Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold145
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: 2608604
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 28749 characters in sequence are not A, C, G, or T
File 4 of 15
Found at i:712733 original size:29 final size:27
Alignment explanation
Indices: 712695--712758 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
712685 TATCACATCA
*
712695 TTATATATATTTTATTTAAATTATATTAT
1 TTAT-TATATTTTATTTAAAATA-ATTAT
*
712724 TTAATTATATTTTTTTTAAAATAATTAT
1 TT-ATTATATTTTATTTAAAATAATTAT
712752 TTATTAT
1 TTATTAT
712759 GGATATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.16
28 7 0.22
29 18 0.56
30 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATTATATTTTATTTAAAATAATTAT
Found at i:718311 original size:16 final size:16
Alignment explanation
Indices: 718285--718321 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
718275 GTGATATTTG
718285 ATTTTTAT-TTTTATT
1 ATTTTTATATTTTATT
718300 -TTTTTATATTTTATT
1 ATTTTTATATTTTATT
718315 ATTTTTA
1 ATTTTTA
718322 GTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 7 0.35
16 6 0.30
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTTTATATTTTATT
Found at i:718658 original size:19 final size:21
Alignment explanation
Indices: 718619--718671 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
718609 ATATATTAAA
*
718619 TTATAAATATAAAATATAATT
1 TTATAAATATATAATATAATT
*
718640 TTTTAAATATATAA-A-AATT
1 TTATAAATATATAATATAATT
*
718659 TTAAAAATATATA
1 TTATAAATATATA
718672 TATTTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.54
20 1 0.04
21 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATAAATATATAATATAATT
Found at i:718676 original size:17 final size:16
Alignment explanation
Indices: 718629--718686 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
718619 TTATAAATAT
*
718629 AAAATATAATTTTTTA
1 AAAATATAATATTTTA
* *
718645 AATATATAAAAATTTTA
1 AAAATAT-AATATTTTA
718662 AAAATATATATATTTATA
1 AAAATATA-ATATTT-TA
718680 ATAAATA
1 A-AAATA
718687 AACACTCATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 7 0.21
17 18 0.55
18 3 0.09
19 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATATAATATTTTA
Found at i:719619 original size:11 final size:11
Alignment explanation
Indices: 719603--719658 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 11
719593 TGTTTTTATA
719603 CTCTGTTTTCT
1 CTCTGTTTTCT
*
719614 CTCTGTTTTTT
1 CTCTGTTTTCT
719625 CTCTTGGTATTT-T
1 CTC-T-GT-TTTCT
719638 CCTCTGTTTTCT
1 -CTCTGTTTTCT
719650 CTCTGTTTT
1 CTCTGTTTT
719659 GCAACCCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 25 0.64
12 4 0.10
13 4 0.10
14 6 0.15
ACGTcount: A:0.02, C:0.23, G:0.11, T:0.64
Consensus pattern (11 bp):
CTCTGTTTTCT
Found at i:721167 original size:2 final size:2
Alignment explanation
Indices: 721160--721197 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
721150 TGTATGTATG
721160 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
721198 CATGTTTGAA
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):
AT
Found at i:733462 original size:2 final size:2
Alignment explanation
Indices: 733455--733494 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
733445 GTCTGTGTAC
733455 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
733495 GAATTACATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:733965 original size:27 final size:25
Alignment explanation
Indices: 733917--733982 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 25
733907 ATTTTTCTTC
*
733917 ATTTTAAAATAAAAAAATTCATAATT
1 ATTTTAAAAT-ACAAAATTCATAATT
733943 ATTTTACTAAATACAAAATTCATAATT
1 ATTTTA--AAATACAAAATTCATAATT
733970 ATTTTAAAATACA
1 ATTTTAAAATACA
733983 TTTATCCTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 7 0.19
26 6 0.16
27 20 0.54
28 4 0.11
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTTTAAAATACAAAATTCATAATT
Found at i:737029 original size:23 final size:23
Alignment explanation
Indices: 736994--737037 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
736984 CGTAATCATT
736994 TATAAAAAATAA-TATTTAATAAA
1 TATAAAAAATAATTA-TTAATAAA
**
737017 TATAAAATTTAATTATTAATA
1 TATAAAAAATAATTATTAATA
737038 TTTACAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TATAAAAAATAATTATTAATAAA
Found at i:740567 original size:14 final size:15
Alignment explanation
Indices: 740548--740577 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
740538 AGATATATTT
740548 AAATTTT-TTTAAAA
1 AAATTTTATTTAAAA
740562 AAATTTTATTTAAAA
1 AAATTTTATTTAAAA
740577 A
1 A
740578 TTCATATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTTATTTAAAA
Found at i:741465 original size:17 final size:17
Alignment explanation
Indices: 741443--741490 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
741433 ATTTGAAACT
741443 AACTTATTTTTTAATAA
1 AACTTATTTTTTAATAA
* * *
741460 AACTTAATTTTTATTTA
1 AACTTATTTTTTAATAA
*
741477 AATTTATTTTTTAA
1 AACTTATTTTTTAA
741491 ATATAATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
AACTTATTTTTTAATAA
Found at i:741509 original size:32 final size:33
Alignment explanation
Indices: 741446--741511 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
741436 TGAAACTAAC
741446 TTATTTTTTAATAAAACTTAATTTTTATTTAAAT
1 TTATTTTTTAATAAAAC-TAATTTTTATTTAAAT
*
741480 TTATTTTTTAAATATAA-TAA-TTTTATTTAAAT
1 TTATTTTTT-AATAAAACTAATTTTTATTTAAAT
741512 ACTTTTAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 12 0.40
33 3 0.10
34 9 0.30
35 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (33 bp):
TTATTTTTTAATAAAACTAATTTTTATTTAAAT
Found at i:748636 original size:19 final size:19
Alignment explanation
Indices: 748580--748637 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 19
748570 TAATGTAGGA
748580 ATTAATA-CTAATGAATATAT
1 ATTAATATCTAATG-AT-TAT
* * *
748600 TTTAAAAT-TAAT-AATAT
1 ATTAATATCTAATGATTAT
748617 ATTAATATCTAATGATTAT
1 ATTAATATCTAATGATTAT
748636 AT
1 AT
748638 AAATTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
17 9 0.31
18 5 0.17
19 6 0.21
20 9 0.31
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTAATATCTAATGATTAT
Found at i:748715 original size:28 final size:26
Alignment explanation
Indices: 748662--748731 Score: 61
Period size: 27 Copynumber: 2.6 Consensus size: 26
748652 AAAATAATAT
* *
748662 AAAAATTTCTAAA-ATATATATTATAA
1 AAAAATAT-TAAATATATATATCATAA
*
748688 TAAAAAGTATTAAATATATTTATCATAA
1 -AAAAA-TATTAAATATATATATCATAA
* *
748716 AATAATTTTAAATATA
1 AAAAATATTAAATATA
748732 ATTTTTATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 10 0.28
27 13 0.36
28 13 0.36
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (26 bp):
AAAAATATTAAATATATATATCATAA
Found at i:748726 original size:26 final size:26
Alignment explanation
Indices: 748655--748731 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
748645 TTTATATAAA
*
748655 ATAATATAAAAATTTCTAAAATATATATT
1 ATAATA-AAAAATAT-T-AAATATATATT
*
748684 ATAATAAAAAGTATTAAATATAT-TT
1 ATAATAAAAAATATTAAATATATATT
* *
748709 ATCATAAAATAATTTTAAATATA
1 ATAATAAAA-AATATTAAATATA
