Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009289.1 Hibiscus syriacus cultivar Beakdansim tig00112988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1661737
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:482567 original size:14 final size:14
Alignment explanation
Indices: 482532--482558 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
482522 ATAAAATTAA
482532 AAAATTAATAATAG
1 AAAATTAATAATAG
482546 AAAATTAATAATA
1 AAAATTAATAATA
482559 TTTAATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAATTAATAATAG
Found at i:482655 original size:2 final size:2
Alignment explanation
Indices: 482648--482672 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
482638 TAACTGAATT
482648 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
482673 TCAGCACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:485956 original size:12 final size:12
Alignment explanation
Indices: 485935--486023 Score: 53
Period size: 12 Copynumber: 7.6 Consensus size: 12
485925 ACATATTTGA
*
485935 AATATATTTATT
1 AATATATTTAAT
*
485947 AATATTTTTAAT
1 AATATATTTAAT
*
485959 AATATA-AT-AT
1 AATATATTTAAT
*
485969 AATATA-ATAAT
1 AATATATTTAAT
*
485980 AATATTTTTACAAT
1 AATATATTT--AAT
* *
485994 AATATACTCAAT
1 AATATATTTAAT
486006 --TATATTATAAT
1 AATATATT-TAAT
486017 AATATAT
1 AATATAT
486024 GATACTATTA
Statistics
Matches: 59, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
10 15 0.25
11 11 0.19
12 19 0.32
13 5 0.08
14 9 0.15
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
AATATATTTAAT
Found at i:485970 original size:10 final size:11
Alignment explanation
Indices: 485955--485984 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
485945 TTAATATTTT
485955 TAATAATATAA
1 TAATAATATAA
485966 T-ATAATATAA
1 TAATAATATAA
485976 TAATAATAT
1 TAATAATAT
485985 TTTTACAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAATAATATAA
Found at i:486401 original size:22 final size:24
Alignment explanation
Indices: 486369--486412 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
486359 TATTCTAATA
486369 TTTTTAAAAT-AAT-AATATTAAG
1 TTTTTAAAATAAATAAATATTAAG
*
486391 TTTTTATAATAAATAAATATTA
1 TTTTTAAAATAAATAAATATTA
486413 TTTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 3 0.16
24 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTTTAAAATAAATAAATATTAAG
Found at i:489430 original size:22 final size:22
Alignment explanation
Indices: 489404--489456 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
489394 ATATATAATA
*
489404 TATATATATATT-TACAAATTT
1 TATATAAATATTATACAAATTT
* *
489425 TCATATAAATTTTATATAAATTT
1 T-ATATAAATATTATACAAATTT
489448 TATATAAAT
1 TATATAAAT
489457 TTTAATGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 17 0.63
23 9 0.33
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATAAATATTATACAAATTT
Found at i:489451 original size:9 final size:11
Alignment explanation
Indices: 489419--489460 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
489409 ATATATTTAC
489419 AAATTTTCATAT
1 AAATTTT-ATAT
489431 AAATTTTATAT
1 AAATTTTATAT
489442 AAATTTTATAT
1 AAATTTTATAT
489453 AAATTTTA
1 AAATTTTA
489461 ATGATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
AAATTTTATAT
Found at i:492089 original size:14 final size:14
Alignment explanation
Indices: 492070--492097 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
492060 ATAAAACACC
492070 CCCCTTCTCTCTTT
1 CCCCTTCTCTCTTT
492084 CCCCTTCTCTCTTT
1 CCCCTTCTCTCTTT
492098 GTTCCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (14 bp):
CCCCTTCTCTCTTT
Found at i:494444 original size:34 final size:34
Alignment explanation
Indices: 494396--494471 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
494386 ATTAATGATA
* *
494396 AACTGGTTATATAAGACTTAACAATCCCCTAATAC
1 AACT-GTTACATAAGACTTAACAAACCCCTAATAC
494431 AACTGTTACATAAGACTTAACAAACCCCTAATAC
1 AACTGTTACATAAGACTTAACAAACCCCTAATAC
494465 AACTGTT
1 AACTGTT
494472 CTGTAAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.28
Consensus pattern (34 bp):
AACTGTTACATAAGACTTAACAAACCCCTAATAC
Found at i:502875 original size:17 final size:17
Alignment explanation
Indices: 502853--502885 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
502843 TCTCGCCATT
502853 GCTCTAATTTTTTCACA
1 GCTCTAATTTTTTCACA
502870 GCTCTAATTTTTTCAC
1 GCTCTAATTTTTTCAC
502886 TTCTCCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.48
Consensus pattern (17 bp):
GCTCTAATTTTTTCACA
Found at i:521965 original size:91 final size:91
Alignment explanation
Indices: 521841--522023 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
521831 GTATCACTTA
*
521841 CCCAACAAGTGTGCTAAGTCAGTATATATCATCACCAACTATTGATCATTGGAAGGCGATAAAAT
1 CCCAACAAGTGTGCTAAGTCAGAATATATCATCACCAACTATTGATCATTGGAAGGCGATAAAAT
*
521906 AAGTTCCACATTATTTTAAGAGTGCT
66 AAGTTCCACATTATTTTAAGAGAGCT
*
521932 CCCAACAAGTGTGCTAAGTCAGAATATATCATCATCAACTATTGATCATTGGAAGGCGATAAAAT
1 CCCAACAAGTGTGCTAAGTCAGAATATATCATCACCAACTATTGATCATTGGAAGGCGATAAAAT
521997 AAGTTCCACATTATTTTAAGAGAGCT
66 AAGTTCCACATTATTTTAAGAGAGCT
522023 C
1 C
522024 ATGGACGTTG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (91 bp):
CCCAACAAGTGTGCTAAGTCAGAATATATCATCACCAACTATTGATCATTGGAAGGCGATAAAAT
AAGTTCCACATTATTTTAAGAGAGCT
Found at i:524579 original size:27 final size:27
Alignment explanation
Indices: 524544--524596 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
524534 TTTCTTTGAA
* *
524544 TAAAATTATTGCCTTCATCGTGAAAAG
1 TAAAATTATAGCCTTCATCGTCAAAAG
*
524571 TAAACTTATAGCCTTCATCGTCAAAA
