Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007799.1 Hibiscus syriacus cultivar Beakdansim tig00110109_pilon, whole genome shotgun sequence
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: 1433344
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:547380 original size:21 final size:21
Alignment explanation
Indices: 547355--547402 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
547345 ATTTTGTTAG
547355 TATTTTATTTAATTATTTAAT
1 TATTTTATTTAATTATTTAAT
547376 TATTTTATTTAATTATTTAAT
1 TATTTTATTTAATTATTTAAT
*
547397 TTTTTT
1 TATTTT
547403 GCAGTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTTTATTTAATTATTTAAT
Found at i:547383 original size:13 final size:13
Alignment explanation
Indices: 547367--547398 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
547357 TTTTATTTAA
547367 TTATTTAATTATT
1 TTATTTAATTATT
547380 TTATTTAATTATT
1 TTATTTAATTATT
*
547393 TAATTT
1 TTATTT
547399 TTTTGCAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTAATTATT
Found at i:549681 original size:3 final size:3
Alignment explanation
Indices: 549673--549725 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
549663 GTGCTCGTTA
* * * * * *
549673 CAT CAT CAT CGT CGT CAT CAT CAC CAT AAT CAT CAT CAT CAT CTT CTT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
549721 CAT CA
1 CAT CA
549726 GAGTAAAGCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.28, C:0.34, G:0.04, T:0.34
Consensus pattern (3 bp):
CAT
Found at i:552676 original size:20 final size:20
Alignment explanation
Indices: 552651--552690 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
552641 ATGTGAGATT
552651 CACTCATTAACAATCTAATC
1 CACTCATTAACAATCTAATC
*
552671 CACTCATTAGCAATCTAATC
1 CACTCATTAACAATCTAATC
552691 AGGTGATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.30
Consensus pattern (20 bp):
CACTCATTAACAATCTAATC
Found at i:558787 original size:16 final size:15
Alignment explanation
Indices: 558766--558801 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
558756 GGGCAAATCC
558766 GGGTACCTAGATTTTT
1 GGGTA-CTAGATTTTT
*
558782 GGGTACTCGATTTTT
1 GGGTACTAGATTTTT
558797 GGGTA
1 GGGTA
558802 TTCGGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.42
Consensus pattern (15 bp):
GGGTACTAGATTTTT
Found at i:558795 original size:15 final size:16
Alignment explanation
Indices: 558775--558815 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
558765 CGGGTACCTA
558775 GATTTTTGGGTACTC-
1 GATTTTTGGGTACTCG
*
558790 GATTTTTGGGTATTCG
1 GATTTTTGGGTACTCG
558806 GAATTTTTGG
1 G-ATTTTTGG
558816 ATCGACGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 1 0.04
17 8 0.35
ACGTcount: A:0.15, C:0.07, G:0.29, T:0.49
Consensus pattern (16 bp):
GATTTTTGGGTACTCG
Found at i:559484 original size:23 final size:23
Alignment explanation
Indices: 559457--559530 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
559447 TACATATTCT
*
559457 ATTTTAATTATATTATATTTAAA
1 ATTTTAATTATATTATATTTAAC
*
559480 ATTTTAATTA-ATTTATAATTATAC
1 ATTTTAATTATA-TTATATTTA-AC
559504 A-TTTAA-TAT-TTATAATTTAAC
1 ATTTTAATTATATTAT-ATTTAAC
559525 ATTTTA
1 ATTTTA
559531 TAAATTATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
21 7 0.16
22 11 0.26
23 23 0.53
24 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTAATTATATTATATTTAAC
Found at i:560673 original size:29 final size:28
Alignment explanation
Indices: 560630--560696 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
560620 CTAATACCCA
* *
560630 AGTGAT-AAAATAAAATAATTCAAAATTG
1 AGTGATCAAAATAAAAAAATT-AAAATTC
* *
560658 AGTGATCAAATTAAAAAAATTAAACTTC
1 AGTGATCAAAATAAAAAAATTAAAATTC
*
560686 AGTTATCAAAA
1 AGTGATCAAAA
560697 CAAGAATATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 20 0.62
29 12 0.38
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.28
Consensus pattern (28 bp):
AGTGATCAAAATAAAAAAATTAAAATTC
Found at i:563790 original size:13 final size:13
Alignment explanation
Indices: 563753--563792 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
563743 TCGATATTGA
563753 AAAATAAATA-TT
1 AAAATAAATATTT
*
563765 AAAATAATTTATTT
1 AAAATAA-ATATTT
563779 AAAATAAATATTT
1 AAAATAAATATTT
563792 A
1 A
563793 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:563793 original size:17 final size:17
Alignment explanation
Indices: 563766--563810 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
563756 ATAAATATTA
563766 AAATAATTTATTTAAAAT
1 AAAT-ATTTATTTAAAAT
**
563784 AAATATTTATTTATTAT
1 AAATATTTATTTAAAAT
*
563801 ATATATTTAT
1 AAATATTTAT
563811 GACTACATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATTTATTTAAAAT
Found at i:565044 original size:16 final size:16
Alignment explanation
Indices: 565023--565053 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
565013 ACCGTTGGCT
565023 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
565039 GAGGCGGCTGGAGGC
1 GAGGCGGCTGGAGGC
565054 GGCTGGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.58, T:0.06
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:565187 original size:3 final size:3
Alignment explanation
Indices: 565179--565244 Score: 96
Period size: 3 Copynumber: 22.0 Consensus size: 3
565169 TTAATGTATT
* * *
565179 TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
565227 TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA
565245 ATCAAAATGG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:568534 original size:59 final size:59
Alignment explanation
Indices: 568439--568556 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
568429 AATCAAATAT
*
568439 CATATTGTTACCAAGTGAATTAAAATTACAATATGCAAACATATTATTACAGCTAAGTA
1 CATATTGTTACCAAGTGAATTAAAATTACAACATGCAAACATATTATTACAGCTAAGTA
*
568498 CATATTGTTACCAAGTGGATTAAAATTACAACATGCAAACATATTATTACAGCTAAGTA
1 CATATTGTTACCAAGTGAATTAAAATTACAACATGCAAACATATTATTACAGCTAAGTA
568557 ATTATTCCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (59 bp):
CATATTGTTACCAAGTGAATTAAAATTACAACATGCAAACATATTATTACAGCTAAGTA
Found at i:571511 original size:17 final size:16
Alignment explanation
Indices: 571481--571517 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
571471 AAATTTATAA
571481 AATTATAAAAATATTT
1 AATTATAAAAATATTT
*
571497 AATTAATAAATATATTT
1 AATT-ATAAAAATATTT
571514 AATT
1 AATT
571518 TATATGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTATAAAAATATTT
Found at i:572398 original size:22 final size:21
Alignment explanation
Indices: 572372--572413 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
572362 ATTTATAAAT
*
572372 ATTTATATATAATTTCATTAAG
1 ATTTATATATAAATT-ATTAAG
572394 ATTTATATATAAATTATTAA
1 ATTTATATATAAATTATTAA
572414 CACGAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTTATATATAAATTATTAAG
Found at i:573064 original size:2 final size:2
Alignment explanation
Indices: 573057--573094 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
573047 CCTTAATGAT
573057 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
573095 AAACAAAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:577174 original size:16 final size:16
Alignment explanation
Indices: 577136--577197 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
577126 TTATTTATGA
577136 TATTTTTATTTAATTT
1 TATTTTTATTTAATTT
*
577152 TAATTTTATTTATATTT
1 TATTTTTATTTA-ATTT
*
577169 T-TTTTTGAAAATTAATTT
1 TATTTTT---ATTTAATTT
*
577187 TATTTATATTT
1 TATTTTTATTT
577198 GATTGTGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
16 18 0.50
17 5 0.14
18 5 0.14
19 8 0.22
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTTTATTTAATTT
Found at i:577183 original size:29 final size:29
Alignment explanation
Indices: 577125--577197 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 29
577115 CAAATATATA
**
577125 TTTATTTATGATATTTTTATTTAATTTTAAT
1 TTTATTTAT-AT-TTTTTATTTAAAATTAAT
577156 TTTATTTATATTTTTT-TTTGAAAATTAAT
1 TTTATTTATATTTTTTATTT-AAAATTAAT
577185 TTTATTTATATTT
1 TTTATTTATATTT
577198 GATTGTGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 3 0.08
29 25 0.64
30 2 0.05
31 9 0.23
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTATTTATATTTTTTATTTAAAATTAAT
Found at i:591443 original size:14 final size:15
Alignment explanation
Indices: 591424--591453 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
591414 TCCAAATTTC
591424 TATATTTTA-TATAT
1 TATATTTTATTATAT
591438 TATATTTTATTATAT
1 TATATTTTATTATAT
591453 T
1 T
591454 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATTTTATTATAT
Found at i:599693 original size:2 final size:2
Alignment explanation
Indices: 599686--599727 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
599676 CCATCAAGAA
