTAATTCA
1 AATTTAATTCA
704648 AAACTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTTAATTCATCAAATTATTAA
Found at i:705303 original size:30 final size:30
Alignment explanation
Indices: 705237--705303 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
705227 TTTTATTCGG
* * * *
705237 ATCAGTTTATTTCTCATGCTATTATTTTTG
1 ATCAATTTAATTCTCATACTATTATTTTTC
* *
705267 ACCAATTTAATTCTCATATTATTATTTTTC
1 ATCAATTTAATTCTCATACTATTATTTTTC
705297 ATCAATT
1 ATCAATT
705304 AAGCAAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (30 bp):
ATCAATTTAATTCTCATACTATTATTTTTC
Found at i:707202 original size:26 final size:27
Alignment explanation
Indices: 707173--707238 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 27
707163 TTTAAGGATA
707173 AAAAATTATTATAAAAT-TTAAATTTT
1 AAAAATTATTATAAAATATTAAATTTT
* **
707199 AAAAA-T-TTATTAAATATTATTTTTT
1 AAAAATTATTATAAAATATTAAATTTT
*
707224 AAAAATAATTATAAA
1 AAAAATTATTATAAA
707239 TAATTACATG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.25
25 13 0.41
26 5 0.16
27 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAAATTATTATAAAATATTAAATTTT
Found at i:707205 original size:15 final size:17
Alignment explanation
Indices: 707175--707207 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
707165 TAAGGATAAA
707175 AAATTATTATAAAATTT
1 AAATTATTATAAAATTT
707192 AAATT-TTA-AAAATTT
1 AAATTATTATAAAATTT
707207 A
1 A
707208 TTAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATTATAAAATTT
Found at i:708876 original size:17 final size:17
Alignment explanation
Indices: 708843--708886 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
708833 TAATTTTTTA
708843 AAAATTTTATAATAATATT
1 AAAA-TTTATAATAATA-T
708862 AAAATTTAT-ATAATAT
1 AAAATTTATAATAATAT
708878 AAATATTTA
1 AAA-ATTTA
708887 ACGTGCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.17
17 11 0.46
18 5 0.21
19 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATTTATAATAATAT
Found at i:713379 original size:26 final size:24
Alignment explanation
Indices: 713330--713404 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
713320 TATATATAAG
713330 TTTTAATTATTTAGATTAATTTAA
1 TTTTAATTATTTAGATTAATTTAA
* *
713354 TTTTATTTGATTTAGTATTTATTTAA
1 TTTTAATT-ATTTAG-ATTAATTTAA
** * * *
713380 TAATAAATATTTAAATTTATTTAA
1 TTTTAATTATTTAGATTAATTTAA
713404 T
1 T
713405 AATAAATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
24 18 0.43
25 11 0.26
26 13 0.31
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTAATTATTTAGATTAATTTAA
Found at i:713392 original size:14 final size:14
Alignment explanation
Indices: 713373--713417 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
713363 ATTTAGTATT
713373 TATTTAATAATAAA
1 TATTTAATAATAAA
*
713387 TATTT-A-AAT--T
1 TATTTAATAATAAA
713397 TATTTAATAATAAA
1 TATTTAATAATAAA
713411 TATTTAA
1 TATTTAA
713418 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
10 5 0.20
11 1 0.04
12 6 0.24
13 1 0.04
14 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTTAATAATAAA
Found at i:713405 original size:24 final size:24
Alignment explanation
Indices: 713370--713426 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
713360 TTGATTTAGT
713370 ATTTATTTAATAATAAATATTTAA
1 ATTTATTTAATAATAAATATTTAA
713394 ATTTATTTAATAATAAATATTTAA
1 ATTTATTTAATAATAAATATTTAA
713418 ATTTATTTA
1 ATTTATTTA
713427 TGAAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTATTTAATAATAAATATTTAA
Found at i:713587 original size:20 final size:21
Alignment explanation
Indices: 713554--713593 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
713544 AACAAATCTA
* *
713554 ATTTTTAAATTAT-AATTTTT
1 ATTTTAAAAATATAAATTTTT
713574 ATTTTAAAAATATAAATTTT
1 ATTTTAAAAATATAAATTTT
713594 GCGCATAATA
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:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTAAAAATATAAATTTTT
Found at i:713606 original size:3 final size:3
Alignment explanation
Indices: 713598--713637 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
713588 AATTTTGCGC
713598 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
713638 AAAATACGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:714245 original size:22 final size:21
Alignment explanation
Indices: 714199--714261 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
714189 ATAATATAAT
* *
714199 TTAATATAATATTTTTAA-TTA
1 TTAA-ATAATAATTTAAATTTA
714220 TTAAATAATAATTTAAATTTA
1 TTAAATAATAATTTAAATTTA
*
714241 CTTAAA-AATTATATTAAATTT
1 -TTAAATAATAAT-TTAAATTT
714262 CGGCCAAGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.31
21 12 0.33
22 13 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATAATAATTTAAATTTA
Found at i:714436 original size:22 final size:21
Alignment explanation
Indices: 714380--714445 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
714370 ATGCATGATT
714380 ATATTTATTTAATCAAATTATTTA
1 ATATTTATTTAA--AAATT-TTTA
*
714404 A-ATTGTGTTTAAAAATTTTTA
1 ATATT-TATTTAAAAATTTTTA
*
714425 ATTATTTATTTAATAATTTTT
1 A-TATTTATTTAAAAATTTTT
714446 TTATAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 5 0.14