1 TAAAATTATAGCCTTCATCGTCAAAA
524597 CCCTAGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
TAAAATTATAGCCTTCATCGTCAAAAG
Found at i:528293 original size:20 final size:19
Alignment explanation
Indices: 528258--528296 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
528248 TATTTCAATG
528258 ATAAAAAATTATTATAATT
1 ATAAAAAATTATTATAATT
528277 ATAAAAATAGTTA-TATAATT
1 ATAAAAA-A-TTATTATAATT
528297 CTTATTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 8 0.44
21 3 0.17
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATAAAAAATTATTATAATT
Found at i:532121 original size:64 final size:64
Alignment explanation
Indices: 532020--532156 Score: 222
Period size: 64 Copynumber: 2.1 Consensus size: 64
532010 GTTAATTCTT
* *
532020 GAAAGAGCAATATCTAATATTTTGTTTTTTCAATTTCTATTCATGGGTAAGGAAAGCATGGGAG
1 GAAAGATCAATATCTAATATTTTGTTTTTTCAATTTCTATTCATGGGCAAGGAAAGCATGGGAG
* *
532084 GAAAGATCGATATCTAAT-TTTATGTTTTTTCAATTTCTCTTCATGGGCAAGGAAAGCATGGGAG
1 GAAAGATCAATATCTAATATTT-TGTTTTTTCAATTTCTATTCATGGGCAAGGAAAGCATGGGAG
532148 GAAAGATCA
1 GAAAGATCA
532157 TACCTTGACA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
63 3 0.04
64 64 0.96
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (64 bp):
GAAAGATCAATATCTAATATTTTGTTTTTTCAATTTCTATTCATGGGCAAGGAAAGCATGGGAG
Found at i:537736 original size:23 final size:23
Alignment explanation
Indices: 537645--537736 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
537635 GAGTCAAAGG
* * *
537645 TTCTACGCGATCCTCCGGGACAA
1 TTCTACGCGGTCCTTCGGGACAT
*
537668 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
* *
537691 TTCTACGCGGTCTTTCAGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
537714 TTCTACGCGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
537737 CTATGTGGCC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.30
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAT
Found at i:537792 original size:24 final size:24
Alignment explanation
Indices: 537757--537806 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
537747 CTACGGGACA
*
537757 TTCTATGTGGCACTTT-GGTGCAAT
1 TTCTATGCGGCA-TTTCGGTGCAAT
537781 TTCTATGCGGCATTTCGGTGCAAT
1 TTCTATGCGGCATTTCGGTGCAAT
537805 TT
1 TT
537807 ATACAAGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (24 bp):
TTCTATGCGGCATTTCGGTGCAAT
Found at i:539755 original size:21 final size:21
Alignment explanation
Indices: 539655--539762 Score: 61
Period size: 21 Copynumber: 5.4 Consensus size: 21
539645 TTTTTGAAAA
539655 ATTACTCCCCCTTACTTTAAC
1 ATTACTCCCCCTTACTTTAAC
* ** *
539676 ACTT-CT-CCCATT--TAAAAA
1 A-TTACTCCCCCTTACTTTAAC
539694 ATTACTCCCCCTTACTTTAAC
1 ATTACTCCCCCTTACTTTAAC
* * **
539715 ACTT-CT-CTCATT--TAAAAC
1 A-TTACTCCCCCTTACTTTAAC
539733 ATTACTCCCCCTTACTTTAAC
1 ATTACTCCCCCTTACTTTAAC
*
539754 ATTTCTCCC
1 ATTACTCCC
539763 ATTTAAAACA
Statistics
Matches: 60, Mismatches: 17, Indels: 20
0.62 0.18 0.21
Matches are distributed among these distances:
17 4 0.07
18 13 0.22
19 9 0.15
20 9 0.15
21 21 0.35
22 4 0.07
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTACTCCCCCTTACTTTAAC
Found at i:539771 original size:39 final size:39
Alignment explanation
Indices: 539651--539774 Score: 214
Period size: 39 Copynumber: 3.2 Consensus size: 39
539641 AAAGTTTTTG
539651 AAAA-ATTACTCCCCCTTACTTTAACACTTCTCCCATTT
1 AAAACATTACTCCCCCTTACTTTAACACTTCTCCCATTT
* *
539689 AAAAAATTACTCCCCCTTACTTTAACACTTCTCTCATTT
1 AAAACATTACTCCCCCTTACTTTAACACTTCTCCCATTT
*
539728 AAAACATTACTCCCCCTTACTTTAACATTTCTCCCATTT
1 AAAACATTACTCCCCCTTACTTTAACACTTCTCCCATTT
539767 AAAACATT
1 AAAACATT
539775 TAACACTTCT
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 4 0.05
39 77 0.95
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (39 bp):
AAAACATTACTCCCCCTTACTTTAACACTTCTCCCATTT
Found at i:542102 original size:20 final size:20
Alignment explanation
Indices: 542073--542110 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
542063 TTCCTTCAAA
542073 GGGGGAATCGATTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
542093 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
542111 TGCACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:545955 original size:22 final size:21
Alignment explanation
Indices: 545913--545952 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
545903 GATTTTATTT
*
545913 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
545934 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
545953 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:556481 original size:6 final size:6
Alignment explanation
Indices: 556470--556494 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
556460 CAGCACACAT
556470 CTCTTC CTCTTC CTCTTC CTCTTC C
1 CTCTTC CTCTTC CTCTTC CTCTTC C
556495 AACCTGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
CTCTTC
Found at i:560171 original size:21 final size:21
Alignment explanation
Indices: 560145--560184 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
560135 AGCAGTAGTG
560145 GCTGAACCCCCAAAAGCAGAA
1 GCTGAACCCCCAAAAGCAGAA
* *
560166 GCTGAAGCTCCAAAAGCAG
1 GCTGAACCCCCAAAAGCAG
560185 GAGTGTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.30, G:0.23, T:0.07
Consensus pattern (21 bp):
GCTGAACCCCCAAAAGCAGAA
Found at i:560306 original size:24 final size:24
Alignment explanation
Indices: 560274--560589 Score: 402
Period size: 24 Copynumber: 13.2 Consensus size: 24
560264 TGAACCAAAA
560274 GCAGGGGTGCTTGTGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
*
560298 GCAGGGGTGCTTGTTGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
560322 GCA--GGTGCATTTGTGGCACCGAAG
1 GCAGGGGTGC--TTGTGGCACCGAAG
* * *
560346 GCAGGTGCGCTTGCGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
* *
560370 GCAGGTGTGCTTGCGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
* *
560394 GCAGGTGTGCTTGCGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
* *
560418 GCAGGTGTGCTTGCGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
* * *
560442 GCAGGTGTGCTTGTAGCACTGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
* * *
560466 GCAGGTGTGCTCGTGGCACCAAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
* *
560490 GCAGGGTTGCTCGTGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
*
560514 GCAGGGGTGCTCGTGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
*
560538 GCAGGGGTGCTCGTGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
* *
560562 GCAGGGTTGCTCGTGGCACCGAAG
1 GCAGGGGTGCTTGTGGCACCGAAG
560586 GCAG
1 GCAG
560590 ACTGAGTTGA
Statistics
Matches: 270, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
22 5 0.02
24 262 0.97
26 3 0.01
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.17
Consensus pattern (24 bp):
GCAGGGGTGCTTGTGGCACCGAAG
Found at i:562904 original size:19 final size:20
Alignment explanation
Indices: 562858--562905 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
562848 ACATGCAGAA
562858 AATTTTATATAAATTAGTACG
1 AATTTT-TATAAATTAGTACG
*
562879 AGA-TTTTATAAA-TATTACG
1 A-ATTTTTATAAATTAGTACG
562898 AATTTTTA
1 AATTTTTA
562906 ATATTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 6 0.25
21 4 0.17
22 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (20 bp):
AATTTTTATAAATTAGTACG
Found at i:570552 original size:63 final size:65
Alignment explanation
Indices: 570439--570599 Score: 168
Period size: 63 Copynumber: 2.5 Consensus size: 65
570429 TCCCTTGACA
* * * * *
570439 GGTGCATCGATGCACTATTTATGCATCGATACA-TAAATCCTATTCGATGTTTGCA-TTTAAGGG
1 GGTGCATCGATGCACTACTTGTGCATCGATACACTAAATACTATTCAATGTTTGCATTTTAAAGG
* **
570502 GGTGCATCGATGCACTACTTGTGCATCGATACACT-GATGAC-ATTCAATGTTTTTATTTTAAAG
1 GGTGCATCGATGCACTACTTGTGCATCGATACACTAAAT-ACTATTCAATGTTTGCATTTTAAAG
570565 G
65 G
* * * **
570566 AGTGTATCGATGCACTTCAGGTGCATCGATACAC
1 GGTGCATCGATGCACTACTTGTGCATCGATACAC
570600 CTTGAACAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
63 44 0.54
64 38 0.46
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (65 bp):
GGTGCATCGATGCACTACTTGTGCATCGATACACTAAATACTATTCAATGTTTGCATTTTAAAGG
Found at i:573051 original size:26 final size:26
Alignment explanation
Indices: 572997--573049 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
572987 ATTAATCCCG
*
572997 AATATTTAATTTAAATTAATTAAATA
1 AATATTTAATTTAAATTAAATAAATA
*
573023 AATATTTAA-TTAATTTAAA-ATAATA
1 AATATTTAATTTAAATTAAATA-AATA
573048 AA
1 AA
573050 ATCCCTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 14 0.58
26 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATTTAATTTAAATTAAATAAATA
Found at i:579288 original size:19 final size:19
Alignment explanation
Indices: 579246--579288 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
579236 TGAGAAACTT
* * *
579246 CAGAAGCCTTATGGAGCTC
1 CAGAGGCCTTAAGGACCTC
579265 CAGAGGCCTTAAGGACCTC
1 CAGAGGCCTTAAGGACCTC
*
579284 TAGAG
1 CAGAG
579289 ATCTTATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (19 bp):
CAGAGGCCTTAAGGACCTC
Found at i:581066 original size:2 final size:2
Alignment explanation
Indices: 581061--581088 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
581051 GGATGCGCGC
581061 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
581089 TTATTAATAA
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:584825 original size:52 final size:49
Alignment explanation
Indices: 584768--584872 Score: 131
Period size: 52 Copynumber: 2.1 Consensus size: 49
584758 AAATAAGAGC
584768 AAATAAAACG-ACTCTAGTTGGTTACCCTTGACAGAAAGAGAAAGCAAAAGAA
1 AAAT-AAACGTAC-CTAGTTGGTTACCCTTGACAG--AGAGAAAGCAAAAGAA
** *
584820 AAATAAGGGTTACCTAGTTGGTTGCCCTTGACAGAGAGAAAGCAAAAGAA
1 AAATAAACG-TACCTAGTTGGTTACCCTTGACAGAGAGAAAGCAAAAGAA
584870 AAA
1 AAA
584873 CAAGGGTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
50 19 0.40
51 3 0.06
52 24 0.50
53 2 0.04
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (49 bp):
AAATAAACGTACCTAGTTGGTTACCCTTGACAGAGAGAAAGCAAAAGAA
Found at i:584878 original size:50 final size:51
Alignment explanation
Indices: 584781--584880 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 51
584771 TAAAACGACT
*
584781 CTAGTTGGTTACCCTTGACAGAAAGAGAAAGCAAAAGAAAAATAAGGGTTAC
1 CTAGTTGGTTACCCTTGACAG-AAGAGAAAGCAAAAGAAAAACAAGGGTTAC
*
584833 CTAGTTGGTTGCCCTTGACAG-AGAGAAAGCAAAAGAAAAACAAGGGTT
1 CTAGTTGGTTACCCTTGACAGAAGAGAAAGCAAAAGAAAAACAAGGGTT
584881 TATTTAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 26 0.57
52 20 0.43
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (51 bp):
CTAGTTGGTTACCCTTGACAGAAGAGAAAGCAAAAGAAAAACAAGGGTTAC
Found at i:594709 original size:119 final size:119
Alignment explanation
Indices: 594498--594718 Score: 424
Period size: 119 Copynumber: 1.9 Consensus size: 119
594488 AAAAAATCTT
*
594498 AAGCAAGGTCAATGTTCGAATTTTGGTGTTTGTGAATGAAGAAAACTGGGTTGGGAGGGTCGCAT
1 AAGCAAGGTCAATGTTCGAATCTTGGTGTTTGTGAATGAAGAAAACTGGGTTGGGAGGGTCGCAT
594563 TCGCCTCGACGGTACCCGATCTGGATTAGTCACTCAATAGATTGAATATCAATG
66 TCGCCTCGACGGTACCCGATCTGGATTAGTCACTCAATAGATTGAATATCAATG
*
594617 AAGCAAGGTCAATGTTCGAATCTTGGTGTTTGTGAATGAAGCAAACTGGGTTGGGAGGGTCGCAT