599686 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
599728 TATGTGTGTG
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:603844 original size:21 final size:22
Alignment explanation
Indices: 603794--603843 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
603784 TTACAAATAT
603794 AAAAAAATCAGAAAAAATACAA
1 AAAAAAATCAGAAAAAATACAA
*
603816 AAAAAAATCCA-AAAAATTACAA
1 AAAAAAAT-CAGAAAAAATACAA
603838 AAAAAA
1 AAAAAA
603844 TAATATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.78, C:0.10, G:0.02, T:0.10
Consensus pattern (22 bp):
AAAAAAATCAGAAAAAATACAA
Found at i:603880 original size:25 final size:27
Alignment explanation
Indices: 603852--603904 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
603842 AATAATATGA
*
603852 TTATTTA-TTTA-ATTTTAATATATTT
1 TTATTTATTTTATAATTTAATATATTT
603877 TTATTTATTTTATAATTTAATATATTT
1 TTATTTATTTTATAATTTAATATATTT
603904 T
1 T
603905 AAGTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.28
26 4 0.16
27 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTATTTATTTTATAATTTAATATATTT
Found at i:603881 original size:21 final size:22
Alignment explanation
Indices: 603844--603888 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
603834 ACAAAAAAAA
603844 TAATATGATTATTTATTTAATTT
1 TAATATGATTATTTATTT-ATTT
603867 TAATAT-ATT-TTTATTTATTT
1 TAATATGATTATTTATTTATTT
603887 TA
1 TA
603889 TAATTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 3 0.14
23 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TAATATGATTATTTATTTATTT
Found at i:604624 original size:32 final size:33
Alignment explanation
Indices: 604581--604654 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
604571 TTAATACTCG
* *
604581 TTATTAAGGGTT-TATTTTTTTCT-CGATATTTA
1 TTATTAAGGGTTCAATTTTTTT-TACAATATTTA
* *
604613 TTATTATGGGTTCAATTTTTTTTATAATATTTA
1 TTATTAAGGGTTCAATTTTTTTTACAATATTTA
604646 TTATTAAGG
1 TTATTAAGG
604655 ACTTACTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 12 0.34
33 23 0.66
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (33 bp):
TTATTAAGGGTTCAATTTTTTTTACAATATTTA
Found at i:606711 original size:18 final size:18
Alignment explanation
Indices: 606688--606723 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
606678 CAAGTATGAT
* *
606688 TTTATGGTGTATTTTATA
1 TTTATGATGTATTCTATA
606706 TTTATGATGTATTCTATA
1 TTTATGATGTATTCTATA
606724 CAAGTATCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (18 bp):
TTTATGATGTATTCTATA
Found at i:614618 original size:2 final size:2
Alignment explanation
Indices: 614611--614638 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
614601 ATCGATGCCT
614611 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
614639 GTCTGTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:614972 original size:18 final size:18
Alignment explanation
Indices: 614949--614984 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
614939 AGGAAAAGAG
614949 TACCTCAATTTATTAATA
1 TACCTCAATTTATTAATA
614967 TACCTCAATTTATTAATA
1 TACCTCAATTTATTAATA
614985 CCCCAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (18 bp):
TACCTCAATTTATTAATA
Found at i:618408 original size:12 final size:12
Alignment explanation
Indices: 618391--618420 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
618381 CCTCTTTTAT
*
618391 TAATAACAATGA
1 TAATAACAATAA
618403 TAATAACAATAA
1 TAATAACAATAA
618415 TAATAA
1 TAATAA
618421 ATAGTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (12 bp):
TAATAACAATAA
Found at i:621556 original size:2 final size:2
Alignment explanation
Indices: 621551--621594 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
621541 ATATATATAT
* * * *
621551 AG AG AG AG AG AG AT AT AG AG AG AG AG AG AT AT AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
621593 AG
1 AG
621595 GAAAGCTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.41, T:0.09
Consensus pattern (2 bp):
AG
Found at i:621568 original size:16 final size:16
Alignment explanation
Indices: 621547--621594 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
621537 AGGGATATAT
621547 ATATAGAGAGAGAGAG
1 ATATAGAGAGAGAGAG
621563 ATATAGAGAGAGAGAG
1 ATATAGAGAGAGAGAG
621579 ATATAGAGAGAGAGAG
1 ATATAGAGAGAGAGAG
621595 GAAAGCTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.38, T:0.12
Consensus pattern (16 bp):
ATATAGAGAGAGAGAG
Found at i:622602 original size:31 final size:32
Alignment explanation
Indices: 622557--622630 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
622547 TCAATTAATA
** *
622557 ACATGACATTTATCACATCATCATTTTG-GTG
1 ACATGACACATATCACATCATCACTTTGTGTG
** **
622588 ATGTGACACATATCATGTCATCACTTTGTGTG
1 ACATGACACATATCACATCATCACTTTGTGTG
622620 ACATGACACAT
1 ACATGACACAT
622631 GTCATCATTT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (32 bp):
ACATGACACATATCACATCATCACTTTGTGTG
Found at i:622654 original size:27 final size:27
Alignment explanation
Indices: 622601--622662 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
622591 TGACACATAT
* *
622601 CATGTCATCACTTTGTGTGACATGACA
1 CATGTCATCACTTTGTATGACAGGACA
*
622628 CATGTCATCATTTTGTATGACAGGACA
1 CATGTCATCACTTTGTATGACAGGACA
622655 CAATGTCA
1 C-ATGTCA
622663 CATCATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (27 bp):
CATGTCATCACTTTGTATGACAGGACA
Found at i:625478 original size:12 final size:12
Alignment explanation
Indices: 625461--625485 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
625451 AACTATATAA
625461 CGTTCACACAAT
1 CGTTCACACAAT
625473 CGTTCACACAAT
1 CGTTCACACAAT
625485 C
1 C
625486 ATATAATCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (12 bp):
CGTTCACACAAT
Found at i:629631 original size:147 final size:147
Alignment explanation
Indices: 629459--629910 Score: 897
Period size: 147 Copynumber: 3.1 Consensus size: 147
629449 AGACCACCAT
629459 TACTT-CTATCAACTTCCACAACAACTCTACTTCTATCCTTTCTTTGTTTCATTTCATTTTCATT
1 TACTTGCTATCAACTTCCACAACAACTCTACTTCTATCCTTTCTTTGTTTCATTTCATTTTCATT
629523 TCCATTCTATCATTATTTATCATGTACTAATCATATTTCATTATTTTCTTATTTGCAATCATACT
66 TCCATTCTATCATTATTTATCATGTACTAATCATATTTCATTATTTTCTTATTTGCAATCATACT
629588 TATCAATTCAGGGGCAA
131 TATCAATTCAGGGGCAA
629605 TACTTGCTATCAACTTCCACAACAACTCTACTTCTATCCTTTCTTTGTTTCATTTCATTTTCATT
1 TACTTGCTATCAACTTCCACAACAACTCTACTTCTATCCTTTCTTTGTTTCATTTCATTTTCATT
629670 TCCATTCTATCATTATTTATCATGTACTAATCATATTTCATTATTTTCTTATTTGCAATCATACT
66 TCCATTCTATCATTATTTATCATGTACTAATCATATTTCATTATTTTCTTATTTGCAATCATACT
629735 TATCAATTCAGGGGCAA
131 TATCAATTCAGGGGCAA
629752 TACTTGCTATCAACTTCCACAACAACTCTACTTCTATCCTTTCTTTGTTTCATTTCATTTTCATT
1 TACTTGCTATCAACTTCCACAACAACTCTACTTCTATCCTTTCTTTGTTTCATTTCATTTTCATT
629817 TCCATTCTATCATTATTTATCATGTACTAATCATATTTCATTATTTTCTTATTTGCAATCATACT
66 TCCATTCTATCATTATTTATCATGTACTAATCATATTTCATTATTTTCTTATTTGCAATCATACT
629882 TATCAATTCAGGGGCAA
131 TATCAATTCAGGGGCAA
629899 TACTTGCTATCA
1 TACTTGCTATCA
629911 TTTCCTAAGC
Statistics
Matches: 305, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
146 5 0.02
147 300 0.98
ACGTcount: A:0.26, C:0.23, G:0.05, T:0.46
Consensus pattern (147 bp):
TACTTGCTATCAACTTCCACAACAACTCTACTTCTATCCTTTCTTTGTTTCATTTCATTTTCATT
TCCATTCTATCATTATTTATCATGTACTAATCATATTTCATTATTTTCTTATTTGCAATCATACT
TATCAATTCAGGGGCAA
Found at i:631168 original size:21 final size:22
Alignment explanation
Indices: 631130--631173 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
631120 ATAGTTTACC
*
631130 AAATTAAAAATAATATA-TATA
1 AAATTAAAAATAAAATATTATA
**
631151 AAATTAAAGTTAAAATATTATA
1 AAATTAAAAATAAAATATTATA
631173 A
1 A
631174 GCTAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTAAAAATAAAATATTATA
Found at i:631265 original size:2 final size:2
Alignment explanation
Indices: 631258--631307 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
631248 TTAAATGTTA
631258 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
631300 AT AT AT AT
1 AT AT AT AT
631308 TCATGATAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:639999 original size:15 final size:16
Alignment explanation
Indices: 639976--640018 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
639966 TATGGTTTTG
639976 ATTTGAAATTTTTTAT-
1 ATTT-AAATTTTTTATA
639992 ATTTAAA-TTTTTATA
1 ATTTAAATTTTTTATA
*
640007 ATTTAACTTTTT
1 ATTTAAATTTTT
640019 GTAAATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.29
15 9 0.38
16 8 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTAAATTTTTTATA
Found at i:640997 original size:10 final size:10
Alignment explanation
Indices: 640982--641050 Score: 61
Period size: 10 Copynumber: 6.7 Consensus size: 10
640972 TAAAATTTTA
*
640982 AATAAAATAT
1 AATAAATTAT
640992 AATAAATTA-
