Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold114
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: 3219552
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Warning! 36736 characters in sequence are not A, C, G, or T
File 3 of 13
Found at i:588671 original size:2 final size:2
Alignment explanation
Indices: 588664--588701 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
588654 TCAACTTTTC
* *
588664 AG AG AG AG AG AG AG AG AG GG GG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
588702 GGGGGGGGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
AG
Found at i:588690 original size:20 final size:20
Alignment explanation
Indices: 588665--588705 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
588655 CAACTTTTCA
588665 GAGAGAGAGAGAGAGAGGGG
1 GAGAGAGAGAGAGAGAGGGG
588685 GAGAGAGAGAGAGAGAGGGG
1 GAGAGAGAGAGAGAGAGGGG
588705 G
1 G
588706 GGGGGGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (20 bp):
GAGAGAGAGAGAGAGAGGGG
Found at i:590624 original size:18 final size:18
Alignment explanation
Indices: 590601--590640 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
590591 AATATGTGGA
590601 GCTTAAGTTTTGTAAAGT
1 GCTTAAGTTTTGTAAAGT
590619 GCTTAAGTTTTGTAAAGT
1 GCTTAAGTTTTGTAAAGT
590637 GCTT
1 GCTT
590641 CAACTGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (18 bp):
GCTTAAGTTTTGTAAAGT
Found at i:590689 original size:2 final size:2
Alignment explanation
Indices: 590682--590715 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
590672 GGATAAAGTG
*
590682 TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
590716 GATTTAGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:590918 original size:15 final size:16
Alignment explanation
Indices: 590898--590930 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
590888 AATATTTAAA
590898 AATAAAATTTAT-ATT
1 AATAAAATTTATAATT
*
590913 AATAAATTTTATAATT
1 AATAAAATTTATAATT
590929 AA
1 AA
590931 ATTTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATAAAATTTATAATT
Found at i:590964 original size:26 final size:26
Alignment explanation
Indices: 590927--591044 Score: 75
Period size: 26 Copynumber: 4.5 Consensus size: 26
590917 AATTTTATAA
590927 TTAA-ATTTAAATAAAAAAATAAATT
1 TTAATATTTAAATAAAAAAATAAATT
* * *
590952 TTAATATTTAAAT--AATATTTAATT
1 TTAATATTTAAATAAAAAAATAAATT
* *
590976 TTAATTAATTTAAATAAAAAATTATATT
1 TTAA-T-ATTTAAATAAAAAAATAAATT
* **
591004 AATTAAT-TAATAAATAAAATAAATAAAAA
1 --TTAATAT-TTAAATAAAA-AAATAAATT
591033 TT-ATATTTAAAT
1 TTAATATTTAAAT
591045 TTATTAATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 19
0.70 0.12 0.19
Matches are distributed among these distances:
24 12 0.17
25 5 0.07
26 23 0.32
27 4 0.06
28 17 0.24
29 6 0.08
30 4 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAATATTTAAATAAAAAAATAAATT
Found at i:590984 original size:17 final size:18
Alignment explanation
Indices: 590951--590984 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
590941 AAAAATAAAT
590951 TTTAATATTTAAATAATA
1 TTTAATATTTAAATAATA
*
590969 TTTAAT-TTTAATTAAT
1 TTTAATATTTAAATAAT
590985 TTAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATATTTAAATAATA
Found at i:598111 original size:2 final size:2
Alignment explanation
Indices: 598104--598133 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
598094 AAAAGCATAC
598104 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
598134 TAATCCTCGC
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:603562 original size:8 final size:8
Alignment explanation
Indices: 603549--603575 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
603539 ACTATAAGTC
603549 AATCATGG
1 AATCATGG
603557 AATCATGG
1 AATCATGG
603565 AATCATGG
1 AATCATGG
603573 AAT
1 AAT
603576 TAAGTTATCT
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:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (8 bp):
AATCATGG
Found at i:604177 original size:10 final size:10
Alignment explanation
Indices: 604128--604177 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
604118 TTCAATTAAC
*
604128 TAAATTAATA
1 TAAAATAATA
* *
604138 TCAAATATTA
1 TAAAATAATA
604148 -AAAATAATA
1 TAAAATAATA
604157 -AAAATAA-A
1 TAAAATAATA
604165 TAAAATAATA
1 TAAAATAATA
604175 TAA
1 TAA
604178 TAAAGATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
8 1 0.03
9 21 0.64
10 11 0.33
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAAATAATA
Found at i:616461 original size:31 final size:27
Alignment explanation
Indices: 616425--616481 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
616415 CTATTATATA
616425 ATTTTATATAAAATATTATATATTTATATTC
1 ATTTTA-AT-AAAT-TTATA-ATTTATATTC
616456 ATTTTAATAAATTTATAATTTATATT
1 ATTTTAATAAATTTATAATTTATATT
616482 ATAATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 9 0.35
28 5 0.19
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTTAATAAATTTATAATTTATATTC
Found at i:616485 original size:20 final size:19
Alignment explanation
Indices: 616437--616490 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
616427 TTTATATAAA
*
616437 ATATTATATATTTATATTC
1 ATATTATAAATTTATATTC
* *
616456 ATTTTAATAAATTTATAATTT
1 ATATT-ATAAATTTAT-ATTC
616477 ATATTATAATATTT
1 ATATTATAA-ATTT
616491 TTATATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTATAAATTTATATTC
Found at i:616493 original size:16 final size:16
Alignment explanation
Indices: 616474--616505 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
616464 AAATTTATAA
*
616474 TTTATATTATAATATT
1 TTTATATAATAATATT
616490 TTTATATAATAATATT
1 TTTATATAATAATATT
616506 ATTTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATATAATAATATT
Found at i:616535 original size:20 final size:20
Alignment explanation
Indices: 616475--616546 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
616465 AATTTATAAT
*
616475 TTATATTATAATATTTTTATA
1 TTATATTTTAAT-TTTTTATA
* * *
616496 TAATAATATTATTTTCTTTTATA
1 TTAT-ATTTTA-ATT-TTTTATA
616519 TTATATTTTAATTTTTTATA
1 TTATATTTTAATTTTTTATA
*
616539 TTTTATTT
1 TTATATTT
616547 ATATTATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
20 14 0.35
21 5 0.12
22 10 0.25
23 11 0.28
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATATTTTAATTTTTTATA
Found at i:617860 original size:16 final size:17
Alignment explanation
Indices: 617823--617860 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
617813 TAAATTTAAA
*
617823 AAATTTTATCTCAAATT
1 AAATTTTATCTCAAATC
*
617840 TAATTTTAT-TCAAATC
1 AAATTTTATCTCAAATC
617856 AAATT
1 AAATT
617861 AAATAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTTATCTCAAATC
Found at i:618387 original size:19 final size:19
Alignment explanation
Indices: 618359--618397 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
618349 TTTTTTTAAT
*
618359 TATTATTCTAAAATTTTTA
1 TATTAATCTAAAATTTTTA
**
618378 TATTAATCTATTATTTTTA
1 TATTAATCTAAAATTTTTA
618397 T
1 T