1 AAGCAAGGTCAATGTTCGAATCTTGGTGTTTGTGAATGAAGAAAACTGGGTTGGGAGGGTCGCAT
594682 TCGCCTCGACGGTACCCGATCTGGATTAGTCACTCAA
66 TCGCCTCGACGGTACCCGATCTGGATTAGTCACTCAA
594719 AATAGTAGTA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 100 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (119 bp):
AAGCAAGGTCAATGTTCGAATCTTGGTGTTTGTGAATGAAGAAAACTGGGTTGGGAGGGTCGCAT
TCGCCTCGACGGTACCCGATCTGGATTAGTCACTCAATAGATTGAATATCAATG
Found at i:596769 original size:28 final size:26
Alignment explanation
Indices: 596705--596770 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
596695 AAAAAGATTG
*
596705 AATATTTTAAGTACATATTTTAACAA
1 AATATTTTAAATACATATTTTAACAA
*
596731 AATATACTTTAAATACCTATTTTAACCAA
1 AATAT--TTTAAATACATATTTTAA-CAA
*
596760 GAGTATTTTAA
1 -AATATTTTAA
596771 GTATTTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.15
28 21 0.64
29 3 0.09
30 4 0.12
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.41
Consensus pattern (26 bp):
AATATTTTAAATACATATTTTAACAA
Found at i:601404 original size:17 final size:18
Alignment explanation
Indices: 601379--601413 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
601369 AAAATGAGAG
601379 TTAAATTTATT-ATTATA
1 TTAAATTTATTAATTATA
*
601396 TTAATTTTATTAATTATA
1 TTAAATTTATTAATTATA
601414 AAGTCATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATTTATTAATTATA
Found at i:603055 original size:21 final size:21
Alignment explanation
Indices: 603031--603081 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
603021 CTACGCAACT
*
603031 TTTTATAAT-AATAGGAAGATA
1 TTTTATAATCAA-AGAAAGATA
*
603052 TTTTATAATCAAAGAAATATA
1 TTTTATAATCAAAGAAAGATA
603073 TTTTATAAT
1 TTTTATAAT
603082 TAGATGATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (21 bp):
TTTTATAATCAAAGAAAGATA
Found at i:603148 original size:19 final size:20
Alignment explanation
Indices: 603106--603148 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
603096 GTAAATTTTA
*
603106 ATAATCAAAGAATGATATTTT
1 ATAATCAAAGAAT-ATATTGT
*
603127 ATAATCAAATAAT-TATTGT
1 ATAATCAAAGAATATATTGT
603146 ATA
1 ATA
603149 TATTACCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
ATAATCAAAGAATATATTGT
Found at i:603410 original size:47 final size:47
Alignment explanation
Indices: 603337--603464 Score: 168
Period size: 47 Copynumber: 2.7 Consensus size: 47
603327 AAGGTGTTCA
*
603337 TGTTCGTTTATTTATTGTTCACGAACATGTTCATTTAATGTTCACGAACG
1 TGTTCGTTTA--TA-TGTTCATGAACATGTTCATTTAATGTTCACGAACG
* * *
603387 TGTTCGTTTATATGTTCATGAACATGTTCGTTTAATGTTCGCGAATG
1 TGTTCGTTTATATGTTCATGAACATGTTCATTTAATGTTCACGAACG
*
603434 TGTTCGTTTATATGTTCACT-AACACGTTCAT
1 TGTTCGTTTATATGTTCA-TGAACATGTTCAT
603465 GAACATATTC
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
47 58 0.82
48 3 0.04
50 10 0.14
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.45
Consensus pattern (47 bp):
TGTTCGTTTATATGTTCATGAACATGTTCATTTAATGTTCACGAACG
Found at i:603462 original size:24 final size:24
Alignment explanation
Indices: 603335--603462 Score: 143
Period size: 23 Copynumber: 5.3 Consensus size: 24
603325 TGAAGGTGTT
603335 CATGTTCGTTTATTTATTGTTCACGAA
1 CATGTTCGTTTA--TA-TGTTCACGAA
*
603362 CATGTTCATTTA-ATGTTCACGAA
1 CATGTTCGTTTATATGTTCACGAA
* *
603385 CGTGTTCGTTTATATGTTCATGAA
1 CATGTTCGTTTATATGTTCACGAA
*
603409 CATGTTCGTTTA-ATGTTCGCGAA
1 CATGTTCGTTTATATGTTCACGAA
** *
603432 TGTGTTCGTTTATATGTTCACTAA
1 CATGTTCGTTTATATGTTCACGAA
*
603456 CACGTTC
1 CATGTTC
603463 ATGAACATAT
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
23 39 0.46
24 35 0.41
27 11 0.13
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (24 bp):
CATGTTCGTTTATATGTTCACGAA
Found at i:603758 original size:11 final size:12
Alignment explanation
Indices: 603721--603758 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
603711 ATAAATGAAT
*
603721 GAGTTAATAAAC
1 GAGTTCATAAAC
603733 GAGTTCATAAAC
1 GAGTTCATAAAC
603745 GAGTTCAT-AAC
1 GAGTTCATAAAC
603756 GAG
1 GAG
603759 CTTGTTCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (12 bp):
GAGTTCATAAAC
Found at i:604823 original size:4 final size:4
Alignment explanation
Indices: 604814--604842 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
604804 GAATTAATCG
604814 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
604843 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:604847 original size:2 final size:2
Alignment explanation
Indices: 604840--604866 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
604830 AAATAAATAA
604840 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
604867 ATTTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:605694 original size:17 final size:18
Alignment explanation
Indices: 605655--605701 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
605645 TGTTTCTGAG
605655 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
605673 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
*
605690 GGAATTGAAATC
1 GGAATTGGAATC
605702 CAATTACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:605757 original size:44 final size:44
Alignment explanation
Indices: 605691--605811 Score: 188
Period size: 44 Copynumber: 2.8 Consensus size: 44
605681 AATCTGTCAG
* * * *
605691 GAATTGAAATCCAATTACATATTTTGTTAGGTTGGCAGGAAATT
1 GAATTGGAATCCAATTCCATATTATGTTTGGTTGGCAGGAAATT
* *
605735 GAATTGGTATCTAATTCCATATTATGTTTGGTTGGCAGGAAATT
1 GAATTGGAATCCAATTCCATATTATGTTTGGTTGGCAGGAAATT
605779 GAATTGGAATCCAATTCCATATTATGTTTGGTT
1 GAATTGGAATCCAATTCCATATTATGTTTGGTT
605812 CGTAGACATG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (44 bp):