1 AATAAATTAT
*
641001 AATTAAATTTTT
1 AA-TAAA-TTAT
*
641013 AAATAAAATAT
1 -AATAAATTAT
641024 AATAAATTA-
1 AATAAATTAT
641033 AATTAAATTAT
1 AA-TAAATTAT
641044 AATAAAT
1 AATAAAT
641051 AAATTAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
9 4 0.08
10 32 0.67
11 6 0.12
12 4 0.08
13 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AATAAATTAT
Found at i:640999 original size:27 final size:27
Alignment explanation
Indices: 640968--641059 Score: 93
Period size: 32 Copynumber: 3.3 Consensus size: 27
640958 CGAGATAAAA
640968 AAATTAAAATTTTAAATAAAATATAAT
1 AAATTAAAATTTTAAATAAAATATAAT
640995 AAATTAAATTAAATTTTTAAATAAAATATAAT
1 AAATT--A--AAA-TTTTAAATAAAATATAAT
*
641027 AAATT-AAA--TTAAATTATAATA-AAT
1 AAATTAAAATTTTAAA-TAAAATATAAT
641051 AAATTAAAA
1 AAATTAAAA
641060 ATATAACTCT
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
24 13 0.23
25 9 0.16
27 8 0.14
29 1 0.02
31 3 0.05
32 23 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
AAATTAAAATTTTAAATAAAATATAAT
Found at i:641001 original size:19 final size:19
Alignment explanation
Indices: 640979--641065 Score: 80
Period size: 19 Copynumber: 4.8 Consensus size: 19
640969 AATTAAAATT
640979 TTAAATAAAATATAATAAA
1 TTAAATAAAATATAATAAA
*
640998 TTAAATTAAAT-T--T---
1 TTAAATAAAATATAATAAA
641011 TTAAATAAAATATAATAAA
1 TTAAATAAAATATAATAAA
*
641030 TTAAATTAAATTATAATAAA
1 TTAAA-TAAAATATAATAAA
641050 -TAAATTAAAAATATAA
1 TTAAA-T-AAAATATAA
641066 CTCTCATCGT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
13 10 0.18
14 1 0.02
16 2 0.04
18 1 0.02
19 21 0.38
20 21 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAATAAAATATAATAAA
Found at i:641040 original size:32 final size:32
Alignment explanation
Indices: 640968--641041 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
640958 CGAGATAAAA
*
640968 AAATTAAAATTTTAAATAAAATATAATAAATT
1 AAATTAAATTTTTAAATAAAATATAATAAATT
641000 AAATTAAATTTTTAAATAAAATATAATAAATT
1 AAATTAAATTTTTAAATAAAATATAATAAATT
641032 AAATTAAATT
1 AAATTAAATT
641042 ATAATAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATTAAATTTTTAAATAAAATATAATAAATT
Found at i:645366 original size:12 final size:13
Alignment explanation
Indices: 645340--645371 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
645330 TTTAGTATTA
645340 AATTAAAAACATT
1 AATTAAAAACATT
645353 AATTAAAAAC-TT
1 AATTAAAAACATT
645365 AATTAAA
1 AATTAAA
645372 TTATATCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAAAAACATT
Found at i:646540 original size:26 final size:27
Alignment explanation
Indices: 646511--646576 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
646501 TTTTAAGAAC
* * *
646511 ATTTATATATATATAAATA-ATATAAA
1 ATTTATAAATAAATAAATATAAATAAA
*
646537 ATTTTTAAATAAATAAATATAAATAAA
1 ATTTATAAATAAATAAATATAAATAAA
646564 ATTT-TAAAATAAA
1 ATTTAT-AAATAAA
646577 CATAATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
ATTTATAAATAAATAAATATAAATAAA
Found at i:646566 original size:27 final size:26
Alignment explanation
Indices: 646523--646576 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
646513 TTATATATAT
* *
646523 ATAAATAATATAAAATTTTTAAATAA
1 ATAAATAAAATAAAATTTTAAAATAA
646549 ATAAATATAAATAAAATTTTAAAATAA
1 ATAAATA-AAATAAAATTTTAAAATAA
646576 A
1 A
646577 CATAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAAATAAAATAAAATTTTAAAATAA
Found at i:646587 original size:26 final size:27
Alignment explanation
Indices: 646527--646591 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
646517 ATATATATAA
* *
646527 ATAATATAAAATTTTTAAATAAATAAAT
1 ATAA-ATAAAATTTTAAAATAAACAAAT
646555 ATAAATAAAATTTTAAAATAAACATAAT
1 ATAAATAAAATTTTAAAATAAACA-AAT
646583 -T-AATAAAAT
1 ATAAATAAAAT
646592 AAATAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.24
27 19 0.56
28 7 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
ATAAATAAAATTTTAAAATAAACAAAT
Found at i:646599 original size:16 final size:18
Alignment explanation
Indices: 646568--646602 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
646558 AATAAAATTT
646568 TAAAATAAACATAATTAA
1 TAAAATAAACATAATTAA
646586 TAAAAT-AA-ATAATTAA
1 TAAAATAAACATAATTAA
646602 T
1 T
646603 CGAGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATAAACATAATTAA
Found at i:653229 original size:31 final size:31
Alignment explanation
Indices: 653177--653259 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
653167 AGTAAAGTAT
653177 ATCAGATAAAATTAATTTTTATTTTA-TTTC
1 ATCAGATAAAATTAATTTTTATTTTATTTTC
*
653207 ATCAGATAAATTTAGATTTTTATTTTATTTTC
1 ATCAGATAAAATTA-ATTTTTATTTTATTTTC
653239 ATCAGATAAAATTAATTTTTA
1 ATCAGATAAAATTAATTTTTA
653260 AAAAATGAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
30 13 0.27
31 19 0.39
32 17 0.35
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (31 bp):
ATCAGATAAAATTAATTTTTATTTTATTTTC
Found at i:660900 original size:34 final size:34
Alignment explanation
Indices: 660841--660907 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
660831 TTCTTGAGAG
*
660841 TTGTTTTCTCCTTTTTATCA-AGAGAGAGTTGTTA
1 TTGTTTTCTCCTTTTGATCAGAGAGA-AGTTGTTA
660875 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
660908 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 13 0.45
35 8 0.28
36 8 0.28
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:669363 original size:2 final size:2
Alignment explanation
Indices: 669356--669387 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
669346 GCATACATAC
669356 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
669388 GAAAGACCAG
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):
AT
Found at i:672524 original size:2 final size:2
Alignment explanation
Indices: 672517--672565 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
672507 GAGTTAGAAT
672517 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
672557 TA TA TA TA T
1 TA TA TA TA T
672566 TAGTATGATC
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:674524 original size:60 final size:61
Alignment explanation
Indices: 674454--674586 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 61
674444 AATACACTAA
* * * ** *
674454 ATAGTTGAGTGAACATTTTGTAACTTTTAATAGTCGGGAGACTCAACAAAGTAAT-ACCCT
1 ATAGTCGAGTGAACATTTTATAACTTTTAATAATCAAGAGACTCAACAAAATAATCACCCT
* * * *
674514 ATAGTCGAGTGACCATTTTATAACTTTTAATAATCAAGAGACTTAACAAAATCATCATCCT
1 ATAGTCGAGTGAACATTTTATAACTTTTAATAATCAAGAGACTCAACAAAATAATCACCCT
*
674575 ATAGTCGGGTGA
1 ATAGTCGAGTGA
674587 TTATTTGTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 46 0.75
61 15 0.25
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (61 bp):
ATAGTCGAGTGAACATTTTATAACTTTTAATAATCAAGAGACTCAACAAAATAATCACCCT
Found at i:674828 original size:15 final size:15
Alignment explanation
Indices: 674776--674829 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
674766 TATATTTATA
674776 TAAATTTTAATATATT
1 TAAA-TTTAATATATT
* *
674792 AAAAGTT--TATATT
1 TAAATTTAATATATT
674805 TATAA-TTAATATATT
1 TA-AATTTAATATATT
674820 TAAATTTAAT
1 TAAATTTAAT
674830 CGTTATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
13 9 0.29
14 4 0.13
15 15 0.48
16 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TAAATTTAATATATT
Found at i:679376 original size:5 final size:5
Alignment explanation
Indices: 679366--679398 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
679356 TAAAATTTTC
679366 AAATT AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAA
679399 AATATAACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:682279 original size:19 final size:20
Alignment explanation
Indices: 682255--682292 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
682245 TTTTTAATTT
682255 AATTT-ATTTATAAA-ATTAA
1 AATTTAATTT-TAAATATTAA
682274 AATTTAATTTTAAATATTA
1 AATTTAATTTTAAATATTA
682293 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTAATTTTAAATATTAA
Found at i:692608 original size:21 final size:21
Alignment explanation
Indices: 692536--692609 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
692526 TGTTAAATAT
*
692536 TTTATATTTATTTTTAATTCAA
1 TTTATTTTTATTTTTAATT-AA
* *
692558 TTTTATATATTAATTTTGAGATT-A
1 -TTTAT-T-TTTATTTTTA-ATTAA
692582 TATTATTTTTATTTTTAATTAA
1 T-TTATTTTTATTTTTAATTAA
692604 TTTATT
1 TTTATT
692610 GTATCTTGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
21 8 0.20
22 10 0.24
23 7 0.17
24 5 0.12
25 8 0.20
26 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTATTTTTATTTTTAATTAA
Found at i:697168 original size:33 final size:33
Alignment explanation
Indices: 697131--697234 Score: 165
Period size: 33 Copynumber: 3.2 Consensus size: 33
697121 ATACATGTCC
* *
697131 GATCATCGAACTTGTAGTTCTATCCGAGGGTAT
