Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 2 of 208
Found at i:510341 original size:67 final size:70
Alignment explanation
Indices: 510250--510392 Score: 204
Period size: 67 Copynumber: 2.1 Consensus size: 70
510240 GTTTCGGATA
*
510250 ATTTCGGGCTCATATTGAACGGTGTTGGA-TAT-TTTTTTAGTCAAATC-GAG-TTTAAAATTTC
1 ATTTTGGGCTCATATTGAACGGTGTTGGATTATCTTTTTTAGTCAAATCAG-GTTTTAAAATTTC
510311 CAAATC
65 CAAATC
* * *
510317 ATTTTGGGCTCATATTGAATGGTGTTGGATTATCTTTTTTTGTCAAATCAGGTTTTGAAATTTCC
1 ATTTTGGGCTCATATTGAACGGTGTTGGATTATCTTTTTTAGTCAAATCAGGTTTTAAAATTTCC
*
510382 AGATC
66 AAATC
510387 ATTTTG
1 ATTTTG
510393 ATTTGGGTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
67 27 0.40
68 3 0.04
69 15 0.22
70 22 0.33
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (70 bp):
ATTTTGGGCTCATATTGAACGGTGTTGGATTATCTTTTTTAGTCAAATCAGGTTTTAAAATTTCC
AAATC
Found at i:518559 original size:2 final size:2
Alignment explanation
Indices: 518554--518583 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
518544 AATAAAAAGA
518554 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
518584 GGTAAGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:518807 original size:21 final size:21
Alignment explanation
Indices: 518775--518817 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
518765 TGAAGTTAGG
*
518775 AATATATTATTTATCTTTTAAAA
1 AATATAAT-TTTAT-TTTTAAAA
518798 AATATAATTTTATTTTTAAA
1 AATATAATTTTATTTTTAAA
518818 TGAATTACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATAATTTTATTTTTAAAA
Found at i:528791 original size:7 final size:7
Alignment explanation
Indices: 528781--528813 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
528771 ACAAAAACCC
528781 AAAACGT
1 AAAACGT
528788 AAAACGT
1 AAAACGT
528795 AAAACGT
1 AAAACGT
528802 AAAACGT
1 AAAACGT
528809 AAAAC
1 AAAAC
528814 AAAGAGGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.61, C:0.15, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAACGT
Found at i:528791 original size:21 final size:20
Alignment explanation
Indices: 528768--528816 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
528758 AACTGAAACA
528768 AAAACAAAAACCCAAAACGT
1 AAAACAAAAACCCAAAACGT
* **
528788 AAAACGTAAAACGTAAAACGT
1 AAAAC-AAAAACCCAAAACGT
528809 AAAACAAA
1 AAAACAAA
528817 GAGGTTAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.65, C:0.18, G:0.08, T:0.08
Consensus pattern (20 bp):
AAAACAAAAACCCAAAACGT
Found at i:529590 original size:29 final size:29
Alignment explanation
Indices: 529506--529593 Score: 72
Period size: 31 Copynumber: 2.9 Consensus size: 29
529496 AATTGAATCA
* *
529506 AAATCAAAGTTCCATATA-CACATATGAATT
1 AAATCAAAGTT-CATATATCAAAT-TGCATT
* * *
529536 ACAATTAAAGTTTCATGTGT-ATAATTGCATT
1 A-AATCAAAG-TTCATATATCA-AATTGCATT
529567 AAATCAAAGTTCATATATCAAATTGCA
1 AAATCAAAGTTCATATATCAAATTGCA
529594 CATTGAACTA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
29 14 0.31
30 9 0.20
31 18 0.40
32 4 0.09
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (29 bp):
AAATCAAAGTTCATATATCAAATTGCATT
Found at i:531897 original size:27 final size:25
Alignment explanation
Indices: 531864--531932 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 25
531854 TACTTTATGC
531864 TATTTTTTAAAATTTTTATGAACTTTA
1 TATTTTTTAAAATTTTT-T-AACTTTA
** * *
531891 TATTTTTTTGAATTTTTTTATTTTA
1 TATTTTTTAAAATTTTTTAACTTTA
531916 TATGTTTTTATAAATTT
1 TAT-TTTTTA-AAATTT
531933 AAAATTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 8 0.24
26 6 0.18
27 20 0.59
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (25 bp):
TATTTTTTAAAATTTTTTAACTTTA
Found at i:538392 original size:29 final size:29
Alignment explanation
Indices: 538358--538415 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
538348 ATTTGATTTT
*
538358 TTTAATAATATAGAGACTAAATTGATACA
1 TTTAATAATAGAGAGACTAAATTGATACA
* * *
538387 TTTAATAGTAGAGGGACTAATTTGATACA
1 TTTAATAATAGAGAGACTAAATTGATACA
538416 ATCTATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (29 bp):
TTTAATAATAGAGAGACTAAATTGATACA
Found at i:543528 original size:27 final size:26
Alignment explanation
Indices: 543479--543530 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
543469 GATATTAATT
*
543479 ATTTTAATTAATTAATAACATTATAA
1 ATTTTAACTAATTAATAACATTATAA
*
543505 ATTTTAAACTAATTAATAATATTATA
1 ATTTT-AACTAATTAATAACATTATA
543531 TAAATATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTTAACTAATTAATAACATTATAA
Found at i:544678 original size:2 final size:2
Alignment explanation
Indices: 544671--544697 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
544661 CGATCCCTTT
544671 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
544698 TTTTGTTTTG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:553925 original size:26 final size:27
Alignment explanation
Indices: 553873--553926 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
553863 TTTTTTTAAA
* *
553873 AATATTTATATTATTTTATCTTATTTT
1 AATATTTATATAATTTTATCATATTTT
553900 AATATTTA-ATAATTTTATACAT-TTTT
1 AATATTTATATAATTTTAT-CATATTTT
553926 A
1 A
553927 TTTATTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (27 bp):
AATATTTATATAATTTTATCATATTTT
Found at i:559645 original size:28 final size:30
Alignment explanation
Indices: 559575--559652 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
559565 GTCATTTGGT
* *
559575 TTAAATACCAAATTGAATATTGAAATTAAAC
1 TTAAATACCAAATTGAA-ATAGAAATAAAAC
*
559606 TTAAATATCAAATTGAAA-AGAAA-AAAAC
1 TTAAATACCAAATTGAAATAGAAATAAAAC
559634 TTAAATACCAAATTTGAAA
1 TTAAATACCAAA-TTGAAA
559653 CTAAACTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 15 0.36
29 10 0.24
30 1 0.02
31 16 0.38
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.28
Consensus pattern (30 bp):
TTAAATACCAAATTGAAATAGAAATAAAAC
Found at i:559652 original size:24 final size:24
Alignment explanation
Indices: 559625--559670 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
559615 AAATTGAAAA
559625 GAAA-AAAACTTAAATACCAAATTT
1 GAAACAAAACTT-AATACCAAATTT
* *
559649 GAAACTAAACTTAATACTAAAT
1 GAAACAAAACTTAATACCAAAT
559671 GATATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (24 bp):
GAAACAAAACTTAATACCAAATTT
Found at i:564450 original size:9 final size:9
Alignment explanation
Indices: 564436--564464 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
564426 GTAGTTATTC
564436 AATTCGGTT
1 AATTCGGTT
564445 AATTCGGTT
1 AATTCGGTT
564454 AATTCGGTT
1 AATTCGGTT
564463 AA
1 AA
564465 CCGACCGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:564813 original size:42 final size:42
Alignment explanation
Indices: 564761--564860 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
564751 GATCTTGGAA
* * **
564761 TCGCACACTTAGTGCCGGTTATTCGACATCGTCATTTTTGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
* *
564803 TCGCACACTTAGTTCCCGTTATTCAACATTGTCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
564845 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
564861 ATTCGTATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
Found at i:569206 original size:20 final size:20
Alignment explanation
Indices: 569168--569206 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
569158 ATCAAAAAGT
*
569168 AAATTGATTCTTCTACTACA
1 AAATTGATTCATCTACTACA
569188 AAATTGCATTCATCT-CTAC
1 AAATTG-ATTCATCTACTAC
569207 GGTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATTGATTCATCTACTACA
Found at i:577740 original size:2 final size:2
Alignment explanation
Indices: 577733--577761 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
577723 ACGCATGTGA
577733 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 A
577762 GTTAATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:580141 original size:20 final size:20
Alignment explanation
Indices: 580103--580141 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
580093 GTTTGTAGTC
580103 TTGGTCCATTCGATTCAACTT
1 TTGGTCCATTC-ATTCAACTT
580124 TTGGTCCACTTC-TTCAAC
1 TTGGTCCA-TTCATTCAAC
580142 CACTTGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (20 bp):
TTGGTCCATTCATTCAACTT
Found at i:582546 original size:34 final size:35
Alignment explanation
Indices: 582502--582568 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
582492 CAGTAAAATA
*
582502 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
* *
582536 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
582569 CTGTTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:593154 original size:40 final size:40
Alignment explanation
Indices: 593099--593179 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
593089 GTCAATCACG
593099 CTAGTTTTTAACAGTACAAATGGATAAATTTTTTTACAGA
1 CTAGTTTTTAACAGTACAAATGGATAAATTTTTTTACAGA
*
593139 CTAGTTTTTAACAGTACAAATGGATGAATTTTTTTACAGA
1 CTAGTTTTTAACAGTACAAATGGATAAATTTTTTTACAGA
593179 C
1 C
593180 AACATCGATC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (40 bp):
CTAGTTTTTAACAGTACAAATGGATAAATTTTTTTACAGA
Found at i:595529 original size:29 final size:28
Alignment explanation
Indices: 595485--595551 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
595475 GTTTGACATG
* *
595485 AATTTTAAAATTTAAAAGTAGAGAGACTA
1 AATTTTAAAA-GTAAAAATAGAGAGACTA
* *
595514 AATTCTTAAAAGTAAAAATATAGGGACTA
1 AATT-TTAAAAGTAAAAATAGAGAGACTA
595543 AATTTTAAA
1 AATTTTAAA
595552 TTTGAGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.15
29 22 0.67
30 6 0.18
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (28 bp):
AATTTTAAAAGTAAAAATAGAGAGACTA
Found at i:605342 original size:2 final size:2
Alignment explanation
Indices: 605335--605371 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
605325 GATGAACCTT
605335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
605372 TATGGCCATT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:617388 original size:93 final size:93
Alignment explanation
Indices: 617287--617461 Score: 305