GAATTGGAATCCAATTCCATATTATGTTTGGTTGGCAGGAAATT
Found at i:606386 original size:237 final size:230
Alignment explanation
Indices: 606129--606610 Score: 740
Period size: 238 Copynumber: 2.1 Consensus size: 230
606119 GTTTCACCCG
606129 ACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAA-TATT
1 ACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAATTATT
* * *
606193 TTTATTCAATAAAAACAGTGACTTAATTG-AAAAAA-TATATATAGAGAGAGGTATTATTGTAAT
66 TTTATTCAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAG-G-GATATTATTATAAT
* * *
606256 TATTCCTAAATATATAAGGTAAAATTATATATTTTTTTGGGTCGGGTTGGGTCGGGTATTTTTCA
129 TATTCCTAAATATATAAGGTAAAATTATATATATATTT---TCGGG-T-AGT---GTATTTTTCA
606321 CCATAAACCCGAAC-CTGACCCGACCCGAATATCACACTTAAAAAA
186 CCATAAACCCGAACTC-GACCCGACCCGAATATCACACTTAAAAAA
* *
606366 ACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCTGAAATAATAAAAAAATTATT
1 ACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAATTATT
606431 TTTATTCAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGATATTATTATAATTA
66 TTTATTCAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGATATTATTATAATTA
*
606496 TTCCTAAATATATAAGGTAAAATTATATATATATTTTCGGGTAGTGTATTTTTCACCCTAAACCC
131 TTCCTAAATATATAAGGTAAAATTATATATATATTTTCGGGTAGTGTATTTTTCACCATAAACCC
606561 GAACTCGACCCGACCCGAATATCACACTTAAAAAA
196 GAACTCGACCCGACCCGAATATCACACTTAAAAAA
*
606596 A-CCGACCCAACCCGA
1 ACCCGACCCGACCCGA
606611 CCAAAATAAA
Statistics
Matches: 231, Mismatches: 10, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
229 13 0.06
230 53 0.23
231 1 0.00
233 2 0.01
234 1 0.00
235 5 0.02
237 58 0.25
238 80 0.35
239 7 0.03
240 11 0.05
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (230 bp):
ACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAATTATT
TTTATTCAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGATATTATTATAATTA
TTCCTAAATATATAAGGTAAAATTATATATATATTTTCGGGTAGTGTATTTTTCACCATAAACCC
GAACTCGACCCGACCCGAATATCACACTTAAAAAA
Found at i:612644 original size:20 final size:21
Alignment explanation
Indices: 612600--612655 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
612590 AGTTTTCCAA
* *
612600 ATTCGCAACGCGAATATCCAG
1 ATTCGCAACGCGATTATCAAG
*
612621 ATTCGCAACGCGATTGT-AAG
1 ATTCGCAACGCGATTATCAAG
*
612641 ATTCGCAACGTGATT
1 ATTCGCAACGCGATT
612656 TTGAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (21 bp):
ATTCGCAACGCGATTATCAAG
Found at i:612684 original size:19 final size:19
Alignment explanation
Indices: 612660--612764 Score: 120
Period size: 19 Copynumber: 5.2 Consensus size: 19
612650 GTGATTTTGA
612660 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
612679 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
612698 AAAATGTGTTGCGAGAGTTT
1 AAAATGTGTTGCGATAG-TT
*
612718 GAAAAACGTGTTGTTGCGATAGTG
1 --AAAA--TG-TGTTGCGATAGTT
* *
612742 AAAAAGTGTTGCGATAGTG
1 AAAATGTGTTGCGATAGTT
612761 AAAA
1 AAAA
612765 ATCCAAAATA
Statistics
Matches: 76, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
19 52 0.68
20 3 0.04
22 8 0.11
24 3 0.04
25 10 0.13
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:626638 original size:15 final size:15
Alignment explanation
Indices: 626618--626689 Score: 99
Period size: 15 Copynumber: 4.7 Consensus size: 15
626608 AATCGGGTAT
626618 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
*
626633 CGGGTACCCAATTAC
1 CGGGTACCCGATTAC
**
626648 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
626665 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
626680 CGGGTACCCG
1 CGGGTACCCG
626690 TAACATCCGG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
15 34 0.69
16 4 0.08
17 11 0.22
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:626669 original size:17 final size:16
Alignment explanation
Indices: 626618--626701 Score: 59
Period size: 15 Copynumber: 5.3 Consensus size: 16
626608 AATCGGGTAT
**
626618 CGGGTACCCGATTA-C
1 CGGGTACCCGAAAATC
*
626633 CGGGTACCC--AATTAC
1 CGGGTACCCGAAAAT-C
626648 CGGGTACCCGCAAAATC
1 CGGGTACCCG-AAAATC
**
626665 CGGGTACCCGATTA-C
1 CGGGTACCCGAAAATC
*
626680 CGGGTACCCGTAACATC
1 CGGGTACCCG-AAAATC
626697 CGGGT
1 CGGGT
626702 CGAGACACGG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
15 30 0.56
16 4 0.07
17 17 0.31
18 3 0.06
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (16 bp):
CGGGTACCCGAAAATC
Found at i:626673 original size:32 final size:32
Alignment explanation
Indices: 626632--626701 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
626622 TACCCGATTA
626632 CCGGGTACCCAATTACCGGGTACCCGCAAAAT
1 CCGGGTACCCAATTACCGGGTACCCGCAAAAT
* * *
626664 CCGGGTACCCGATTACCGGGTACCCGTAACAT
1 CCGGGTACCCAATTACCGGGTACCCGCAAAAT
626696 CCGGGT
1 CCGGGT
626702 CGAGACACGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (32 bp):
CCGGGTACCCAATTACCGGGTACCCGCAAAAT
Found at i:626759 original size:15 final size:16
Alignment explanation
Indices: 626727--626781 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
626717 GAAATCGTCG
*
626727 ACCCGGAAGTTCCGGGT
1 ACCCGGAA-ATCCGGGT
626744 ACCCGGAAAT-CGGGT
1 ACCCGGAAATCCGGGT
**
626759 ACCCAAAAATCCGGGT
1 ACCCGGAAATCCGGGT
*
626775 ACTCGGA
1 ACCCGGA
626782 TTTGCACACC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 13 0.42
16 10 0.32
17 8 0.26
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (16 bp):
ACCCGGAAATCCGGGT
Found at i:637545 original size:15 final size:15
Alignment explanation
Indices: 637525--637595 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
637515 AATCGGGTAT