618398 TAAATTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTAATCTAAAATTTTTA
Found at i:619393 original size:25 final size:26
Alignment explanation
Indices: 619356--619405 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
619346 ATATTATAAA
* *
619356 AAATAATATTTTTA-TAATTAAATAT
1 AAATAAAAATTTTATTAATTAAATAT
*
619381 AAATAAAAATTTTATTTATTAAATA
1 AAATAAAAATTTTATTAATTAAATA
619406 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AAATAAAAATTTTATTAATTAAATAT
Found at i:619397 original size:31 final size:34
Alignment explanation
Indices: 619323--619397 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
619313 TATTGATTTT
* *
619323 AAATTTTA-TTTTATTAATTTAATATATTATAAA
1 AAATTTTATTTTTATTAATTAAATATATAATAAA
**
619356 AAATAATATTTTTA-TAATTAAATATA-AAT-AA
1 AAATTTTATTTTTATTAATTAAATATATAATAAA
619387 AAATTTTATTT
1 AAATTTTATTT
619398 ATTAAATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 11 0.31
32 2 0.06
33 17 0.49
34 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
AAATTTTATTTTTATTAATTAAATATATAATAAA
Found at i:621962 original size:21 final size:21
Alignment explanation
Indices: 621938--621986 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
621928 ATTATTTTTA
*
621938 TTAAATTAATAATAATTTAA-T
1 TTAAATTAAT-ATAAATTAATT
* *
621959 TTAAATCAATTTAAATTAATT
1 TTAAATTAATATAAATTAATT
621980 TTAAATT
1 TTAAATT
621987 TTAATTGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAAATTAATATAAATTAATT
Found at i:621984 original size:11 final size:10
Alignment explanation
Indices: 621938--621986 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
621928 ATTATTTTTA
621938 TTAAATTAAT
1 TTAAATTAAT
* *
621948 AATAATTTAAT
1 -TTAAATTAAT
*
621959 TTAAATCAAT
1 TTAAATTAAT
621969 TTAAATTAATT
1 TTAAATTAA-T
621980 TTAAATT
1 TTAAATT
621987 TTAATTGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 15 0.48
11 16 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
TTAAATTAAT
Found at i:623327 original size:14 final size:15
Alignment explanation
Indices: 623290--623335 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
623280 TTTAAATTAT
*
623290 TATTTATTAATAAAA
1 TATTTATTATTAAAA
*
623305 TATTT-TTATTTAAA
1 TATTTATTATTAAAA
*
623319 T-TTTATTATAAAAA
1 TATTTATTATTAAAA
623333 TAT
1 TAT
623336 ATAAGTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.12
14 16 0.64
15 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTTATTATTAAAA
Found at i:623666 original size:15 final size:15
Alignment explanation
Indices: 623642--623676 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
623632 AAATTTTTTT
*
623642 ATTATTATCATTATC
1 ATTATCATCATTATC
*
623657 ATTATCATCATTATT
1 ATTATCATCATTATC
623672 ATTAT
1 ATTAT
623677 TATGATGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATCATCATTATC
Found at i:628777 original size:21 final size:20
Alignment explanation
Indices: 628753--628797 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
628743 ATAAAAATAA
628753 AATATTATTTA-ATATATCATT
1 AATATT-TTTATATATAT-ATT
*
628774 AATATTTTTATTTATATATT
1 AATATTTTTATATATATATT
628794 AATA
1 AATA
628798 AAATAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATATTTTTATATATATATT
Found at i:628807 original size:23 final size:23
Alignment explanation
Indices: 628748--628809 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
628738 ACAAAATAAA
628748 AATAAAATATTATTTAATATATC
1 AATAAAATATTATTTAATATATC
* * * *
628771 ATTAATATTTTTATTT-ATATATT
1 AATAA-AATATTATTTAATATATC
628794 AATAAAATAATTATTT
1 AATAAAAT-ATTATTT
628810 GATAAAAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.07
23 20 0.67
24 8 0.27
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATAAAATATTATTTAATATATC
Found at i:638479 original size:21 final size:20
Alignment explanation
Indices: 638432--638480 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
638422 TTATATAATA
* *
638432 ATAATTTATTTTTATATTTT
1 ATAATATATTTATATATTTT
*
638452 TTAAATATATTTATATATTTGT
1 AT-AATATATTTATATATTT-T
638474 ATAATAT
1 ATAATAT
638481 TCATTGTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.87
22 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATAATATATTTATATATTTT
Found at i:638531 original size:18 final size:17
Alignment explanation
Indices: 638508--638543 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
638498 TTATATAAAT
*
638508 TTTTATATTAATTATTAA
1 TTTTATATAAATT-TTAA
638526 TTTTATATAAATTTTAA
1 TTTTATATAAATTTTAA
638543 T
1 T
638544 ATATTCGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATATAAATTTTAA
Found at i:638559 original size:28 final size:29
Alignment explanation
Indices: 638494--638561 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
638484 TTGTTACTTT
* *
638494 TAATTTATATAAATTTTTATATTAATTAT
1 TAATTTATATAAATTTTAATATTAATTAG
*
638523 TAATTTTATATAAATTTTAATA-T-ATTCG
1 TAA-TTTATATAAATTTTAATATTAATTAG
638551 TATATTTATAT
1 TA-ATTTATAT
638562 TATTTTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 12 0.35
29 5 0.15
30 17 0.50
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (29 bp):
TAATTTATATAAATTTTAATATTAATTAG
Found at i:639356 original size:14 final size:13
Alignment explanation
Indices: 639316--639357 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
639306 ATATTATTAC
639316 AATTTAAGATAAA-
1 AATTTAA-ATAAAT
639329 AATTTAAATAAAT
1 AATTTAAATAAAT
*
639342 AATTATAAATTAAT
1 AATT-TAAATAAAT
639356 AA
1 AA
639358 AAATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 5 0.19
13 11 0.42
14 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
AATTTAAATAAAT
Found at i:645003 original size:15 final size:15
Alignment explanation
Indices: 644979--645010 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
644969 GGCTTCAACA
644979 ATGCTCGTGAGAAGG
1 ATGCTCGTGAGAAGG
*
644994 ATGCTTGTGAGAAGG
1 ATGCTCGTGAGAAGG
645009 AT
1 AT
645011 CCTAATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.09, G:0.38, T:0.25
Consensus pattern (15 bp):
ATGCTCGTGAGAAGG
Found at i:645369 original size:13 final size:13
Alignment explanation
Indices: 645351--645379 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
645341 AAGATGTAAG
645351 ATGGAAGGAAGAC
1 ATGGAAGGAAGAC
645364 ATGGAAGGAAGAC
1 ATGGAAGGAAGAC
645377 ATG
1 ATG
645380 AAAGCAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.38, T:0.10
Consensus pattern (13 bp):
ATGGAAGGAAGAC
Found at i:648005 original size:26 final size:26
Alignment explanation
Indices: 647962--648016 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
647952 TACAGCTGAG
647962 TAAAGATTAAACACTGTCCAACCAAA
1 TAAAGATTAAACACTGTCCAACCAAA
*
647988 TAAATGATTAAACA-TGTCCGACCAAA
1 TAAA-GATTAAACACTGTCCAACCAAA
648014 TAA
1 TAA
648017 TGCAGAGTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (26 bp):
TAAAGATTAAACACTGTCCAACCAAA
Found at i:653912 original size:17 final size:18
Alignment explanation
Indices: 653890--653929 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