1 GATCATCGGACTTGTAGTTCCATCCGAGGGTAT
*
697164 GATCATCGGACTTGTAGTTCCATCGGAGGGTAT
1 GATCATCGGACTTGTAGTTCCATCCGAGGGTAT
*
697197 GATCATCGGACTTGTAGTTCCGTCCGAGGGTAT
1 GATCATCGGACTTGTAGTTCCATCCGAGGGTAT
697230 G-TCAT
1 GATCAT
697235 TAGCTACTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
32 4 0.06
33 62 0.94
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (33 bp):
GATCATCGGACTTGTAGTTCCATCCGAGGGTAT
Found at i:697189 original size:17 final size:17
Alignment explanation
Indices: 697167--697217 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
697157 AGGGTATGAT
697167 CATCGGACTTGTAGTTC
1 CATCGGACTTGTAGTTC
** *
697184 CATCGGA-GGGTATGAT-
1 CATCGGACTTGTA-GTTC
697200 CATCGGACTTGTAGTTC
1 CATCGGACTTGTAGTTC
697217 C
1 C
697218 GTCCGAGGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (17 bp):
CATCGGACTTGTAGTTC
Found at i:697205 original size:16 final size:16
Alignment explanation
Indices: 697156--697206 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
697146 AGTTCTATCC
697156 GAGGGTATGATCATCG
1 GAGGGTATGATCATCG
** *
697172 GACTTGTA-GTTCCATCG
1 GA-GGGTATGAT-CATCG
697189 GAGGGTATGATCATCG
1 GAGGGTATGATCATCG
697205 GA
1 GA
697207 CTTGTAGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (16 bp):
GAGGGTATGATCATCG
Found at i:699929 original size:78 final size:78
Alignment explanation
Indices: 699692--700082 Score: 318
Period size: 78 Copynumber: 5.1 Consensus size: 78
699682 AGATTGGTCC
* * *
699692 GAACCAGAAGAAGGATTCGTTCTCTGATGTTGAAAGCATAATCATTGAAAGCCCTGAATCAACCC
1 GAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCC
*
699757 CAGATATTAGTTT
66 CAGAGATTAGTTT
* * * **** * * * * *
699770 GAACC------AGGTCTCATTCTCTGATGTTAAAAGTGCCATTATGGAAGACAC-CAAGCCGAA-
1 GAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAA-TC-AAC
* * * **
699827 ACCGGAGATTGGTCC
64 CCCAGAGATTAGTTT
699842 GAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCC
1 GAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCC
699907 CAGAGATTAGTTT
66 CAGAGATTAGTTT
* * * ** ** * ** ** * * **
699920 GAACC---AGAAGGTCTCATTCTCTGATGTTAAAAGTGTCGTTACAGAAGATACCGAGTCAAAGC
1 GAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCC
* * **
699982 CGGAGATTGGTCG
66 CAGAGATTAGTTT
699995 GAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCC
1 GAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCC
700060 CAGAGATTAGTTT
66 CAGAGATTAGTTT
700073 GAACCAGAAG
1 GAACCAGAAG
700083 GTCTCATTCT
Statistics
Matches: 222, Mismatches: 78, Indels: 26
0.68 0.24 0.08
Matches are distributed among these distances:
71 2 0.01
72 45 0.20
73 2 0.01
75 55 0.25
77 2 0.01
78 114 0.51
79 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCC
CAGAGATTAGTTT
Found at i:699988 original size:75 final size:75
Alignment explanation
Indices: 699762--700142 Score: 246
Period size: 78 Copynumber: 5.0 Consensus size: 75
699752 AACCCCAGAT
* ** * * *
699762 ATTAGTTTGAACC---AGGTCTCATTCTCTGATGTTAAAAGTGCCATTATGGAAGACACCAAGCC
1 ATTAGTTTGAACCAGAAGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTC
*
699824 GAAACCGGAG
66 AAAACCGGAG
* ** * * * ** * * ** ** *
699834 ATTGGTCCGAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGA
1 ATTAGTTTGAACC---AGAAGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGA
* ** *
699899 ATCAACCCCAGAG
63 GTCAAAACCGGAG
*
699912 ATTAGTTTGAACCAGAAGGTCTCATTCTCTGATGTTAAAAGTGTCGTTACAGAAGATACCGAGTC
1 ATTAGTTTGAACCAGAAGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTC
*
699977 AAAGCCGGAG
66 AAAACCGGAG
* ** * * * ** * * ** ** *
699987 ATTGGTCGGAACCAGAAGAAGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGA
1 ATTAGTTTGAACC---AGAAGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGA
* ** *
700052 ATCAACCCCAGAG
63 GTCAAAACCGGAG
*
700065 ATTAGTTTGAACCAGAAGGTCTCATTCTCTGATGTTAAAAGTGTCATTAGAGAAGATACCGAGTC
1 ATTAGTTTGAACCAGAAGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTC
*
700130 AAAATCGGAG
66 AAAACCGGAG
700140 ATT
1 ATT
700143 TTTTCCAACC
Statistics
Matches: 219, Mismatches: 81, Indels: 15
0.70 0.26 0.05
Matches are distributed among these distances:
72 10 0.05
75 103 0.47
78 106 0.48
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (75 bp):
ATTAGTTTGAACCAGAAGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTC
AAAACCGGAG
Found at i:700019 original size:153 final size:153
Alignment explanation
Indices: 699660--700185 Score: 808
Period size: 153 Copynumber: 3.5 Consensus size: 153
699650 CATAGCCATG
** *
699660 GAAGATAATGAGTCAAAACCGGAGATTGGTCCGAACCAGAAGAAGGATTCGTTCTCTGATGTTGA
1 GAAGATACCGAGTCAAAACCGGAGATTGGTCCGAACCAGAAGAAGGTTTCGTTCTCTGATGTTGA
* * *
699725 AAGCATAATCATTGAAAGCCCTGAATCAACCCCAGATATTAGTTTGAACC---AGGTCTCATTCT
66 AAGCATAATCATTGAAGGCACTGAATCAACCCCAGAGATTAGTTTGAACCAGAAGGTCTCATTCT
* **
699787 CTGATGTTAAAAGTGCCATTATG
131 CTGATGTTAAAAGTGTCATTACA
* * * *
699810 GAAGACACCAAGCCGAAACCGGAGATTGGTCCGAACCAGAAGAAGGTTTCGTTCTCTGATGTTGA
1 GAAGATACCGAGTCAAAACCGGAGATTGGTCCGAACCAGAAGAAGGTTTCGTTCTCTGATGTTGA
699875 AAGCATAATCATTGAAGGCACTGAATCAACCCCAGAGATTAGTTTGAACCAGAAGGTCTCATTCT
66 AAGCATAATCATTGAAGGCACTGAATCAACCCCAGAGATTAGTTTGAACCAGAAGGTCTCATTCT
*
699940 CTGATGTTAAAAGTGTCGTTACA
131 CTGATGTTAAAAGTGTCATTACA
* *
699963 GAAGATACCGAGTCAAAGCCGGAGATTGGTCGGAACCAGAAGAAGGTTTCGTTCTCTGATGTTGA
1 GAAGATACCGAGTCAAAACCGGAGATTGGTCCGAACCAGAAGAAGGTTTCGTTCTCTGATGTTGA
700028 AAGCATAATCATTGAAGGCACTGAATCAACCCCAGAGATTAGTTTGAACCAGAAGGTCTCATTCT
66 AAGCATAATCATTGAAGGCACTGAATCAACCCCAGAGATTAGTTTGAACCAGAAGGTCTCATTCT
*
700093 CTGATGTTAAAAGTGTCATTAGA
131 CTGATGTTAAAAGTGTCATTACA
* ** * * *
700116 GAAGATACCGAGTCAAAATCGGAGATTTTTTCC-AACCAGAAGATGGTTTTGTTCTCCGATGTTG
1 GAAGATACCGAGTCAAAACCGGAGA-TTGGTCCGAACCAGAAGAAGGTTTCGTTCTCTGATGTTG
700180 AAAGCA
65 AAAGCA
700186 CTGAATCAAC
Statistics
Matches: 342, Mismatches: 30, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
150 105 0.31
153 233 0.68
154 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (153 bp):
GAAGATACCGAGTCAAAACCGGAGATTGGTCCGAACCAGAAGAAGGTTTCGTTCTCTGATGTTGA
AAGCATAATCATTGAAGGCACTGAATCAACCCCAGAGATTAGTTTGAACCAGAAGGTCTCATTCT
CTGATGTTAAAAGTGTCATTACA
Found at i:700153 original size:75 final size:75
Alignment explanation
Indices: 699775--700157 Score: 205
Period size: 75 Copynumber: 5.0 Consensus size: 75
699765 AGTTTGAACC
* ** * * * * **
699775 AGGTCTCATTCTCTGATGTTAAAAGTGCCATTATGGAAGACACCAAGCCGAAACCGGAGATTGGT
1 AGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTCAAAACCGGAGATTTTT
*
699840 CCGAACCAGAAGA
66 TCGAACC---AGA
* * * ** * * ** ** * * ** * *
699853 AGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCCCAGAGATTAGT
1 AGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTCAAAACCGGAGATT-TT
699918 TT-GAACCAGA
65 TTCGAACCAGA
* * **
699928 AGGTCTCATTCTCTGATGTTAAAAGTGTCGTTACAGAAGATACCGAGTCAAAGCCGGAGA-TTGG
1 AGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTCAAAACCGGAGATTTTT
699992 TCGGAACCAGAAGA
66 TC-GAACC---AGA
* * * ** * * ** ** * * ** * *
700006 AGGTTTCGTTCTCTGATGTTGAAAGCATAATCATTGAAGGCACTGAATCAACCCCAGAGATTAGT
1 AGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTCAAAACCGGAGATT-TT
700071 TT-GAACCAGA
65 TTCGAACCAGA
* *
700081 AGGTCTCATTCTCTGATGTTAAAAGTGTCATTAGAGAAGATACCGAGTCAAAATCGGAGATTTTT
1 AGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTCAAAACCGGAGATTTTT
*
700146 TCCAACCAGA
66 TCGAACCAGA
700156 AG
1 AG
700158 ATGGTTTTGT
Statistics
Matches: 217, Mismatches: 79, Indels: 21
0.68 0.25 0.07
Matches are distributed among these distances:
73 1 0.00
74 4 0.02
75 108 0.50
78 100 0.46
79 3 0.01
80 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (75 bp):
AGGTCTCATTCTCTGATGTTAAAAGTGTCATTACAGAAGATACCGAGTCAAAACCGGAGATTTTT
TCGAACCAGA
Found at i:705713 original size:2 final size:2
Alignment explanation
Indices: 705706--705733 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
705696 ACATACATTC
705706 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
705734 GGAAAGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:706925 original size:6 final size:6
Alignment explanation
Indices: 706914--706938 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
706904 TCTTTGACTT
706914 ATGACA ATGACA ATGACA ATGACA A
1 ATGACA ATGACA ATGACA ATGACA A
706939 GTTAGTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGACA
Found at i:707779 original size:8 final size:8
Alignment explanation
Indices: 707743--707784 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
707733 ATCTTATTAA
707743 ATAAATAT
1 ATAAATAT
707751 A-AAATAT
1 ATAAATAT
*
707758 ATAAAAAT
1 ATAAATAT
707766 GAATAAATAT
1 --ATAAATAT
707776 ATAAATAT
1 ATAAATAT
707784 A