637525 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
*
637540 CGGGTACCCAATTAC
1 CGGGTACCCGATTAC
**
637555 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
637572 C-GGTACCCGATTAC
1 CGGGTACCCGATTAC
637586 CGGGTACCCG
1 CGGGTACCCG
637596 TAACATCCGG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.04
15 33 0.70
16 10 0.21
17 2 0.04
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:637585 original size:31 final size:31
Alignment explanation
Indices: 637542--637605 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
637532 CCGATTACCG
637542 GGTACCCAATTACCGGGTACCCGCAAAATCC
1 GGTACCCAATTACCGGGTACCCGCAAAATCC
* * *
637573 GGTACCCGATTACCGGGTACCCGTAACATCC
1 GGTACCCAATTACCGGGTACCCGCAAAATCC
637604 GG
1 GG
637606 GTCGAGACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.17
Consensus pattern (31 bp):
GGTACCCAATTACCGGGTACCCGCAAAATCC
Found at i:637607 original size:17 final size:16
Alignment explanation
Indices: 637525--637607 Score: 50
Period size: 15 Copynumber: 5.3 Consensus size: 16
637515 AATCGGGTAT
**
637525 CGGGTACCCGATTA-C
1 CGGGTACCCGAAAATC
*
637540 CGGGTACCC--AATTAC
1 CGGGTACCCGAAAAT-C
637555 CGGGTACCCGCAAAATC
1 CGGGTACCCG-AAAATC
**
637572 C-GGTACCCGATTA-C
1 CGGGTACCCGAAAATC
*
637586 CGGGTACCCGTAACATC
1 CGGGTACCCG-AAAATC
637603 CGGGT
1 CGGGT
637608 CGAGACACGG
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
14 2 0.04
15 29 0.56
16 10 0.19
17 8 0.15
18 3 0.06
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (16 bp):
CGGGTACCCGAAAATC
Found at i:637665 original size:15 final size:16
Alignment explanation
Indices: 637633--637687 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
637623 GAAATCGTCG
*
637633 ACCCGGAAGTTCCGGGT
1 ACCCGGAA-ATCCGGGT
637650 ACCCGGAAAT-CGGGT
1 ACCCGGAAATCCGGGT
**
637665 ACCCAAAAATCCGGGT
1 ACCCGGAAATCCGGGT
*
637681 ACTCGGA
1 ACCCGGA
637688 TTTGCACACC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 13 0.42
16 10 0.32
17 8 0.26
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (16 bp):
ACCCGGAAATCCGGGT
Found at i:648465 original size:15 final size:15
Alignment explanation
Indices: 648445--648484 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
648435 AATCGGGTAT
648445 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
648460 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
648475 CGGGTACCCG
1 CGGGTACCCG
648485 CAAAAATCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.17
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:648501 original size:33 final size:31
Alignment explanation
Indices: 648459--648535 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 31
648449 TACCCGATTA
*
648459 CCGGGTACCC-GATTACCGGGTACCCGCAAAAAT
1 CCGGGTACCCGGA-AACCGGGTA-CC-CAAAAAT
*
648492 CCGGGTACCCGGAAATCGGGTACCCAAAAAT
1 CCGGGTACCCGGAAACCGGGTACCCAAAAAT
*
648523 CCGGGTACTCGGA
1 CCGGGTACCCGGA
648536 TTTGCACACC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
31 19 0.47
32 2 0.05
33 17 0.43
34 2 0.05
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
CCGGGTACCCGGAAACCGGGTACCCAAAAAT
Found at i:648523 original size:31 final size:33
Alignment explanation
Indices: 648475--648535 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
648465 ACCCGATTAC
648475 CGGGTACCCGCAAAAATCCGGGTACCCGGAAAT
1 CGGGTACCCGCAAAAATCCGGGTACCCGGAAAT
*
648508 CGGGTA-CC-CAAAAATCCGGGTACTCGGA
1 CGGGTACCCGCAAAAATCCGGGTACCCGGA
648536 TTTGCACACC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 19 0.70
32 2 0.07
33 6 0.22
ACGTcount: A:0.30, C:0.30, G:0.28, T:0.13
Consensus pattern (33 bp):
CGGGTACCCGCAAAAATCCGGGTACCCGGAAAT
Found at i:648527 original size:16 final size:16
Alignment explanation
Indices: 648474--648530 Score: 71
Period size: 15 Copynumber: 3.5 Consensus size: 16
648464 TACCCGATTA
648474 CCGGGTACCCGCAAAAAT
1 CCGGGTA-CC-CAAAAAT
**
648492 CCGGGTACCCGGAAAT
1 CCGGGTACCCAAAAAT
648508 -CGGGTACCCAAAAAT
1 CCGGGTACCCAAAAAT
648523 CCGGGTAC
1 CCGGGTAC
648531 TCGGATTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 13 0.38
16 12 0.35
17 2 0.06
18 7 0.21
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (16 bp):
CCGGGTACCCAAAAAT
Found at i:655207 original size:24 final size:24
Alignment explanation
Indices: 655179--655227 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
655169 GTTGATTGAG
*
655179 TTTGAGTTAATTCGATCAACTCAA
1 TTTGAGTTAACTCGATCAACTCAA
*
655203 TTTGAGTTGACTCGATCAACTCAA
1 TTTGAGTTAACTCGATCAACTCAA
655227 T
1 T
655228 CCGAGTTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (24 bp):
TTTGAGTTAACTCGATCAACTCAA
Found at i:655233 original size:24 final size:24
Alignment explanation
Indices: 655190--655238 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
655180 TTGAGTTAAT
**
655190 TCGATCAACTCAATTTGAGTTGAC
1 TCGATCAACTCAATCCGAGTTGAC
655214 TCGATCAACTCAATCCGAGTTGAC
1 TCGATCAACTCAATCCGAGTTGAC
655238 T
1 T
655239 TAGCTTCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (24 bp):
TCGATCAACTCAATCCGAGTTGAC
Found at i:656373 original size:146 final size:145
Alignment explanation
Indices: 656109--656398 Score: 438
Period size: 146 Copynumber: 2.0 Consensus size: 145
656099 GAACTAATCA
* *
656109 GAGACTTACTAAACAGCATAGGATTCTTCAAAATTTACAATTTAGTCCTTATAATTAACTAGACT
1 GAGACTTACTAAACA-CATAGGATTCTTCAAAATTTACAATTTAGTCCTTATAATTAACTACAAT
* ** * * *
656174 CAAAATCGGTACAAATTGGGGTGTGACAACTTACATGGTATGGGAAACATCACACGGAACTTGAT
65 CAAAACCAATAAAAATTGGGGTGTGACAACTTACATGGTATGGGAAACATCACACAGAACTCGAT
656239 CGAACAAAACTCCTCG
130 CGAACAAAACTCCTCG