748732 ATTTTTATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
25 10 0.24
26 19 0.45
27 1 0.02
28 6 0.14
29 6 0.14
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (26 bp):
ATAATAAAAAATATTAAATATATATT
Found at i:754374 original size:2 final size:2
Alignment explanation
Indices: 754369--754402 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
754359 TTAGAGTTAA
754369 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
754403 TGTTTTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:756483 original size:2 final size:2
Alignment explanation
Indices: 756476--756506 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
756466 AAAATAAGAG
756476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
756507 GTACCATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:763770 original size:2 final size:2
Alignment explanation
Indices: 763758--763792 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
763748 TTCGAAAGTG
*
763758 AT AT AT A- AT AT AT AT AT AC 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
763793 GGATGTTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:763961 original size:2 final size:2
Alignment explanation
Indices: 763954--763978 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
763944 GTCAAGCATC
763954 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 T
763979 TGTCAGATGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:766118 original size:2 final size:2
Alignment explanation
Indices: 766111--766154 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
766101 ATCGACCATT
766111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
766153 TA
1 TA
766155 ATTACCTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:767724 original size:24 final size:24
Alignment explanation
Indices: 767670--767730 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
767660 TATGCTTACG
* *
767670 AATATAATAAATATTATTATAATTA
1 AATATAATAAA-ATTATAATAATAA
*
767695 ATTATAATAAAA-TATCAATAATAA
1 AATATAATAAAATTAT-AATAATAA
*
767719 AATATATTAAAA
1 AATATAATAAAA
767731 GTGATTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 3 0.10
24 17 0.57
25 10 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATAATAAAATTATAATAATAA
Found at i:768523 original size:2 final size:2
Alignment explanation
Indices: 768516--768556 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
768506 TATTATGATC
768516 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
768557 CATGTATGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:773235 original size:3 final size:3
Alignment explanation
Indices: 773227--773299 Score: 83
Period size: 3 Copynumber: 23.7 Consensus size: 3
773217 TACGAGTACT
* *
773227 ATA ATA ATA ATA ATA ATA ATA ATCA CTC ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * *
773273 TTA ATA ATCA CTC ATA ATA ATA ATA AT
1 ATA ATA AT-A ATA ATA ATA ATA ATA AT
773300 CACTCTGCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
3 54 0.93
4 4 0.07
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:773260 original size:19 final size:19
Alignment explanation
Indices: 773236--773304 Score: 89
Period size: 19 Copynumber: 4.0 Consensus size: 19
773226 TATAATAATA
773236 ATAATAATAATAATCACTC
1 ATAATAATAATAATCACTC
773255 ATAATAATAATAAT-A---
1 ATAATAATAATAATCACTC
773270 AT-AT--TAATAATCACTC
1 ATAATAATAATAATCACTC
773286 ATAATAATAATAATCACTC
1 ATAATAATAATAATCACTC
773305 TGCTTTATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
12 7 0.16
13 1 0.02
14 2 0.05
15 2 0.05
16 2 0.05
17 2 0.05
18 1 0.02
19 26 0.60
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATAATAATAATCACTC
Found at i:773265 original size:31 final size:31
Alignment explanation
Indices: 773227--773299 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
773217 TACGAGTACT
773227 ATAATAATAATAATAATAATAATCACTCATA
1 ATAATAATAATAATAATAATAATCACTCATA
*
773258 ATAATAATAATAATATTAATAATCACTCATA
1 ATAATAATAATAATAATAATAATCACTCATA
773289 ATAATAATAAT
1 ATAATAATAAT
773300 CACTCTGCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (31 bp):
ATAATAATAATAATAATAATAATCACTCATA
Found at i:782935 original size:12 final size:13
Alignment explanation
Indices: 782918--782946 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
782908 ATCATCATTT
782918 GCCAAAGCA-GCA
1 GCCAAAGCATGCA
782930 GCCAAAGCATGCA
1 GCCAAAGCATGCA
782943 GCCA
1 GCCA
782947 GTTTAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.38, C:0.34, G:0.24, T:0.03
Consensus pattern (13 bp):
GCCAAAGCATGCA
Found at i:783479 original size:2 final size:2
Alignment explanation
Indices: 783474--783498 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
783464 ATATTCGAAT
783474 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 T
783499 GGGTTCAAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:783954 original size:27 final size:25
Alignment explanation
Indices: 783909--783964 Score: 60
Period size: 25 Copynumber: 2.1 Consensus size: 25
783899 TATTTTTATA
*
783909 TTTATATTTTATTTAATTAT-TTTT
1 TTTATATATTATTTAATTATCTTTT
783933 TTTATCATATTATTTAATATTATCGTTTT
1 TTTAT-ATATTATTT-A-ATTATC-TTTT
783962 TTT
1 TTT
783965 GTGACTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 5 0.19
25 8 0.31
26 1 0.04
27 5 0.19
29 7 0.27
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTATATATTATTTAATTATCTTTT
Found at i:785292 original size:2 final size:2
Alignment explanation
Indices: 785285--785312 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
785275 ACAAAATCTA
785285 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
785313 GCACACACAC
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:786275 original size:65 final size:65
Alignment explanation
Indices: 786171--786295 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 65
786161 GCTTCTGCAG
* * * *
786171 TACGGGCACTGATTCTCCTTGGTTTGTCGGATGACTAACCAAAGAAACGATATCATGGTAAGCAT
1 TACGGGCACAGATTCTCCTTGGTTTGTCAGATGACTAACCAAAGAAACCACATCATGGTAAGCAT
* * *
786236 TACGGGCACAGCTTCTCCTTGGTTTGTTAGATGACTAACCAAAGTAACCACATCATGGTA
1 TACGGGCACAGATTCTCCTTGGTTTGTCAGATGACTAACCAAAGAAACCACATCATGGTA
786296 TAGGTTCACG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (65 bp):
TACGGGCACAGATTCTCCTTGGTTTGTCAGATGACTAACCAAAGAAACCACATCATGGTAAGCAT
Found at i:789894 original size:21 final size:21
Alignment explanation
Indices: 789868--789907 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
789858 AAAATTTTGA
789868 TTAA-TTAATGTAAATTTAAAT
1 TTAATTTAAT-TAAATTTAAAT
*
789889 TTAATTTAATTTAATTTAA
1 TTAATTTAATTAAATTTAA
789908 TTTGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TTAATTTAATTAAATTTAAAT
Found at i:789896 original size:5 final size:5
Alignment explanation
Indices: 789880--789910 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
789870 AATTAATGTA
789880 AATTT AAATTT AATTT AATTT AATTT AATTT
1 AATTT -AATTT AATTT AATTT AATTT AATTT
789911 GATAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:789961 original size:32 final size:32
Alignment explanation