1 A
707785 ATTATGGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 7 0.24
8 15 0.52
10 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (8 bp):
ATAAATAT
Found at i:716753 original size:3 final size:3
Alignment explanation
Indices: 716747--716785 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
716737 AATCATATAG
716747 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
716786 ATGTCATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:718442 original size:13 final size:13
Alignment explanation
Indices: 718424--718466 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
718414 TAGAAAAAAA
718424 TTATAAATATCAT
1 TTATAAATATCAT
*
718437 TTATAAA-A-CTT
1 TTATAAATATCAT
*
718448 TTATAAATATTAT
1 TTATAAATATCAT
718461 TTATAA
1 TTATAA
718467 GTCATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 14 0.56
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
TTATAAATATCAT
Found at i:718464 original size:24 final size:24
Alignment explanation
Indices: 718406--718466 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
718396 AATATATTTT
*
718406 ATATTATTTAGAAAAAAATTATAA
1 ATATTATTTATAAAAAAATTATAA
* ***
718430 ATATCATTTATAAAACTTTTATAA
1 ATATTATTTATAAAAAAATTATAA
718454 ATATTATTTATAA
1 ATATTATTTATAA
718467 GTCATTTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATTATTTATAAAAAAATTATAA
Found at i:719947 original size:16 final size:15
Alignment explanation
Indices: 719925--719967 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
719915 CTCTACTTTA
719925 TTTATAATATTTAAT
1 TTTATAATATTTAAT
719940 TATTATAATA-TTAAT
1 T-TTATAATATTTAAT
*
719955 TTTGTAA-ATTTAA
1 TTTATAATATTTAA
719968 AAAAGCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 9 0.36
15 7 0.28
16 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTATAATATTTAAT
Found at i:719987 original size:19 final size:19
Alignment explanation
Indices: 719960--720009 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
719950 TTAATTTTGT
* *
719960 AAATTTAAAAAAGCATAAA
1 AAATATAAAAAAGCAGAAA
*
719979 AAATATAAAAAATCAGAAA
1 AAATATAAAAAAGCAGAAA
* *
719998 AATTACAAAAAA
1 AAATATAAAAAA
720010 AAATAGTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (19 bp):
AAATATAAAAAAGCAGAAA
Found at i:721222 original size:34 final size:34
Alignment explanation
Indices: 721179--721247 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
721169 AGATGAGCTT
*
721179 TACGACTTCTACTAGGGGAGGTCTTTGACTTTTC
1 TACGACTTCTACCAGGGGAGGTCTTTGACTTTTC
721213 TACGACTTCTACCAGGGGAGGTCTTTGACTTTTC
1 TACGACTTCTACCAGGGGAGGTCTTTGACTTTTC
721247 T
1 T
721248 TCAATTCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (34 bp):
TACGACTTCTACCAGGGGAGGTCTTTGACTTTTC
Found at i:724544 original size:6 final size:6
Alignment explanation
Indices: 724533--724562 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
724523 TCCGTAGATG
724533 CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT
724563 TAGAAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
CATTTT
Found at i:727543 original size:2 final size:2
Alignment explanation
Indices: 727536--727576 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
727526 TAACGCTCCA
*
727536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
727577 CTTACTATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:728693 original size:228 final size:226
Alignment explanation
Indices: 728298--728754 Score: 878
Period size: 228 Copynumber: 2.0 Consensus size: 226
728288 AGGGGTCAAA
*
728298 TACATACGCATTATTTTAGATAAATTTTAAATATAGTTTAATATATTAAGGAAATGAAAAAAATT
1 TACATACGCATTATTTTAGATAAATTTTAAATATAGTTTAATATATTAAGGAAATGAAAAAAATA
728363 AAAAAAAACTTGGGCAATACTTTATGATTTATGACTGCTTTTATTTAACCCAACTTTCTATATAT
66 AAAAAAAACTTGGGCAATACTTTATGATTTATGACTGCTTTTATTTAACCCAACTTTCTATATAT
*
728428 CAATATTTAGATTATTAAATATTATTTAAAAGTTGTAATATTTCATCCTATTAAATAAATATGTA
131 CAATATTTAAATTATTAAATATTATTTAAAAGTTGTAATATTTCATCCTATTAAATAAATATGTA
728493 CCTAATTGTATTATTATAGATATATAATCTC
196 CCTAATTGTATTATTATAGATATATAATCTC
728524 TACATACGCATTATTTTAGATAAATTTTTAAATATAGTTTAATATATTAAGGAAATGAAAAAAAT
1 TACATACGCATTATTTTAGATAAA-TTTTAAATATAGTTTAATATATTAAGGAAATGAAAAAAAT
728589 AAAAAAAAAACTTGGGCAATACTTTATGATTTATGACTGCTTTTATTTAACCCAACTTTCTATAT
65 -AAAAAAAAACTTGGGCAATACTTTATGATTTATGACTGCTTTTATTTAACCCAACTTTCTATAT
728654 ATCAATATTTAAATTATTAAATATTATTTAAAAGTTGTAATATTTCATCCTATTAAATAAATATG
129 ATCAATATTTAAATTATTAAATATTATTTAAAAGTTGTAATATTTCATCCTATTAAATAAATATG
728719 TACCTAATTGTATTATTATAGATATATAATCTC
194 TACCTAATTGTATTATTATAGATATATAATCTC
728752 TAC
1 TAC
728755 TCTCACGTTA
Statistics
Matches: 227, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
226 24 0.11
227 40 0.18
228 163 0.72
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (226 bp):
TACATACGCATTATTTTAGATAAATTTTAAATATAGTTTAATATATTAAGGAAATGAAAAAAATA
AAAAAAAACTTGGGCAATACTTTATGATTTATGACTGCTTTTATTTAACCCAACTTTCTATATAT
CAATATTTAAATTATTAAATATTATTTAAAAGTTGTAATATTTCATCCTATTAAATAAATATGTA
CCTAATTGTATTATTATAGATATATAATCTC
Found at i:730151 original size:41 final size:39
Alignment explanation
Indices: 730055--730136 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
730045 GTATATATAT
* * * **
730055 ATTTAAATTAAATATATAAATATTATATATATATTTTTA
1 ATTTAATTTAAATTTATTAATATTATATATATATTAATA
730094 ATTTAATTTAAATTTATTAATATTATATATATATATAATA
1 ATTTAATTTAAATTTATTAATATTATATATATAT-TAATA
730134 ATT
1 ATT
730137 ATTTTTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 31 0.84
40 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (39 bp):
ATTTAATTTAAATTTATTAATATTATATATATATTAATA
Found at i:730685 original size:3 final size:3
Alignment explanation
Indices: 730677--730764 Score: 101
Period size: 3 Copynumber: 29.3 Consensus size: 3
730667 CTGTAATCAC
* *
730677 TAT TAT TAT TAT TAT TAG TATT TAT TAT TAT TAT TA- TCT TAT TAGT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T
*
730723 AAT TAT TAT TAT TAAT TAT TAT T-T TAT TA- TAT TAT TAT TAT T
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
730765 GCTATTTGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
2 5 0.07
3 61 0.84
4 7 0.10
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:730703 original size:13 final size:13
Alignment explanation
Indices: 730677--730764 Score: 99
Period size: 13 Copynumber: 6.8 Consensus size: 13
730667 CTGTAATCAC
730677 TATTATTA-TTAT
1 TATTATTATTTAT
*
730689 TATTAGTATTTAT
1 TATTATTATTTAT
*
730702 TATTATTATTATCT
1 TATTATTATT-TAT
* *
730716 TATTAGTAATTAT
1 TATTATTATTTAT
*
730729 TATTATTAATTAT
1 TATTATTATTTAT
730742 TATT-TTATTATAT
1 TATTATTATT-TAT
730755 TATTATTATT
1 TATTATTATT
730765 GCTATTTGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
12 11 0.17
13 38 0.59
14 15 0.23
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (13 bp):
TATTATTATTTAT
Found at i:730703 original size:16 final size:16
Alignment explanation
Indices: 730677--730764 Score: 92
Period size: 16 Copynumber: 5.4 Consensus size: 16
730667 CTGTAATCAC
730677 TATTA-TTATTATTAT
1 TATTATTTATTATTAT
*
730692 TAGTATTTATTATTAT
1 TATTATTTATTATTAT
*
730708 TATTATCTTATTAGTAAT
1 TATTAT-TTATTA-TTAT
730726 TATTA-TTATTAATTAT
1 TATTATTTATT-ATTAT
*
730742 TATTTTATTA-TATTAT
1 TATTAT-TTATTATTAT
730758 TATTATT
1 TATTATT
730765 GCTATTTGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.08
16 37 0.61
17 8 0.13
18 11 0.18
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTATTTATTATTAT
Found at i:730727 original size:21 final size:19
Alignment explanation
Indices: 730678--730764 Score: 74
Period size: 19 Copynumber: 4.6 Consensus size: 19
730668 TGTAATCACT
730678 ATTATTATTA-TTATTAGTA
1 ATTATTATTATTTATTA-TA
*
730697 TTTATTATTA-TTATTAT-
1 ATTATTATTATTTATTATA
* * * *
730714 CTTATTAGTAATTATTATT
1 ATTATTATTATTTATTATA
730733 ATTAATTATTATTTTATTAT-
1 ATT-ATTATTA-TTTATTATA
730753 ATTATTATTATT
1 ATTATTATTATT
730765 GCTATTTGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.14
18 10 0.17
19 24 0.41
20 9 0.16
21 7 0.12
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTATTATTATTTATTATA
Found at i:736669 original size:56 final size:56
Alignment explanation
Indices: 736573--736801 Score: 388
Period size: 56 Copynumber: 4.1 Consensus size: 56
736563 CGATCGCGCA
* * *
736573 GGGCCCTGAAATCGAGTATATCTATCAGTTGTTGCTATTAATAAGCATAAAAATAG
1 GGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
*
736629 GAGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
1 GGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
*
736685 GGGCCCCGGAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
1 GGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
* *