Period size: 93 Copynumber: 1.9 Consensus size: 93
617277 TTTGTAAAAT
617287 CTAACATTTTGCTAGTAAAATTATTAATTGTTAATTGTATTAATTGCTACTAAAATTATCAAATT
1 CTAACATTTTGCTAGTAAAATTATTAATTGTTAATTGTATTAATTGCTACTAAAATTATCAAATT
*
617352 ATATTAAATTATTAATTATTAATTGTTA
66 ATATCAAATTATTAATTATTAATTGTTA
* * * *
617380 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTTTATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGCTAGTAAAATTATTAATTGTTAATTGTATTAATTGCTACTAAAATTATCAAATT
617445 ATATCAAATTATTAATT
66 ATATCAAATTATTAATT
617462 GTTGTAACAA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (93 bp):
CTAACATTTTGCTAGTAAAATTATTAATTGTTAATTGTATTAATTGCTACTAAAATTATCAAATT
ATATCAAATTATTAATTATTAATTGTTA
Found at i:620078 original size:19 final size:20
Alignment explanation
Indices: 620054--620092 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
620044 GTAAGTTGTG
620054 AATTTAGACA-TTTTAGTTT
1 AATTTAGACATTTTTAGTTT
*
620073 AATTTAGTCATTTTTAGTTT
1 AATTTAGACATTTTTAGTTT
620093 TATTCGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (20 bp):
AATTTAGACATTTTTAGTTT
Found at i:620264 original size:36 final size:36
Alignment explanation
Indices: 620222--620295 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
620212 AAAGTTGGTT
**
620222 AATAATTTGATGACTATCATTTGCATAAAGACTTGA
1 AATAATTTGACAACTATCATTTGCATAAAGACTTGA
* ** *
620258 AATAATTTGACAACTGTCATTTGTGTAAGGACTTGA
1 AATAATTTGACAACTATCATTTGCATAAAGACTTGA
620294 AA
1 AA
620296 ATTCAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (36 bp):
AATAATTTGACAACTATCATTTGCATAAAGACTTGA
Found at i:622466 original size:17 final size:17
Alignment explanation
Indices: 622446--622480 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
622436 CTTTTAGAAC
622446 CATAAAGTTTTTGCAGT
1 CATAAAGTTTTTGCAGT
622463 CATAAAGTTTTTGCAGT
1 CATAAAGTTTTTGCAGT
622480 C
1 C
622481 CCGATGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (17 bp):
CATAAAGTTTTTGCAGT
Found at i:633628 original size:24 final size:22
Alignment explanation
Indices: 633592--633635 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 22
633582 AATTAATTAA
633592 TTTTTAAAAAAATTTAAAATATT
1 TTTTTAAAAAAA-TTAAAATATT
633615 TTTTATAAAAAAATTAAAATA
1 TTTT-TAAAAAAATTAAAATA
633636 CTAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTTAAAAAAATTAAAATATT
Found at i:641437 original size:22 final size:22
Alignment explanation
Indices: 641395--641440 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
641385 TAAGACCCAA
*
641395 CAAATGCATCTCATGGAAAGCC
1 CAAATGCATCTCATAGAAAGCC
*
641417 CAAATGGCATCTC-TAGCAAGCC
1 CAAAT-GCATCTCATAGAAAGCC
641439 CA
1 CA
641441 TTTTGGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (22 bp):
CAAATGCATCTCATAGAAAGCC
Found at i:645584 original size:19 final size:19
Alignment explanation
Indices: 645560--645618 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
645550 AATTGCATCG
645560 AAAAGAAATGGGTATAAGA
1 AAAAGAAATGGGTATAAGA
* *
645579 AAAAGAACT---TAT-CG-
1 AAAAGAAATGGGTATAAGA
645593 AAAAGAAATGGGTATAAGA
1 AAAAGAAATGGGTATAAGA
645612 AAAAGAA
1 AAAAGAA
645619 CTTACTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 8 0.26
15 1 0.03
16 3 0.10
17 3 0.10
18 1 0.03
19 15 0.48
ACGTcount: A:0.59, C:0.03, G:0.22, T:0.15
Consensus pattern (19 bp):
AAAAGAAATGGGTATAAGA
Found at i:645593 original size:33 final size:33
Alignment explanation
Indices: 645556--645622 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
645546 TGTAAATTGC
645556 ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
1 ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
645589 ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
1 ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
645622 A
1 A
645623 CTTTTCTATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.55, C:0.06, G:0.21, T:0.18
Consensus pattern (33 bp):
ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
Found at i:647007 original size:210 final size:211
Alignment explanation
Indices: 646645--647219 Score: 983
Period size: 210 Copynumber: 2.7 Consensus size: 211
646635 CCCTACTCTC
646645 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
1 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
*
646710 ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTCG
66 ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTCG
646775 ACAACCCGTCTCCTATCTTGCTTAAGTTTT-GACACGAGGAAATGTGAAGCTTTTCAAGAGATGA
131 ACAACCCGTCTCCTATCTTGCTTAAGTTTTCGACACGAGGAAATGTGAAGCTTTTCAAGAGATGA
646839 ACATCTTCCTCTTATT
196 ACATCTTCCTCTTATT
646855 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
1 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
* * ** * * * **
646920 ATCTGGAATAGAACTTAAATTAGGACAATCACTTAACTTCAATTCTTCAAGATTAGTGGAGGTCG
66 ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTCG
* * *
646985 ACAACCCATCTCCAATCTTGCTT-AGTTTTCGACACGAGGAAATGTGAAGCTTTTGAAGAGATGA
131 ACAACCCGTCTCCTATCTTGCTTAAGTTTTCGACACGAGGAAATGTGAAGCTTTTCAAGAGATGA
647049 ACATCTTCCTCTTATT
196 ACATCTTCCTCTTATT
647065 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
1 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
* *
647130 ATCTGGAATGGAGCTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTAG
66 ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTCG
* *
647195 ACAACCCGCCTCCTATCTCGCTTAA
131 ACAACCCGTCTCCTATCTTGCTTAA
647220 TTCCTTACAC
Statistics
Matches: 335, Mismatches: 28, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
209 6 0.02
210 328 0.98
211 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (211 bp):
GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTCG
ACAACCCGTCTCCTATCTTGCTTAAGTTTTCGACACGAGGAAATGTGAAGCTTTTCAAGAGATGA
ACATCTTCCTCTTATT
Found at i:651564 original size:42 final size:42
Alignment explanation
Indices: 651507--651674 Score: 309
Period size: 42 Copynumber: 4.0 Consensus size: 42
651497 GTTTTTAAGA
*
651507 AAGCTGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
651549 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
651591 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
* *
651633 AAGCTGGTGTATTTAAGAAGGTTAGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
651675 TCTGATGGAT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 123 1.00
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.36
Consensus pattern (42 bp):
AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
Found at i:655783 original size:32 final size:34
Alignment explanation
Indices: 655729--655793 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
655719 ATCTTTAAAT
* *
655729 AATTAAAAATCATAATTTAAAATATTATGAAACA
1 AATTAAAAATAATAATTTAAAATATTATAAAACA
655763 AATTAAAAA-AAT-ATTTAAAATATTATAAAAC
1 AATTAAAAATAATAATTTAAAATATTATAAAAC
655794 TAATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 18 0.62
33 2 0.07
34 9 0.31
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (34 bp):
AATTAAAAATAATAATTTAAAATATTATAAAACA
Found at i:655873 original size:21 final size:21
Alignment explanation
Indices: 655849--655895 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
655839 TTATATTATT
*
655849 AAAAAT-ATATTTAATATTTA
1 AAAAATAATATTTAAAATTTA
655869 AAAAATAATATTTAAAATTTTA
1 AAAAATAATATTTAAAA-TTTA
655891 AAAAA
1 AAAAA
655896 GTGCTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 9 0.38
22 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATAATATTTAAAATTTA
Found at i:656604 original size:30 final size:31
Alignment explanation
Indices: 656570--656629 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
656560 ATCATAATAT
* *
656570 AAAATATTATGAAACAAATTA-AAAATATTA
1 AAAATATTATAAAACAAATAATAAAATATTA
*
656600 AAAATATTATAAAACTAATAATAAAATATT
1 AAAATATTATAAAACAAATAATAAAATATT
656630 TAGATGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (31 bp):
AAAATATTATAAAACAAATAATAAAATATTA
Found at i:656664 original size:21 final size:21
Alignment explanation
Indices: 656648--656697 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
656638 TTATATTATT
656648 AAAAA-AATATTTAATATTTA
1 AAAAATAATATTTAATATTTA
* *
656668 AAAAATAATATTTAAAATTGA
1 AAAAATAATATTTAATATTTA
656689 AAAAATAAT
1 AAAAATAAT
656698 TTCAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAAATAATATTTAATATTTA
Found at i:656713 original size:34 final size:34
Alignment explanation
Indices: 656663--656730 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
656653 AATATTTAAT
656663 ATTTAAAAAATAATATTTAAAA-TTGAAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTGAAAAAATA
* *
656696 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
1 ATTTAAAAAATA-ATATTTAAAATTTGAAAAAATA
656731 TATATTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 11 0.35
34 10 0.32
35 10 0.32
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (34 bp):
ATTTAAAAAATAATATTTAAAATTTGAAAAAATA
Found at i:656766 original size:46 final size:44
Alignment explanation
Indices: 656703--656789 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 44
656693 ATAATTTCAA
* *
656703 AAATATATATTTAAAATTTTAAAAAATATATATTATAAAAAATTTC
1 AAATATACATTTAAAATTTTAAAAAAT-TA-ATAATAAAAAATTTC
* **
656749 AAATATACATTTTAAATTTTTTAAAATTAATAATAAAAAAT
1 AAATATACATTTAAAATTTTAAAAAATTAATAATAAAAAAT
656790 AAAATAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 11 0.31
45 2 0.06
46 23 0.64
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (44 bp):
AAATATACATTTAAAATTTTAAAAAATTAATAATAAAAAATTTC
Found at i:656775 original size:23 final size:23
Alignment explanation
Indices: 656702--656775 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
656692 AATAATTTCA
* **
656702 AAAATATATATTTAAAATTTTAA
1 AAAATATATATTTTAAATTTTTT
* ***
656725 AAAATATATATTATAAAAAATTT
1 AAAATATATATTTTAAATTTTTT
* *
656748 CAAATATACATTTTAAATTTTTT
1 AAAATATATATTTTAAATTTTTT
656771 AAAAT
1 AAAAT
656776 TAATAATAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATATATATTTTAAATTTTTT
Found at i:656799 original size:13 final size:14
Alignment explanation
Indices: 656771--656811 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
656761 TAAATTTTTT
*
656771 AAAATTAATAAT-A
1 AAAAATAATAATAA
656784 AAAAATAA-AATAA
1 AAAAATAATAATAA
656797 AAAAATAATAATAA
1 AAAAATAATAATAA
656811 A
1 A
656812 GACAAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 3 0.12
13 16 0.64
14 6 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAATAATAA
Found at i:656869 original size:32 final size:29
Alignment explanation
Indices: 656795--656869 Score: 69
Period size: 32 Copynumber: 2.4 Consensus size: 29
656785 AAAATAAAAT
* *
656795 AAAAAAATAATAATAAAGACAAAACTTAA
1 AAAAAAATAAAAAAAAAGACAAAACTTAA
* *
656824 AAAAAGTATTAAAAAAAAAGGACAAAATTTTAA
1 AAAAA--AATAAAAAAAAA-GACAAAA-CTTAA
656857 AAAAAAAGTAAAA
1 AAAAAAA-TAAAA
656870 GGGTGTCAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
29 5 0.14
31 10 0.28
32 12 0.33
33 9 0.25
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (29 bp):
AAAAAAATAAAAAAAAAGACAAAACTTAA
Found at i:663907 original size:210 final size:209
Alignment explanation
Indices: 663261--664749 Score: 1630
Period size: 210 Copynumber: 7.2 Consensus size: 209
663251 TGTCAAGAAC
* * * * * * *
663261 TTCAAGAGATGAGCACCTTTCTGTTATTGGAACAATTTCCAGTTTGTTGCACCCAGATATA-CAT
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATC-T
** * * *
663325 A-AACTCTGAAGAGACGAAAATCCTTTCAAATCTGGAATGGAACTTAAATTAGGGCAAAG-C-CT
65 AGATTTC-GAAGA-AGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTA--GCACAGCCACT
* * * * * * * ** * * * *
663387 TATCCTCAATTCTTTGACAAAAGAGGAAATAGAAAACCCGTCTCCTACCTTGCTT-AGTTTTTCA
126 TAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAG-TTTTGA
*
663451 CACTGA-AAAATGTGAAGCTT
190 CAC-GAGGAAATGTGAAGCTT
* * * * * * *
663471 TTCAAGAAAAGGAA-GTCTT-C-C-TGTTGGAATAATTTCCAGGTTG-T-CACATTTAGATATAT
1 TTCAAG-AGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCAC-TCT-GATATAT
* * * * * **
663530 CTAAAGTTCGAAG-A-G---A---TTCCAAATCTGGAATGGAATTTAAGTTACCACAATGGGA--
63 CTAGATTTCGAAGAAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCAC-A-GCCACT
* * * * * * *
663585 TAGCTTTAACTCTTTGAGACAAGTGGCA-ATAGGCAACCAATCTTCTATCTTGC------TTTGA
126 TAGCTTTAATTCTTTAAGATAAGTGG-AGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGA
** *
663643 CACCCGGAAATGAGAAGCTT
190 CACGAGGAAATGTGAAGCTT
* * * * * *
663663 TTCAAGAGATGAACAT-TGTCCTCTTATCGGAACAATTTCCAGTTCGTTGCAGTTTGATAAATCT
1 TTCAAGAGATGAACATCT-TCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCT
* * * * * ** *
663727 AAAATTT-TAAGAGAGGAAAATCCTTCCAAATCTAGAATGGAACATAAATTAGGACAATCGCTTA
65 -AGATTTCGAAGA-AGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTA
*
663791 ACTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACAC
128 GCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACAC
*
663856 GAGGAAATGTGAAACTT
193 GAGGAAATGTGAAGCTT
*
663873 TTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
* *
663938 GATTTCGAAGAACGGAAAATCCTTCCAAATCTGGAATGAAACTTAATTTAGCACAGCCACTTAGC
66 GATTTCGAAGAA-GGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
* * * *
664003 TTTAATTCTATAAGATAAGCGGAAGTCGACAA-CCAGTCTCCTATCTTGCTTAAGTTTTGACACG
130 TTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCA-TCTCCTATCTTGCTTAAGTTTTGACACG
664067 AGGAAATGTGAAGCTT
194 AGGAAATGTGAAGCTT
* *
664083 TTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTACACTCTGATATATCTA
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
664148 GATTTCGAAGAACGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
66 GATTTCGAAGAA-GGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
* * *
664213 TTTAATTCTATAAGATAAGTGGAAGTCGACAA-CCAGTCTCCTATCTTGCTTAAGTTTTGACACG
130 TTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCA-TCTCCTATCTTGCTTAAGTTTTGACACG
664277 AGGAAATGTGAAGCTT
194 AGGAAATGTGAAGCTT
* * *
664293 TTGAAGAGATGAACATCTTCCCCTTATTGGAACAATTTCCAGTTTGTTGCACTCTGATATATCTA
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
664358 GATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
66 GATTTCGAAG-AAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
* *
664423 TTTAATTCTTTAAGACAACTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACACGA
130 TTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACACGA
664488 GGAAATGTGAAGCTT
195 GGAAATGTGAAGCTT
664503 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
*
664568 GATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGAGCTTAAATTAGCACAGCCACTTAGC
66 GATTTCGAAG-AAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
* ** *
664633 TTTAATTCTTTAAGACAAGTGGAGGTAGACAACCCGCCTCCTATCTCGCTTAA-TTCCTT-ACAC
130 TTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTT--TTGACAC
*** * **
664696 TCTGAAATG-CAAAATT
193 GAGGAAATGTGAAGCTT
*
664712 CTTCAAGAGATGAACATATTCCTGC-TATTGGAACAATT
1 -TTCAAGAGATGAACATCTTCCT-CTTATTGGAACAATT
664750 CCCAAGCGTC
Statistics
Matches: 1110, Mismatches: 122, Indels: 94
0.84 0.09 0.07
Matches are distributed among these distances:
191 6 0.01
192 27 0.02
193 1 0.00
194 1 0.00
195 28 0.03
196 11 0.01
197 4 0.00
198 65 0.06
199 1 0.00
201 2 0.00
203 2 0.00
204 70 0.06
205 4 0.00
206 1 0.00
207 31 0.03
208 4 0.00
209 16 0.01
210 823 0.74
211 13 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (209 bp):
TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
GATTTCGAAGAAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCT
TTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACACGAG
GAAATGTGAAGCTT
Found at i:664788 original size:210 final size:210
Alignment explanation
Indices: 663638--664685 Score: 1650
Period size: 210 Copynumber: 5.0 Consensus size: 210
663628 TCTATCTTGC
** * * *
663638 TTTGACACCCGGAAATGAGAAGCTTTTCAAGAGATGAACAT-TGTCCTCTTATCGGAACAATTTC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCT-TCCTCTTATTGGAACAATTTC
* * * * * * * * *
663702 CAGTTCGTTGCAGTTTGATAAATCTAAAATTT-TAAGAGAGGAAAATCCTTCCAAATCTAGAATG
65 CAGTTTGCTGCACTCTGATATATCT-AGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
* * ** * * *
663766 GAACATAAATTAGGACAATCGCTTAACTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATC
129 GAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTC
663831 TCCTATCTTGCTTAAGT
194 TCCTATCTTGCTTAAGT
*
663848 TTTGACACGAGGAAATGTGAAACTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
* *
663913 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAACGGAAAATCCTTCCAAATCTGGAATGAA
66 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
* * * * * *
663978 ACTTAATTTAGCACAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTC
131 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
664043 CTATCTTGCTTAAGT
196 CTATCTTGCTTAAGT
664058 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
* *
664123 AGTTTGCTACACTCTGATATATCTAGATTTCGAAGAACGGAAAATCCTTCCAAATCTGGAATGGA
66 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
* * * *
664188 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTATAAGATAAGTGGAAGTCGACAACCAGTCTC
131 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
664253 CTATCTTGCTTAAGT
196 CTATCTTGCTTAAGT
*
664268 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCCCTTATTGGAACAATTTCC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
*
664333 AGTTTGTTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
66 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
* * *
664398 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTAGACAACCCATCTC
131 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
664463 CTATCTTGCTTAAGT
196 CTATCTTGCTTAAGT
*
664478 TTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
664543 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
66 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
* * *
664608 GCTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTAGACAACCCGCCTC
131 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
*
664673 CTATCTCGCTTAA
196 CTATCTTGCTTAA
664686 TTCCTTACAC
Statistics
Matches: 782, Mismatches: 54, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
209 5 0.01
210 776 0.99
211 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (210 bp):
TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
CTATCTTGCTTAAGT
Found at i:674651 original size:210 final size:210
Alignment explanation
Indices: 674317--675935 Score: 2201
Period size: 210 Copynumber: 7.7 Consensus size: 210
674307 ATTCGAACAA
* * * *
674317 TTTCCAGATT-GTTGCAGTCTGATATATTTAAAATAT-GAAGAGAGGAAAATCCTAT-TAAATCT
1 TTTCCAG-TTCGTGGCAGTCTGATATATCTAAAAT-TCGGAGAGAGGAAAATCCT-TCCAAATCT
* * * ***** ** * *
674379 GGAATGGAATTTAAGTTACCACAATGGGATAGCTTTAACTT-TTTGAG-GTAAGTGGCGGTAGAC
63 GGAATGGAACTTAAATTAGCACAACCACTTAGCTTTAA-TTCTTCAAGACT-AGTGGAGGTAGAC
* * * * * * * * *
674442 AGCCCGTTTCCTATCTTGCTTAATTTAGGACACCAAGAAATGAGAAACTTTTCAAGAGATAAACA
126 AACCCGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACA
* *
674507 TCTTTCTCTTATAGGAATAG
191 TCTTCCTCTTATCGGAATAG
* * * *
674527 TTTTCAGTTCGTGGCAGTTTGATATATCTAAAATTCGGAGAGAGGAAATTCCTTCTAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * * * * * *
674592 ATGAAATTTAAATTAGCACAACCAATTGGCTTTACTTTTTCAAGACTAGTGGAGGTAGACAACCG
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
* *
674657 GTCTCCTATCTTGCTTAATTTTGGACATGA-GAAATCGTAAAGCTTTTCAAGAGATGAACATCTT
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAA-CGTGAAGCTTTTCAAGAGATGAACATCTT
*
674721 CCTCTTACCGGAATAG
195 CCTCTTATCGGAATAG
*
674737 TTTCCAGTTCGTGGCAGTCTGATATATTTAAAATTCGGAGAGAGGAAAATCCTAT-CAAATCTGG
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCT-TCCAAATCTGG
* * *
674801 AATGGAATTTAAATTAGCACAATCATTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACC
65 AATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACC
*
674866 CATCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTT
130 CGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTT
* * * *
674931 CCTCTAATTGGAACAA
195 CCTCTTATCGGAATAG
* * * *
674947 TTTCCAATTCGTGGCAGCCTGATATATCTAAAATTCGGAGAGAGGAAATTTCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * *
675012 ATGGAACTTAAATTAGCACAACCACTTAACTTTAATTCTTCAAGAATAGTGGAGGTAGACATCCC
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
675077 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
* *
675142 CTCTTATCAGAACAG
196 CTCTTATCGGAATAG
* *
675157 TTTCCAATTCGTGGCAGTCTGATATATCTAAAATTTGGAGAGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * *
675222 ATGGAACTTAAATTAGAACAACCGCTTAGCTTTAATTCTTCAAGAATAGTGGAGGTAGACAACCC
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
675287 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
*
675352 CT-TCTATCGGAACAG
196 CTCT-TATCGGAATAG
* * *
675367 TTTCCAGCTCGTGACAGTCTAATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* *
675432 ATGGAACTGAAATTAGAACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
* * * * * *
675497 ATCTCCAATCTTGCTTAATTTTGGACACAAGGAAACATGAAGCTTTTTAAGAGATGAATATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
675562 CTCTTATCGGAATAG
196 CTCTTATCGGAATAG
* * * * * * *
675577 TTTCTAGTTTGTGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * *
675642 ATGGAACTTAAATTAGCACAACCACCTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAGCCA
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
* * * * *
675707 GTCTCCGATCTTGCATAATTTTGGACATGAGGAAATGTGAAGCTTTTCAAGAGATGGACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
675772 CTCTTATCGGAATAG
196 CTCTTATCGGAATAG
*
675787 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * * * * * *
675852 ATGAAACTTAATTTGGCACAATCACTTAGCTTTAATTCTGCAAGACAAATGGAGGTAGACAACCC
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
* *
675917 CTCTCCAATCTTGCTTAAT
131 GTCTCCTATCTTGCTTAAT
675936 CCATTGCACT
Statistics
Matches: 1260, Mismatches: 138, Indels: 22
0.89 0.10 0.02
Matches are distributed among these distances:
209 12 0.01
210 1241 0.98
211 7 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (210 bp):
TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
CTCTTATCGGAATAG
Found at i:676225 original size:630 final size:627
Alignment explanation
Indices: 674429--676225 Score: 1634
Period size: 630 Copynumber: 2.9 Consensus size: 627
674419 TTTTGAGGTA
* * * * * * * * * * *
674429 AGTGGCGGTAGACAGCCCGTTTCCTATCTTGCTTAATTTAGGACACCAAGAAATGAGAAACTTTT
1 AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACACGAGGAAACGTGAAGCTTTT
* * * * * *
674494 CAAGAGATAAACATCTTTCTCTTAT-AGGAATAGTTTTCAGTTCGTGGCAGTTTGATATATCTAA
66 CAAGAGATGAACATCTTCCTCTTATCA-GAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAA
* * * * * *
674558 AATTCGGAGAGAGGAAATTCCTTCTAAATCTGGAATGAAATTTAAATTAGCACAACCAATTGGCT
130 AATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGAACAACCACTTAGCT
* * * * * ** * * *
674623 TTACTTTTTCAAGACTAGTGGAGGTAGACAACCGGTCTCCTATCTTGCTTAATTTTGGACATGA-
195 TTAATTCTGCAAGAATAATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAATATTGGACACGAG
* * * * * * * *
674687 GAAA-TCGTAAAGCTTTTCAAGAGATGAACATCTTCCT-CTTACCGGAATAGTTTCCAGTTCGTG
260 GAAACT-G-AAA-ATTTTCAAGAGATGAACATATTCCTGC-TATCGGAAAAATTCCCAGCTCGCG
* * * * * ** * * **
674750 GCAGTCTGATATATTTAAAATTCGGAGAGAGGAAAATCCTAT-CAAATCTGGAATGGAATTTAAA
321 ACAATCTAAAACATAGAAAATTCGAAGAGAGGAAAAGCCT-TCCAAATCTGGAATGGAA-CGAAA
* * * * * * * *
674814 TTAGC-ACAATCATTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCT
384 TTA-CAACAACCACTTAGC-TCAACTCCTCAAGACTAGTGGAAGTAGACAACCCATCCCCAATCT
** * * * * * * **
674878 TGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTAATTGGA
447 TGCTTAATCGTGGACACAAGCAAACATGAAGCTTTTTAAGAGATAAACATCTTCCTCTCAGCGGA
* ** * ** * * * * * *
674943 ACAATTTCCAATTCGTGGCAGCCTGATATATCTAAAATTCGGAGAGAGGAAATTTCTTCCAAATC
512 ACACTTTCCAATAAGGGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATC
*
675008 TGGAATGGAACTTAAATTAGCACAACCACTTAACTTTAATTCTTCAAGAAT
577 TGGAATGGAACTTAAATTAGCACAACCACCTAACTTTAATTCTTCAAGAAT
* * * *
675059 AGTGGAGGTAGACATCCCGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTT
1 AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACACGAGGAAACGTGAAGCTTTT
675124 CAAGAGATGAACATCTTCCTCTTATCAGAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAAA
66 CAAGAGATGAACATCTTCCTCTTATCAGAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAAA
* * *
675189 ATTTGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGAACAACCGCTTAGCTT
131 ATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGAACAACCACTTAGCTT
* * * * *
675254 TAATTCTTCAAGAATAGTGGAGGTAGACAACCCGTCTCCTATCTTGCTTAATTTTGGACACGAGG
196 TAATTCTGCAAGAATAATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAATATTGGACACGAGG
** * * * * * * *
675319 AAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTTCTATCGGAACAGTTTCCAGCTCGTGACAG
261 AAAC-TGAAAATTTTCAAGAGATGAACATATTCCTGCTATCGGAAAAATTCCCAGCTCGCGACAA
* * ** * * *
675384 TCTAATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTGAAATTAGA
325 TCTAAAACATAGAAAATTCGAAGAGAGGAAAAGCCTTCCAAATCTGGAATGGAAC-GAAATTACA
* * * * *
675449 ACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCAATCTTGCTTA
389 ACAACCACTTAGC-TCAACTCCTCAAGACTAGTGGAAGTAGACAACCCATCCCCAATCTTGCTTA
** * * * * * * *
675514 ATTTTGGACACAAGGAAACATGAAGCTTTTTAAGAGATGAATATCTTCCTCTTATCGGAATAGTT
453 ATCGTGGACACAAGCAAACATGAAGCTTTTTAAGAGATAAACATCTTCCTCTCAGCGGAACACTT
* * ** *
675579 TCTAGTTTGTGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATCTGGAAT
518 TCCAATAAGGGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATCTGGAAT
* *
675644 GGAACTTAAATTAGCACAACCACCTAGCTTTAATTCTTCAAGACT
583 GGAACTTAAATTAGCACAACCACCTAACTTTAATTCTTCAAGAAT
* *
675689 AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACATGAGGAAATGTGAAGCTTTT
1 AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACACGAGGAAACGTGAAGCTTTT
* * * *
675754 CAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATATATCTAAA
66 CAAGAGATGAACATCTTCCTCTTATCAGAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAAA
* * * * *
675819 ATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGAAACTTAATTTGGCACAATCACTTAGCTT
131 ATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGAACAACCACTTAGCTT
675884 TAATTCTGCAAGACA-AATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAATCCATT-G-CACT
196 TAATTCTGCAAGA-ATAATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAAT--ATTGGACAC-
* * *
675946 TA-GAAA-TGCAAAATTCTTTAAGAGATGAACATATTCCTGCTATTGGAAAAATTCCCAAGCTTC
257 GAGGAAACTG-AAAATT-TTCAAGAGATGAACATATTCCTGCTATCGGAAAAATTCCC-AGC-TC
* * * * *
676009 -CG-CAATC-AGAAACATAGACACTTCGAAGAGCGGAAAAGCCATT-TAAATTTGGAATTGAGAA
318 GCGACAATCTA-AAACATAGAAAATTCGAAGAGAGGAAAAGCC-TTCCAAATCTGGAA-TG-GAA
* * * **
676070 C-AAATCT-CCAC-ACTTCACTATAG-TCAGCTCCTCAAGAAC-CGTGGAAGTAG-CTAGTCCAT
379 CGAAAT-TACAACAAC--CACT-TAGCTCAACTCCTCAAG-ACTAGTGGAAGTAGAC-AACCCAT
* *
676129 CCCCGATAC-TGCTTAATCGT-GA-ACAATCCTCAATACA-G-AGCTTTTTAAGAGATAAACAT-
438 CCCCAAT-CTTGCTTAATCGTGGACACAA---GCAA-ACATGAAGCTTTTTAAGAGATAAACATC
*
676188 TGTCC-CGTCAGGGGAACACTTTCCAATAAGGGGCAGTT
498 T-TCCTC-TCAGCGGAACACTTTCCAATAAGGGGCAGTT
676226 AGAAACAAGC
Statistics
Matches: 996, Mismatches: 138, Indels: 66
0.83 0.12 0.05
Matches are distributed among these distances:
628 6 0.01
629 13 0.01
630 931 0.93
631 30 0.03
632 15 0.02
633 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (627 bp):
AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACACGAGGAAACGTGAAGCTTTT
CAAGAGATGAACATCTTCCTCTTATCAGAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAAA
ATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGAACAACCACTTAGCTT
TAATTCTGCAAGAATAATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAATATTGGACACGAGG
AAACTGAAAATTTTCAAGAGATGAACATATTCCTGCTATCGGAAAAATTCCCAGCTCGCGACAAT
CTAAAACATAGAAAATTCGAAGAGAGGAAAAGCCTTCCAAATCTGGAATGGAACGAAATTACAAC
AACCACTTAGCTCAACTCCTCAAGACTAGTGGAAGTAGACAACCCATCCCCAATCTTGCTTAATC
GTGGACACAAGCAAACATGAAGCTTTTTAAGAGATAAACATCTTCCTCTCAGCGGAACACTTTCC
AATAAGGGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATCTGGAATGGA
ACTTAAATTAGCACAACCACCTAACTTTAATTCTTCAAGAAT
Found at i:679675 original size:43 final size:42
Alignment explanation
Indices: 679614--679856 Score: 288
Period size: 43 Copynumber: 5.7 Consensus size: 42
679604 GCGCTTTGTT
* *
679614 GCTAAAGACCAAGACCTTTAACGGCGCTTCTCTCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTT-TCCCACAAACGCC
*
679657 GCTAAAGACCAATACCTTTAGCGGCGCTTTACCCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTT-CCCACAAACGCC
* * *
679700 GCTAAAGACCAAGACCTTTAACGACGCTTTCCCACAAACGCT
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAACGCC
* * * * *
679742 GCTAAAGATCACGACTTTTTGCGGCGCTTTTCCCACGAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCACAAACGCC
* ** *
679785 GCTAAAGACCAAGACCTTTAGCAGCGCTTTTATCACAAACGCT
1 GCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCACAAACGCC
* **
679828 GCTACAGACCATCACCTTTAGCGGCGCTT
1 GCTAAAGACCAAGACCTTTAGCGGCGCTT
679857 CTAGCGAAAA
Statistics
Matches: 170, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
42 35 0.21
43 135 0.79
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (42 bp):
GCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAACGCC
Found at i:679873 original size:86 final size:85
Alignment explanation
Indices: 679614--679876 Score: 327
Period size: 86 Copynumber: 3.1 Consensus size: 85
679604 GCGCTTTGTT
* *
679614 GCTAAAGACCAAGACCTTTAACGGCGCTTCTCTCACAAACGCCGCTAAAGACCAAT-ACCTTTAG
1 GCTAAAGACCAAGACCTTTAAC-GCGCTTTTCTCACAAACGCTGCTAAAGACC-ATCACCTTTAG
679678 CGGCGCTTTACCCACAAACGCC
64 CGGCGCTTTACCCACAAACGCC
* * * *
679700 GCTAAAGACCAAGACCTTTAACGACGC-TTTCCCACAAACGCTGCTAAAGATCA-CGACTTTTTG
1 GCTAAAGACCAAGACCTTTAACG-CGCTTTTCTCACAAACGCTGCTAAAGACCATC-ACCTTTAG
* *