Indices: 789925--789991 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
789915 AAAAATTGTT
*
789925 AATAATTTAAAT-TTAAATTGATTCGAATCTAA
1 AATAATTTAAATATGAAA-TGATTCGAATCTAA
* * *
789957 AATAATTTGAATATGAAATGATTTGAATTTAA
1 AATAATTTAAATATGAAATGATTCGAATCTAA
789989 AAT
1 AAT
789992 GATTCAAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 26 0.87
33 4 0.13
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (32 bp):
AATAATTTAAATATGAAATGATTCGAATCTAA
Found at i:789968 original size:16 final size:16
Alignment explanation
Indices: 789925--790032 Score: 63
Period size: 16 Copynumber: 6.8 Consensus size: 16
789915 AAAAATTGTT
*
789925 AATAATTTAAATTTAA
1 AATAATTTGAATTTAA
* * * *
789941 ATTGATTCGAATCTAA
1 AATAATTTGAATTTAA
* *
789957 AATAATTTGAATATGA
1 AATAATTTGAATTTAA
*
789973 AATGATTTGAATTTAA
1 AATAATTTGAATTTAA
* ** * *
789989 AATGATTCAAACTCAA
1 AATAATTTGAATTTAA
* * **
790005 AATAATCTCAATTCGA
1 AATAATTTGAATTTAA
790021 AATAATTTGAAT
1 AATAATTTGAAT
790033 AATTAACTCG
Statistics
Matches: 67, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 67 1.00
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.37
Consensus pattern (16 bp):
AATAATTTGAATTTAA
Found at i:789986 original size:48 final size:48
Alignment explanation
Indices: 789925--790032 Score: 130
Period size: 48 Copynumber: 2.2 Consensus size: 48
789915 AAAAATTGTT
* * * * *
789925 AATAATTTAAATTTAAATTGATTCGAA-TCTAAAATAATTTGAATAT-GA
1 AATAATTTGAATTTAAAATGATTCAAACTC-AAAATAATCTCAAT-TCGA
*
789973 AATGATTTGAATTTAAAATGATTCAAACTCAAAATAATCTCAATTCGA
1 AATAATTTGAATTTAAAATGATTCAAACTCAAAATAATCTCAATTCGA
790021 AATAATTTGAAT
1 AATAATTTGAAT
790033 AATTAACTCG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
47 1 0.02
48 48 0.94
49 2 0.04
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.37
Consensus pattern (48 bp):
AATAATTTGAATTTAAAATGATTCAAACTCAAAATAATCTCAATTCGA
Found at i:791128 original size:16 final size:16
Alignment explanation
Indices: 791103--791178 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
791093 ATCTGAACTT
791103 GAAA-GACTCGAATCC
1 GAAATGACTCGAATCC
*
791118 GAAATGACTCGAATTC
1 GAAATGACTCGAATCC
*
791134 -AAAGTGACTCGAACCC
1 GAAA-TGACTCGAATCC
*
791150 GAAATGA-TCCGAATCT
1 GAAATGACT-CGAATCC
* *
791166 AAAATGACCCGAA
1 GAAATGACTCGAA
791179 CCTGAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 8 0.16
16 38 0.78
17 3 0.06
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (16 bp):
GAAATGACTCGAATCC
Found at i:791163 original size:32 final size:31
Alignment explanation
Indices: 791075--791185 Score: 100
Period size: 32 Copynumber: 3.5 Consensus size: 31
791065 TAAACCCGAT
* * * *
791075 TGACTTGAACCTGAAATGATCTGAACTTGAAA
1 TGACTCGAACCCGAAATGATCCGAA-TTCAAA
*
791107 -GACTCGAATCCGAAATGA-CTCGAATTCAAA
1 TGACTCGAACCCGAAATGATC-CGAATTCAAA
*
791137 GTGACTCGAACCCGAAATGATCCGAATCTAAAA
1 -TGACTCGAACCCGAAATGATCCGAAT-TCAAA
* *
791170 TGACCCGAACCTGAAA
1 TGACTCGAACCCGAAA
791186 ATAACTCAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
30 6 0.09
31 18 0.28
32 36 0.55
33 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (31 bp):
TGACTCGAACCCGAAATGATCCGAATTCAAA
Found at i:791295 original size:29 final size:29
Alignment explanation
Indices: 791263--791368 Score: 76
Period size: 30 Copynumber: 3.5 Consensus size: 29
791253 TCTGTCGGTG
*
791263 TATTATTATAATTATATTTAAAAT-ATTTA
1 TATTATTATAATTATA-ATAAAATAATTTA
* *
791292 TATT-TATATAAATTTTAATATAATAATTTA
1 TATTAT-TAT-AATTATAATAAAATAATTTA
*
791322 TATTA-TATAATT-TAAAAAATTATATATTTA
1 TATTATTATAATTATAATAAA--ATA-ATTTA
791352 TATTATTTATTAATTAT
1 TATTA-TTA-TAATTAT
791369 TTTTTTCATA
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
27 5 0.08
28 5 0.08
29 18 0.30
30 25 0.41
32 2 0.03
33 5 0.08
34 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TATTATTATAATTATAATAAAATAATTTA
Found at i:791328 original size:15 final size:15
Alignment explanation
Indices: 791263--791335 Score: 57
Period size: 15 Copynumber: 5.0 Consensus size: 15
791253 TCTGTCGGTG
*
791263 TATTATTATAA-TTA
1 TATTATAATAATTTA
*
791277 TATT-TAAAATATTTA
1 TATTATAATA-ATTTA
791292 TATT-TATATAAATTT-
1 TATTATA-AT-AATTTA
*
791307 TAATATAATAATTTA
1 TATTATAATAATTTA
791322 TATTAT-ATAATTTA
1 TATTATAATAATTTA
791336 AAAAATTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
13 3 0.06
14 18 0.38
15 19 0.40
16 7 0.15
17 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATAATAATTTA
Found at i:791351 original size:30 final size:30
Alignment explanation
Indices: 791285--791357 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
791275 TATATTTAAA
* *
791285 ATATTTATATTTATATAAATTTTAATATAAT
1 ATATTTATA-TTATATAAATTTAAAAATAAT
*
791316 A-ATTTATATTATAT-AATTTAAAAAATTAT
1 ATATTTATATTATATAAATTT-AAAAATAAT
791345 ATATTTATATTAT
1 ATATTTATATTAT
791358 TTATTAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.14
29 13 0.35
30 18 0.49
31 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
ATATTTATATTATATAAATTTAAAAATAAT
Found at i:792028 original size:4 final size:4
Alignment explanation
Indices: 792021--792052 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
792011 TATATATATA
792021 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
792053 GATTAGATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:792127 original size:4 final size:4
Alignment explanation
Indices: 792118--792144 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
792108 ATTTAAATGC
792118 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
792145 CAATACCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:792711 original size:32 final size:35
Alignment explanation
Indices: 792630--792715 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 35
792620 TATTATTTTG
* *
792630 ATAT-AATTTTTTATATTATAATTATATATTTAGAT
1 ATATAAATATTTTATATTATAA-TAAATATTTAGAT
*
792665 ATATAAATAATTTATATTATAA-AAAT-TTTA-AT
1 ATATAAATATTTTATATTATAATAAATATTTAGAT
**
792697 ATATTTATATTTTATATTA
1 ATATAAATATTTTATATTA
792716 ATTTTTTCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
32 18 0.41
33 4 0.09
34 3 0.07
35 4 0.09
36 15 0.34
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (35 bp):
ATATAAATATTTTATATTATAATAAATATTTAGAT
Found at i:794626 original size:13 final size:13
Alignment explanation
Indices: 794603--794634 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
794593 TTATATTATT
794603 TAAAT-TTAAATA
1 TAAATATTAAATA
794615 TAAATATTAAATA
1 TAAATATTAAATA
794628 TAAATAT
1 TAAATAT
794635 ATATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:795835 original size:34 final size:34
Alignment explanation
Indices: 795792--795882 Score: 164
Period size: 34 Copynumber: 2.6 Consensus size: 34
795782 ATAAAATGCT
795792 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
795826 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
795860 TAATACACCTAACATTCTTCACC
1 TAACACACCTAACATTC-TCACC
795883 TAACACACTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 50 0.91
35 5 0.09
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:805462 original size:28 final size:28