653880 ATGGTTATTT
653890 AATAAAAA-TACAAAA-AA
1 AATAAAAATTA-AAAAGAA
653907 AATAAAAATTAAAAAGAA
1 AATAAAAATTAAAAAGAA
653925 AATAA
1 AATAA
653930 TATGCGACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AATAAAAATTAAAAAGAA
Found at i:654234 original size:2 final size:2
Alignment explanation
Indices: 654229--654275 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
654219 TTATATACAT
654229 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
654271 AG AG A
1 AG AG A
654276 TTTTCAACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:654429 original size:2 final size:2
Alignment explanation
Indices: 654422--654451 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
654412 AAAAAGGAAC
654422 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
654452 GAAATATTTA
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:655445 original size:2 final size:2
Alignment explanation
Indices: 655408--655432 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
655398 CAAGTGCATC
655408 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
655433 GGGGGGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:661274 original size:19 final size:18
Alignment explanation
Indices: 661243--661280 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
661233 ACCGCCTTTG
*
661243 ACAAAAACTAAAATCAAA
1 ACAAAAACCAAAATCAAA
661261 ACAAAAACCCAAAATCAAA
1 ACAAAAA-CCAAAATCAAA
661280 A
1 A
661281 TCCGATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.71, C:0.21, G:0.00, T:0.08
Consensus pattern (18 bp):
ACAAAAACCAAAATCAAA
Found at i:663439 original size:18 final size:17
Alignment explanation
Indices: 663418--663459 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
663408 ATATTTAATT
663418 ATTATAATATATTTTTTA
1 ATTA-AATATATTTTTTA
663436 ATTAAAT-TATTTTTTA
1 ATTAAATATATTTTTTA
663452 ATTAAATA
1 ATTAAATA
663460 ATAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 16 0.70
17 3 0.13
18 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTAAATATATTTTTTA
Found at i:663479 original size:22 final size:20
Alignment explanation
Indices: 663454--663510 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
663444 ATTTTTTAAT
663454 TAAATAATAATTTAAAATAAAA
1 TAAAT-ATAATTTAAAAT-AAA
* *
663476 TAAATTTAAATATAAAATAAA
1 TAAATAT-AATTTAAAATAAA
663497 -AAATATAATTTAAA
1 TAAATATAATTTAAA
663511 TCGAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.23
20 5 0.17
21 4 0.13
22 14 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATATAATTTAAAATAAA
Found at i:663490 original size:17 final size:16
Alignment explanation
Indices: 663462--663496 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
663452 ATTAAATAAT
663462 AATTTAAAATAAAATA
1 AATTTAAAATAAAATA
663478 AATTTAAATATAAAATA
1 AATTTAAA-ATAAAATA
663495 AA
1 AA
663497 AAATATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTTAAAATAAAATA
Found at i:663551 original size:21 final size:21
Alignment explanation
Indices: 663525--663574 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
663515 ATAATAATAG
663525 AATATCATCATATATATATAT
1 AATATCATCATATATATATAT
* *
663546 AATATCATCATATTTATATGT
1 AATATCATCATATATATATAT
663567 ATATATCA
1 A-ATATCA
663575 ATATACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATCATCATATATATATAT
Found at i:663587 original size:29 final size:27
Alignment explanation
Indices: 663534--663588 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
663524 GAATATCATC
*
663534 ATATATATATATAATATCATCATATTT
1 ATATATATATATAATATCATAATATTT
*
663561 ATATGTATATATCAATATACATAATATT
1 ATATATATATAT-AATAT-CATAATATT
663589 AGCAGTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
28 5 0.21
29 8 0.33
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (27 bp):
ATATATATATATAATATCATAATATTT
Found at i:664046 original size:12 final size:12
Alignment explanation
Indices: 664031--664056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
664021 AAAATATTAT
664031 AAAAAAGGAAAA
1 AAAAAAGGAAAA
664043 AAAAAAGGAAAA
1 AAAAAAGGAAAA
664055 AA
1 AA
664057 CTTTATCATC
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGGAAAA
Found at i:675092 original size:17 final size:16
Alignment explanation
Indices: 675070--675101 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
675060 GTTCTTTAGT
675070 TTATAAATATATATATA
1 TTATAAATAT-TATATA
675087 TTATAAATATTATAT
1 TTATAAATATTATAT
675102 TCAATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATAAATATTATATA
Found at i:675644 original size:16 final size:16
Alignment explanation
Indices: 675588--675645 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
675578 TAAATCAAAT
675588 TAAATT-AATTTAA-A
1 TAAATTAAATTTAATA
* * * *
675602 TAAAATAATTTTTATT
1 TAAATTAAATTTAATA
*
675618 TAAATTTAATTTAATA
1 TAAATTAAATTTAATA
675634 TAAATTAAATTT
1 TAAATTAAATTT
675646 GTCAAGCTTA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 22 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTAAATTTAATA
Found at i:677821 original size:117 final size:117
Alignment explanation
Indices: 677614--677848 Score: 452
Period size: 117 Copynumber: 2.0 Consensus size: 117
677604 AAGACTCAGC
*
677614 TATGTCACACATTGTGTGTCACATGCCAAGTAAGAGCTTCTTTTTCATGTTCCTGGCAACTACAC
1 TATGTCACACATTGTGTGTCACATGCCAAGTAAAAGCTTCTTTTTCATGTTCCTGGCAACTACAC
*
677679 TTGTGTTCTGCATTTGAAGTTTACCACCATACATGATTGTTAGGACTGACAA
66 TTGTGTTCTGCATTTGAAGTGTACCACCATACATGATTGTTAGGACTGACAA
677731 TATGTCACACATTGTGTGTCACATGCCAAGTAAAAGCTTCTTTTTCATGTTCCTGGCAACTACAC
1 TATGTCACACATTGTGTGTCACATGCCAAGTAAAAGCTTCTTTTTCATGTTCCTGGCAACTACAC
677796 TTGTGTTCTGCATTTGAAGTGTACCACCATACATGATTGTTAGGACTGACAA
66 TTGTGTTCTGCATTTGAAGTGTACCACCATACATGATTGTTAGGACTGACAA
677848 T
1 T
677849 GAACCAAGAA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (117 bp):
TATGTCACACATTGTGTGTCACATGCCAAGTAAAAGCTTCTTTTTCATGTTCCTGGCAACTACAC
TTGTGTTCTGCATTTGAAGTGTACCACCATACATGATTGTTAGGACTGACAA
Found at i:679505 original size:42 final size:42
Alignment explanation
Indices: 679459--679541 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
679449 TTTATTTAAA
*
679459 TTTAATTGTAAAATA-TATAAATATTAATATAAAAATAATATT
1 TTTAATTGTAAAATATTATAAATAATAA-ATAAAAATAATATT
* * * *
679501 TTTAATTTTTATATATTATAAATAATAACTAAAAATAATAT
1 TTTAATTGTAAAATATTATAAATAATAAATAAAAATAATAT
679542 AAATAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 24 0.69
43 11 0.31
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (42 bp):
TTTAATTGTAAAATATTATAAATAATAAATAAAAATAATATT
Found at i:679574 original size:17 final size:17
Alignment explanation
Indices: 679540--679582 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
679530 TAAAAATAAT
679540 ATAAATAAATTAAATTAA
1 ATAAA-AAATTAAATTAA
679558 ATAAAAAA-TAAACTTAA
1 ATAAAAAATTAAA-TTAA
*
679575 ACAAAAAA
1 ATAAAAAA
679583 ATTCAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 14 0.61
18 5 0.22
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