* * *
656255 GAGACTTACTAAACA-ATAGGGGATTCTTCAAATTTTATAATTTGGTCCTTATAATTAACTACAA
1 GAGACTTACTAAACACATA--GGATTCTTCAAAATTTACAATTTAGTCCTTATAATTAACTACAA
656319 TCAAAACCAATAAAAATTGGGGTGTGACAACTTACATGGTATGGGAAACATCACACAGAACTCGA
64 TCAAAACCAATAAAAATTGGGGTGTGACAACTTACATGGTATGGGAAACATCACACAGAACTCGA
*
656384 TCGAACAGAACTCCT
129 TCGAACAAAACTCCT
656399 GAGACTACCT
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
144 3 0.02
146 127 0.98
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (145 bp):
GAGACTTACTAAACACATAGGATTCTTCAAAATTTACAATTTAGTCCTTATAATTAACTACAATC
AAAACCAATAAAAATTGGGGTGTGACAACTTACATGGTATGGGAAACATCACACAGAACTCGATC
GAACAAAACTCCTCG
Found at i:657393 original size:23 final size:23
Alignment explanation
Indices: 657367--657415 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
657357 AAATGTTCCA
657367 AAAGACA-AAGAAAAACGTGTCAT
1 AAAGACATAAG-AAAACGTGTCAT
*
657390 AAAGACATATGAAAACGTGTCAT
1 AAAGACATAAGAAAACGTGTCAT
657413 AAA
1 AAA
657416 AGCAGACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.55, C:0.12, G:0.16, T:0.16
Consensus pattern (23 bp):
AAAGACATAAGAAAACGTGTCAT
Found at i:658579 original size:38 final size:37
Alignment explanation
Indices: 658528--658613 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 37
658518 TACGTGAAAT
*
658528 TCTAAT-TA-TTAAATAAAAATTTTATATAAAAATTCA
1 TCTAATATATTTAAATAAAAATATTATAT-AAAATTCA
*
658564 TCTAATATATTTAAATAAATATATTATATAAAATTCA
1 TCTAATATATTTAAATAAAAATATTATATAAAATTCA
658601 TCGATAATATATT
1 TC--TAATATATT
658614 ATTTATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
36 6 0.14
37 12 0.27
38 17 0.39
39 9 0.20
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (37 bp):
TCTAATATATTTAAATAAAAATATTATATAAAATTCA
Found at i:658629 original size:20 final size:20
Alignment explanation
Indices: 658606--658644 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
658596 ATTCATCGAT
* *
658606 AATATATTATTTATTATTTA
1 AATATATCATGTATTATTTA
658626 AATATATCATGTATTATTT
1 AATATATCATGTATTATTT
658645 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
AATATATCATGTATTATTTA
Found at i:665843 original size:13 final size:13
Alignment explanation
Indices: 665825--665878 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
665815 TAATGAAAAA
*
665825 AAAATTAAACATT
1 AAAATTAAATATT
665838 AAAATTTAAAT-TT
1 AAAA-TTAAATATT
665851 AAAATTAAATA-T
1 AAAATTAAATATT
665863 AATAATTAAATATT
1 AA-AATTAAATATT
665877 AA
1 AA
665879 TAAAATATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 9 0.25
13 19 0.53
14 8 0.22
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAATTAAATATT
Found at i:668766 original size:2 final size:2
Alignment explanation
Indices: 668761--668797 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
668751 TAAATTCATA
668761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
668798 CAAAATTGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:670092 original size:33 final size:33
Alignment explanation
Indices: 670047--670145 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
670037 AACTCAACAT
* * *
670047 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
670080 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
670113 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
670145 A
1 A
670146 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:670164 original size:21 final size:21
Alignment explanation
Indices: 670140--670179 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
670130 ACTTCAAGTT
670140 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
670161 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
670180 ATAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:680282 original size:92 final size:92
Alignment explanation
Indices: 680130--680313 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
680120 CGTTTTAATA
680130 TCTAAACTTACAAAAAAAAATCAAAATCATACCTACTATTTAGTTTTTAATTCATATTAGTATCA
1 TCTAAACTTACAAAAAAAAATCAAAATCATACCTACTATTTAGTTTTTAATTCATATTAGTATCA
680195 TGTCCTTAAAAACTTTAGTTTTTGTTT
66 TGTCCTTAAAAACTTTAGTTTTTGTTT
* * *
680222 TCTAAACTTACAAAAAAAATTCAAAATCATACCTACTATTTAGTTTTTATTTCATTTTAGTATCA
1 TCTAAACTTACAAAAAAAAATCAAAATCATACCTACTATTTAGTTTTTAATTCATATTAGTATCA
680287 TGTCCTTAAAAACTTTAGTTTTTGTTT
66 TGTCCTTAAAAACTTTAGTTTTTGTTT
680314 CGTTTTAGTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.44
Consensus pattern (92 bp):
TCTAAACTTACAAAAAAAAATCAAAATCATACCTACTATTTAGTTTTTAATTCATATTAGTATCA
TGTCCTTAAAAACTTTAGTTTTTGTTT
Found at i:680897 original size:28 final size:28
Alignment explanation
Indices: 680848--680905 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
680838 ATTATTATGT
* * *
680848 TTATAAAAAAACTCTAATTTCTCTTAAA
1 TTATAAAAAAACTCAAAATTCTCTAAAA
*
680876 TTATAAAAAATCTCAAAATTCTCTAAAA
1 TTATAAAAAAACTCAAAATTCTCTAAAA
680904 TT
1 TT
680906 CTCAAATCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (28 bp):
TTATAAAAAAACTCAAAATTCTCTAAAA
Found at i:681020 original size:24 final size:24
Alignment explanation
Indices: 680993--681042 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
680983 AATCATAGGT
680993 TGCGGTAGTTTCCATCGGAGTGCG
1 TGCGGTAGTTTCCATCGGAGTGCG
681017 TGCGGTAGTTTCCATCGGAGTGCG
1 TGCGGTAGTTTCCATCGGAGTGCG
681041 TG
1 TG
681043 GGATCACGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.20, G:0.38, T:0.30
Consensus pattern (24 bp):
TGCGGTAGTTTCCATCGGAGTGCG
Found at i:681245 original size:18 final size:19
Alignment explanation
Indices: 681210--681245 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