Alignment explanation
Indices: 805410--805463 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
805400 TCAATTATAC
*
805410 ATTTAAAATATTTTTATATTTATATTTT
1 ATTTAAAATATTTTTATATTCATATTTT
*
805438 ATTTAAAATTATTTTTTTA-TCATATT
1 ATTTAAAA-TATTTTTATATTCATATT
805464 ATTTATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTAAAATATTTTTATATTCATATTTT
Found at i:807653 original size:1 final size:1
Alignment explanation
Indices: 807642--807688 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
807632 GAAATCCCAA
* ** *
807642 CCCCTCCCCCCCCCCCCCCCCCAACCCCTCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
807689 GGCCAACCCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.04, C:0.91, G:0.00, T:0.04
Consensus pattern (1 bp):
C
Found at i:807684 original size:29 final size:29
Alignment explanation
Indices: 807642--807698 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
807632 GAAATCCCAA
*
807642 CCCCTCCCCCCCCCCCCCCCCCAACCCCT
1 CCCCCCCCCCCCCCCCCCCCCCAACCCCT
**
807671 CCCCCCCCCCCCCCCCCCGGCCAACCCC
1 CCCCCCCCCCCCCCCCCCCCCCAACCCC
807699 GCTGTACGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.07, C:0.86, G:0.04, T:0.04
Consensus pattern (29 bp):
CCCCCCCCCCCCCCCCCCCCCCAACCCCT
Found at i:807698 original size:24 final size:24
Alignment explanation
Indices: 807637--807687 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
807627 CACTAGAAAT
807637 CCCAACCCCTCCCCCCCCCCCCCC
1 CCCAACCCCTCCCCCCCCCCCCCC
807661 CCCAACCCCTCCCCCCCCCCCCCC
1 CCCAACCCCTCCCCCCCCCCCCCC
807685 CCC
1 CCC
807688 CGGCCAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.08, C:0.88, G:0.00, T:0.04
Consensus pattern (24 bp):
CCCAACCCCTCCCCCCCCCCCCCC
Found at i:811557 original size:11 final size:10
Alignment explanation
Indices: 811532--811575 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
811522 GAAATTTTGA
*
811532 TTAAATTAAT
1 TTAATTTAAT
*
811542 GTAATTTAAAT
1 TTAATTT-AAT
811553 TTAATTTAAT
1 TTAATTTAAT
811563 TTAATTTTAAT
1 TTAA-TTTAAT
811574 TT
1 TT
811576 GATAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 12 0.41
11 17 0.59
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TTAATTTAAT
Found at i:811561 original size:21 final size:21
Alignment explanation
Indices: 811532--811575 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
811522 GAAATTTTGA
811532 TTAAATTAATGTAATTTAAAT
1 TTAAATTAATGTAATTTAAAT
* * *
811553 TTAATTTAATTTAATTTTAAT
1 TTAAATTAATGTAATTTAAAT
811574 TT
1 TT
811576 GATAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAAATTAATGTAATTTAAAT
Found at i:811562 original size:16 final size:16
Alignment explanation
Indices: 811532--811575 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
811522 GAAATTTTGA
*
811532 TTAAA-TTAATGTAAT
1 TTAAATTTAATTTAAT
811547 TTAAATTTAATTTAAT
1 TTAAATTTAATTTAAT
*
811563 TTAATTTTAATTT
1 TTAAATTTAATTT
811576 GATAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTAAATTTAATTTAAT
Found at i:811569 original size:5 final size:5
Alignment explanation
Indices: 811532--811575 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
811522 GAAATTTTGA
* *
811532 TTAAA TTAAT GTAAT TTAAAT TTAAT TTAAT TTAATT TTAAT TT
1 TTAAT TTAAT TTAAT TT-AAT TTAAT TTAAT TTAA-T TTAAT TT
811576 GATAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 24 0.71
6 10 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TTAAT
Found at i:813145 original size:19 final size:20
Alignment explanation
Indices: 813121--813169 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
813111 GTTTCATTAG
813121 AGAAAAGAAAAAAGCA-AAA
1 AGAAAAGAAAAAAGCAGAAA
813140 AGAAAA-ATAAAAAGCAGAAA
1 AGAAAAGA-AAAAAGCAGAAA
* *
813160 TGAAATGAAA
1 AGAAAAGAAA
813170 TAATGAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 14 0.56
20 9 0.36
21 1 0.04
ACGTcount: A:0.73, C:0.04, G:0.16, T:0.06
Consensus pattern (20 bp):
AGAAAAGAAAAAAGCAGAAA
Found at i:813348 original size:17 final size:18
Alignment explanation
Indices: 813322--813362 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
813312 GAAAAGAAAA
* *
813322 ATATATTAAATAAATATT
1 ATATAATAAATAAAAATT
813340 -TATAATAAATAAAAATT
1 ATATAATAAATAAAAATT
813357 ATATAA
1 ATATAA
813363 GTTCGTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATAATAAATAAAAATT
Found at i:816510 original size:9 final size:9
Alignment explanation
Indices: 816496--816520 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
816486 TAAATATAAT
816496 AATTAAAAA
1 AATTAAAAA
816505 AATTAAAAA
1 AATTAAAAA
816514 AATTAAA
1 AATTAAA
816521 GCACAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AATTAAAAA
Found at i:826695 original size:2 final size:2
Alignment explanation
Indices: 826690--826720 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
826680 ATATTCGAAT
826690 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
826721 GGGTTCAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:827176 original size:27 final size:25
Alignment explanation
Indices: 827131--827186 Score: 60
Period size: 25 Copynumber: 2.1 Consensus size: 25
827121 TATTTTTATA
*
827131 TTTATATTTTATTTAATTAT-TTTT
1 TTTATATATTATTTAATTATCTTTT
827155 TTTATCATATTATTTAATATTATCGTTTT
1 TTTAT-ATATTATTT-A-ATTATC-TTTT
827184 TTT
1 TTT
827187 GTGACTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 5 0.19
25 8 0.31
26 1 0.04
27 5 0.19
29 7 0.27
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTATATATTATTTAATTATCTTTT
Found at i:829482 original size:65 final size:65
Alignment explanation
Indices: 829378--829502 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 65
829368 GCTTCTGCAG
* *
829378 TACGGGCACTGATTCTCCTTGGTTTGTCGGATGACTAACCAAAGAAACCACATCATGGTAAGCAT
1 TACGGGCACAGATTCTCCTTGGTTTGTCAGATGACTAACCAAAGAAACCACATCATGGTAAGCAT
* * *
829443 TACGGGCACAGCTTCTCCTTGGTTTGTTAGATGACTAACCAAAGTAACCACATCATGGTA
1 TACGGGCACAGATTCTCCTTGGTTTGTCAGATGACTAACCAAAGAAACCACATCATGGTA
829503 TAGGTTCACG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (65 bp):
TACGGGCACAGATTCTCCTTGGTTTGTCAGATGACTAACCAAAGAAACCACATCATGGTAAGCAT
Found at i:833166 original size:16 final size:16
Alignment explanation
Indices: 833147--833212 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
833137 ATTTAAATTG
833147 ATTCGAATCTAAAATA
1 ATTCGAATCTAAAATA
* * *
833163 ATTCGAATATGAAATG
1 ATTCGAATCTAAAATA
* * *
833179 ATTTGAATTTAAAATG
1 ATTCGAATCTAAAATA
*
833195 ATTC-AAACTCAAAATA
1 ATTCGAATCT-AAAATA
833211 AT
1 AT
833213 CTCAATTCGA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
15 3 0.08
16 36 0.92
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (16 bp):
ATTCGAATCTAAAATA
Found at i:833225 original size:48 final size:48
Alignment explanation
Indices: 833127--833234 Score: 132
Period size: 48 Copynumber: 2.2 Consensus size: 48
833117 AAAAATGGTT
* *
833127 AATAATTTAAATTTAAATTGATTCGAATCTAAAATAATTCGAATATGA
1 AATAATTTAAATTTAAAATGATTCAAATCTAAAATAATTCGAATATGA
* *
833175 AATGATTTGAATTTAAAATGATTCAAA-CTCAAAATAATCTC-AAT-TCGA
1 AATAATTTAAATTTAAAATGATTCAAATCT-AAAATAAT-TCGAATAT-GA