ATAAAAAATTAAATTAA
Found at i:679655 original size:19 final size:19
Alignment explanation
Indices: 679628--679666 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
679618 TGGGCCTAGA
*
679628 GACATCTGCTAACAATATG
1 GACAACTGCTAACAATATG
679647 GACAACTGCTAACAATATG
1 GACAACTGCTAACAATATG
679666 G
1 G
679667 GTAAAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (19 bp):
GACAACTGCTAACAATATG
Found at i:685196 original size:18 final size:16
Alignment explanation
Indices: 685164--685199 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
685154 GACTGGCTTA
685164 TTCTCTCTTTGGTGTG
1 TTCTCTCTTTGGTGTG
685180 TTCTCTCTTTGGTGTG
1 TTCTCTCTTTGGTGTG
685196 TTCT
1 TTCT
685200 AAAACATGCA
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:0.00, C:0.19, G:0.22, T:0.58
Consensus pattern (16 bp):
TTCTCTCTTTGGTGTG
Found at i:686982 original size:2 final size:2
Alignment explanation
Indices: 686977--687011 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
686967 TATATGAATT
686977 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 T
687012 TTATCTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:688115 original size:12 final size:12
Alignment explanation
Indices: 688098--688123 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
688088 CCTATGATCG
688098 GGGGGGGGGGGA
1 GGGGGGGGGGGA
688110 GGGGGGGGGGGA
1 GGGGGGGGGGGA
688122 GG
1 GG
688124 TTTTTCTCAC
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:0.08, C:0.00, G:0.92, T:0.00
Consensus pattern (12 bp):
GGGGGGGGGGGA
Found at i:691559 original size:12 final size:11
Alignment explanation
Indices: 691542--691575 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
691532 CATTGTTATA
691542 TCTTCTTTGTTT
1 TCTTCTTT-TTT
691554 TCTTCTTTTTT
1 TCTTCTTTTTT
*
691565 TTTTCTTTTTT
1 TCTTCTTTTTT
691576 GTTTTTGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (11 bp):
TCTTCTTTTTT
Found at i:696070 original size:17 final size:17
Alignment explanation
Indices: 696044--696157 Score: 61
Period size: 17 Copynumber: 6.3 Consensus size: 17
696034 TTACATCAAA
*
696044 TTAAATTTTAATTTAAT
1 TTAAAATTTAATTTAAT
*
696061 TTAAAATTTATATTAATAT
1 TTAAAATTTA-ATTTA-AT
*
696080 TTAAAATATATTAATATTTAT
1 TT-AAA-AT-TTAAT-TTAAT
*
696101 ATTAAAA-TTAATTTAAA
1 -TTAAAATTTAATTTAAT
* *
696118 ATAAAATTTAAATTATTAT
1 TTAAAATTT-AATT-TAAT
*
696137 TT-ATATTTAATTTAAT
1 TTAAAATTTAATTTAAT
*
696153 ATAAA
1 TTAAA
696158 TTAAATCTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
16 9 0.12
17 19 0.26
18 18 0.25
19 7 0.10
20 4 0.06
21 9 0.12
22 6 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAAATTTAATTTAAT
Found at i:696083 original size:19 final size:17
Alignment explanation
Indices: 696059--696099 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 17
696049 TTTTAATTTA
696059 ATTTAAAATTTATATTAAT
1 ATTTAAAA--TATATTAAT
696078 ATTTAAAATATATTAAT
1 ATTTAAAATATATTAAT
696095 ATTTA
1 ATTTA
696100 TATTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAAATATATTAAT
Found at i:696116 original size:23 final size:23
Alignment explanation
Indices: 696065--696129 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
696055 TTTAATTTAA
696065 AATTT-ATATTAATATTTAAAAT
1 AATTTAATATTAATATTTAAAAT
*
696087 -ATATTAATATTTATA-TTAAAATT
1 AAT-TTAATATTAATATTTAAAA-T
* *
696110 AATTTAA-AATAAAATTTAAA
1 AATTTAATATTAATATTTAAA
696130 TTATTATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
21 2 0.06
22 12 0.35
23 18 0.53
24 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTTAATATTAATATTTAAAAT
Found at i:698968 original size:22 final size:22
Alignment explanation
Indices: 698925--698970 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
698915 TTTTTCGAGG
* * * *
698925 AAAAAAGTGAGAGTAAGGTACA
1 AAAAAAGTAAAAGGAAGATACA
698947 AAAAAAGTAAAAGGAAGATACA
1 AAAAAAGTAAAAGGAAGATACA
698969 AA
1 AA
698971 GGGAGCTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (22 bp):
AAAAAAGTAAAAGGAAGATACA
Found at i:699399 original size:33 final size:34
Alignment explanation
Indices: 699338--699409 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
699328 ACATTCGCTG
699338 AAAG-AATGAAGATCAGTGTTTAGAAAAAAAGAA
1 AAAGAAATGAAGATCAGTGTTTAGAAAAAAAGAA
699371 AAAGAAATGAAGATCAGTGTTTAGAAAAAAAGAA
1 AAAGAAATGAAGATCAGTGTTTAGAAAAAAAGAA
699405 AAAGA
1 AAAGA
699410 TTAGCTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.60, C:0.03, G:0.21, T:0.17
Consensus pattern (34 bp):
AAAGAAATGAAGATCAGTGTTTAGAAAAAAAGAA
Found at i:699651 original size:23 final size:20
Alignment explanation
Indices: 699605--699642 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
699595 ATATTAATTA
699605 TTAATAAATTAATTTTTATG
1 TTAATAAATTAATTTTTATG
699625 TTAATAATATT-ATTTTTA
1 TTAATAA-ATTAATTTTTA
699643 ATATGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTAATAAATTAATTTTTATG
Found at i:699661 original size:5 final size:5
Alignment explanation
Indices: 699651--699710 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
699641 TAATATGTTA
* * *
699651 AATAT AATAT AATTAA AATAT ATTAT AAAAAT AATATT AATAT AATAT
1 AATAT AATAT AA-TAT AATAT AATAT -AATAT AATA-T AATAT AATAT
699699 AA-AT -ATAT AATA
1 AATAT AATAT AATA
699711 AATGTAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
3 1 0.02
4 4 0.09
5 27 0.61
6 12 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:699672 original size:11 final size:12
Alignment explanation
Indices: 699656--699757 Score: 57
Period size: 11 Copynumber: 9.5 Consensus size: 12
699646 TGTTAAATAT
699656 AATATAATTA-A
1 AATATAATTATA
699667 AATAT-ATTATA
1 AATATAATTATA
* *
699678 AAAATAA-TATT
1 AATATAATTATA
699689 AATATAA-TATA
1 AATATAATTATA
*
699700 AATAT-ATAATA
1 AATATAATTATA
*
699711 AATGTAA--A-A
1 AATATAATTATA
* *
699720 AATATTATTATT
1 AATATAATTATA
699732 AATAT-ATT-TA
1 AATATAATTATA
*
699742 AAT-TTA-TATA
1 AATATAATTATA
699752 AATATA
1 AATATA
699758 CAAGGTAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
9 8 0.11
10 16 0.23
11 39 0.56
12 7 0.10
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (12 bp):
AATATAATTATA
Found at i:699692 original size:22 final size:24
Alignment explanation
Indices: 699667--699737 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 24
699657 ATATAATTAA
*
699667 AATATATTATAAA-A-ATAATATT
1 AATATAATATAAATATATAATATT
699689 AATATAATATAAATATATAATA--
1 AATATAATATAAATATATAATATT
* *
699711 AATGTAA-A-AAATAT-TATTATT
1 AATATAATATAAATATATAATATT
699732 AATATA
1 AATATA
699738 TTTAAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.10
20 6 0.15
21 6 0.15
22 18 0.44
23 1 0.02
24 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (24 bp):
AATATAATATAAATATATAATATT
Found at i:699694 original size:33 final size:32
Alignment explanation
Indices: 699651--699712 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
699641 TAATATGTTA
*
699651 AATATAATATAAT-TAAAATATATTATAAAAAT