22 18 0.50
23 6 0.17
24 7 0.19
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (21 bp):
ATATTTATTTAAAAATTTTTA
Found at i:715511 original size:16 final size:16
Alignment explanation
Indices: 715492--715528 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
715482 AAAATTTTTT
*
715492 TTTATTTTTATTTAAA
1 TTTATTTTTAGTTAAA
*
715508 TTTAATTTTAGTTAAA
1 TTTATTTTTAGTTAAA
715524 TTTAT
1 TTTAT
715529 AAATTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTATTTTTAGTTAAA
Found at i:715885 original size:18 final size:18
Alignment explanation
Indices: 715862--715940 Score: 126
Period size: 18 Copynumber: 4.4 Consensus size: 18
715852 AACAACTACA
715862 ATATAAATATAATAAAAT
1 ATATAAATATAATAAAAT
715880 ATATAAATATAAT-AAAT
1 ATATAAATATAATAAAAT
*
715897 GTAT-AATATAATAAAAT
1 ATATAAATATAATAAAAT
715914 ATATAAATATAATATAAAT
1 ATATAAATATAATA-AAAT
715933 ATATAAAT
1 ATATAAAT
715941 TATTAAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
16 8 0.14
17 14 0.25
18 22 0.39
19 12 0.21
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (18 bp):
ATATAAATATAATAAAAT
Found at i:715889 original size:8 final size:8
Alignment explanation
Indices: 715862--715940 Score: 70
Period size: 8 Copynumber: 9.0 Consensus size: 8
715852 AACAACTACA
715862 ATATAAAT
1 ATATAAAT
715870 ATAATAAAAT
1 AT-AT-AAAT
715880 ATATAAAT
1 ATATAAAT
715888 ATAATAAAT
1 AT-ATAAAT
*
715897 GTAT-AAT
1 ATATAAAT
715904 ATAATAAAAT
1 AT-AT-AAAT
715914 ATATAAATAT
1 ATAT-AA-AT
715924 AATATAAAT
1 -ATATAAAT
715933 ATATAAAT
1 ATATAAAT
715941 TATTAAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
7 4 0.07
8 20 0.33
9 18 0.30
10 15 0.25
11 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (8 bp):
ATATAAAT
Found at i:715964 original size:28 final size:27
Alignment explanation
Indices: 715862--715964 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 27
715852 AACAACTACA
*
715862 ATATAAATATAATAAAATATAT-AAAT
1 ATATAAATATAATATAATATATAAAAT
*
715888 ATA-ATAA-AT-GTATAATATAATAAAAT
1 ATATA-AATATAATATAATAT-ATAAAAT
*
715914 ATATAAATATAATATAAATATATAAATT
1 ATATAAATATAATAT-AATATATAAAAT
*
715942 AT-TAAATTTAATCATAAGTATAT
1 ATATAAATATAAT-ATAA-TATAT
715965 GTTTTTTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
24 7 0.11
25 5 0.08
26 14 0.22
27 14 0.22
28 18 0.29
29 5 0.08
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (27 bp):
ATATAAATATAATATAATATATAAAAT
Found at i:716596 original size:20 final size:20
Alignment explanation
Indices: 716546--716598 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
716536 TTTAAAATTA
* *
716546 AAAAAATTTAA-TACTAATT
1 AAAAAATTTAATTAATAAAT
* *
716565 AAAATA-TAAATTAATAAAT
1 AAAAAATTTAATTAATAAAT
716584 AAAAAATTTAATTAA
1 AAAAAATTTAATTAA
716599 ATTCATAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.12
19 16 0.62
20 7 0.27
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAATTTAATTAATAAAT
Found at i:716601 original size:25 final size:27
Alignment explanation
Indices: 716571--716623 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
716561 AATTAAAATA
716571 TAAATTAATAAA-TA-AAAAATTTAAT
1 TAAATTAATAAATTATAAAAATTTAAT
* *
716596 TAAATTCATAAATTATTAAAATTTAAT
1 TAAATTAATAAATTATAAAAATTTAAT
716623 T
1 T
716624 TATCTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 11 0.46
26 2 0.08
27 11 0.46
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATTAATAAATTATAAAAATTTAAT
Found at i:716623 original size:22 final size:23
Alignment explanation
Indices: 716593--716646 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
716583 TAAAAAATTT
*
716593 AATTAAATTCAT-AAATTATTAA
1 AATTTAATTCATCAAATTATTAA
* * * *
716615 AATTTAATTTATCTATTTATTTA
1 AATTTAATTCATCAAATTATTAA
716638 AATTTAATT
1 AATTTAATT
716647 TAAAACTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTAATTCATCAAATTATTAA
Found at i:716624 original size:32 final size:31
Alignment explanation
Indices: 716531--716625 Score: 84
Period size: 32 Copynumber: 3.0 Consensus size: 31
716521 ATGTTTAAGT
* *
716531 TTAAATT-TAAAATTAAAAAAATTTAATACTAA
1 TTAAATTAT-AAATTAATAAAATTTAAT-TTAA
* ***
716563 TTAAAATATAAATTAATAAATAAAAAATTTAA
1 TTAAATTATAAATTAATAAA-ATTTAATTTAA
*
716595 TTAAATTCATAAATTATTAAAATTTAATTTA
1 TTAAATT-ATAAATTAATAAAATTTAATTTA
716626 TCTATTTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
32 32 0.65
33 17 0.35
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (31 bp):
TTAAATTATAAATTAATAAAATTTAATTTAA
Found at i:717304 original size:30 final size:30
Alignment explanation
Indices: 717238--717304 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
717228 TTTTATTCGG
* * * *
717238 ATCAGTTTATTTCTCATGCTATTATTTTTG
1 ATCAATTTAATTCTCATACTATTATTTTTC
* *
717268 ACCAATTTAATTCTCATATTATTATTTTTC
1 ATCAATTTAATTCTCATACTATTATTTTTC
717298 ATCAATT
1 ATCAATT
717305 AAGCAAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (30 bp):
ATCAATTTAATTCTCATACTATTATTTTTC
Found at i:719206 original size:26 final size:27
Alignment explanation
Indices: 719177--719242 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 27
719167 TTTAAGGATA