679763 CGGCGCTTTTCCCACGAACGCC
64 CGGCGCTTTACCCACAAACGCC
* * *
679785 GCTAAAGACCAAGACCTTTAGCAGCGCTTTTATCACAAACGCTGCTACAGACCATCACCTTTAGC
1 GCTAAAGACCAAGACCTTTAAC-GCGCTTTTCTCACAAACGCTGCTAAAGACCATCACCTTTAGC
* *
679850 GGCGCTTCTAGCGA-AAACGCC
65 GGCGCTT-TACCCACAAACGCC
679871 GCTAAA
1 GCTAAA
679877 AACATAAACT
Statistics
Matches: 151, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
84 1 0.01
85 72 0.48
86 74 0.49
87 4 0.03
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (85 bp):
GCTAAAGACCAAGACCTTTAACGCGCTTTTCTCACAAACGCTGCTAAAGACCATCACCTTTAGCG
GCGCTTTACCCACAAACGCC
Found at i:680267 original size:20 final size:22
Alignment explanation
Indices: 680236--680279 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
680226 CACATACACC
680236 AATGCATAC-AAATAAAAACTT
1 AATGCATACAAAATAAAAACTT
*
680257 AATGC-TACAAAATAAAAATTT
1 AATGCATACAAAATAAAAACTT
680278 AA
1 AA
680280 GCTTCCTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (22 bp):
AATGCATACAAAATAAAAACTT
Found at i:683065 original size:41 final size:43
Alignment explanation
Indices: 683009--683089 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 43
682999 TTAAAAAAAT
* * *
683009 TATTTTAAAAATAAAAA-AATAA-AAAAAATTTATTTTTAAAG
1 TATTTTAAAAATAAAAATAAAAACAAAAAATATATATTTAAAG
*
683050 TATTTTAAAATTAAAAATAAAAACAAAAAATATATATTTA
1 TATTTTAAAAATAAAAATAAAAACAAAAAATATATATTTA
683090 TTATATTCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 16 0.47
42 4 0.12
43 14 0.41
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (43 bp):
TATTTTAAAAATAAAAATAAAAACAAAAAATATATATTTAAAG
Found at i:684299 original size:14 final size:14
Alignment explanation
Indices: 684282--684321 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
684272 CCCTAAATCA
684282 CTAACCACAAACCC
1 CTAACCACAAACCC
* *
684296 CTAACCTCTAACCC
1 CTAACCACAAACCC
684310 CTAACCACAAAC
1 CTAACCACAAAC
684322 ATTTAACCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.12
Consensus pattern (14 bp):
CTAACCACAAACCC
Found at i:684525 original size:14 final size:14
Alignment explanation
Indices: 684496--684560 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
684486 CGAATCCATA
*
684496 AACCCTAAATCCCT
1 AACCCTTAATCCCT
* *
684510 AACTCTTAATCTCT
1 AACCCTTAATCCCT
684524 AACCCTTAATCCCT
1 AACCCTTAATCCCT
* *
684538 AACCCCTAAATCAC-
1 AA-CCCTTAATCCCT
684552 AACCCTTAA
1 AACCCTTAA
684561 ACCAAAACCC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 6 0.14
14 27 0.64
15 9 0.21
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCCTTAATCCCT
Found at i:684555 original size:28 final size:29
Alignment explanation
Indices: 684496--684574 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 29
684486 CGAATCCATA
* * * *
684496 AACCCTAAATCCCTAA-CTCTTAATCTCT
1 AACCCTTAATCCCTAACCCCTAAATCACT
684524 AACCCTTAATCCCTAACCCCTAAATCAC-
1 AACCCTTAATCCCTAACCCCTAAATCACT
* **
684552 AACCCTTAAACCAAAACCCCTAA
1 AACCCTTAATCCCTAACCCCTAA
684575 TCCATAGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 35 0.81
29 8 0.19
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (29 bp):
AACCCTTAATCCCTAACCCCTAAATCACT
Found at i:684692 original size:14 final size:14
Alignment explanation
Indices: 684647--684684 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
684637 ATCCTAAATT
684647 AACCATATATCCTA
1 AACCATATATCCTA
*
684661 AACCATATACCCTA
1 AACCATATATCCTA
684675 AACCATATAT
1 AACCATATAT
684685 ATTAAACCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCATATATCCTA
Found at i:685070 original size:41 final size:40
Alignment explanation
Indices: 685012--685208 Score: 261
Period size: 41 Copynumber: 4.8 Consensus size: 40
685002 AAATGTTTTT
* * *
685012 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCATTA
1 GCGGCGC-TTTTAAAAAACGCCGCTAAAGCCCAGAGAATTA
*
685053 GCGGCGCTTTATAAAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTT-TAAAAAACGCCGCTAAAGCCCAGAGAATTA
*
685094 GCGGCGC-TTTACGAAAAACGCCACTAAAGCCCAGAGAATTA
1 GCGGCGCTTTTA--AAAAACGCCGCTAAAGCCCAGAGAATTA
* *
685135 GCGGCGCTTTTACAAAAATGCCGCTAAATCCCAGAGAATTA
1 GCGGCGCTTTTA-AAAAACGCCGCTAAAGCCCAGAGAATTA
685176 GCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTTT--AAAAAACGCCGCTAAAGCCC
685209 CGAATGGTCT
Statistics
Matches: 140, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 2 0.01
40 5 0.04
41 111 0.79
42 21 0.15
43 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (40 bp):
GCGGCGCTTTTAAAAAACGCCGCTAAAGCCCAGAGAATTA
Found at i:691597 original size:210 final size:210
Alignment explanation
Indices: 691275--693090 Score: 2530
Period size: 210 Copynumber: 8.6 Consensus size: 210
691265 CCAGATTGTT
* * * * * * *
691275 GCAGTTTGATATATTTAAAATAT-GAAGAGAGGAAAATCCTACTAAATCTGGAATGGAATTTAAG
1 GCAGTCTGATATATCTAAAAT-TCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAA
* ***** * ** * * **
691339 TTACCACAATGGGATAGTTTTAACTT-TTTGAGGCAAGTGGCTGTAGACAACCCATCTCCTATCT
65 TTAGCACAACCACTTAGCTTTAA-TTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCT
* * * * * * **
691403 TGCTTAATTTAGGACACCAGGAAATGAGAAGCTTCTCAAGAGATGGACATCTTCCTCTTATCAAA
129 TGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGA
*
691468 ACAGTTTTCAGTTCATG
194 ACAGTTTTCAGTTCGTG
* * *
691485 ACAGTTTGATATATCTAAAATTCGTAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * *
691550 TAGCACAACCAATTAGCTTTACTTTTTCAAGACTAGTGGAGGTAGACAA-CCAGTCTCCTATCTT
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCA-TCTCCTATCTT
* * * * *
691614 GCTTAATTTTGGACACGAGAAAATGTAAAGCTTTTCAAGAGATGAACATATTCCTCTTACCGGAA
130 GCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAA
* *
691679 TAGTTTCCAGTTCGTG
195 CAGTTTTCAGTTCGTG
* ** *
691695 GCAGTCTGATATATTTAAAATTTAGAGAGAGGAAAATCCTACCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
*
691760 TAGAACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
* *
691825 CTTAATTTTGAACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTAATCGGAAC
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
* *
691890 AATTTTCAATTCGTG
196 AGTTTTCAGTTCGTG
* * *
691905 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAATTTCTTCCAAATCTGGAATGAAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * * *
691970 TAGCACAACCACTTAACTTTAATTCTTCAAGAATAGTGGAGGTAGACAGCCCGTCTCCTATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
692035 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
* * *
692100 AATTTCCAATTCGTG
196 AGTTTTCAGTTCGTG
*
692115 GCAGTCTGATATATCTAAAATTTGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * * * *
692180 TAGAACAACCGCTTAGCTTTAATTCTTCAAGAATAGTGGAGGTAGACAGCCCGTCTCCTATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
692245 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
*
692310 AGTTTTCAATTCGTG
196 AGTTTTCAGTTCGTG
*
692325 GCAGTCTGATATATCTAAAATTTGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * * *
692390 TAGAACAACCACTTAGCTTTAATTCTTCAAGAATAGTGGAGGTAGATAACCCGTCTCCTATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
692455 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCT-TCTATCGGAA
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCT-TATCGGAA
* *
692519 CAGTTTCCAGCTCGTG
195 CAGTTTTCAGTTCGTG
* *
692535 GCAGTCTAATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * *
692600 TAGAACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCGTCTCCAATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
* * * * *
692665 CTTAATTTTGGACACAAGGAAACATGAAGCTTTTTAAGAGATGTATATCTTCCTCTTATCGGAAC
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
692730 AG-TTTCTAGTTCGTG
196 AGTTTTC-AGTTCGTG
* * * *
692745 GCAATCTAATATATCTAAAATTCGGAGAGAGAAAAATCCTACCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * *
692810 TAGCACAACCACCTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGAC-AGCCAGTCTCCGATCTT
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCA-TCTCCTATCTT
* * * *
692874 GCTTAATTTTGGACATGAGGAAATGTGAAGCTTTTCAAGAGATGGACATCTTCCTCTTATCGTAA
130 GCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAA
* *
692939 TAG-TTTCTAGTTTGTG
195 CAGTTTTC-AGTTCGTG
* * * * *
692955 GCAATCTGATATATCTAAAATACGGAGAGAGGAAAATTCTTCCAAATCTGGAATGAAACTTAATT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * * * * * *
693020 TGGCACAATCACTTAGCTTTAATTCTTCAAGACAAATGGAGGTAGATAACCCCTCTCCAATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
693085 CTTAAT
131 CTTAAT
693091 CCATTGCACT
Statistics
Matches: 1462, Mismatches: 135, Indels: 18
0.91 0.08 0.01
Matches are distributed among these distances:
209 13 0.01
210 1442 0.99
211 7 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (210 bp):
GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
AGTTTTCAGTTCGTG
Found at i:693924 original size:210 final size:210
Alignment explanation
Indices: 693548--694222 Score: 1017
Period size: 210 Copynumber: 3.2 Consensus size: 210
693538 AGGAAACACC
* *
693548 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCTATCTCGCTTAATTTTGGACATGAGGAAATGTG
1 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAATTTTGGACATGAGGAAATGTG
* * * *
693613 AAGCTTTCTAAGAGATGGACATCTTCCTTTTATCGGAATAGTTTCCAGTTTGTGGCACTCTGATA
66 AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATA
* * * * *
693678 TATCTAAAATTCGGAGAGAGGAAAATCCTACCAAATCCGGAATGGAAGTTAAATTAGCACAACCA
131 TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
*
693743 CCTAGCTTTAATTCT
196 CTTAGCTTTAATTCT
*
693758 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCTATCTTGCTTAATTTTGGACATGAGGAAATGTG
1 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAATTTTGGACATGAGGAAATGTG
*
693823 AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGAAATAGTTTCCAGTTCGTGGCAGTCTGATA
66 AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATA
* * *
693888 TATCAAAAATTCGCAGAGAGGACAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
131 TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