1 AATATAATATAATAT-AAATATATAATAAAAAT
699683 AATATTAATATAATATAAATATATAATAAA
1 AATA-TAATATAATATAAATATATAATAAA
699713 TGTAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 4 0.15
33 22 0.81
34 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
AATATAATATAATATAAATATATAATAAAAAT
Found at i:699695 original size:38 final size:38
Alignment explanation
Indices: 699651--699743 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 38
699641 TAATATGTTA
*
699651 AATATAATATAATTAAAATATAT-TATAAAAATAATATT
1 AATATAATATAATTAAAATAAATGTA-AAAAATAATATT
* *
699689 AATATAATATAAATATATAATAAATGTAAAAAATATTATT
1 AATATAATAT-AAT-TAAAATAAATGTAAAAAATAATATT
*
699729 -AT-TAATATATTTAAA
1 AATATAATATAATTAAA
699744 TTTATATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
36 3 0.06
37 2 0.04
38 16 0.34
39 5 0.11
40 19 0.40
41 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (38 bp):
AATATAATATAATTAAAATAAATGTAAAAAATAATATT
Found at i:700543 original size:18 final size:18
Alignment explanation
Indices: 700500--700544 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
700490 ATACATGATG
700500 TTATATTTTATTATAATAT
1 TTATA-TTTATTATAATAT
*
700519 TTTTATTTATTA-AATAT
1 TTATATTTATTATAATAT
700536 ATTATATTT
1 -TTATATTT
700545 TCAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 14 0.61
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTTATTATAATAT
Found at i:701218 original size:31 final size:30
Alignment explanation
Indices: 701164--701233 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
701154 AATTATTTAT
*
701164 TATTATTAA-TTTAATTTTTAACATAAATA
1 TATTTTTAATTTTAATTTTTAACATAAATA
* *
701193 TATTTTTAATTTTTATTATTTAACATTAATA
1 TATTTTTAATTTTAATT-TTTAACATAAATA
*
701224 TAATTTTAAT
1 TATTTTTAAT
701234 AATTTTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 8 0.23
30 6 0.17
31 21 0.60
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (30 bp):
TATTTTTAATTTTAATTTTTAACATAAATA
Found at i:707890 original size:20 final size:21
Alignment explanation
Indices: 707865--707907 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
707855 ATTTTAAAAT
**
707865 AAATA-TTAAATACTAATAAA
1 AAATATTTAAATAAAAATAAA
707885 AAATATTTAAATAAAAATAAA
1 AAATATTTAAATAAAAATAAA
707906 AA
1 AA
707908 TTTTCATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATTTAAATAAAAATAAA
Found at i:707952 original size:20 final size:20
Alignment explanation
Indices: 707913--707963 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
707903 AAAAATTTTC
707913 ATTA-ATAAA-ATTATAATT
1 ATTATATAAATATTATAATT
707931 ATTATATAAATATTA-AATTT
1 ATTATATAAATATTATAA-TT
* *
707951 ATGATATTAATAT
1 ATTATATAAATAT
707964 GTTTTGAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.14
19 7 0.25
20 17 0.61
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTATATAAATATTATAATT
Found at i:719573 original size:38 final size:38
Alignment explanation
Indices: 719517--719592 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
719507 TCTTTTCCTC
*
719517 TTAACTAAAATTCAACATTAAATGACTTATAGCACCAA
1 TTAACTAAAATTCAACATTAAATGACTTAGAGCACCAA
* * *
719555 TTAATTAAAATTCAACATTAATTGAGTTAGAGCACCAA
1 TTAACTAAAATTCAACATTAAATGACTTAGAGCACCAA
719593 AAGAATGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (38 bp):
TTAACTAAAATTCAACATTAAATGACTTAGAGCACCAA
Found at i:721303 original size:23 final size:23
Alignment explanation
Indices: 721277--721333 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
721267 TTATTTTATT
721277 ATTTAATTAAT-ATTTATAATTAA
1 ATTTAATTAATAATTTA-AATTAA
*
721300 ATTTAAATAATAATTTAAATTAA
1 ATTTAATTAATAATTTAAATTAA
*
721323 ATATAATTAAT
1 ATTTAATTAAT
721334 TAAAATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTAATTAATAATTTAAATTAA
Found at i:721594 original size:22 final size:23
Alignment explanation
Indices: 721548--721601 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
721538 GTAAAACAAT
721548 ATTATTATAAAAATAAATTAAAA
1 ATTATTATAAAAATAAATTAAAA
*
721571 ATTATT-TAAAATTAAAATT-AAA
1 ATTATTATAAAAAT-AAATTAAAA
*
721593 ATTAATATA
1 ATTATTATA
721602 TTATTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTATTATAAAAATAAATTAAAA
Found at i:723668 original size:15 final size:16
Alignment explanation
Indices: 723648--723683 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
723638 TAAAAAATTA
723648 AATATA-TTTATATCT
1 AATATACTTTATATCT
723663 AATATACGTTTATATCT
1 AATATAC-TTTATATCT
723680 AATA
1 AATA
723684 CCTAAAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
17 13 0.68
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (16 bp):
AATATACTTTATATCT
Found at i:731452 original size:2 final size:2
Alignment explanation
Indices: 731445--731472 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
731435 GAAATATTAC
731445 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
731473 GAACTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:732603 original size:31 final size:32
Alignment explanation
Indices: 732568--732632 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
732558 GACCTGGTAG
*
732568 ACATGTCA-TTAAAAC-TTTAAAATGTAGAGCA
1 ACATG-CACTTAAAACATTTAAAACGTAGAGCA
*
732599 ACATGCACTTAAAACATTTAAACCGTAGAGCA
1 ACATGCACTTAAAACATTTAAAACGTAGAGCA
732631 AC
1 AC
732633 TTGTACTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 12 0.40
32 16 0.53
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (32 bp):
ACATGCACTTAAAACATTTAAAACGTAGAGCA
Found at i:739211 original size:2 final size:2
Alignment explanation
Indices: 739206--739241 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
739196 ACATATACAG
739206 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
739242 TCATAACTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:740810 original size:27 final size:25
Alignment explanation
Indices: 740780--740856 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
740770 AATTCCGAAA
740780 ATATTTAAATTTTAAAATTATTAAATT
1 ATATTTAAATTTTAAAATTA--AAATT
* *
740807 ATATTTAAATATAAAAATTAAAATT
1 ATATTTAAATTTTAAAATTAAAATT
* *
740832 AAATATT-AATTTTTAAATTAAAATT
1 ATAT-TTAAATTTTAAAATTAAAATT
740857 TATAATATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 23 0.53
26 2 0.05
27 18 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTAAATTTTAAAATTAAAATT
Found at i:740863 original size:27 final size:25
Alignment explanation
Indices: 740821--740886 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
740811 TTAAATATAA
*
740821 AAATTAAAATTAAATATTAATTTTT
1 AAATTAAAATTAAATATTAATATTT
*
740846 AAATTAAAATTTATAATATTTATATTT
1 AAATTAAAA-TTA-AATATTAATATTT
*
740873 -AATT-TAATTAAATA
1 AAATTAAAATTAAATA
740887 ATTTATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 4 0.11
24 3 0.08
25 11 0.31
26 7 0.19
27 11 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATTAAAATTAAATATTAATATTT
Found at i:740890 original size:33 final size:32
Alignment explanation
Indices: 740847--740921 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