719177 AAAAATTATTATAAAAT-TTAAATTTT
1 AAAAATTATTATAAAATATTAAATTTT
* **
719203 AAAAA-T-TTATTAAATATTATTTTTT
1 AAAAATTATTATAAAATATTAAATTTT
*
719228 AAAAATAATTATAAA
1 AAAAATTATTATAAA
719243 TAATCACATG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.25
25 13 0.41
26 5 0.16
27 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAAATTATTATAAAATATTAAATTTT
Found at i:719209 original size:15 final size:17
Alignment explanation
Indices: 719179--719211 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
719169 TAAGGATAAA
719179 AAATTATTATAAAATTT
1 AAATTATTATAAAATTT
719196 AAATT-TTA-AAAATTT
1 AAATTATTATAAAATTT
719211 A
1 A
719212 TTAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATTATAAAATTT
Found at i:720876 original size:17 final size:18
Alignment explanation
Indices: 720841--720886 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
720831 CTTTAATTTT
720841 TTAAAATTTTATAATAATA
1 TTAAAA-TTTATAATAATA
720860 TTAAAATTTAT-ATAATA
1 TTAAAATTTATAATAATA
720877 -TAAATATTTA
1 TTAAA-ATTTA
720887 ACGTGCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 5 0.19
19 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAAATTTATAATAATA
Found at i:726345 original size:14 final size:14
Alignment explanation
Indices: 726326--726357 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
726316 GTAAATGATG
726326 ATAAATTAAGACTT
1 ATAAATTAAGACTT
*
726340 ATAAATTAAGATTT
1 ATAAATTAAGACTT
726354 ATAA
1 ATAA
726358 GTAGATAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (14 bp):
ATAAATTAAGACTT
Found at i:728108 original size:22 final size:22
Alignment explanation
Indices: 728083--728124 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
728073 TAAAAATAAA
**
728083 TTTTAAATATTTAATTATAATT
1 TTTTAAATATCAAATTATAATT
728105 TTTTAAATATCAAATTATAA
1 TTTTAAATATCAAATTATAA
728125 AACTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAATATCAAATTATAATT
Found at i:728897 original size:16 final size:16
Alignment explanation
Indices: 728878--728918 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
728868 TGAATATATT
728878 AAAATTTATATG-ATAC
1 AAAATTTATATGAAT-C
728894 AAAATATTA-ATGAATC
1 AAAAT-TTATATGAATC
728910 AAAATTTAT
1 AAAATTTAT
728919 TTAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 14 0.64
17 5 0.23
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (16 bp):
AAAATTTATATGAATC
Found at i:729990 original size:16 final size:16
Alignment explanation
Indices: 729966--730001 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
729956 TTAAATTTTT
* *
729966 TTTATTTTTATTTAAA
1 TTTAATTTTAGTTAAA
729982 TTTAATTTTAGTTAAA
1 TTTAATTTTAGTTAAA
729998 TTTA
1 TTTA
730002 TAAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTAATTTTAGTTAAA
Found at i:730040 original size:19 final size:18
Alignment explanation
Indices: 730012--730051 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
730002 TAAATTTATT
730012 TTATTATTTAAAAAATATA
1 TTATTATTTAAAAAATA-A
* *
730031 TTATTTTTTAAATAATAA
1 TTATTATTTAAAAAATAA
730049 TTA
1 TTA
730052 AACTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTATTTAAAAAATAA
Found at i:730067 original size:15 final size:16
Alignment explanation
Indices: 730038--730077 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
730028 ATATTATTTT
730038 TTAAATAATAATTAAAC
1 TTAAATAATAATT-AAC
730055 -TAAATAA-AATTAAC
1 TTAAATAATAATTAAC
730069 TTAAATAAT
1 TTAAATAAT
730078 TAAATATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 11 0.52
16 7 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAATAATAATTAAC
Found at i:730358 original size:18 final size:18
Alignment explanation
Indices: 730335--730412 Score: 117
Period size: 18 Copynumber: 4.4 Consensus size: 18
730325 AACAACTACA
730335 ATATAAATATAATAAAAT
1 ATATAAATATAATAAAAT
730353 ATATAAATATAAT-AAAT
1 ATATAAATATAATAAAAT
*
730370 GTAT--ATATAATAAAAT
1 ATATAAATATAATAAAAT
730386 ATATAAATATAATATAAAT
1 ATATAAATATAATA-AAAT
730405 ATATAAAT
1 ATATAAAT
730413 TATTAAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
15 7 0.13
16 7 0.13
17 7 0.13
18 21 0.39
19 12 0.22
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (18 bp):
ATATAAATATAATAAAAT
Found at i:730362 original size:8 final size:8
Alignment explanation
Indices: 730335--730412 Score: 68
Period size: 8 Copynumber: 9.0 Consensus size: 8
730325 AACAACTACA
730335 ATATAAAT
1 ATATAAAT
730343 ATAATAAAAT
1 AT-AT-AAAT
730353 ATATAAAT
1 ATATAAAT
730361 ATAATAAAT
1 AT-ATAAAT
* *
730370 GTATATAT
1 ATATAAAT
730378 A-ATAAAAT
1 ATAT-AAAT
730386 ATATAAATAT
1 ATAT-AA-AT
730396 AATATAAAT
1 -ATATAAAT
730405 ATATAAAT
1 ATATAAAT
730413 TATTAAATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
7 2 0.03
8 25 0.42
9 18 0.31
10 10 0.17
11 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (8 bp):
ATATAAAT
Found at i:730377 original size:15 final size:15
Alignment explanation
Indices: 730334--730412 Score: 74
Period size: 15 Copynumber: 5.2 Consensus size: 15
730324 AAACAACTAC
*
730334 AATATAAATATAATAA
1 AATATATATATAAT-A
730350 AATATATAAATATAATA
1 AATATAT--ATATAATA