833223 AATAATTTAAAT
1 AATAATTTAAAT
833235 AATTAACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
47 3 0.06
48 46 0.90
49 2 0.04
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (48 bp):
AATAATTTAAATTTAAAATGATTCAAATCTAAAATAATTCGAATATGA
Found at i:834307 original size:16 final size:16
Alignment explanation
Indices: 834277--834387 Score: 79
Period size: 16 Copynumber: 7.0 Consensus size: 16
834267 TAAACTCGAT
* *
834277 TGACTTGAACCTGAAA
1 TGACTCGAACTTGAAA
834293 TGA-TCCGAACTTGAAA
1 TGACT-CGAACTTGAAA
834309 -GACTCGAA-TCTGAAA
1 TGACTCGAACT-TGAAA
*
834324 TGACTCGAA-TTCAAA
1 TGACTCGAACTTGAAA
**
834339 GTGACTCGAACCCGAAA
1 -TGACTCGAACTTGAAA
* *
834356 TGACCCGAA-TCTAAAA
1 TGACTCGAACT-TGAAA
*
834372 TGACCCGAACTTGAAA
1 TGACTCGAACTTGAAA
834388 ATAACTCAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
14 1 0.01
15 16 0.21
16 55 0.72
17 4 0.05
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (16 bp):
TGACTCGAACTTGAAA
Found at i:834518 original size:29 final size:25
Alignment explanation
Indices: 834480--834562 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 25
834470 TTATAATTAT
834480 ATTT-AAAATATTTATATTTATATAA
1 ATTTAAAAATATTTATATTTATAT-A
834505 ATTTTAATATAATAATTTATA-TTATATA
1 A-TTTAA-A-AAT-ATTTATATTTATATA
*
834533 ATTTAAAAA-ATTATATATTTATATT
1 ATTTAAAAATATT-TATATTTATATA
834558 ATTTA
1 ATTTA
834563 TTAATTATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
23 3 0.06
24 4 0.08
25 14 0.28
26 4 0.08
27 6 0.12
28 3 0.06
29 9 0.18
30 7 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTAAAAATATTTATATTTATATA
Found at i:834530 original size:15 final size:15
Alignment explanation
Indices: 834465--834537 Score: 57
Period size: 15 Copynumber: 5.0 Consensus size: 15
834455 TCTGTCGGTG
*
834465 TATTATTATAA-TTA
1 TATTATAATAATTTA
*
834479 TATT-TAAAATATTTA
1 TATTATAATA-ATTTA
834494 TATT-TATATAAATTT-
1 TATTATA-AT-AATTTA
*
834509 TAATATAATAATTTA
1 TATTATAATAATTTA
834524 TATTAT-ATAATTTA
1 TATTATAATAATTTA
834538 AAAAATTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
13 3 0.06
14 18 0.38
15 19 0.40
16 7 0.15
17 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATAATAATTTA
Found at i:834553 original size:30 final size:30
Alignment explanation
Indices: 834487--834559 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
834477 TATATTTAAA
* *
834487 ATATTTATATTTATATAAATTTTAATATAAT
1 ATATTTATA-TTATATAAATTTAAAAATAAT
*
834518 A-ATTTATATTATAT-AATTTAAAAAATTAT
1 ATATTTATATTATATAAATTT-AAAAATAAT
834547 ATATTTATATTAT
1 ATATTTATATTAT
834560 TTATTAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.14
29 13 0.35
30 18 0.49
31 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
ATATTTATATTATATAAATTTAAAAATAAT
Found at i:834918 original size:17 final size:17
Alignment explanation
Indices: 834883--834941 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
834873 TTAATACAAT
834883 TAAAATAATATTTTAATATA
1 TAAAAT-ATA-TTT-ATATA
*
834903 TAAAATATATTTATATT
1 TAAAATATATTTATATA
*
834920 TAAAATAT-TTAAATATA
1 TAAAATATATT-TATATA
834937 TAAAA
1 TAAAA
834942 AAATATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 2 0.06
17 21 0.60
18 3 0.09
19 3 0.09
20 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATATATTTATATA
Found at i:835228 original size:4 final size:4
Alignment explanation
Indices: 835221--835256 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
835211 TATATATATA
835221 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
835257 GATTAGATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:835682 original size:44 final size:43
Alignment explanation
Indices: 835607--835694 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 43
835597 AGATAATTTA
* * *
835607 ATTTAATTTAAATTATTATTTATTTTATAAAATAATAATTTTTT
1 ATTTAATTTAAATTATGATATATATTATAAAA-AATAATTTTTT
* *
835651 ATTTTATTTAAATTATGA-ATATATTAGTAAAAAATATTTTTTT
1 ATTTAATTTAAATTATGATATATATTA-TAAAAAATAATTTTTT
835694 A
1 A
835695 ATATTTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
43 17 0.45
44 21 0.55
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (43 bp):
ATTTAATTTAAATTATGATATATATTATAAAAAATAATTTTTT
Found at i:835900 original size:32 final size:35
Alignment explanation
Indices: 835819--835904 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 35
835809 TATTATATTG
* *
835819 ATAT-AATTTTTTATATTATAATTATATATTTAGAT
1 ATATAAATATTTTATATTATAA-TAAATATTTAGAT
*
835854 ATATAAATAATTTATATTATAA-AAAT-TTTA-AT
1 ATATAAATATTTTATATTATAATAAATATTTAGAT
**
835886 ATATTTATATTTTATATTA
1 ATATAAATATTTTATATTA
835905 ATTTTTTCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
32 18 0.41
33 4 0.09
34 3 0.07
35 4 0.09
36 15 0.34
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (35 bp):
ATATAAATATTTTATATTATAATAAATATTTAGAT
Found at i:837817 original size:13 final size:13
Alignment explanation
Indices: 837794--837825 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
837784 TTATATTATT
837794 TAAAT-TTAAATA
1 TAAATATTAAATA
837806 TAAATATTAAATA
1 TAAATATTAAATA
837819 TAAATAT
1 TAAATAT
837826 ATATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:839026 original size:34 final size:34
Alignment explanation
Indices: 838983--839073 Score: 164
Period size: 34 Copynumber: 2.6 Consensus size: 34
838973 ATAAAATGCT
838983 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
839017 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
839051 TAATACACCTAACATTCTTCACC
1 TAACACACCTAACATTC-TCACC
839074 TAACACACTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 50 0.91
35 5 0.09
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:843823 original size:34 final size:34
Alignment explanation
Indices: 843776--843868 Score: 159
Period size: 34 Copynumber: 2.7 Consensus size: 34
843766 ATATAAAATG
*
843776 CCTAACACGCCTAACATTCTCACCAAATACATCA
1 CCTAACACACCTAACATTCTCACCAAATACATCA
843810 CCTAACACACCTAACATTCTCACCAAATACATCA
1 CCTAACACACCTAACATTCTCACCAAATACATCA
*
843844 CCTAATACACCTAACATTCTTCACC
1 CCTAACACACCTAACATTC-TCACC
843869 TAACACACTT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
34 51 0.91
35 5 0.09
ACGTcount: A:0.38, C:0.39, G:0.01, T:0.23
Consensus pattern (34 bp):
CCTAACACACCTAACATTCTCACCAAATACATCA
Found at i:847819 original size:27 final size:26
Alignment explanation
Indices: 847757--847814 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
847747 ATCAAATATA
* *
847757 AATATATTTAATTTTTTAAAAAATTT
1 AATATATTTAAATTTTTAAAAAAATT
*
847783 AATGTATTTAAATTTTTAAAAAAATT
1 AATATATTTAAATTTTTAAAAAAATT
847809 -ATATAT
1 AATATAT
847815 CTTTATCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AATATATTTAAATTTTTAAAAAAATT
Found at i:851165 original size:21 final size:21
Alignment explanation
Indices: 851126--851165 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
851116 TCTAATCAAT
*
851126 AATTAAATATAAAATTTTAAA
1 AATTAAATATAAAAATTTAAA
851147 AATT-AATATAAATAATTTA
1 AATTAAATATAAA-AATTTA
851166 TTTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTAAATATAAAAATTTAAA
Found at i:851539 original size:23 final size:22
Alignment explanation
Indices: 851500--851542 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
851490 TTATAATAAG
**
851500 ATAAAATGTTAGGTTAATAAAA
1 ATAAAATGTTAAATTAATAAAA
851522 ATAAAATTGTTAAATTAATAA
1 ATAAAA-TGTTAAATTAATAA
851543 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (22 bp):
ATAAAATGTTAAATTAATAAAA
Found at i:852265 original size:16 final size:15
Alignment explanation
Indices: 852218--852271 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
852208 ATGATTTTTG
852218 TTAAAAATATTAATTAT
1 TTAAAAA-ATTAATT-T
*
852235 TTAAAAAA-TATTTT
1 TTAAAAAATTAATTT
852249 TTATAAAAATTAA-TT
1 TTA-AAAAATTAATTT
852264 TTAAAAAA
1 TTAAAAAA
852272 ACATAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 9 0.27
15 14 0.42
16 3 0.09
17 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAAAAAATTAATTT
Found at i:855775 original size:12 final size:12
Alignment explanation
Indices: 855758--855787 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
855748 ATTTTGCAAG
*
855758 CATATATATATA
1 CATATATACATA
855770 CATATATACATA
1 CATATATACATA
855782 CATATA
1 CATATA
855788 CACACGCACG
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:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (12 bp):
CATATATACATA
Found at i:855997 original size:42 final size:42
Alignment explanation
Indices: 855917--856015 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
855907 TAATTGAAGA
* * *
855917 TTATCAAAATTTTATTTAATATTATTAAAATTACTACAAA-G
1 TTATCAAAATTATATTAAATATTACTAAAATTACTACAAATG
* *
855958 CTTATCAAAATTATATTAAATTTTACTAAAA-TATTTACAAATG
1 -TTATCAAAATTATATTAAATATTACTAAAATTA-CTACAAATG
*
856001 TTAACAAAATTATAT
1 TTATCAAAATTATAT
856016 CAAAAGTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 46 0.94
43 1 0.02
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.42
Consensus pattern (42 bp):
TTATCAAAATTATATTAAATATTACTAAAATTACTACAAATG
Found at i:856019 original size:21 final size:21
Alignment explanation
Indices: 855963--856024 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
855953 CAAAGCTTAT
* *
855963 CAAAATTATATTAAAT-TTTA
1 CAAAATTATATCAAATGTTAA
*
855983 CTAAAA-TATTTACAAATGTTAA
1 C-AAAATTATAT-CAAATGTTAA
*
856005 CAAAATTATATCAAAAGTTA
1 CAAAATTATATCAAATGTTA
856025 TATAAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 5 0.15
21 20 0.61
22 8 0.24
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (21 bp):
CAAAATTATATCAAATGTTAA
Found at i:858246 original size:29 final size:28
Alignment explanation
Indices: 858178--858257 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
858168 GATATGTATG
* *
858178 AATTACATAAATAAACATAAAATATAAT
1 AATTAAATAAATAAATATAAAATATAAT
*
858206 AATTAAATTAAATAAATATAAATTAT-AT
1 AATTAAA-TAAATAAATATAAAATATAAT
*
858234 ATATTATTATAAA-AATATATAAAA
1 A-ATTA-AATAAATAA-ATATAAAA
858258 ATTAATTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
28 11 0.26
29 31 0.72
30 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (28 bp):
AATTAAATAAATAAATATAAAATATAAT
Found at i:862424 original size:20 final size:21
Alignment explanation
Indices: 862401--862439 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
862391 AAAATTTAAC
862401 ATTTTA-ATTATTTA-AATAAA
1 ATTTTATATT-TTTATAATAAA
862421 ATTTTATATTTTTATAATA
1 ATTTTATATTTTTATAATA
862440 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTATATTTTTATAATAAA
Found at i:862461 original size:28 final size:28
Alignment explanation
Indices: 862390--862463 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 28
862380 TAATATAATT
*
862390 TAAAA-TTTAACATTTTA-ATTATTTAAA
1 TAAAATTTTAAC-TTTTATAATATTTAAA
*
862417 TAAAATTTTATATTTTTATAATATTTAAA
1 TAAAATTTTA-ACTTTTATAATATTTAAA
862446 T-AAATTCTTAACTTTTAT
1 TAAAATT-TTAACTTTTAT
862464 TTTAATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.12
28 21 0.52
29 14 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAAATTTTAACTTTTATAATATTTAAA
Found at i:862461 original size:29 final size:29
Alignment explanation
Indices: 862390--862475 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 29
862380 TAATATAATT
* *
862390 TAAAA-TTTAACATTTTA-ATTATTTAAA
1 TAAAATTTTAACTTTTTATAATATTTAAA
862417 TAAAATTTTATA-TTTTTATAATATTTAAA
1 TAAAATTTTA-ACTTTTTATAATATTTAAA
*
862446 T-AAATTCTTAACTTTTATTTTAATATTTAA
1 TAAAATT-TTAAC-TTT-TTATAATATTTAA
862476 TTTATACTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
27 5 0.10
28 15 0.31
29 14 0.29
30 3 0.06
31 12 0.24
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAAATTTTAACTTTTTATAATATTTAAA
Found at i:864626 original size:2 final size:2
Alignment explanation
Indices: 864615--864657 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
864605 GAGAAGTATA
864615 GT GT GT -T GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
864656 GT
1 GT
864658 ATATAAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
GT
Found at i:864836 original size:2 final size:2
Alignment explanation
Indices: 864829--864854 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
864819 CATTCTTCAA
864829 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
864855 TGGAGCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:867247 original size:20 final size:20
Alignment explanation
Indices: 867210--867248 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
867200 TTTTTGATAT
867210 ATTAATAATTTTAATTTTAA
1 ATTAATAATTTTAATTTTAA
*
867230 ATTAA-AATTATTATTTTTA
1 ATTAATAATT-TTAATTTTA
867249 TTTATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTAATAATTTTAATTTTAA
Found at i:868465 original size:25 final size:24
Alignment explanation
Indices: 868422--868484 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
868412 TTTTATTATT
*
868422 TATTTAATTAAAAATAAAATAAAAC
1 TATTTAAAT-AAAATAAAATAAAAC
**
868447 TATTTAAATAAAATCAAAATTCAAC
1 TATTTAAATAAAAT-AAAATAAAAC
*
868472 TATTCAAACTAAA
1 TATTTAAA-TAAA
868485 CAAGCAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 5 0.16
25 23 0.72
26 4 0.12
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (24 bp):
TATTTAAATAAAATAAAATAAAAC
Found at i:872946 original size:15 final size:16
Alignment explanation
Indices: 872926--872955 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
872916 TCAATATTTA
872926 ATAATATTT-ATTAAG
1 ATAATATTTAATTAAG
872941 ATAATATTTAATTAA
1 ATAATATTTAATTAA
872956 TTTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAATATTTAATTAAG
Found at i:873476 original size:31 final size:31
Alignment explanation
Indices: 873440--873514 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
873430 CATCCAAATT
873440 TTTAAAAATAAAATGAAATTAAAGTTTATAA
1 TTTAAAAATAAAATGAAATTAAAGTTTATAA
*
873471 TTTAAATAAT-AAATGAAATTAAAGTTTGTAA
1 TTTAAA-AATAAAATGAAATTAAAGTTTATAA
*
873502 TTTAAATATAAAA
1 TTTAAAAATAAAA
873515 ATTATTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 2 0.05
31 35 0.88
32 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (31 bp):
TTTAAAAATAAAATGAAATTAAAGTTTATAA
Found at i:877390 original size:73 final size:73
Alignment explanation