736741 GGG-CCCGAAATCGAGTATATCTATCAGTTGTTGTCATTAAGAAGTATAAAAATAG
1 GGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
736796 GGGCCC
1 GGGCCC
736802 TTTATAAGAA
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
55 52 0.32
56 111 0.68
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (56 bp):
GGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
Found at i:736797 original size:111 final size:112
Alignment explanation
Indices: 736573--736801 Score: 388
Period size: 111 Copynumber: 2.1 Consensus size: 112
736563 CGATCGCGCA
* * *
736573 GGGCCCTGAAATCGAGTATATCTATCAGTTGTTGCTATTAATAAGCATAAAAATAGGAGCCCCGA
1 GGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAGGAGCCCCGA
736638 AATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
66 AATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
* *
736685 GGGCCCCGGAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAGG-GGCCCGA
1 GGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAGGAGCCCCGA
* *
736749 AATCGAGTATATCTATCAGTTGTTGTCATTAAGAAGTATAAAAATAG
66 AATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
736796 GGGCCC
1 GGGCCC
736802 TTTATAAGAA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
111 57 0.52
112 53 0.48
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (112 bp):
GGGCCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAGGAGCCCCGA
AATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAATAG
Found at i:737371 original size:2 final size:2
Alignment explanation
Indices: 737360--737393 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
737350 CTGTAAACAT
737360 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
737394 TCTACAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:739940 original size:16 final size:16
Alignment explanation
Indices: 739919--739955 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
739909 GTATTGGATT
739919 GCAATACTTCGACCAA
1 GCAATACTTCGACCAA
*
739935 GCAATACTTCGATCAA
1 GCAATACTTCGACCAA
739951 GCAAT
1 GCAAT
739956 GCTTTCCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.22
Consensus pattern (16 bp):
GCAATACTTCGACCAA
Found at i:741955 original size:24 final size:24
Alignment explanation
Indices: 741914--741970 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
741904 GTAATATGTA
*
741914 AATAA-AATAATAATAATAACGCT
1 AATAATAATAATAATAATAACGAT
741937 AATAATAATAATTAA-AATAACGAT
1 AATAATAATAA-TAATAATAACGAT
741961 AATAATAATA
1 AATAATAATA
741971 TACAAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 5 0.16
24 23 0.74
25 3 0.10
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (24 bp):
AATAATAATAATAATAATAACGAT
Found at i:741970 original size:15 final size:15
Alignment explanation
Indices: 741920--741970 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
741910 TGTAAATAAA
741920 ATAATAATAATAACG
1 ATAATAATAATAACG
*
741935 CTAATAATAAT-A--
1 ATAATAATAATAACG
741947 AT--TAA-AATAACG
1 ATAATAATAATAACG
741959 ATAATAATAATA
1 ATAATAATAATA
741971 TACAAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
9 3 0.11
10 4 0.14
12 3 0.11
14 4 0.14
15 14 0.50
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (15 bp):
ATAATAATAATAACG
Found at i:743729 original size:21 final size:21
Alignment explanation
Indices: 743690--743730 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
743680 AGTAAAAAAT
* *
743690 TACCTAAAACATTATTATTTC
1 TACCTAAAACATCAATATTTC
743711 TACCTAAAACATCAATATTT
1 TACCTAAAACATCAATATTT
743731 TTTAACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
TACCTAAAACATCAATATTTC
Found at i:746253 original size:12 final size:12
Alignment explanation
Indices: 746238--746266 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
746228 TTTTGGTTCA
746238 GGAGGTGGTGGT
1 GGAGGTGGTGGT
746250 GGAGGTGGTGGT
1 GGAGGTGGTGGT
746262 GGAGG
1 GGAGG
746267 CGGCGGCGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.69, T:0.21
Consensus pattern (12 bp):
GGAGGTGGTGGT
Found at i:750081 original size:18 final size:18
Alignment explanation
Indices: 750058--750102 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 18
750048 CCAGTAATTC
750058 TATTCCCTGATAATCTTT
1 TATTCCCTGATAATCTTT
750076 TATTCCCACTGATAATCTTT
1 TATT-CC-CTGATAATCTTT
750096 TATTCCC
1 TATTCCC
750103 ACATATAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.20
19 4 0.16
20 16 0.64
ACGTcount: A:0.22, C:0.27, G:0.04, T:0.47
Consensus pattern (18 bp):
TATTCCCTGATAATCTTT
Found at i:750089 original size:20 final size:20
Alignment explanation
Indices: 750064--750114 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
750054 ATTCTATTCC
750064 CTGATAATCTTTTATTCCCA
1 CTGATAATCTTTTATTCCCA
750084 CTGATAATCTTTTATTCCCA
1 CTGATAATCTTTTATTCCCA
750104 CAT-ATAATCTT
1 C-TGATAATCTT
750115 ACATTTCGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (20 bp):
CTGATAATCTTTTATTCCCA
Found at i:753210 original size:55 final size:55
Alignment explanation
Indices: 753132--753443 Score: 276
Period size: 55 Copynumber: 5.7 Consensus size: 55
753122 TCTTCGAATG
* * *
753132 ACGGGTCCGCTCCCTATTCGTTCAAGGAGTATAAGACTCGAATAATCTTTAGCAA
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* * * * *
753187 ACGTGTCTGCTCCCTGTTTGTTCAGGGAGTATAAGACTCGAACAATCTTCAGTAA
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* * **
753242 ACGGGTCCGCTCCCTATTCATTCAGGGAGTAT-AGAACTCGAACAATCTTAATAAA
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAAG-ACTCGAACAATCTTCAGCAA
* * * * **
753297 ACGAGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCATAAA
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAAG-ACTCGAACAATCTTCAGCAA
** * * * * * * *
753352 ATAGGTCCGCTCTCTATTCCTTTAGAGAGTATAGGACTCG----ATCTTTAACAA
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* * * * *
753403 ACGTGTCCACTCCCTATTCTTTCAGAGAGTATAGGACTCGA
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAAGACTCGA
753444 TATTCATAAA
Statistics
Matches: 218, Mismatches: 36, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
51 41 0.19
54 2 0.01
55 174 0.80
56 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (55 bp):
ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
Found at i:753283 original size:110 final size:108
Alignment explanation
Indices: 753132--753443 Score: 323
Period size: 110 Copynumber: 2.9 Consensus size: 108
753122 TCTTCGAATG
* * * *
753132 ACGGGTCCGCTCCCTATTCGTTCAAGGAGTATA-AGACTCGAATAATCTTTAGCAAACGTGTCTG
1 ACGGGTCCGCTCCCTATTCATTCAGGGAGTATAGA-ACTCGAA-AATCTTTAACAAACGTGTCCG
* *
753196 CTCCCTGTTTGTTCAGGGAGTATAAGACTCGAACAATCTTCAGT-AA
64 CTCCCTATTT-TTCAGAGAGTATAAGACTCGAACAATCTTCA-TAAA
* *
753242 ACGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATC-TTAATAAAACGAGTCCG
1 ACGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAA-AATCTTTAA-CAAACGTGTCCG
* *
753306 CTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCATAAA
64 CTCCCTATT-TTTCAGAGAGTATAAG-ACTCGAACAATCTTCATAAA
** * * * * * *
753352 ATAGGTCCGCTCTCTATTCCTTTAGAGAGTATAGGACTCG---ATCTTTAACAAACGTGTCCACT
1 ACGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAAAATCTTTAACAAACGTGTCCGCT
*
753414 CCCTATTCTTTCAGAGAGTATAGGACTCGA
66 CCCTATT-TTTCAGAGAGTATAAGACTCGA
753444 TATTCATAAA
Statistics
Matches: 171, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
106 39 0.23
107 5 0.03
109 6 0.04
110 120 0.70
111 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (108 bp):
ACGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAAAATCTTTAACAAACGTGTCCGCT
CCCTATTTTTCAGAGAGTATAAGACTCGAACAATCTTCATAAA
Found at i:754708 original size:7 final size:7
Alignment explanation
Indices: 754698--754836 Score: 55
Period size: 7 Copynumber: 17.6 Consensus size: 7
754688 ATTTTTTTCA
754698 TTTTCTT
1 TTTTCTT
754705 TTTTCTT
1 TTTTCTT
*
754712 CCATTTTCTA
1 ---TTTTCTT
754722 TTTTCTAT
1 TTTTCT-T
754730 TTTT-TT
1 TTTTCTT
*
754736 TCTTTTTT
1 T-TTTCTT
754744 CTTTTCATT
1 -TTTTC-TT
*
754753 TTTCATCAT
1 TTT--TCTT
754762 TTTTCATT
1 TTTTC-TT
754770 TTTTCTCAT
1 TTTTCT--T
754779 TTTTCTCAT
1 TTTTCT--T
754788 TGTTTCATT
1 T-TTTC-TT
*
754797 TTTTCAT
1 TTTTCTT
*
754804 TTTTCAT
1 TTTTCTT
754811 TTTTCTT
1 TTTTCTT
*
754818 CTTTCTT
1 TTTTCTT
*
754825 CTTTCTT
1 TTTTCTT
754832 CTTTT
1 -TTTT
754837 TTTATTTTTA
Statistics
Matches: 107, Mismatches: 9, Indels: 31
0.73 0.06 0.21
Matches are distributed among these distances:
6 2 0.02
7 47 0.44
8 25 0.23
9 20 0.19
10 12 0.11
11 1 0.01
ACGTcount: A:0.09, C:0.18, G:0.01, T:0.73
Consensus pattern (7 bp):
TTTTCTT
Found at i:754718 original size:17 final size:17
Alignment explanation
Indices: 754696--754746 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
754686 TAATTTTTTT