*
730367 AATGTATATATAATA
1 AATATATATATAATA
730382 AA-ATATATA-AATA
1 AATATATATATAATA
*
730395 TAATATAAATAT-ATA
1 -AATATATATATAATA
730410 AAT
1 AAT
730413 TATTAAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
13 4 0.07
14 11 0.20
15 19 0.35
16 6 0.11
17 7 0.13
18 7 0.13
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (15 bp):
AATATATATATAATA
Found at i:730408 original size:33 final size:33
Alignment explanation
Indices: 730334--730409 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
730324 AAACAACTAC
*
730334 AATATAAATATAATAAAATATATAAATATAATA
1 AATATATATATAATAAAATATATAAATATAATA
*
730367 AATGTATATATAATAAAATATATAAATATAATA
1 AATATATATATAATAAAATATATAAATATAATA
730400 TAA-ATATATA
1 -AATATATATA
730410 AATTATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (33 bp):
AATATATATATAATAAAATATATAAATATAATA
Found at i:731066 original size:20 final size:20
Alignment explanation
Indices: 731016--731068 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
731006 TTTAAAATTA
* *
731016 AAAAAATTTAA-TACTAATT
1 AAAAAATTTAATTAATAAAT
* *
731035 AAAATA-TAAATTAATAAAT
1 AAAAAATTTAATTAATAAAT
731054 AAAAAATTTAATTAA
1 AAAAAATTTAATTAA
731069 ATTCATAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.12
19 16 0.62
20 7 0.27
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAATTTAATTAATAAAT
Found at i:731071 original size:25 final size:27
Alignment explanation
Indices: 731041--731093 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
731031 AATTAAAATA
731041 TAAATTAATAAA-TA-AAAAATTTAAT
1 TAAATTAATAAATTATAAAAATTTAAT
* *
731066 TAAATTCATAAATTATTAAAATTTAAT
1 TAAATTAATAAATTATAAAAATTTAAT
731093 T
1 T
731094 TATCTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 11 0.46
26 2 0.08
27 11 0.46
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATTAATAAATTATAAAAATTTAAT
Found at i:731093 original size:22 final size:23
Alignment explanation
Indices: 731063--731116 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
731053 TAAAAAATTT
*
731063 AATTAAATTCAT-AAATTATTAA
1 AATTTAATTCATCAAATTATTAA
* * * *
731085 AATTTAATTTATCTATTTATTTA
1 AATTTAATTCATCAAATTATTAA
731108 AATTTAATT
1 AATTTAATT
731117 TAAAACTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTAATTCATCAAATTATTAA
Found at i:731094 original size:32 final size:31
Alignment explanation
Indices: 731001--731095 Score: 84
Period size: 32 Copynumber: 3.0 Consensus size: 31
730991 ATGTTTAAGT
* *
731001 TTAAATT-TAAAATTAAAAAAATTTAATACTAA
1 TTAAATTAT-AAATTAATAAAATTTAAT-TTAA
* ***
731033 TTAAAATATAAATTAATAAATAAAAAATTTAA
1 TTAAATTATAAATTAATAAA-ATTTAATTTAA
*
731065 TTAAATTCATAAATTATTAAAATTTAATTTA
1 TTAAATT-ATAAATTAATAAAATTTAATTTA
731096 TCTATTTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
32 32 0.65
33 17 0.35
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (31 bp):
TTAAATTATAAATTAATAAAATTTAATTTAA
Found at i:731774 original size:30 final size:30
Alignment explanation
Indices: 731708--731774 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
731698 TTTTATTCGG
* * * *
731708 ATCAGTTTATTTCTCATGCTATTATTTTTG
1 ATCAATTTAATTCTCATACTATTATTTTTC
* *
731738 ACCAATTTAATTCTCATATTATTATTTTTC
1 ATCAATTTAATTCTCATACTATTATTTTTC
731768 ATCAATT
1 ATCAATT
731775 AAGCAAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (30 bp):
ATCAATTTAATTCTCATACTATTATTTTTC
Found at i:733675 original size:26 final size:27
Alignment explanation
Indices: 733646--733711 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 27
733636 TTTAAGGATA
733646 AAAAATTATTATAAAAT-TTAAATTTT
1 AAAAATTATTATAAAATATTAAATTTT
* **
733672 AAAAA-T-TTATTAAATATTATTTTTT
1 AAAAATTATTATAAAATATTAAATTTT
*
733697 AAAAATAATTATAAA
1 AAAAATTATTATAAA
733712 TAATCACATG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.25
25 13 0.41
26 5 0.16
27 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAAATTATTATAAAATATTAAATTTT
Found at i:733678 original size:15 final size:17
Alignment explanation
Indices: 733648--733680 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
733638 TAAGGATAAA
733648 AAATTATTATAAAATTT
1 AAATTATTATAAAATTT
733665 AAATT-TTA-AAAATTT
1 AAATTATTATAAAATTT
733680 A
1 A
733681 TTAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATTATAAAATTT
Found at i:735352 original size:17 final size:18
Alignment explanation
Indices: 735317--735362 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
735307 TTTAATTTTT
735317 TTAAAATTTTATAATAATA
1 TTAAAA-TTTATAATAATA
735336 TTAAAATTTAT-ATAATA
1 TTAAAATTTATAATAATA
735353 -TAAATATTTA
1 TTAAA-ATTTA
735363 ACGTGCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 5 0.19
19 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAAATTTATAATAATA
Found at i:740820 original size:14 final size:14
Alignment explanation
Indices: 740801--740832 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
740791 GTAAATGATG
740801 ATAAATTAAGACTT
1 ATAAATTAAGACTT
*
740815 ATAAATTAAGATTT
1 ATAAATTAAGACTT
740829 ATAA
1 ATAA
740833 GTAGATAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (14 bp):
ATAAATTAAGACTT