* *
693953 TTTAGCTTTAAGTCT
196 CTTAGCTTTAATTCT
* * * *
693968 TCAAGACTAGTGGAGGTAGACAACCCGTCTCCAATCTTGCTTAATTTAGGACACGAGGAAATGAG
1 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAATTTTGGACATGAGGAAATGTG
* * * * * * *
694033 AATCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAACAATTTTCAATTCGCGGCAGTTTGATA
66 AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATA
*
694098 TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAATTTAGCACAATCA
131 TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
694163 CTTAGCTTTAATTCT
196 CTTAGCTTTAATTCT
* * * * **
694178 GCAAGACAAATGGAGGTTGACAACCCCTCTCCAATCTTGCTTAAT
1 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAAT
694223 CCATTGCACT
Statistics
Matches: 424, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
210 424 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (210 bp):
TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAATTTTGGACATGAGGAAATGTG
AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATA
TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
CTTAGCTTTAATTCT
Found at i:699272 original size:13 final size:13
Alignment explanation
Indices: 699254--699280 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
699244 AAAGAATCAT
699254 AAAAATTTTCAAA
1 AAAAATTTTCAAA
699267 AAAAATTTTCAAA
1 AAAAATTTTCAAA
699280 A
1 A
699281 TTGATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAATTTTCAAA
Found at i:699769 original size:5 final size:5
Alignment explanation
Indices: 699759--699783 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
699749 TATTCATCTT
699759 CCTCC CCTCC CCTCC CCTCC CCTCC
1 CCTCC CCTCC CCTCC CCTCC CCTCC
699784 TCTATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CCTCC
Found at i:707047 original size:5 final size:5
Alignment explanation
Indices: 707039--707067 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
707029 TTTGTATTGT
707039 ATGTC ATGTC ATGTC ATGTC ATGTC ATGT
1 ATGTC ATGTC ATGTC ATGTC ATGTC ATGT
707068 AGATCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (5 bp):
ATGTC
Found at i:714541 original size:32 final size:31
Alignment explanation
Indices: 714480--714543 Score: 76
Period size: 34 Copynumber: 2.0 Consensus size: 31
714470 ACTCGTCCCG
714480 AAAAAACAAAACTATACCAACTCAGTCCAGTCC
1 AAAAAACAAAACTATACCAACT-A-TCCAGTCC
*
714513 AAAAAATCAAAGCTATACTCAACT-TCCAGTC
1 AAAAAA-CAAAACTATAC-CAACTATCCAGTC
714544 ATCTCTAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 7 0.25
33 6 0.21
34 10 0.36
35 5 0.18
ACGTcount: A:0.47, C:0.28, G:0.06, T:0.19
Consensus pattern (31 bp):
AAAAAACAAAACTATACCAACTATCCAGTCC
Found at i:719834 original size:31 final size:31
Alignment explanation
Indices: 719799--719860 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
719789 TGAGTTAATC
*
719799 AAGTTATTCGGACTAATTCGAATAAAAATTT
1 AAGTTATTCGGACTAACTCGAATAAAAATTT
* ** *
719830 AAGTTTTTCGGTTTAACTCGAATATAAATTT
1 AAGTTATTCGGACTAACTCGAATAAAAATTT
719861 TACAATTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (31 bp):
AAGTTATTCGGACTAACTCGAATAAAAATTT
Found at i:722388 original size:33 final size:34
Alignment explanation
Indices: 722346--722410 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
722336 TGATTTCGAA
*
722346 GATGATGAAACT-ACTGCAACTCGACTT-TTCAGC
1 GATGATGAAA-TAAATGCAACTCGACTTATTCAGC
*
722379 GATGATGAAATAAATGCAACTCGTCTTATTCA
1 GATGATGAAATAAATGCAACTCGACTTATTCA
722411 AGGAATTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 1 0.04
33 23 0.82
34 4 0.14
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (34 bp):
GATGATGAAATAAATGCAACTCGACTTATTCAGC
Found at i:730465 original size:59 final size:58
Alignment explanation
Indices: 730353--730488 Score: 150
Period size: 60 Copynumber: 2.3 Consensus size: 58
730343 AAAAGATTAG
* * * * *
730353 GTACCAAATT-AGGAAAAAGAGTCAAGTTCGGGTACTAAATTAGATCCCAAAAAATATAA
1 GTACCAAATTAAGAAAAAAGAGGCAAGTTCGGATACTAAATTAGAT-CAAAAAAAAAT-A
* * *
730412 GTACCAATTTAAGAAAAAAGAGGCAAGTTTGGATACTAAATTGGA-CAAAAAAAAATA
1 GTACCAAATTAAGAAAAAAGAGGCAAGTTCGGATACTAAATTAGATCAAAAAAAAATA
*
730469 GATATCAAATTAAGAAAAAA
1 G-TACCAAATTAAGAAAAAA
730489 TGTGAAGTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
57 2 0.03
58 25 0.38
59 9 0.14
60 29 0.45
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.21
Consensus pattern (58 bp):
GTACCAAATTAAGAAAAAAGAGGCAAGTTCGGATACTAAATTAGATCAAAAAAAAATA
Found at i:736851 original size:15 final size:15
Alignment explanation
Indices: 736831--736861 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
736821 TGATTTTCCT
736831 TTTAACATCATATAA
1 TTTAACATCATATAA
*
736846 TTTAACATTATATAA
1 TTTAACATCATATAA
736861 T
1 T
736862 AGCCTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAACATCATATAA
Found at i:737628 original size:16 final size:16
Alignment explanation
Indices: 737601--737643 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
737591 ATAGTTGGTT
*
737601 TATATATGTATGTGTA
1 TATATATGTATGGGTA
* *
737617 TGTATATTTATGGGTA
1 TATATATGTATGGGTA
737633 TATATATGTAT
1 TATATATGTAT
737644 TGTAGCCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (16 bp):
TATATATGTATGGGTA
Found at i:738395 original size:17 final size:17
Alignment explanation
Indices: 738373--738410 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
738363 CAAAGGGATG
738373 ATGATTTATTCAATGAA
1 ATGATTTATTCAATGAA
738390 ATGATTTATTCAATGAA
1 ATGATTTATTCAATGAA
738407 ATGA
1 ATGA
738411 GTGCATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (17 bp):
ATGATTTATTCAATGAA
Found at i:741366 original size:12 final size:12
Alignment explanation
Indices: 741349--741374 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
741339 GCAACTCATC
741349 TTATTCAAGGAA
1 TTATTCAAGGAA
741361 TTATTCAAGGAA
1 TTATTCAAGGAA
741373 TT
1 TT
741375 TGCACTGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
TTATTCAAGGAA
Found at i:741469 original size:15 final size:15
Alignment explanation
Indices: 741449--741479 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
741439 GATTTTCCTT
741449 TTTAACATCATATAA
1 TTTAACATCATATAA
*
741464 TTTAACATTATATAA
1 TTTAACATCATATAA
741479 T
1 T
741480 AGCCTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAACATCATATAA
Found at i:743198 original size:27 final size:27
Alignment explanation
Indices: 743168--743223 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
743158 TATGAGGATA
743168 GACTTGGTCAATAAATGACCACGTGTT
1 GACTTGGTCAATAAATGACCACGTGTT
*
743195 GACTTGGTCAATAAATGACTACGTGTT
1 GACTTGGTCAATAAATGACCACGTGTT
743222 GA
1 GA
743224 TGTTGATATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (27 bp):
GACTTGGTCAATAAATGACCACGTGTT
Found at i:746043 original size:15 final size:15
Alignment explanation
Indices: 746023--746053 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
746013 TGATTTTCCT
746023 TTTAACATCATATAA
1 TTTAACATCATATAA
*
746038 TTTAACATTATATAA
1 TTTAACATCATATAA
746053 T
1 T
746054 AGCCTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAACATCATATAA
Found at i:746132 original size:27 final size:27
Alignment explanation
Indices: 746102--746155 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
746092 TCGGCTTCCT
746102 ATATTTCACAACCTTATTGAATTTGAA
1 ATATTTCACAACCTTATTGAATTTGAA
746129 ATATTTCACAACCTTATTGAATTTGAA
1 ATATTTCACAACCTTATTGAATTTGAA
746156 TATGGTGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATTTCACAACCTTATTGAATTTGAA
Found at i:746846 original size:16 final size:16
Alignment explanation
Indices: 746819--746861 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
746809 ATAGTTGGTT
*
746819 TATATATGTATGTGTA
1 TATATATGTATGGGTA
* *
746835 TGTATATTTATGGGTA
1 TATATATGTATGGGTA
746851 TATATATGTAT
1 TATATATGTAT
746862 TGTAGCCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (16 bp):
TATATATGTATGGGTA
Found at i:748882 original size:46 final size:46
Alignment explanation
Indices: 748815--748911 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
748805 AGAATTAATA
** * **
748815 AAGAAGTTGTCTATTTAAATATGAGAAATTAAACTGGTTCAATTCT
1 AAGAAGTTGTCTACCTAAATATGAGAAATTAAACTCGCCCAATTCT
748861 AAGAAGTTGTCTACCTAAATATGAGAAATTAAACTCGCCCAATTCT
1 AAGAAGTTGTCTACCTAAATATGAGAAATTAAACTCGCCCAATTCT
748907 AAGAA
1 AAGAA
748912 TTGATGAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (46 bp):
AAGAAGTTGTCTACCTAAATATGAGAAATTAAACTCGCCCAATTCT
Found at i:748976 original size:56 final size:57
Alignment explanation
Indices: 748861--749009 Score: 246
Period size: 56 Copynumber: 2.6 Consensus size: 57
748851 GTTCAATTCT
* *
748861 AAGAAGTTGTCTACCTAAATATGAGAAATTAAACTCGCCCAATTCTAAGAATTGATG
1 AAGAAGTTGTCTACTTAAATATGAGAAATTAAACTGGCCCAATTCTAAGAATTGATG
***
748918 AAGAAGTTGTCTACTTAAATATGAGAAA-TAAACTGGCTTGATTCTAAGAATTGATG
1 AAGAAGTTGTCTACTTAAATATGAGAAATTAAACTGGCCCAATTCTAAGAATTGATG
748974 AAGAAGTTGTCTACTTAAATATGAGAAATTAAACTG
1 AAGAAGTTGTCTACTTAAATATGAGAAATTAAACTG
749010 ATAAGATTAT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
56 52 0.60
57 34 0.40
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (57 bp):
AAGAAGTTGTCTACTTAAATATGAGAAATTAAACTGGCCCAATTCTAAGAATTGATG
Found at i:749114 original size:29 final size:29
Alignment explanation
Indices: 749081--749139 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
749071 ATGTAAATCG
749081 CTTAATTGTATATATGCTTCGATCTCATC
1 CTTAATTGTATATATGCTTCGATCTCATC
*
749110 CTTAATTGTATATATGCTTCGATTTCATC
1 CTTAATTGTATATATGCTTCGATCTCATC
749139 C
1 C
749140 ATCGATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (29 bp):
CTTAATTGTATATATGCTTCGATCTCATC
Found at i:757301 original size:16 final size:16
Alignment explanation
Indices: 757280--757310 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
757270 GAAACCCCTT
757280 CAGTGTAACATAACAC
1 CAGTGTAACATAACAC
757296 CAGTGTAACATAACA
1 CAGTGTAACATAACA
757311 TCGACAAGAG