754696 CATTTTCTTTTTTCTTC
1 CATTTTCTTTTTTCTTC
* *
754713 CATTTTCTATTTTCTATT
1 CATTTTCTTTTTTCT-TC
**
754731 TTTTTTCTTTTTTCTT
1 CATTTTCTTTTTTCTT
754747 TTCATTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.75
Consensus pattern (17 bp):
CATTTTCTTTTTTCTTC
Found at i:754761 original size:10 final size:10
Alignment explanation
Indices: 754748--754803 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
754738 TTTTTTCTTT
754748 TCATTTTTCA
1 TCATTTTTCA
754758 TCATTTTTCA
1 TCATTTTTCA
754768 T--TTTTTC-
1 TCATTTTTCA
754775 TCATTTTTC-
1 TCATTTTTCA
754784 TCATTGTTTCA
1 TCATT-TTTCA
754795 T--TTTTTCA
1 TCATTTTTCA
754803 T
1 T
754804 TTTTCATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
7 1 0.02
8 12 0.29
9 13 0.31
10 15 0.36
11 1 0.02
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.66
Consensus pattern (10 bp):
TCATTTTTCA
Found at i:754767 original size:17 final size:17
Alignment explanation
Indices: 754745--754810 Score: 75
Period size: 17 Copynumber: 3.8 Consensus size: 17
754735 TTCTTTTTTC
754745 TTTTCATTTTTCATCAT
1 TTTTCATTTTTCATCAT
754762 TTTTCATTTTTTC-TCATT
1 TTTTCA-TTTTTCATCA-T
754780 TTTCTCATTGTTTCAT--T
1 TTT-TCATT-TTTCATCAT
754797 TTTTCATTTTTCAT
1 TTTTCATTTTTCAT
754811 TTTTCTTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.14
16 5 0.11
17 13 0.30
18 12 0.27
19 7 0.16
20 1 0.02
ACGTcount: A:0.14, C:0.17, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTCATTTTTCATCAT
Found at i:754793 original size:27 final size:25
Alignment explanation
Indices: 754745--754810 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 25
754735 TTCTTTTTTC
754745 TTTTCATTTTTCATCATTTTTCATTT
1 TTTTCATTTTTCATCATTTTTCA-TT
754771 TTTCTCATTTTTC-TCATTGTTTCATT
1 TTT-TCATTTTTCATCATT-TTTCATT
754797 TTTTCATTTTTCAT
1 TTTTCATTTTTCAT
754811 TTTTCTTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.24
26 14 0.38
27 14 0.38
ACGTcount: A:0.14, C:0.17, G:0.02, T:0.68
Consensus pattern (25 bp):
TTTTCATTTTTCATCATTTTTCATT
Found at i:758406 original size:2 final size:2
Alignment explanation
Indices: 758399--758423 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
758389 AAATAAATGA
758399 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
758424 ACAAAGAATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:764784 original size:20 final size:19
Alignment explanation
Indices: 764741--764790 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
764731 CGGCCAAGAG
*
764741 CATGTATTTTCATTAAAGT
1 CATGTATTTTCATTAAAAT
*
764760 CATGTTTTTTCATTAAAAAT
1 CATGTATTTTCATT-AAAAT
764780 CATGTCATTTT
1 CATGT-ATTTT
764791 AGGAAGATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 13 0.50
20 9 0.35
21 4 0.15
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:766460 original size:47 final size:47
Alignment explanation
Indices: 766354--766466 Score: 140
Period size: 47 Copynumber: 2.4 Consensus size: 47
766344 CCATGCTTTG
* *
766354 TTATTCACAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC
1 TTATTCAGAAAAAGAAATCCTAACCGCATGATATCTAATTCGCAAGC
* *
766401 TTATTCAAGAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCAAGC
1 TTATTC-AGAAAAAGAAATCCTAACCGCATGATATCTAATTCGCAAGC
766448 ATTTATTC-GAAAAACGAAA
1 --TTATTCAGAAAAA-GAAA
766467 ATAAATGACT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
47 39 0.68
48 12 0.21
49 6 0.11
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (47 bp):
TTATTCAGAAAAAGAAATCCTAACCGCATGATATCTAATTCGCAAGC
Found at i:769536 original size:2 final size:2
Alignment explanation
Indices: 769529--769574 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
769519 ATCTATATGC
769529 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
769571 AT AT
1 AT AT
769575 TATTCAATAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:773956 original size:60 final size:60
Alignment explanation
Indices: 773863--773984 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
773853 TGATTTTTGT
* *
773863 GGTTTTGATGTTTGCTTCAGAGCATATAATTGGTTACTTCTCTGATTTATTGATATTTCC
1 GGTTTCGATGTTTGCTTCAGAACATATAATTGGTTACTTCTCTGATTTATTGATATTTCC
* *
773923 GGTTTCGATGTTTGCTTCAGAACATATAATTGGTTACTTTTCTGATTTATTGGTATTTCC
1 GGTTTCGATGTTTGCTTCAGAACATATAATTGGTTACTTCTCTGATTTATTGATATTTCC
773983 GG
1 GG
773985 AATCATATGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.48
Consensus pattern (60 bp):
GGTTTCGATGTTTGCTTCAGAACATATAATTGGTTACTTCTCTGATTTATTGATATTTCC
Found at i:784445 original size:2 final size:2
Alignment explanation
Indices: 784438--784473 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
784428 AATAAGAATT
784438 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
784474 GAATTTATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:784569 original size:24 final size:24
Alignment explanation
Indices: 784542--784592 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
784532 CTTGCTCTGA
784542 TGTTAATCAACATTA-AAATGATAT
1 TGTTAATCAACATTATAAATGA-AT
** *
784566 TGTTTGTCATCATTATAAATGAAT
1 TGTTAATCAACATTATAAATGAAT
784590 TGT
1 TGT
784593 GAATTTAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTTAATCAACATTATAAATGAAT
Found at i:792191 original size:21 final size:21
Alignment explanation
Indices: 792167--792206 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
792157 GAACAATGTC
* *
792167 GCATCATTGTAAGTGAAAATA
1 GCATCATTATAAGCGAAAATA
792188 GCATCATTATAAGCGAAAA
1 GCATCATTATAAGCGAAAA
792207 CAAAAACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (21 bp):
GCATCATTATAAGCGAAAATA
Found at i:792761 original size:30 final size:30
Alignment explanation
Indices: 792702--792757 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
792692 TCTATGCCTA
792702 TTTTTTTAGTTTTAGTGTGTAACGTTTATT
1 TTTTTTTAGTTTTAGTGTGTAACGTTTATT
* *
792732 TTTTTTTAG-TTTGGTGTTTAACGTTT
1 TTTTTTTAGTTTTAGTGTGTAACGTTT
792758 TATTCCGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.14, C:0.04, G:0.18, T:0.64
Consensus pattern (30 bp):
TTTTTTTAGTTTTAGTGTGTAACGTTTATT
Found at i:794219 original size:100 final size:98
Alignment explanation
Indices: 794048--794237 Score: 353
Period size: 100 Copynumber: 1.9 Consensus size: 98
794038 CTAATTGCAA
*
794048 CTGCCTTGGTTTTGGACTTGGTTCCTAAAGTTTTGAATGTGAGTGTGATGAAAGATTTCTGTCCA
1 CTGCCTTGGTTTTGGACTTGGTTCCTAAAGTTTTGAATGCGAGTGTGATGAAAGATTTCTGTCCA
794113 ATCTCCTGTTGCTCTACAAAGTTGTCCAATCTC
66 ATCTCCTGTTGCTCTACAAAGTTGTCCAATCTC
794146 CTGCCTTGGTTTTGGACCTTTGGTTCCTAAAGTTTTGAATGCGAGTGTGATGAAAGATTTCTGTC
1 CTGCCTTGGTTTTGGA-C-TTGGTTCCTAAAGTTTTGAATGCGAGTGTGATGAAAGATTTCTGTC
794211 CAATCTCCTGTTGCTCTACAAAGTTGT
64 CAATCTCCTGTTGCTCTACAAAGTTGT
794238 TAAGAGGATT
Statistics
Matches: 89, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
98 16 0.18
99 1 0.01
100 72 0.81
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (98 bp):
CTGCCTTGGTTTTGGACTTGGTTCCTAAAGTTTTGAATGCGAGTGTGATGAAAGATTTCTGTCCA
ATCTCCTGTTGCTCTACAAAGTTGTCCAATCTC
Found at i:797007 original size:18 final size:19
Alignment explanation
Indices: 796967--797007 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
796957 TGGTTCACAT
*
796967 AATGTAAGATTACCGGTGGG
1 AATGTAAGATTACC-GAGGG
796987 AATGTAAGATTACC-AGGG
1 AATGTAAGATTACCGAGGG
797005 AAT
1 AAT
797008 AAGATTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (19 bp):
AATGTAAGATTACCGAGGG
Found at i:797229 original size:35 final size:37
Alignment explanation
Indices: 797158--797230 Score: 98
Period size: 35 Copynumber: 2.0 Consensus size: 37
797148 GTTGGAAAAT
*
797158 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
*
797195 ATTTATATATTTT-TTT-ACAAAATTGAAAAT-ATAAA
1 ATTTATATATTTTCTTTAAAAAAATT-AAAATCATAAA
797230 A
1 A
797231 ACGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 13 0.39
36 7 0.21
37 13 0.39
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:799350 original size:23 final size:23
Alignment explanation
Indices: 799324--799369 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
799314 GTTCACGTAT
799324 TAGGGAATTAATAGTATATCCTC
1 TAGGGAATTAATAGTATATCCTC
799347 TAGGGAATTAATAGTATATCCTC
1 TAGGGAATTAATAGTATATCCTC
799370 GCAATCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGGGAATTAATAGTATATCCTC
Found at i:802388 original size:18 final size:18
Alignment explanation
Indices: 802365--802400 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
802355 TGGAAAGTGG
802365 CCACGAGAAACACGATTA
1 CCACGAGAAACACGATTA
802383 CCACGAGAAACACGATTA
1 CCACGAGAAACACGATTA
802401 TCTTTGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.17, T:0.11
Consensus pattern (18 bp):
CCACGAGAAACACGATTA
Found at i:807491 original size:21 final size:21