740837 TTAATTTTTA
740847 AATTAA-AATTTA-TAATATTTATATTTAATTT
1 AATTAATAATTTATTAATATTT-TATTTAATTT
* *
740878 AATTAAATAATTTATTTATATTTTATTTTATTT
1 AATT-AATAATTTATTAATATTTTATTTAATTT
*
740911 TATTAATAATT
1 AATTAATAATT
740922 AAATTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 4 0.11
32 9 0.24
33 18 0.47
34 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
AATTAATAATTTATTAATATTTTATTTAATTT
Found at i:740928 original size:33 final size:38
Alignment explanation
Indices: 740847--740965 Score: 103
Period size: 37 Copynumber: 3.3 Consensus size: 38
740837 TTAATTTTTA
740847 AATTAAAATTTATAATATTTATATTTAATTTAATTAAAT
1 AATT-AAATTTATAATATTTATATTTAATTTAATTAAAT
* *
740886 AATT-TATTTAT-AT-TTTAT-TTT-ATTTTATT-AAT
1 AATTAAATTTATAATATTTATATTTAATTTAATTAAAT
* * *
740918 AATTAAATTTA-AATTATTTAAATTTAA-ATAATATAAGT
1 AATTAAATTTATAA-TATTTATATTTAATTTAAT-TAAAT
740956 -ATTAAATTTA
1 AATTAAATTTA
740966 AATGATATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
32 7 0.11
33 13 0.20
34 4 0.06
35 9 0.14
36 8 0.12
37 18 0.28
38 2 0.03
39 4 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (38 bp):
AATTAAATTTATAATATTTATATTTAATTTAATTAAAT
Found at i:740962 original size:22 final size:21
Alignment explanation
Indices: 740933--740983 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
740923 AATTTAAATT
740933 ATTTAAATTTAAATAATATAA
1 ATTTAAATTTAAATAATATAA
* *
740954 GTATTAAATTTAAATGATATAA
1 AT-TTAAATTTAAATAATATAA
740976 ATTTAAAT
1 ATTTAAAT
740984 AATTTTAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATTTAAATTTAAATAATATAA
Found at i:741028 original size:19 final size:18
Alignment explanation
Indices: 740973--741028 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 18
740963 TTAAATGATA
*
740973 TAAATTTAAA-TAA-TTT
1 TAAACTTAAATTAATTTT
740989 TAAACTTAAATAATAAATTTT
1 TAAACTTAAAT--T-AATTTT
741010 TAAACCTTAAATTAATTTT
1 TAAA-CTTAAATTAATTTT
741029 AAAATAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
16 9 0.27
19 7 0.21
20 3 0.09
21 7 0.21
22 7 0.21
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAACTTAAATTAATTTT
Found at i:741046 original size:16 final size:16
Alignment explanation
Indices: 741027--741124 Score: 60
Period size: 16 Copynumber: 6.1 Consensus size: 16
741017 TAAATTAATT
*
741027 TTAAAATAATTTAAAA
1 TTAAAATAACTTAAAA
* ** *
741043 TTAAAATTACTCGAAT
1 TTAAAATAACTTAAAA
741059 TTAAAATAACTT-AAA
1 TTAAAATAACTTAAAA
* *
741074 TTCTAAATAA-TTTAAA
1 TT-AAAATAACTTAAAA
*
741090 TATAAAATAA--TATAA
1 T-TAAAATAACTTAAAA
741105 TCTAAAAATAACTTAAAA
1 T-T-AAAATAACTTAAAA
741123 TT
1 TT
741125 TCAAAACTCT
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
15 11 0.18
16 44 0.71
17 2 0.03
18 5 0.08
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (16 bp):
TTAAAATAACTTAAAA
Found at i:742934 original size:25 final size:24
Alignment explanation
Indices: 742891--742960 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
742881 TTATGTCATA
742891 AATT-AAATAATATT-TT--AATT
1 AATTAAAATAATATTATTAAAATT
742911 AA-TAAAAT--TATT-TTAAAATAT
1 AATTAAAATAATATTATTAAAAT-T
742932 AATTAAAATAATATTATTAAAATT
1 AATTAAAATAATATTATTAAAATT
742956 AATTA
1 AATTA
742961 CTTAATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
18 6 0.14
19 1 0.02
20 9 0.21
21 3 0.07
22 6 0.14
24 10 0.24
25 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTAAAATAATATTATTAAAATT
Found at i:742948 original size:27 final size:24
Alignment explanation
Indices: 742911--742960 Score: 64
Period size: 27 Copynumber: 2.0 Consensus size: 24
742901 TATTTTAATT
742911 AATAAAATTATTTTAAAATATAATTAA
1 AATAAAATTA--TTAAAAT-TAATTAA
*
742938 AATAATATTATTAAAATTAATTA
1 AATAAAATTATTAAAATTAATTA
742961 CTTAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 7 0.32
27 9 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATAAAATTATTAAAATTAATTAA
Found at i:742965 original size:14 final size:14
Alignment explanation
Indices: 742895--742954 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
742885 GTCATAAATT
742895 AAATAATATT-TTA
1 AAATAATATTATTA
* *
742908 ATTAATAAAATTATTT
1 A--AATAATATTATTA
* *
742924 TAA-AATATAATTA
1 AAATAATATTATTA
742937 AAATAATATTATTA
1 AAATAATATTATTA
742951 AAAT
1 AAAT
742955 TAATTACTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
13 10 0.29
14 15 0.43
15 8 0.23
16 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATAATATTATTA
Found at i:746831 original size:66 final size:65
Alignment explanation
Indices: 746721--746849 Score: 249
Period size: 66 Copynumber: 2.0 Consensus size: 65
746711 GAAAGGGTTT
746721 TAAGATTAGGCTAAGCATTTATAGGCAGGTGTTTTATTAGTGCTATCTTTGGTAACATTTAGTGC
1 TAAGATTAGGCTAAGCATTTATAGGCAGGTGTTTTATTAGTGCTATCTTTGGTAACATTTAGTGC
746786 TAAGCATTAGGCTAAGCATTTATAGGCAGGTGTTTTATTAGTGCTATCTTTGGTAACATTTAGT
1 TAAG-ATTAGGCTAAGCATTTATAGGCAGGTGTTTTATTAGTGCTATCTTTGGTAACATTTAGT
746850 TGAACAAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
65 4 0.06
66 59 0.94
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (65 bp):
TAAGATTAGGCTAAGCATTTATAGGCAGGTGTTTTATTAGTGCTATCTTTGGTAACATTTAGTGC
Found at i:748610 original size:10 final size:10
Alignment explanation
Indices: 748592--748632 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
748582 ACCAAAGCCC
*
748592 AAAGTAAAAG
1 AAAGGAAAAG
748602 AAAGGAAAAG
1 AAAGGAAAAG
*
748612 AAAAGAAAAG
1 AAAGGAAAAG
*
748622 AAAGGAGAAG
1 AAAGGAAAAG
748632 A
1 A
748633 TTCTTCAACG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (10 bp):
AAAGGAAAAG
Found at i:748617 original size:15 final size:16
Alignment explanation
Indices: 748592--748624 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
748582 ACCAAAGCCC
*
748592 AAAGTAAAAGAAAGGA
1 AAAGTAAAAGAAAAGA
748608 AAAG-AAAAGAAAAGA
1 AAAGTAAAAGAAAAGA
748623 AA
1 AA
748625 GGAGAAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAGTAAAAGAAAAGA
Found at i:748622 original size:20 final size:21
Alignment explanation
Indices: 748592--748632 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
748582 ACCAAAGCCC
748592 AAAGTAAAAGAAAGGAAAAGA
1 AAAGTAAAAGAAAGGAAAAGA
*
748613 AAAG-AAAAGAAAGGAGAAGA
1 AAAGTAAAAGAAAGGAAAAGA
748633 TTCTTCAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (21 bp):
AAAGTAAAAGAAAGGAAAAGA
Found at i:753057 original size:26 final size:26
Alignment explanation
Indices: 752991--753057 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
752981 AAAAGTATTA
752991 TTTTTTA-AAA-ATAAATATTTTAAT
1 TTTTTTATAAATATAAATATTTTAAT
**
753015 TTTCATATAAAT-TAAATGATTTT-AT
1 TTTTTTATAAATATAAAT-ATTTTAAT
*
753040 TTTTTTATAAATAGAAAT
1 TTTTTTATAAATATAAAT
753058 TACATTAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.15
25 20 0.59
26 9 0.26
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (26 bp):
TTTTTTATAAATATAAATATTTTAAT
Found at i:761977 original size:22 final size:21
Alignment explanation