Found at i:741225 original size:2 final size:2
Alignment explanation
Indices: 741218--741249 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
741208 CATTACTTGT
741218 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
741250 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:741254 original size:2 final size:2
Alignment explanation
Indices: 741249--741283 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
741239 ATATATATAT
741249 AG AG 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 AG AG A
741284 TTTATGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:742605 original size:22 final size:22
Alignment explanation
Indices: 742580--742621 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
742570 TAAAAATAAA
**
742580 TTTTAAATATTTAATTATAATT
1 TTTTAAATATCAAATTATAATT
742602 TTTTAAATATCAAATTATAA
1 TTTTAAATATCAAATTATAA
742622 AACTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAATATCAAATTATAATT
Found at i:743076 original size:15 final size:15
Alignment explanation
Indices: 743040--743081 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
743030 ATTTGGCTTG
*
743040 TTATTAAATTAAA-A
1 TTATTAATTTAAATA
743054 TT-TTAATTTAAATA
1 TTATTAATTTAAATA
743068 TTATTAATTTAAAT
1 TTATTAATTTAAAT
743082 CGATTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 9 0.36
14 5 0.20
15 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATTAATTTAAATA
Found at i:744502 original size:22 final size:23
Alignment explanation
Indices: 744460--744518 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
744450 TCTCATGATT
* *
744460 TAAATTT-TTCTATTTTTATTTA
1 TAAATTTATTTTATTTTAATTTA
*
744482 T-ATTTTATTTTATTTTAATTTA
1 TAAATTTATTTTATTTTAATTTA
744504 TAAATTTATTTTATT
1 TAAATTTATTTTATT
744519 ATTTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 4 0.13
22 15 0.48
23 12 0.39
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TAAATTTATTTTATTTTAATTTA
Found at i:744566 original size:32 final size:32
Alignment explanation
Indices: 744530--744599 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
744520 TTTAAAAAAT
744530 ATTAAAATATTATTTTTTA-TAATTAAAT-TTAA
1 ATTAAAA-A-TATTTTTTATTAATTAAATATTAA
744562 ATTAAAAATATTTTTTATTAATTAAATATTAA
1 ATTAAAAATATTTTTTATTAATTAAATATTAA
*
744594 TTTAAA
1 ATTAAA
744600 TCAAATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 9 0.26
31 10 0.29
32 16 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
ATTAAAAATATTTTTTATTAATTAAATATTAA
Found at i:744577 original size:31 final size:34
Alignment explanation
Indices: 744533--744599 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 34
744523 AAAAAATATT
744533 AAAATATTATTTTTTA-TAATTAAAT-TTAAATT-
1 AAAATA-TATTTTTTATTAATTAAATATTAAATTA
*
744565 AAAA-ATATTTTTTATTAATTAAATATTAATTTA
1 AAAATATATTTTTTATTAATTAAATATTAAATTA
744598 AA
1 AA
744600 TCAAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 9 0.29
31 10 0.32
32 10 0.32
33 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
AAAATATATTTTTTATTAATTAAATATTAAATTA
Found at i:744592 original size:27 final size:28
Alignment explanation
Indices: 744526--744593 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 28
744516 ATTATTTAAA
744526 AAATATTAAAATATTATTTTTTATAATT
1 AAATATTAAAATATTATTTTTTATAATT
744554 AAATTTAAATTAAAA-A-TATTTTTTATTAATT
1 AAA--T--ATTAAAATATTATTTTTTA-TAATT
744585 AAATATTAA
1 AAATATTAA
744594 TTTAAATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
27 5 0.14
28 3 0.09
29 1 0.03
30 10 0.29
31 9 0.26
32 7 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
AAATATTAAAATATTATTTTTTATAATT
Found at i:744896 original size:9 final size:9
Alignment explanation
Indices: 744875--744938 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
744865 GTCATGCGAT
744875 ATAAATATA
1 ATAAATATA
744884 ATAAAGTAT-
1 ATAAA-TATA
744893 ATAAATATA
1 ATAAATATA
*
744902 ATAAACAT-
1 ATAAATATA
744910 AT-AATATA
1 ATAAATATA
744918 ATAAA-ATA
1 ATAAATATA
*
744926 TATGAATATA
1 -ATAAATATA
744936 ATA
1 ATA
744939 TAAATATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 4 0.09
8 10 0.22
9 25 0.56
10 6 0.13
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAATATA
Found at i:744896 original size:18 final size:17
Alignment explanation
Indices: 744873--744938 Score: 89
Period size: 18 Copynumber: 3.8 Consensus size: 17
744863 AAGTCATGCG
744873 ATATAAATATAATAAAGT
1 ATATAAATATAATAAA-T
*
744891 ATATAAATATAATAAAC
1 ATATAAATATAATAAAT
744908 ATAT-AATATAATAAAAT
1 ATATAAATATAAT-AAAT
*
744925 ATATGAATATAATA
1 ATATAAATATAATA
744939 TAAATATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
16 8 0.18
17 12 0.27
18 24 0.55
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATAAATATAATAAAT
Found at i:744917 original size:34 final size:34
Alignment explanation
Indices: 744873--744946 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
744863 AAGTCATGCG
*
744873 ATATAAATATAATAAAGTATATAAATATAATA-AA
1 ATAT-AATATAATAAAATATATAAATATAATATAA
*
744907 CATATAATATAATAAAATATATGAATATAATATAA
1 -ATATAATATAATAAAATATATAAATATAATATAA
744942 ATATA
1 ATATA