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:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (16 bp):
CAGTGTAACATAACAC
Found at i:769154 original size:20 final size:20
Alignment explanation
Indices: 769118--769155 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
769108 TTGTGATATT
*
769118 CAAAATTATTTCATAAAAAA
1 CAAAATTAGTTCATAAAAAA
769138 CAAAATTTAGTTC-TAAAA
1 CAAAA-TTAGTTCATAAAA
769156 GAGAAGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (20 bp):
CAAAATTAGTTCATAAAAAA
Found at i:771395 original size:2 final size:2
Alignment explanation
Indices: 771388--771422 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
771378 GCGAGTTCTG
*
771388 TA TA TA TA TA TA TA TA TA TA CA 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
771423 GAAATGGTGA
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:775288 original size:17 final size:17
Alignment explanation
Indices: 775268--775328 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
775258 ATTTCAAGAC
775268 TTATGTAATATTTTTAA
1 TTATGTAATATTTTTAA
* ***
775285 TTATGTAGTTATTCAAAGA
1 TTATGTA-ATATTTTTA-A
*
775304 CTTATGTAATGTTTTTAA
1 -TTATGTAATATTTTTAA
775322 TTATGTA
1 TTATGTA
775329 GTGATTCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 14 0.44
18 6 0.19
19 5 0.16
20 7 0.22
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.52
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:775304 original size:37 final size:37
Alignment explanation
Indices: 775246--775337 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
775236 CTTGCATTTC
775246 AATTATGT-GTTAATTTC-AAGACTTATGTAATATTTTT
1 AATTATGTAGTT-A-TTCAAAGACTTATGTAATATTTTT
*
775283 AATTATGTAGTTATTCAAAGACTTATGTAATGTTTTT
1 AATTATGTAGTTATTCAAAGACTTATGTAATATTTTT
*
775320 AATTATGTAGTGATTCAA
1 AATTATGTAGTTATTCAA
775338 TTTGGTTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 3 0.06
37 45 0.88
38 3 0.06
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (37 bp):
AATTATGTAGTTATTCAAAGACTTATGTAATATTTTT
Found at i:775354 original size:9 final size:9
Alignment explanation
Indices: 775342--775447 Score: 67
Period size: 9 Copynumber: 11.8 Consensus size: 9
775332 ATTCAATTTG
775342 GTTAATTCA
1 GTTAATTCA
**
775351 GTTAATTTG
1 GTTAATTCA
*
775360 GTTAATTTGA
1 GTTAA-TTCA
*
775370 G-TAATTCG
1 GTTAATTCA
*
775378 GTTAATTCT
1 GTTAATTCA
775387 GTTAATTC-
1 GTTAATTCA
*
775395 GATTAATTCG
1 G-TTAATTCA
*
775405 GTTAATTCG
1 GTTAATTCA
*
775414 GGTAATT-A
1 GTTAATTCA
*
775422 GTGTAATT-T
1 GT-TAATTCA
775431 GATTAATTCA
1 G-TTAATTCA
775441 GTTAATT
1 GTTAATT
775448 TTTAACCAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
8 5 0.06
9 67 0.86
10 6 0.08
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (9 bp):
GTTAATTCA
Found at i:775359 original size:18 final size:18
Alignment explanation
Indices: 775336--775448 Score: 113
Period size: 18 Copynumber: 6.3 Consensus size: 18
775326 GTAGTGATTC
775336 AATTTGGTTAATTCAGTT
1 AATTTGGTTAATTCAGTT
*
775354 AATTTGGTTAATTTGAG-T
1 AATTTGGTTAA-TTCAGTT
* *
775372 AATTCGGTTAATTCTGTT
1 AATTTGGTTAATTCAGTT
* * *
775390 AATTCGATTAATTCGGTT
1 AATTTGGTTAATTCAGTT
* *
775408 AATTCGGGTAATT-AGTGT
1 AATTTGGTTAATTCAGT-T
*
775426 AATTTGATTAATTCAGTT
1 AATTTGGTTAATTCAGTT
775444 AATTT
1 AATTT
775449 TTAACCAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.06
18 67 0.85
19 7 0.09
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (18 bp):
AATTTGGTTAATTCAGTT
Found at i:775428 original size:27 final size:27
Alignment explanation
Indices: 775344--775447 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
775334 TCAATTTGGT
* * * *
775344 TAATTCAGTTAATTTGGTTAATTTGAG
1 TAATTCGGTTAATTCGGTTAATTAGTG
* *
775371 TAATTCGGTTAATTCTGTTAATTCGAT-
1 TAATTCGGTTAATTCGGTTAATTAG-TG
*
775398 TAATTCGGTTAATTCGGGTAATTAGTG
1 TAATTCGGTTAATTCGGTTAATTAGTG
* * *
775425 TAATTTGATTAATTCAGTTAATT
1 TAATTCGGTTAATTCGGTTAATT
775448 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 62 0.98
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTAGTG
Found at i:776409 original size:4 final size:4
Alignment explanation
Indices: 776400--776445 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
776390 TACTCAATAC
776400 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
776446 CATTAAGTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:784186 original size:32 final size:32
Alignment explanation
Indices: 784149--784216 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
784139 TTGAACAAGT
784149 TGAACCGATTTAATATTTTTTTTAAAAGTTTA
1 TGAACCGATTTAATATTTTTTTTAAAAGTTTA
784181 TGAACCGATTTAATATTTTTTTTAAAAGTTTA
1 TGAACCGATTTAATATTTTTTTTAAAAGTTTA
784213 TGAA
1 TGAA
784217 TTTTTAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (32 bp):
TGAACCGATTTAATATTTTTTTTAAAAGTTTA
Found at i:799247 original size:30 final size:30
Alignment explanation
Indices: 799202--799259 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
799192 CACGGATTGG
* *
799202 CACATGGGCGTGTGGCTAGCCCGTGTGGCT
1 CACAAGGGCGTGTGGCCAGCCCGTGTGGCT
*
799232 CACAAGGGTGTGTGGCCAGCCCGTGTGG
1 CACAAGGGCGTGTGGCCAGCCCGTGTGG
799260 AAATGCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.26, G:0.41, T:0.21
Consensus pattern (30 bp):
CACAAGGGCGTGTGGCCAGCCCGTGTGGCT
Found at i:803722 original size:8 final size:8
Alignment explanation
Indices: 803711--803737 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
803701 TGATTACAAT
803711 ATTATAAA
1 ATTATAAA
803719 ATTATAAA
1 ATTATAAA
803727 ATTATAAA
1 ATTATAAA
803735 ATT
1 ATT
803738 TGATTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATTATAAA
Found at i:804073 original size:22 final size:20
Alignment explanation
Indices: 804045--804095 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
804035 CATCAGTAAA
*
804045 TAAATATAAATTAATTAATTAT
1 TAAATATAAA-T-ATTAAATAT
804067 TAAATATCAAATATTAAATAT
1 TAAATAT-AAATATTAAATAT
804088 TAAA-ATAA
1 TAAATATAA
804096 TATAGTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 2 0.07
21 12 0.44
22 8 0.30
23 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATATAAATATTAAATAT
Found at i:804088 original size:7 final size:7
Alignment explanation
Indices: 804045--804091 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
804035 CATCAGTAAA
804045 TAAATA-
1 TAAATAT
804051 TAAATTAAT
1 TAAA-T-AT
*
804060 TAATTAT
1 TAAATAT
804067 TAAATAT
1 TAAATAT
*
804074 CAAATAT
1 TAAATAT
804081 TAAATAT
1 TAAATAT
804088 TAAA
1 TAAA
804092 ATAATATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 4 0.12
7 25 0.74
8 2 0.06
9 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATAT
Found at i:804560 original size:8 final size:8
Alignment explanation
Indices: 804540--804608 Score: 66
Period size: 8 Copynumber: 8.1 Consensus size: 8
804530 TATTTCAGAC
804540 AAAATATAT
1 AAAATA-AT
804549 AAAATAAT
1 AAAATAAT
804557 AAAATAAT
1 AAAATAAT
* *
804565 AAATGTACT
1 AAA-ATAAT
804574 AAAATAATAT
1 AAAAT-A-AT
804584 AAAATAAT
1 AAAATAAT
**
804592 AAAATACG
1 AAAATAAT
804600 AAAATAAT
1 AAAATAAT
804608 A
1 A
804609 TATTTTTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
8 29 0.59
9 14 0.29
10 6 0.12
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (8 bp):
AAAATAAT
Found at i:804560 original size:17 final size:17
Alignment explanation
Indices: 804540--804597 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
804530 TATTTCAGAC
804540 AAAATATATAAAATAAT
1 AAAATATATAAAATAAT
* *
804557 AAAATA-ATAAATGTACT
1 AAAATATATAAA-ATAAT
804574 AAAATAATATAAAATAAT
1 AAAAT-ATATAAAATAAT
804592 AAAATA
1 AAAATA
804598 CGAAAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 5 0.15
17 15 0.44
18 9 0.26
19 5 0.15
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAATATATAAAATAAT
Found at i:804610 original size:26 final size:27
Alignment explanation
Indices: 804555--804610 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
804545 ATATAAAATA
* *
804555 ATAAAATAATAAATGTACTAAAATAAT
1 ATAAAATAATAAATATACGAAAATAAT
804582 ATAAAATAATAAA-ATACGAAAATAAT
1 ATAAAATAATAAATATACGAAAATAAT
804608 ATA
1 ATA
804611 TTTTTATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (27 bp):
ATAAAATAATAAATATACGAAAATAAT
Found at i:804958 original size:16 final size:15
Alignment explanation
Indices: 804933--804962 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
804923 TGTCTGAAAT
804933 AATATAAAATAATAA
1 AATATAAAATAATAA
804948 AATACTAAAATAATA
1 AATA-TAAAATAATA
804963 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:805875 original size:18 final size:18
Alignment explanation
Indices: 805852--805915 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
805842 ACCTAGAACT
805852 ACCCATAACCCCTCTCCA
1 ACCCATAACCCCTCTCCA
** *** *
805870 ACCCATAAATACCTAGAACT
1 ACCCAT-AACCCCT-CTCCA
805890 ACCCATAACCCCTCTCCA
1 ACCCATAACCCCTCTCCA
805908 ACCCATAA
1 ACCCATAA
805916 ATAAGAGGAT
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
18 15 0.47
19 10 0.31
20 7 0.22
ACGTcount: A:0.36, C:0.45, G:0.02, T:0.17
Consensus pattern (18 bp):
ACCCATAACCCCTCTCCA
Found at i:805881 original size:38 final size:38
Alignment explanation
Indices: 805839--805918 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
805829 TTTTTGACAC
805839 AATACCTAGAACTACCCATAACCCCTCTCCAACCCATA
1 AATACCTAGAACTACCCATAACCCCTCTCCAACCCATA
805877 AATACCTAGAACTACCCATAACCCCTCTCCAACCCATA
1 AATACCTAGAACTACCCATAACCCCTCTCCAACCCATA
805915 AATA
1 AATA
805919 AGAGGATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.39, C:0.40, G:0.03, T:0.19
Consensus pattern (38 bp):
AATACCTAGAACTACCCATAACCCCTCTCCAACCCATA
Found at i:820065 original size:15 final size:15
Alignment explanation
Indices: 820045--820075 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
820035 CCAACCATCA
820045 AATTTTACCTCAATT
1 AATTTTACCTCAATT
820060 AATTTTACCTCAATT
1 AATTTTACCTCAATT
820075 A
1 A
820076 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:824919 original size:93 final size:92