Indices: 761949--762007 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
761939 TAAAAAATTA
**
761949 TTTTATATTAATATTTATATAT
1 TTTTATATTAATAAATATAT-T
761971 TTTTATAATT-ATAAATATATT
1 TTTTAT-ATTAATAAATATATT
761992 TTTTATTATTATATAA
1 TTTTA-TATTA-ATAA
762008 TAATCAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 9 0.29
22 15 0.48
23 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATATTAATAAATATATT
Found at i:761990 original size:20 final size:22
Alignment explanation
Indices: 761964--762009 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
761954 TATTAATATT
761964 TATATATTTTTATAATTATA-AA
1 TATAT-TTTTTATAATTATATAA
*
761986 TATATTTTTTATTATTATATAA
1 TATATTTTTTATAATTATATAA
762008 TA
1 TA
762010 ATCAAGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATATTTTTTATAATTATATAA
Found at i:762009 original size:22 final size:22
Alignment explanation
Indices: 761947--762009 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 22
761937 TTTAAAAAAT
* * *
761947 TATTTTATATTAATAT-TTATA
1 TATTTTTTATTATTATATAATA
*
761968 TA-TTTTTATAATTATA-AATA
1 TATTTTTTATTATTATATAATA
761988 TATTTTTTATTATTATATAATA
1 TATTTTTTATTATTATATAATA
762010 ATCAAGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 15 0.44
21 15 0.44
22 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTTATTATTATATAATA
Found at i:764660 original size:2 final size:2
Alignment explanation
Indices: 764653--764683 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
764643 AGACGTTGAA
764653 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
764684 TGGAAGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:766396 original size:2 final size:2
Alignment explanation
Indices: 766389--766418 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
766379 CCAATGTAAA
766389 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
766419 TCAAGTGAAG
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:770893 original size:2 final size:2
Alignment explanation
Indices: 770886--770912 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
770876 GCAACCCAAT
770886 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
770913 GTGTACGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:771416 original size:24 final size:22
Alignment explanation
Indices: 771389--771460 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 22
771379 AGTTCAGTAA
771389 TATAATTTAATAAAATTAAAAATT
1 TATAATTTAATAAAATT-AAAA-T
*
771413 TATAATTTACATAAAAATTAATAT
1 TATAATTTA-AT-AAAATTAAAAT
*
771437 TA-AATTTAATAACA-TAAAA-
1 TATAATTTAATAAAATTAAAAT
771456 TATAA
1 TATAA
771461 ATTACTCGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
19 2 0.05
20 6 0.14
21 3 0.07
22 2 0.05
23 6 0.14
24 12 0.29
25 5 0.12
26 6 0.14
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (22 bp):
TATAATTTAATAAAATTAAAAT
Found at i:772778 original size:3 final size:3
Alignment explanation
Indices: 772770--772800 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
772760 TCTTCAGGAC
772770 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
772801 GTTAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:773624 original size:2 final size:2
Alignment explanation
Indices: 773617--773649 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
773607 AGTGAAATCA
773617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
773650 GTATTTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:776431 original size:19 final size:18
Alignment explanation
Indices: 776409--776459 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
776399 AATAAATGAA
776409 AAAAATAATTAATAATATT
1 AAAAA-AATTAATAATATT
*
776428 AAAAAAATTTA-AATATT
1 AAAAAAATTAATAATATT
776445 AATAAAATATTAATA
1 AA-AAAA-ATTAATA
776460 TATCGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.30
18 9 0.33
19 9 0.33
20 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAAAATTAATAATATT
Found at i:776462 original size:19 final size:19
Alignment explanation
Indices: 776407--776462 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 19
776397 ATAATAAATG
776407 AAAAAAATAATTAATAATATT
1 AAAAAAAT-ATTAAT-ATATT
776428 AAAAAAAT-TTAA-ATATT
1 AAAAAAATATTAATATATT
*
776445 AATAAAATATTAATATAT
1 AAAAAAATATTAATATAT
776463 CGAGTAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 12 0.38
18 4 0.12
19 8 0.25
21 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAAAATATTAATATATT
Found at i:776623 original size:22 final size:21
Alignment explanation
Indices: 776569--776630 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 21
776559 AACTATTAAA
* *
776569 ATTTTATTAATATT-TAA-AT
1 ATTTTTTTAATATTATAATTT
* *
776588 AATTTTTTAATATTATTATTT
1 ATTTTTTTAATATTATAATTT
*
776609 ATTTTTTTATTTATTATAATTT
1 ATTTTTTTA-ATATTATAATTT
776631 TAAAAATACA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 12 0.36
20 2 0.06
21 9 0.27
22 10 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTTTTAATATTATAATTT
Found at i:780340 original size:2 final size:2
Alignment explanation
Indices: 780333--780386 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
780323 GAGGCTTTGA
* * * *
780333 AT AT AT AT AT AT GT AT GT AT GT AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
780375 AT AT AT AT AT AT
1 AT AT AT AT AT AT
780387 TGGGATGCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (2 bp):
AT
Found at i:784995 original size:23 final size:23
Alignment explanation
Indices: 784953--785024 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
784943 TATATTTATA
*
784953 ATATAATATTATATATATTTAATTT
1 ATATAAT-TTATATA-ATTTAAATT
*
784978 TTATAATTTATATAATTTAAATT
1 ATATAATTTATATAATTTAAATT
* * * *
785001 ATGTAATATATATAAATAAAATT
1 ATATAATTTATATAATTTAAATT
785024 A
1 A
785025 AAAATAAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 27 0.68
24 7 0.17
25 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
ATATAATTTATATAATTTAAATT
Found at i:785000 original size:24 final size:25
Alignment explanation
Indices: 784954--785014 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 25
784944 ATATTTATAA
784954 TATAATATTATATATATTTAATTTT
1 TATAATATTATATATATTTAATTTT
* *
784979 TATAAT-TTATATA-ATTTAAATTA
1 TATAATATTATATATATTTAATTTT
*
785002 TGTAATA-TATATA
1 TATAATATTATATA
785015 AATAAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 19 0.59
24 7 0.22
25 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TATAATATTATATATATTTAATTTT
Found at i:785143 original size:20 final size:20
Alignment explanation
Indices: 785118--785155 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
785108 TTCAATTTTA
785118 TTAATATTTATT-TTTAAAAT
1 TTAATATTT-TTATTTAAAAT
785138 TTAATATTTTTATTTAAA
1 TTAATATTTTTATTTAAA
785156 TTTTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAATATTTTTATTTAAAAT
Found at i:785667 original size:26 final size:25
Alignment explanation
Indices: 785611--785675 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