744947 TTAATTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 30 0.83
35 6 0.17
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (34 bp):
ATATAATATAATAAAATATATAAATATAATATAA
Found at i:744947 original size:8 final size:8
Alignment explanation
Indices: 744873--744947 Score: 62
Period size: 9 Copynumber: 8.5 Consensus size: 8
744863 AAGTCATGCG
744873 ATATAAAT
1 ATATAAAT
744881 ATAATAAAGT
1 AT-ATAAA-T
744891 ATATAAAT
1 ATATAAAT
*
744899 ATAATAAAC
1 AT-ATAAAT
744908 ATAT-AAT
1 ATATAAAT
744915 ATAATAAAAT
1 AT-AT-AAAT
744925 ATATGAATAT
1 ATAT-AA-AT
744935 AATATAAAT
1 -ATATAAAT
744944 ATAT
1 ATAT
744948 TAATTATTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
7 4 0.07
8 13 0.23
9 23 0.41
10 12 0.21
11 4 0.07
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (8 bp):
ATATAAAT
Found at i:747767 original size:20 final size:20
Alignment explanation
Indices: 747729--747767 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
747719 CAATCTTTCA
* * *
747729 TAAAAAGATTGATCTCTTTT
1 TAAAAAAATTAATCCCTTTT
747749 TAAAAAAATTAATCCCTTT
1 TAAAAAAATTAATCCCTTT
747768 AAAGAATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAAAAAATTAATCCCTTTT
Found at i:749132 original size:15 final size:15
Alignment explanation
Indices: 749114--749144 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
749104 AAAAAAAAAG
749114 AAAAAAAAAATTCTA
1 AAAAAAAAAATTCTA
749129 AAAAAAAAAATTCTA
1 AAAAAAAAAATTCTA
749144 A
1 A
749145 GTGTTTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAAAAAAATTCTA
Found at i:749909 original size:17 final size:18
Alignment explanation
Indices: 749876--749909 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
749866 AATTTTTTTA
749876 AAATTTTATAGTAATATC
1 AAATTTTATAGTAATATC
749894 AAATTTTATA-TAATAT
1 AAATTTTATAGTAATAT
749910 GAATTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
AAATTTTATAGTAATATC
Found at i:754430 original size:25 final size:26
Alignment explanation
Indices: 754393--754452 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
754383 AGTATTCATC
754393 TAAAAA-AATTATTTAAATATACTTG
1 TAAAAATAATTATTTAAATATACTTG
* * *
754418 TAAAAATAA-TATTTTAATATATTTT
1 TAAAAATAATTATTTAAATATACTTG
754443 TAAATAATAA
1 TAAA-AATAA
754453 AATAAACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 23 0.77
26 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAAAATAATTATTTAAATATACTTG
Found at i:754598 original size:3 final size:3
Alignment explanation
Indices: 754590--754634 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
754580 AAATTTTTAC
*
754590 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
754635 CGAGTTCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:757163 original size:15 final size:13
Alignment explanation
Indices: 757129--757175 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
757119 TATGATAAAA
757129 ATTTAATTATAAT
1 ATTTAATTATAAT
757142 ATTTAATTATAAT
1 ATTTAATTATAAT
757155 -TTT--TT-TAAT
1 ATTTAATTATAAT
*
757164 ATTAAATTATAA
1 ATTTAATTATAA
757176 ACTAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
9 4 0.14
10 4 0.14
12 5 0.17
13 16 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTAATTATAAT
Found at i:757606 original size:15 final size:16
Alignment explanation
Indices: 757586--757618 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
757576 AAATTAAATT
757586 TTAATTTAAA-TATTA
1 TTAATTTAAATTATTA
757601 TTAATTTAAATTATTA
1 TTAATTTAAATTATTA
757617 TT
1 TT
757619 TATATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATTTAAATTATTA
Found at i:757685 original size:17 final size:18
Alignment explanation
Indices: 757640--757685 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
757630 AATTTTTATT
757640 TATATTTT-ATAAAAATA
1 TATATTTTAATAAAAATA
**
757657 TATATTAAAATAAAAATA
1 TATATTTTAATAAAAATA
757675 -ATATTTTAATA
1 TATATTTTAATA
757686 TTTTTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATTTTAATAAAAATA
Found at i:758550 original size:17 final size:17
Alignment explanation
Indices: 758530--758570 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
758520 TTATTATATT
758530 AATTT-TTAAAAAAATAA
1 AATTTATTAAAAAAA-AA
*
758547 AATTTATTAAATAAAAA
1 AATTTATTAAAAAAAAA
758564 AATTTAT
1 AATTTAT
758571 GAACCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTTATTAAAAAAAAA
Found at i:759021 original size:16 final size:16
Alignment explanation
Indices: 758975--759021 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
758965 ATTAAATTTT
758975 TTTATTTTTATT-TAAA
1 TTTA-TTTTATTATAAA
*
758991 TTTAATTTAATTTATAAA
1 TTT-ATTTTA-TTATAAA
759009 TTTATTTTATTAT
1 TTTATTTTATTAT
759022 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 11 0.42
17 8 0.31
18 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTTTATTATAAA
Found at i:759024 original size:30 final size:30
Alignment explanation
Indices: 758994--759094 Score: 86
Period size: 30 Copynumber: 3.3 Consensus size: 30
758984 ATTTAAATTT
758994 AATTTAATTTATAAAT-TTATTTTATTATTTA
1 AATTTAATTTA-AAATATTATTTTATTA-TTA
*
759025 AA---AATATTAAAATATTATTTTTATAATTA