Alignment explanation
Indices: 807467--807528 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
807457 GGGTTAGGAA
807467 CTTTCGATGAAAGGACTTAAC
1 CTTTCGATGAAAGGACTTAAC
* * * *
807488 CTTTAGATTAAATGACTTATC
1 CTTTCGATGAAAGGACTTAAC
*
807509 C-TTCTGATGAAAGGGCTTAA
1 CTTTC-GATGAAAGGACTTAA
807529 TATTTTCATG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (21 bp):
CTTTCGATGAAAGGACTTAAC
Found at i:807539 original size:21 final size:21
Alignment explanation
Indices: 807515--807561 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
807505 TATCCTTCTG
*
807515 ATGAAAGGGCTTAATATTTTC
1 ATGAAAGGACTTAATATTTTC
*
807536 ATGAAAGGATTTAATATTTTC
1 ATGAAAGGACTTAATATTTTC
807557 ATGAA
1 ATGAA
807562 GAGAATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (21 bp):
ATGAAAGGACTTAATATTTTC
Found at i:814952 original size:2 final size:2
Alignment explanation
Indices: 814945--814971 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
814935 TACACCAGCC
814945 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
814972 AATCTTGATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:821619 original size:18 final size:19
Alignment explanation
Indices: 821596--821634 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
821586 GGGTTTTCTA
*
821596 ATAATTTTTA-AAAATTTT
1 ATAATTTTAATAAAATTTT
821614 ATAATTTTAATAAAATTTT
1 ATAATTTTAATAAAATTTT
821633 AT
1 AT
821635 CATTATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAATTTTAATAAAATTTT
Found at i:824503 original size:108 final size:108
Alignment explanation
Indices: 824381--824598 Score: 364
Period size: 108 Copynumber: 2.0 Consensus size: 108
824371 TATGTTATAT
* * *
824381 ATATATATCCTCTAAAAAATATTTCTAAATCTACTACTGAGTGTACTTTATCCTTTATTTTTATT
1 ATATATACCCTCTAAAAAATATTTCTAAATCCACGACTGAGTGTACTTTATCCTTTATTTTTATT
* *
824446 GGTGACTCATTATTTGGATACCCATTTTTATGTTGCTTCAAGA
66 GATGACTCATCATTTGGATACCCATTTTTATGTTGCTTCAAGA
* *
824489 ATATATACCCTCTAAAAAATATTTCTGAATCCACGACTGAGTGTATTTTATCCTTTATTTTTATT
1 ATATATACCCTCTAAAAAATATTTCTAAATCCACGACTGAGTGTACTTTATCCTTTATTTTTATT
*
824554 GATGACTCGTCATTTGGATACCCATTTTTATGTTGCTTCAAGA
66 GATGACTCATCATTTGGATACCCATTTTTATGTTGCTTCAAGA
824597 AT
1 AT
824599 GCACAGTGCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (108 bp):
ATATATACCCTCTAAAAAATATTTCTAAATCCACGACTGAGTGTACTTTATCCTTTATTTTTATT
GATGACTCATCATTTGGATACCCATTTTTATGTTGCTTCAAGA
Found at i:837627 original size:15 final size:14
Alignment explanation
Indices: 837603--837644 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
837593 TGACAGTAAG
*
837603 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
837618 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
837632 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
837645 GTATCTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:837635 original size:20 final size:20
Alignment explanation
Indices: 837603--837644 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
837593 TGACAGTAAG
*
837603 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
837623 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
837643 TT
1 TT
837645 GTATCTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:838115 original size:3 final size:3
Alignment explanation
Indices: 838099--838143 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
838089 TGTAATTTTA
*
838099 AAT AAT -AT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
838144 TGAGTAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:838723 original size:113 final size:113
Alignment explanation
Indices: 838394--839375 Score: 1135
Period size: 113 Copynumber: 8.6 Consensus size: 113
838384 TTTTGATGAG
* * *
838394 TTCTTCTCATTATGAACTT-TCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAA-TTTCTCT
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCCT
* * * * * *
838457 GAAAAAGCTGCTTCATTAAGTGATGGATTTGAGC-AAAAGATTGAACAAA
65 GGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAG-TTGAACAAA
* *
838506 TTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTCC
* * * * * * *
838571 CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAG
63 CTGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAGTTGAACAAA
* ***
838622 TTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCCTG
* * * *
838687 GAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAGTTGAACAAA
* *
838735 TTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTCC
* * * * * * *
838800 CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAG
63 CTGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAGTTGAACAAA
* ***
838851 TTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCCTG
* * * * *
838916 GAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAGGCTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAGTTGAACAAA
* * *
838964 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCCTG
* * * * * * * *
839029 GAAAA-ATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAGTTGAACAAA
*
839076 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTCC
* * * * * * * *
839141 CTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGATTGAACAAG
63 CTGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAG-TTGAACAAA
* * * *
839193 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCCTG
* * * * * * *
839258 GAAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAGTTGAACAAA
* *
839306 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCCTG
839371 GAAAA
66 GAAAA
839376 ATAATCCATC
Statistics
Matches: 737, Mismatches: 119, Indels: 27
0.83 0.13 0.03
Matches are distributed among these distances:
112 100 0.14
113 297 0.40
114 54 0.07
115 47 0.06
116 190 0.26
117 49 0.07
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCCTG
GAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAAGTTGAACAAA
Found at i:838792 original size:229 final size:227
Alignment explanation
Indices: 838392--839363 Score: 1344
Period size: 229 Copynumber: 4.3 Consensus size: 227
838382 GCTTTTGATG
*
838392 AGTTCTTCTCATTATGAACTT-TCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAATTTC--
1 AGTTCTTCTCATTATGAACTTCT-TCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAA-CTCGA
* * * * * *
838454 TCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTGT
64 ACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTAT
838519 GAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTGGCAATGTTGA
129 GAATTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTCCCTGGCAATGTTGA
838584 TCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
192 TCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
838620 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
* * *
838685 TGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAGGTTGAACAAATTCTTCTCATTGTGA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGA
838750 ATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTGGCAATGTTGATC
131 ATTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTCCCTGGCAATGTTGATC
838815 CATCAAATGATGAATTCAAACAAAAAGTTGAACA
194 CATCAAATGATGAATTCAAACAAAAAGTTGAACA
838849 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
* **
838914 TGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAGGCTGAACAAATTCTTCTCATTATGA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGA
* * *** *
838979 ATTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTTCTCTGG-AAAAATAATCCA
131 ATTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCCCTGGCAATGTTGATCCA
* *** *
839042 TCAATTGATGAATTCAGGTAAAAGGTTGAACA
196 TCAAATGATGAATTCAAACAAAAAGTTGAACA
* * *
839074 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCG
** * * * * * ** * * *
839139 TCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGATTGAACAAGTTCTTCTTATT
63 AACTGGAAAAGCTGATCCATCAAGTGATGGATT-TGAGCAAAAGATTGAACAAATTCTTCTCATT
* * * * * *
839204 ATGAACTTCTTCTTCCTTCTTCAGATA-AGTTCTTCTCATTATGAACTTTCTCTGGAAAGGCTGA
127 ATGAATTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCCCTGGCAATGTTGA
* *** *
839268 TCCATCAATTGATGAATTCAGGTAAAAGGTTGAACA
192 TCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
* *
839304 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
839364 TTCTCTGGAA
Statistics
Matches: 691, Mismatches: 44, Indels: 19
0.92 0.06 0.03
Matches are distributed among these distances:
225 72 0.10
226 27 0.04
227 23 0.03
228 103 0.15
229 387 0.56
230 79 0.11
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (227 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGA
ATTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCCCTGGCAATGTTGATCCA
TCAAATGATGAATTCAAACAAAAAGTTGAACA
Done.