785601 TTGGTGTGAT
785611 TTTTAATA-A-ATAAATAAATTAAG
1 TTTTAATATATATAAATAAATTAAG
** *
785634 TTAAAATATATATATATAAATTAAAG
1 TTTTAATATATATAAATAAATT-AAG
785660 TTTTAATATATA-AAAT
1 TTTTAATATATATAAAT
785676 TTATTATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 6 0.18
24 1 0.03
25 13 0.39
26 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
TTTTAATATATATAAATAAATTAAG
Found at i:789370 original size:159 final size:160
Alignment explanation
Indices: 789078--789371 Score: 437
Period size: 159 Copynumber: 1.8 Consensus size: 160
789068 CCCAAGCAGG
* *
789078 ATTCCAATTTACAAGCTCCAAAAACTCAACCCCATCTTTAGATTTTACCGCTGTCGGAAAAATAA
1 ATTCCAATTTAAAAGCTCCAAAAACTCAACCCCATCTTTAGATTTTACCGCTGTAGGAAAAATAA
* ** *
789143 GGGAGAAAAGTGTTTAGAGAGGAAAAGGATATGTTATGATGAATTCCATTGATTAATTTCATTCA
66 GGGAGAAAAGTGTTTAGAGAAGAAAAAAATATGTTATGATAAATTCCATTGATTAATTTCATTCA
789208 TTAACAAAGGGGTATATATAAATGCACTAA
131 TTAACAAAGGGGTATATATAAATGCACTAA
* * * *
789238 ATTCCAATTTAAAAGCTCCAACAATTCAATCCCATCTTTAGATTTTACTGCTGTAGGAAAAAT-A
1 ATTCCAATTTAAAAGCTCCAAAAACTCAACCCCATCTTTAGATTTTACCGCTGTAGGAAAAATAA
* * ** * *
789302 GGGAGAAGAGTGTTTAGAGAAGAAAAAAATATGTTGTGATAAATTGGATTGGTTAATTTCATTTA
66 GGGAGAAAAGTGTTTAGAGAAGAAAAAAATATGTTATGATAAATTCCATTGATTAATTTCATTCA
789367 TTAAC
131 TTAAC
789372 CAAAACGTAT
Statistics
Matches: 118, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
159 61 0.52
160 57 0.48
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (160 bp):
ATTCCAATTTAAAAGCTCCAAAAACTCAACCCCATCTTTAGATTTTACCGCTGTAGGAAAAATAA
GGGAGAAAAGTGTTTAGAGAAGAAAAAAATATGTTATGATAAATTCCATTGATTAATTTCATTCA
TTAACAAAGGGGTATATATAAATGCACTAA
Found at i:789408 original size:12 final size:14
Alignment explanation
Indices: 789391--789422 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
789381 TATATAAGTG
789391 CATTAAGTG-AC-T
1 CATTAAGTGAACTT
789403 CATTAAGTGAACTT
1 CATTAAGTGAACTT
789417 CATTAA
1 CATTAA
789423 AGATTTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 2 0.11
14 7 0.39
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (14 bp):
CATTAAGTGAACTT
Found at i:794698 original size:3 final size:3
Alignment explanation
Indices: 794692--794721 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
794682 TTTGGAGGAG
794692 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
794722 GTAAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:795313 original size:23 final size:22
Alignment explanation
Indices: 795281--795348 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
795271 TAGATAGCTC
*
795281 ATTTAATTATATAAATTTAATTT
1 ATTT-ATTATTTAAATTTAATTT
*
795304 ATATTATTATTTAAATAATTAAATT
1 AT-TTATTATTTAAAT--TTAATTT
795329 ATTT-TTATTTAAATTTAATT
1 ATTTATTATTTAAATTTAATT
795349 ATAAATATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 5 0.13
23 22 0.56
24 4 0.10
25 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTATTATTTAAATTTAATTT
Found at i:795361 original size:13 final size:12
Alignment explanation
Indices: 795292--795370 Score: 51
Period size: 12 Copynumber: 6.7 Consensus size: 12
795282 TTTAATTATA
795292 TAAAT-TTAATT
1 TAAATATTAATT
*
795303 TATATTATT-ATT
1 TA-AATATTAATT
*
795315 TAAATAATTAAAT
1 TAAAT-ATTAATT
* *
795328 T--ATTTTTATT
1 TAAATATTAATT
795338 TAAAT-TTAATT
1 TAAATATTAATT
795349 ATAAATATTAATT
1 -TAAATATTAATT
795362 TAATATATT
1 TAA-ATATT
795371 TTTAATTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
10 5 0.10
11 11 0.21
12 20 0.38
13 16 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAATATTAATT
Found at i:795888 original size:12 final size:12
Alignment explanation
Indices: 795871--795902 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
795861 CAATGAGAAT
795871 AAAAAAATTAAA
1 AAAAAAATTAAA
795883 AAAAAAATTAAA
1 AAAAAAATTAAA
795895 AGAAAAAA
1 A-AAAAAA
795903 AAGCTTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:796132 original size:3 final size:3
Alignment explanation
Indices: 796124--796170 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
796114 ATTTGTGCAA
796124 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
796171 AAGATGCTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:796368 original size:2 final size:2
Alignment explanation
Indices: 796361--796392 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
796351 AATGTAATGC
796361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
796393 GCACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:796531 original size:3 final size:3
Alignment explanation
Indices: 796523--796549 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
796513 TTGCATAGAT
796523 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
796550 TTTATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:796588 original size:18 final size:18
Alignment explanation
Indices: 796562--796596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
796552 TATTTAATAT
*
796562 AAATATATAAATATATTA
1 AAATATATAAAAATATTA
*
796580 AAATTTATAAAAATATT
1 AAATATATAAAAATATT
796597 TATAATTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATATAAAAATATTA
Found at i:796605 original size:18 final size:19
Alignment explanation
Indices: 796559--796607 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
796549 ATTTATTTAA
* *
796559 TATAAATATATAAATATAT
1 TATAATTATAAAAATATAT
*
796578 TAAAATTTATAAAAATAT-T
1 TATAA-TTATAAAAATATAT
796597 TATAATTATAA
1 TATAATTATAA
796608 TATAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATAATTATAAAAATATAT
Found at i:796799 original size:30 final size:30
Alignment explanation
Indices: 796765--796838 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
796755 AAGAAAGCTA
* * * *
796765 TAACTTTTAATTTGTATTCAAATAATCTTT
1 TAACTTTTAATTTATATTAAAAAAAACTTT
*
796795 TAACTTTTAAATTATATTAAAAAAAACTTT
1 TAACTTTTAATTTATATTAAAAAAAACTTT
796825 TAACTTTTAATTTA
1 TAACTTTTAATTTA
796839 AGTCTAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (30 bp):
TAACTTTTAATTTATATTAAAAAAAACTTT
Found at i:797237 original size:35 final size:37
Alignment explanation
Indices: 797198--797267 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
797188 AATGAGGTAA
797198 TTTAATTTATAAAT-AAA-T-TTAAACATAAATTAATT
1 TTTAATTTA-AAATAAAATTATTAAACATAAATTAATT
*
797233 TTTAATTTAAAATAAAATTATTAAATATAAATTAA
1 TTTAATTTAAAATAAAATTATTAAACATAAATTAA
797268 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 4 0.13
35 12 0.39
36 1 0.03
37 14 0.45
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (37 bp):
TTTAATTTAAAATAAAATTATTAAACATAAATTAATT
Found at i:800014 original size:15 final size:15
Alignment explanation
Indices: 799994--800027 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
799984 ACTCAACACT
*
799994 CGAAATAATGATTTA
1 CGAAATAATGACTTA
*
800009 CGAAATGATGACTTA
1 CGAAATAATGACTTA
800024 CGAA
1 CGAA
800028 GTAGTGACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (15 bp):
CGAAATAATGACTTA
Done.