1 AATTTAAT-TTAAAATATTA-TTTTATTATTA
*
759054 AATTTAAATTAAAAATATT-TTTTATTAATTA
1 AATTT-AATTTAAAATATTATTTTATT-ATTA
759085 AATATTAATT
1 AAT-TTAATT
759095 CAAACTAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
28 7 0.12
29 11 0.19
30 13 0.22
31 13 0.22
32 11 0.19
33 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
AATTTAATTTAAAATATTATTTTATTATTA
Found at i:759026 original size:18 final size:19
Alignment explanation
Indices: 758982--759026 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
758972 TTTTTTATTT
758982 TTATTTAAATTTAATTTAA
1 TTATTTAAATTTAATTTAA
* *
759001 TT-TATAAATTT-ATTTTA
1 TTATTTAAATTTAATTTAA
759018 TTATTTAAA
1 TTATTTAAA
759027 AATATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.32
18 13 0.59
19 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTTAAATTTAATTTAA
Found at i:759390 original size:9 final size:9
Alignment explanation
Indices: 759376--759421 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
759366 TAAATACGAT
759376 ATAAATATA
1 ATAAATATA
759385 ATAAATAT-
1 ATAAATATA
759393 AT-AATATA
1 ATAAATATA
759401 ATAAA-ATA
1 ATAAATATA
759409 TATAAATATA
1 -ATAAATATA
759419 ATA
1 ATA
759422 TAAATATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 5 0.15
8 7 0.21
9 18 0.55
10 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAAATATA
Found at i:759428 original size:17 final size:17
Alignment explanation
Indices: 759374--759429 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
759364 AATAAATACG
759374 ATATAAATAT-A-ATAA
1 ATATAAATATAATATAA
*
759389 ATATATAATATAATAAAA
1 ATATA-AATATAATATAA
759407 TATATAAATATAATATAA
1 -ATATAAATATAATATAA
759425 ATATA
1 ATATA
759430 CTAATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 5 0.14
16 5 0.14
17 6 0.17
18 14 0.40
19 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAAATATAATATAA
Found at i:760070 original size:13 final size:13
Alignment explanation
Indices: 760048--760077 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
760038 TAAATTTTTT
*
760048 AATATTAATTAAA
1 AATATAAATTAAA
760061 AATATAAATTAAA
1 AATATAAATTAAA
760074 AATA
1 AATA
760078 AAAAATTTGA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATATAAATTAAA
Found at i:762238 original size:17 final size:18
Alignment explanation
Indices: 762204--762248 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
762194 CAATCCTTCA
762204 TAAAAAATTAACCACTTTT
1 TAAAAAATTAA-CACTTTT
*
762223 TAAAAAATTAA-TCTTTT
1 TAAAAAATTAACACTTTT
762240 TAAAAAATT
1 TAAAAAATT
762249 TATATGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.56
19 11 0.44
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAAAATTAACACTTTT
Found at i:762509 original size:18 final size:18
Alignment explanation
Indices: 762462--762512 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
762452 AATGATAAAC
762462 TATAAGTATAAA-T-ATT
1 TATAAGTATAAATTAATT
* *
762478 TTTATGTGATTAAATTAATT
1 TATAAGT-A-TAAATTAATT
762498 TATAAGTATAAATTA
1 TATAAGTATAAATTA
762513 TAATCGCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 11 0.41
19 2 0.07
20 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
TATAAGTATAAATTAATT
Found at i:762694 original size:24 final size:23
Alignment explanation
Indices: 762662--762707 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
762652 AAAGAAATTA
762662 TTATAAATATTAAATTTTAAAAT
1 TTATAAATATTAAATTTTAAAAT
**
762685 TTATCAAATATTATTTTTTAAAA
1 TTAT-AAATATTAAATTTTAAAA
762708 ATAATTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATAAATATTAAATTTTAAAAT
Found at i:764799 original size:18 final size:18
Alignment explanation
Indices: 764772--764810 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
764762 CAATTAAAAT
764772 TAAAAATAATAATAATAA
1 TAAAAATAATAATAATAA
* * *
764790 TAAAATTAATTATTATAA
1 TAAAAATAATAATAATAA
764808 TAA
1 TAA
764811 TGAAATTAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAATAATAATAATAA
Found at i:764828 original size:21 final size:21
Alignment explanation
Indices: 764783--764828 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
764773 AAAAATAATA
*
764783 ATAATAATAAAATTAATTATT
1 ATAATAATAAAATTAATTATC
*
764804 ATAATAATGAAATTAGA-TATC
1 ATAATAATAAAATTA-ATTATC
764825 ATAA
1 ATAA
764829 CGATGTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
ATAATAATAAAATTAATTATC
Found at i:765414 original size:12 final size:12
Alignment explanation
Indices: 765397--765463 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
765387 AATTTAAAAT
765397 TTTATATTATTA
1 TTTATATTATTA
*
765409 TTTATAATATT-
1 TTTATATTATTA
*
765420 TTTA-A--AAT-
1 TTTATATTATTA
765428 TTTAT-TTATTTA
1 TTTATATTA-TTA
765440 TTTATATTATTA
1 TTTATATTATTA
*
765452 TTTTTATTATTA
1 TTTATATTATTA
765464 AATAATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
8 6 0.13
10 2 0.04
11 5 0.11
12 29 0.64
13 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:765424 original size:31 final size:31
Alignment explanation
Indices: 765389--765450 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
765379 TTTGAATTAA
765389 TTTAAAATTTTATATTA-TTATTTATAATATT