Alignment explanation
Indices: 824787--824981 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
824777 TTGATTTTAG
* *
824787 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
824851 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
824879 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
824944 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
824972 CAAATTCATA
1 TAAATTCATA
824982 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:825024 original size:17 final size:19
Alignment explanation
Indices: 824988--825032 Score: 67
Period size: 17 Copynumber: 2.4 Consensus size: 19
824978 CATAAACTAT
824988 AATCATATTAGTTATAATTA
1 AATCATA-TAGTTATAATTA
825008 AATCATATA-TT-TAATTA
1 AATCATATAGTTATAATTA
825025 AATCATAT
1 AATCATAT
825033 TTAATATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.56
18 2 0.08
19 2 0.08
20 7 0.28
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (19 bp):
AATCATATAGTTATAATTA
Found at i:825041 original size:17 final size:17
Alignment explanation
Indices: 824988--825042 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
824978 CATAAACTAT
824988 AATCATATTAGTTATAATTA
1 AATCATA-TA-TTA-AATTA
*
825008 AATCATATATTTAATTA
1 AATCATATATTAAATTA
825025 AATCATAT-TTAATATTA
1 AATCATATATTAA-ATTA
825042 A
1 A
825043 TTATTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 3 0.09
17 18 0.56
18 2 0.06
19 2 0.06
20 7 0.22
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (17 bp):
AATCATATATTAAATTA
Found at i:825152 original size:16 final size:16
Alignment explanation
Indices: 825131--825173 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
825121 TTATTAAATT
825131 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
825147 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
825162 AT-TATGTTAATT
1 ATATATTTTAATT
825174 TATATTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:825499 original size:16 final size:16
Alignment explanation
Indices: 825478--825516 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
825468 TTGATTTGCT
*
825478 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
825494 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
825510 ATTACAC
1 ATTACAC
825517 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:825517 original size:16 final size:16
Alignment explanation
Indices: 825490--825531 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
825480 TACACAGCTT
825490 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
825506 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
* *
825522 ATCCAATACA
1 TTCCATTACA
825532 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
TTCCATTACACCTCTA
Found at i:829852 original size:21 final size:21
Alignment explanation
Indices: 829828--829869 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
829818 GTAGGAACAT
*
829828 TTTCTGAAAATTTTGCATTGA
1 TTTCTGAAAACTTTGCATTGA
829849 TTTCTGAAAACTTTGCATTGA
1 TTTCTGAAAACTTTGCATTGA
829870 AATAATCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (21 bp):
TTTCTGAAAACTTTGCATTGA
Found at i:831849 original size:20 final size:20
Alignment explanation
Indices: 831810--831849 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
831800 TTTAGCATCC
831810 AAATGGTTAATGTCTTAGTTG
1 AAATGGTTAATG-CTTAGTTG
831831 AAATGGTATAATG-TTAGTT
1 AAATGGT-TAATGCTTAGTT
831850 ATGCTAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.42
Consensus pattern (20 bp):
AAATGGTTAATGCTTAGTTG
Found at i:836503 original size:21 final size:21
Alignment explanation
Indices: 836479--836521 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
836469 CCCATTATCC
836479 AATAAAAACATAAAAATT-CCT
1 AATAAAAA-ATAAAAATTGCCT
* *
836500 AATAATAAATCAAAATTGCCT
1 AATAAAAAATAAAAATTGCCT
836521 A
1 A
836522 TTCGATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (21 bp):
AATAAAAAATAAAAATTGCCT
Found at i:837280 original size:16 final size:16
Alignment explanation
Indices: 837259--837294 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
837249 AATTCAGAGG
837259 ATGAAAACTCTTAATA
1 ATGAAAACTCTTAATA
837275 ATGAAAACTCTTAATA
1 ATGAAAACTCTTAATA
837291 ATGA
1 ATGA
837295 TTGAGAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (16 bp):
ATGAAAACTCTTAATA
Found at i:855694 original size:15 final size:15
Alignment explanation
Indices: 855674--855734 Score: 113
Period size: 15 Copynumber: 4.1 Consensus size: 15
855664 TAGCAAAGAA
855674 GAACCCCTCACCTCT
1 GAACCCCTCACCTCT
855689 GAACCCCTCACCTCT
1 GAACCCCTCACCTCT
855704 GAACCCCTCACCTCT
1 GAACCCCTCACCTCT
*
855719 GAACCCCCCACCTCT
1 GAACCCCTCACCTCT
855734 G
1 G
855735 GAAATCAGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.20, C:0.54, G:0.08, T:0.18
Consensus pattern (15 bp):
GAACCCCTCACCTCT
Found at i:865977 original size:68 final size:68
Alignment explanation
Indices: 865868--866001 Score: 259
Period size: 68 Copynumber: 2.0 Consensus size: 68
865858 TGTTCAATTA
865868 AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTACGTCA
1 AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTACGTCA
865933 TTT
66 TTT
*
865936 AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTATGTCA
1 AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTACGTCA
866001 T
66 T
866002 GCACTCTTTA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (68 bp):
AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTACGTCA
TTT
Found at i:866915 original size:12 final size:13
Alignment explanation
Indices: 866898--866930 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
866888 AATACGCATG
866898 TACATTTAC-ATT
1 TACATTTACAATT
866910 TACATTTACAATT
1 TACATTTACAATT
*
866923 TATATTTA
1 TACATTTA
866931 GTTAGATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (13 bp):
TACATTTACAATT
Found at i:874061 original size:20 final size:21
Alignment explanation
Indices: 874036--874085 Score: 77
Period size: 19 Copynumber: 2.4 Consensus size: 21
874026 TTTAAAATAC
874036 TTTAAAAATATTTTTT-TATT
1 TTTAAAAATATTTTTTGTATT
874056 TTT-AAAATATTTTTTGTATT
1 TTTAAAAATATTTTTTGTATT
874076 TATTAAAAAT
1 T-TTAAAAAT
874086 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 12 0.44
20 8 0.30
21 2 0.07
22 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTAAAAATATTTTTTGTATT
Found at i:876783 original size:3 final size:3
Alignment explanation
Indices: 876775--876818 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
876765 AAAATGTTTG
876775 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
876819 GGAACATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:880952 original size:6 final size:6
Alignment explanation
Indices: 880941--880980 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
880931 TAATGACCCT
880941 CCATAG CCATAG CCATAG CCATAG CCATAG CCATAG CCAT
1 CCATAG CCATAG CCATAG CCATAG CCATAG CCATAG CCAT
880981 GGCCTGCTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.35, G:0.15, T:0.17
Consensus pattern (6 bp):
CCATAG
Found at i:881923 original size:19 final size:19
Alignment explanation
Indices: 881892--881928 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
881882 TTGTTCAAAT
881892 AATAATAATTTATTTATAG
1 AATAATAATTTATTTATAG
881911 AATATATAA-TTATTTATA
1 AATA-ATAATTTATTTATA
881929 TAAACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AATAATAATTTATTTATAG
Found at i:883959 original size:9 final size:10
Alignment explanation
Indices: 883946--883971 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
883936 AAACATTCAA
883946 AAAAAATCAT
1 AAAAAATCAT
883956 AAAAAATCAT
1 AAAAAATCAT
883966 AAAAAA
1 AAAAAA
883972 ATTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATCAT
Found at i:883959 original size:11 final size:11
Alignment explanation
Indices: 883945--883973 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
883935 AAAACATTCA
883945 AAAAAAATCAT
1 AAAAAAATCAT
883956 -AAAAAATCAT
1 AAAAAAATCAT
883966 AAAAAAAT
1 AAAAAAAT
883974 TTAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAAATCAT
Found at i:896355 original size:2 final size:2
Alignment explanation
Indices: 896348--896376 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
896338 TGTACGTTGC
896348 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 A
896377 CTATGGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:897707 original size:17 final size:17
Alignment explanation
Indices: 897680--897717 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
897670 GAATTAAGCA
897680 TTTAAAAAATAT-ATTT
1 TTTAAAAAATATAATTT
897696 TTTAATAAAATATAATTT
1 TTTAA-AAAATATAATTT
897714 TTTA
1 TTTA
897718 TTTAAGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 7 0.35
18 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAAAAATATAATTT
Found at i:903328 original size:16 final size:15
Alignment explanation
Indices: 903307--903336 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
903297 ACGATGGGGC
903307 TATTATTTGTATTATT
1 TATTATTTG-ATTATT
903323 TATTATTTGATTAT
1 TATTATTTGATTAT
903337 GTGCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TATTATTTGATTATT
Found at i:904412 original size:29 final size:28
Alignment explanation
Indices: 904360--904415 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
904350 AATTGTAGAA
*
904360 TAAATTGTAAAATTTGAGTATTAGGGAC
1 TAAATTGTAAAATTTGAATATTAGGGAC
904388 TAAATTGTGAAAATTTGAA-ATTTAGGGA
1 TAAATTGT-AAAATTTGAATA-TTAGGGA
904416 TTTAAGTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (28 bp):
TAAATTGTAAAATTTGAATATTAGGGAC
Found at i:904432 original size:18 final size:19
Alignment explanation
Indices: 904403--904438 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
904393 TGTGAAAATT
*
904403 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
904422 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
904439 ATCTAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Done.