Indices: 877271--877417 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
877261 ACATTGCACA
* *
877271 ATGTCTTGATCTTAAAATTAAGTTTAACATGACATTTCAAACGTGTTACCATTTCTAGATGCGAA
1 ATGTCTCGATCTTAAAATTAAGTTTAACATGACATTTCAAACGTGTTACCATTTCCAGATGCGAA
*
877336 ATTTCATC
66 ACTTCATC
877344 ATGTCTCGATCTTAAAATTAAGTTTAACATGACATTTCAAACGTGTTACCATTTCCAGATGCGAA
1 ATGTCTCGATCTTAAAATTAAGTTTAACATGACATTTCAAACGTGTTACCATTTCCAGATGCGAA
877409 ACTTCATC
66 ACTTCATC
877417 A
1 A
877418 ATAATTCATC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (73 bp):
ATGTCTCGATCTTAAAATTAAGTTTAACATGACATTTCAAACGTGTTACCATTTCCAGATGCGAA
ACTTCATC
Found at i:879639 original size:16 final size:16
Alignment explanation
Indices: 879617--879658 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
879607 TTTAGTTTAA
*
879617 TTCAAATTTTAATTAT
1 TTCAAATTTAAATTAT
*
879633 TTTAAATTTAAATTAT
1 TTCAAATTTAAATTAT
879649 TTCAAATTTA
1 TTCAAATTTA
879659 CGTAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCAAATTTAAATTAT
Found at i:880975 original size:2 final size:2
Alignment explanation
Indices: 880968--881004 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
880958 GAGTAAGGTT
*
880968 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
881005 AATGTTCAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:884008 original size:26 final size:25
Alignment explanation
Indices: 883961--884009 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
883951 GCAACACCAA
**
883961 AAAAAAAAATCCATAATTAAAAAAT
1 AAAAAAAAATCCATAAGGAAAAAAT
*
883986 AAAATAAAATCCAATAAGGAAAAA
1 AAAAAAAAATCC-ATAAGGAAAAA
884010 CAAGAAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.71, C:0.08, G:0.04, T:0.16
Consensus pattern (25 bp):
AAAAAAAAATCCATAAGGAAAAAAT
Found at i:886236 original size:16 final size:17
Alignment explanation
Indices: 886207--886239 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
886197 AATTAATTTT
*
886207 AAAATATAATATTTAAA
1 AAAATATAAAATTTAAA
886224 AAAAT-TAAAATTTAAA
1 AAAATATAAAATTTAAA
886240 TCTCATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATAAAATTTAAA
Found at i:886858 original size:17 final size:17
Alignment explanation
Indices: 886838--886914 Score: 65
Period size: 17 Copynumber: 4.8 Consensus size: 17
886828 TTAAATTCTA
*
886838 AATAAATATTACTATTT
1 AATAAATATTATTATTT
*
886855 AATAAATAATATTA-TT
1 AATAAATATTATTATTT
* *
886871 AA-AAA-A--ATAATAT
1 AATAAATATTATTATTT
*
886884 AATAAAATATTATTATCT
1 AAT-AAATATTATTATTT
886902 AATAAATATTATT
1 AATAAATATTATT
886915 TTAAAAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
12 3 0.06
13 3 0.06
14 1 0.02
15 6 0.12
16 5 0.10
17 22 0.46
18 8 0.17
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAATATTATTATTT
Found at i:886935 original size:44 final size:45
Alignment explanation
Indices: 886836--886936 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 45
886826 ATTTAAATTC
* *
886836 TAAATAAATATTACTATTTAATAAATAATATTATTAAAAAAATAA
1 TAAAAAAATATTACTATCTAATAAATAATATTATTAAAAAAATAA
* * *
886881 TATAATAAAATATTATTATCTAATAAATATTATT-TT-AAAAATTACA
1 TA-AA-AAAATATTACTATCTAATAAATAATATTATTAAAAAAATA-A
886927 TAAAAAAATA
1 TAAAAAAATA
886937 AACCAATTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
44 6 0.12
45 11 0.23
46 7 0.15
47 24 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (45 bp):
TAAAAAAATATTACTATCTAATAAATAATATTATTAAAAAAATAA
Found at i:889980 original size:3 final size:3
Alignment explanation
Indices: 889974--889998 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
889964 TGTTTTTTTT
889974 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
889999 GTTTCTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:894487 original size:21 final size:20
Alignment explanation
Indices: 894446--894496 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
894436 TATATAATTT
* *
894446 TTTAAAAATTTTTATATATA
1 TTTAAAAAATTATATATATA
*
894466 TTTAAAAAATTATATTTAATA
1 TTTAAAAAATTATATAT-ATA
*
894487 TTAAAAAAAT
1 TTTAAAAAAT
894497 AAAAATTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAAAAATTATATATATA
Found at i:894904 original size:17 final size:17
Alignment explanation
Indices: 894882--894945 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
894872 CGAATATAGT
*
894882 TATTTATATATAATATA
1 TATTTAAATATAATATA
* * **
894899 TATTTAATTTTTTTATA
1 TATTTAAATATAATATA
*
894916 TATTTAAAATATTATATA
1 TATTT-AAATATAATATA
894934 TATTTAAATATA
1 TATTTAAATATA
894946 TGTCAAATAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 23 0.62
18 14 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTAAATATAATATA
Found at i:894932 original size:16 final size:17
Alignment explanation
Indices: 894911--894944 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
894901 TTTAATTTTT
894911 TTATATAT-TTAAAATA
1 TTATATATATTAAAATA
*
894927 TTATATATATTTAAATA
1 TTATATATATTAAAATA
894944 T
1 T
894945 ATGTCAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATATATATTAAAATA
Found at i:899565 original size:17 final size:18
Alignment explanation
Indices: 899529--899568 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
899519 TTATGTTCAC
* *
899529 ACAAATGTTTATGTCAAA
1 ACAAATATTCATGTCAAA
899547 ACAAATATTCATG-CAAA
1 ACAAATATTCATGTCAAA
899564 ACAAA
1 ACAAA
899569 ATCCTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (18 bp):
ACAAATATTCATGTCAAA
Found at i:901382 original size:17 final size:20
Alignment explanation
Indices: 901344--901386 Score: 65
Period size: 17 Copynumber: 2.3 Consensus size: 20
901334 AATATATTAA
901344 AATTTAAATTGATTTGATTT
1 AATTTAAATTGATTTGATTT
901364 AATTTAAATT-A-TT-ATTT
1 AATTTAAATTGATTTGATTT
901381 AATTTA
1 AATTTA
901387 TATAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 2 0.09
19 1 0.04
20 10 0.43
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
AATTTAAATTGATTTGATTT
Found at i:901458 original size:38 final size:37
Alignment explanation
Indices: 901385--901460 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 37
901375 TTATTTAATT
**
901385 TATATAAAATTATTTTTATATATATTTAATTATAAAA
1 TATATAAAATTATTTTTATATATATTTAAAAATAAAA
901422 TATATAAAAATTATATTTTA-ATAT-TTTAAAAAATAAAA
1 TATAT-AAAATTAT-TTTTATATATATTT-AAAAATAAAA
901460 T
1 T
901461 TTTAATTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 8 0.24
38 21 0.62
39 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (37 bp):
TATATAAAATTATTTTTATATATATTTAAAAATAAAA
Found at i:908102 original size:24 final size:25
Alignment explanation
Indices: 908066--908113 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
908056 TAATAAATAT
*
908066 AAAATTTAGATATTAAATTATAAAA
1 AAAAATTAGATATTAAATTATAAAA
908091 AAAAATTA-ATATTAAATTATAAA
1 AAAAATTAGATATTAAATTATAAA
908114 TCAAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
AAAAATTAGATATTAAATTATAAAA
Found at i:910717 original size:18 final size:20
Alignment explanation
Indices: 910672--910718 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
910662 CTATTTAAAA
910672 AATTAAATTATTAATTTATT
1 AATTAAATTATTAATTTATT
** *
910692 AAAAAAATTA-TATTTTA-T