1 TTTAAAATTTTAT-TTATTTATTTATAATATT
*
765420 TTTAAAATTTTATTTATTTATTTATATTATT
1 TTTAAAATTTTATTTATTTATTTATAATATT
765451 ATTTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTAAAATTTTATTTATTTATTTATAATATT
Found at i:767352 original size:25 final size:25
Alignment explanation
Indices: 767305--767352 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
767295 AAGTATATGT
* ** *
767305 AATTTTTTTACTTTGTATCAAATAA
1 AATTTTTTTAATTTAAATAAAATAA
767330 AATTTTTTTAATTTAAATAAAAT
1 AATTTTTTTAATTTAAATAAAAT
767353 GATAAAAGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (25 bp):
AATTTTTTTAATTTAAATAAAATAA
Found at i:767446 original size:20 final size:19
Alignment explanation
Indices: 767409--767481 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 19
767399 AAAAGGGACA
767409 ATATTTTT-TATTAATTTAGAT
1 ATATTTTTATATT--TTTA-AT
*
767430 ATATTTTTATATTTTTATT
1 ATATTTTTATATTTTTAAT
767449 AT-TATTTTAT-TTTTTAAAAT
1 ATAT-TTTTATATTTTT--AAT
*
767469 ATATATTTATATT
1 ATATTTTTATATT
767482 AAATATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
18 6 0.14
19 9 0.21
20 13 0.30
21 11 0.26
22 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (19 bp):
ATATTTTTATATTTTTAAT
Found at i:767499 original size:19 final size:17
Alignment explanation
Indices: 767465--767497 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
767455 TTATTTTTTA
767465 AAATATATATTTATATT
1 AAATATATATTTATATT
*
767482 AAATATATATTCATAT
1 AAATATATATTTATAT
767498 ATAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATATATATTTATATT
Found at i:767531 original size:19 final size:18
Alignment explanation
Indices: 767507--767557 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
767497 TATAATTTTT
*
767507 TTAATATCATTTAAATATA
1 TTAATAT-ATTTAAAAATA
*
767526 TTAATATTTTTTAAAAATA
1 TTAATA-TATTTAAAAATA
767545 TTAAATATATTTA
1 TT-AATATATTTA
767558 TATTAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATATATTTAAAAATA
Found at i:768714 original size:26 final size:26
Alignment explanation
Indices: 768685--768736 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
768675 AAAGAGATAA
* *
768685 AATTTAAATTTATTTAA-AAATTAAAT
1 AATTT-AATTAATATAATAAATTAAAT
768711 AATTTAATTAATATAATAAATTAAAT
1 AATTTAATTAATATAATAAATTAAAT
768737 TTATATTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTTAATTAATATAATAAATTAAAT
Found at i:768842 original size:22 final size:22
Alignment explanation
Indices: 768814--768896 Score: 66
Period size: 25 Copynumber: 3.8 Consensus size: 22
768804 ACTCATTTAA
768814 TAAAAAATTATTTAAATTTATT
1 TAAAAAATTATTTAAATTTATT
*
768836 TAAAAAATAATATTTTAATATTATT
1 TAAAAAAT--TATTTAAAT-TTATT
* *
768861 TAAATAA-TA---AAATTAATT
1 TAAAAAATTATTTAAATTTATT
*
768879 TATAAAATTAATTTAAAT
1 TAAAAAATT-ATTTAAAT
768897 GAAAATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
18 9 0.19
19 4 0.09
20 1 0.02
22 10 0.21
23 4 0.09
24 8 0.17
25 11 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAAAATTATTTAAATTTATT
Found at i:768852 original size:25 final size:25
Alignment explanation
Indices: 768808--768870 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
768798 AATTGTACTC
768808 ATTTAATAAAA-AATTATTTAA-ATTT
1 ATTTAA-AAAATAATTATTTAATA-TT
768833 ATTTAAAAAATAA-TATTTTAATATT
1 ATTTAAAAAATAATTA-TTTAATATT
*
768858 ATTTAAATAATAA
1 ATTTAAAAAATAA
768871 AATTAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 6 0.18
25 27 0.79
26 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTTAAAAAATAATTATTTAATATT
Found at i:768883 original size:13 final size:13
Alignment explanation
Indices: 768867--768893 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
768857 TATTTAAATA
768867 ATAAAATTAATTT
1 ATAAAATTAATTT
768880 ATAAAATTAATTT
1 ATAAAATTAATTT
768893 A
1 A
768894 AATGAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTAATTT
Found at i:768999 original size:18 final size:20
Alignment explanation
Indices: 768956--768997 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
768946 TTATAATATT
*
768956 TATAATTTTTTATTTTAAAA
1 TATAATTTTTTATTATAAAA
768976 TATAATTTTTTA-TATAATAA
1 TATAATTTTTTATTATAA-AA
768996 TA
1 TA
768998 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATAATTTTTTATTATAAAA
Found at i:769223 original size:21 final size:21
Alignment explanation
Indices: 769182--769223 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
769172 ATACATTAAA
*
769182 AATATATAAATTTATAATATT
1 AATATATAAATTGATAATATT
*
769203 AATATATTAAA-TGATATTATT
1 AATATA-TAAATTGATAATATT
769224 TTAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AATATATAAATTGATAATATT
Found at i:769236 original size:15 final size:15
Alignment explanation
Indices: 769218--769264 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 15
769208 ATTAAATGAT
769218 ATTATTTTAATAAAA
1 ATTATTTTAATAAAA
769233 ATTA-TTT-AT-AAA
1 ATTATTTTAATAAAA
769245 ATT-TTTTAATAAAA
1 ATTATTTTAATAAAA
*
769259 AATATT
1 ATTATT
769265 ATTTAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
12 9 0.33
13 4 0.15
14 8 0.30
15 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATTTTAATAAAA
Done.