1 AATTAAATTATTAATTTATT
910710 AATTAAATT
1 AATTAAATT
910719 TAAATTAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 8 0.36
19 6 0.27
20 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTAAATTATTAATTTATT
Found at i:912823 original size:19 final size:19
Alignment explanation
Indices: 912778--912824 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
912768 AATATCATCG
* *
912778 TATATTTTATTTTTTAAAT
1 TATATTTTATATTTTAAAA
912797 TA-ATTTTTATATTTTAAAA
1 TATA-TTTTATATTTTAAAA
912816 TATATTTTA
1 TATATTTTA
912825 AAGAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATTTTATATTTTAAAA
Found at i:915885 original size:9 final size:8
Alignment explanation
Indices: 915875--915950 Score: 55
Period size: 9 Copynumber: 9.0 Consensus size: 8
915865 TTTCACAAAT
915875 TTTTTATA
1 TTTTTATA
915883 TTTTTATAA
1 TTTTTAT-A
*
915892 TTTTAATA
1 TTTTTATA
*
915900 CGTTTTATA
1 -TTTTTATA
*
915909 TATTTATA
1 TTTTTATA
*
915917 -TTTTATT
1 TTTTTATA
915924 TTATATTATA
1 TT-T-TTATA
*
915934 TTTTAATTA
1 TTTTTA-TA
915943 TTTTTATA
1 TTTTTATA
915951 AAATAAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
7 5 0.10
8 19 0.37
9 22 0.42
10 6 0.12
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (8 bp):
TTTTTATA
Found at i:915928 original size:12 final size:12
Alignment explanation
Indices: 915904--915950 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
915894 TTAATACGTT
915904 TTATATATTTATA
1 TTATAT-TTTATA
*
915917 TTTTATTTTATA
1 TTATATTTTATA
915929 TTATATTTTA-A
1 TTATATTTTATA
915940 TTAT-TTTTATA
1 TTATATTTTATA
915951 AAATAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 15 0.48
13 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:915949 original size:17 final size:16
Alignment explanation
Indices: 915875--915950 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 16
915865 TTTCACAAAT
*
915875 TTTTTATATTTTTATAA
1 TTTTTATA-TTTTATTA
*
915892 TTTTAATACGTTTTA-TA
1 TTTTTATA--TTTTATTA
*
915909 TATTTATATTTTATT-
1 TTTTTATATTTTATTA
915924 TTATATTATATTTTAATTA
1 TT-T-TTATATTTT-ATTA
915943 TTTTTATA
1 TTTTTATA
915951 AAATAAATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
15 6 0.13
16 2 0.04
17 28 0.60
18 9 0.19
19 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (16 bp):
TTTTTATATTTTATTA
Found at i:921277 original size:6 final size:6
Alignment explanation
Indices: 921261--921322 Score: 88
Period size: 6 Copynumber: 10.3 Consensus size: 6
921251 GAACTTTATG
* * *
921261 TACATA CACATA TACATA TACGTA TACACA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
921309 TACATA TACCTA TA
1 TACATA TACATA TA
921323 TAAAAGATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.31
Consensus pattern (6 bp):
TACATA
Found at i:922807 original size:2 final size:2
Alignment explanation
Indices: 922802--922838 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
922792 ATATTATGAA
922802 AT AT AT AT AT 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 AT AT AT AT AT A
922839 GAATTTGTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:931346 original size:15 final size:15
Alignment explanation
Indices: 931322--931360 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
931312 ACCAAAAGCT
*
931322 GAGAAAAAGCCAGCG
1 GAGAAGAAGCCAGCG
*
931337 GAGAAGAAGCCAGCT
1 GAGAAGAAGCCAGCG
*
931352 GAGGAGAAG
1 GAGAAGAAG
931361 AAGACCGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.38, T:0.03
Consensus pattern (15 bp):
GAGAAGAAGCCAGCG
Found at i:932223 original size:21 final size:22
Alignment explanation
Indices: 932199--932255 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
932189 TCTACCAAAA
*
932199 TTTATATTAAATAAAAAATA-T
1 TTTATATTAAATAAAAAACACT
* *
932220 TTTATATTTAATATAAAACACT
1 TTTATATTAAATAAAAAACACT
*
932242 TTAATATTATAATA
1 TTTATATTA-AATA
932256 TAAATTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 17 0.59
22 8 0.28
23 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTATATTAAATAAAAAACACT
Found at i:932237 original size:22 final size:22
Alignment explanation
Indices: 932199--932259 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
932189 TCTACCAAAA
*
932199 TTTATA-TTAA-ATAAAAAATAT
1 TTTATATTTAATATAAAACA-AT
*
932220 TTTATATTTAATATAAAACACT
1 TTTATATTTAATATAAAACAAT
*
932242 TTAATATTATAATATAAA
1 TTTATATT-TAATATAAA
932260 TTTTAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.18
22 12 0.35
23 16 0.47
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTATATTTAATATAAAACAAT
Found at i:932390 original size:14 final size:14
Alignment explanation
Indices: 932373--932428 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
932363 TATAATTATA
932373 TTTAATATATAAAT
1 TTTAATATATAAAT
932387 TTTAATATATTATTAAT
1 TTTAATATA-TA--AAT
**
932404 TTATTTTATATAAAT
1 TT-TAATATATAAAT
932419 TTTAATATAT
1 TTTAATATAT
932429 TTACCTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 15 0.44
15 7 0.21
17 7 0.21
18 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATATATAAAT
Found at i:932409 original size:21 final size:21
Alignment explanation
Indices: 932385--932430 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
932375 TAATATATAA
* *
932385 ATTTTA-ATATATTATTAATTT
1 ATTTTATATAAATT-TTAATAT
932406 ATTTTATATAAATTTTAATAT
1 ATTTTATATAAATTTTAATAT
932427 ATTT
1 ATTT
932431 ACCTTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTATATAAATTTTAATAT
Found at i:932419 original size:32 final size:33
Alignment explanation
Indices: 932358--932429 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
932348 CATATATTAT
932358 TATATTATAATTATATTTAATATATAAATTTTAA
1 TATATTATAATTATATTT-ATATATAAATTTTAA
932392 TATATTATTAATT-TATTT-TATATAAATTTTAA
1 TATATTA-TAATTATATTTATATATAAATTTTAA
932424 TATATT
1 TATATT
932430 TACCTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 20 0.54
34 12 0.32
35 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TATATTATAATTATATTTATATATAAATTTTAA
Found at i:933171 original size:18 final size:18
Alignment explanation
Indices: 933143--933192 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
933133 TTTATAAAAA
*
933143 AATATTTAAATATTTATTT
1 AATAATTAAATATTT-TTT
*
933162 GAT-ATTAAATAATTTTTT
1 AATAATTAAAT-ATTTTTT
933180 AATAATTAAATAT
1 AATAATTAAATAT
933193 ATTAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AATAATTAAATATTTTTT
Found at i:933176 original size:19 final size:19
Alignment explanation
Indices: 933143--933191 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
933133 TTTATAAAAA
*
933143 AATATTTAAAT-ATTTATTT
1 AATAATTAAATAATTT-TTT
*
933162 GAT-ATTAAATAATTTTTT
1 AATAATTAAATAATTTTTT
933180 AATAATTAAATA
1 AATAATTAAATA
933192 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AATAATTAAATAATTTTTT
Found at i:935954 original size:2 final size:2
Alignment explanation
Indices: 935949--935983 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
935939 TGTTTATGAC
*
935949 TA TA TA TT 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
935984 GTACATAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Done.