681200 AAATGAAGGT
*
681210 TTTCAAAATTTTGTGTTTA
1 TTTCAAAATTTTGAGTTTA
681229 TTTCAAAA-TTTGAGTTT
1 TTTCAAAATTTTGAGTTT
681246 TCTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTCAAAATTTTGAGTTTA
Found at i:689616 original size:15 final size:15
Alignment explanation
Indices: 689589--689627 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
689579 TTTAATAATA
*
689589 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
689604 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
689619 TTAAAACCG
1 TTAAAACCG
689628 AAACCGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:690818 original size:59 final size:58
Alignment explanation
Indices: 690700--690881 Score: 156
Period size: 59 Copynumber: 3.1 Consensus size: 58
690690 CGTACGCTCT
* * * * *
690700 CAAATTATGAATCTCATTTTAAATTAATTCTTAAA-TATTTAAACATTCCAA-TTCTATCC
1 CAAATTATGACT-TCATTCTAAATTAATCCTCAAACT-TTTAAACATTTCAATTTC-ATCC
690759 CTAAATTATGACTATC-TTCTAAATTAATCCTCAAACTTTTAAACATTTCAATTTCATCC
1 C-AAATTATGACT-TCATTCTAAATTAATCCTCAAACTTTTAAACATTTCAATTTCATCC
* * * * * * *
690818 CCAACTATAACCTTCATTCTAAATTAGTCC-CTAAACTTTTTGAACATTTCGATTCCATCC
1 CAAATTATGA-CTTCATTCTAAATTAATCCTC-AAAC-TTTTAAACATTTCAATTTCATCC
690878 CAAA
1 CAAA
690882 CTATTCGTAT
Statistics
Matches: 102, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
58 9 0.09
59 54 0.53
60 39 0.38
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.39
Consensus pattern (58 bp):
CAAATTATGACTTCATTCTAAATTAATCCTCAAACTTTTAAACATTTCAATTTCATCC
Found at i:693056 original size:60 final size:60
Alignment explanation
Indices: 692912--693071 Score: 173
Period size: 60 Copynumber: 2.7 Consensus size: 60
692902 TACATGTACG
692912 TAAATTATGACTCTCATTTTAAATTAGTCCTT-AAACTTTTAACTATTTCAATTTTAACCC
1 TAAATTATGACTCTCATTTTAAATTAGT-CTTCAAACTTTTAACTATTTCAATTTTAACCC
* * * * * * *
692972 TAAACTATAACTATCATTATAAATTAGTCTTCAAACTTTTGAGTATTTCAATTTT-ATCC
1 TAAATTATGACTCTCATTTTAAATTAGTCTTCAAACTTTTAACTATTTCAATTTTAACCC
* * * *
693031 TCAAATTATGACCCTC-TTTTCAAATTAATCCTCAAATTTTT
1 T-AAATTATGACTCTCATTTT-AAATTAGTCTTCAAACTTTT
693072 TTTAACATTC
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
59 10 0.12
60 72 0.88
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (60 bp):
TAAATTATGACTCTCATTTTAAATTAGTCTTCAAACTTTTAACTATTTCAATTTTAACCC
Found at i:693131 original size:24 final size:25
Alignment explanation
Indices: 693086--693133 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
693076 ACATTCCATA
*
693086 TTTTTTAAGCATTTCAGATTTCATT
1 TTTTTTAAACATTTCAGATTTCATT
693111 TTTTTTAAACATTTCAG-TTTCAT
1 TTTTTTAAACATTTCAGATTTCAT
693134 AAGACCCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTTTTAAACATTTCAGATTTCATT
Found at i:693157 original size:42 final size:42
Alignment explanation
Indices: 693111--693190 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
693101 AGATTTCATT
* *
693111 TTTTTTAAACATTTCAGTTTCATAAGACCCTTTTTCTATATA
1 TTTTTTAAACATTCCAGTTTCACAAGACCCTTTTTCTATATA
*
693153 TTTTTTAAGCATTCCAGTTTCACAAGACCCTTTTTCTA
1 TTTTTTAAACATTCCAGTTTCACAAGACCCTTTTTCTA
693191 AATTAATCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.47
Consensus pattern (42 bp):
TTTTTTAAACATTCCAGTTTCACAAGACCCTTTTTCTATATA
Found at i:693268 original size:23 final size:23
Alignment explanation
Indices: 693232--693278 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
693222 TTTATCTTAA
*
693232 AACTATACGGATATATTAATCAC
1 AACTATAAGGATATATTAATCAC
*
693255 AACTATAAGTATATATTAATCAC
1 AACTATAAGGATATATTAATCAC
693278 A
1 A
693279 TTCCTTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (23 bp):
AACTATAAGGATATATTAATCAC
Found at i:698385 original size:21 final size:22
Alignment explanation
Indices: 698361--698413 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
698351 AAAAAATAAT
*
698361 ATAATTTATATTTAA-TTTTAA
1 ATAATTTATATTAAATTTTTAA
**
698382 ATAATTTACGTTAAATTTTTAA
1 ATAATTTATATTAAATTTTTAA
*
698404 CTAATTTATA
1 ATAATTTATA
698414 ATTATACATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
ATAATTTATATTAAATTTTTAA
Found at i:699075 original size:2 final size:2
Alignment explanation
Indices: 699068--699098 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
699058 AGGTTTACAT
*
699068 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
699099 TAATGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:699456 original size:2 final size:2
Alignment explanation
Indices: 699443--699475 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
699433 TCTAATTGAA
*
699443 AT AT AA 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
699476 CAAGTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:701707 original size:19 final size:18
Alignment explanation
Indices: 701685--701728 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
701675 GTTTTTTCGA
*
701685 TTCGGTTCGGTTTGGATTT
1 TTCGGTTCGGTTCGG-TTT
701704 TTCGGTTCGGTTCGGTTT
1 TTCGGTTCGGTTCGGTTT
701722 TTCGGTT
1 TTCGGTT
701729 TTTCAATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.02, C:0.14, G:0.32, T:0.52
Consensus pattern (18 bp):
TTCGGTTCGGTTCGGTTT
Found at i:701876 original size:12 final size:12
Alignment explanation
Indices: 701855--701889 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
701845 TTGAGACTTT
701855 AAACCGAACCGA
1 AAACCGAACCGA
*
701867 AAACCTAACCGA
1 AAACCGAACCGA
701879 AAACCGAACCG
1 AAACCGAACCG
701890 TATAATGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.49, C:0.34, G:0.14, T:0.03
Consensus pattern (12 bp):
AAACCGAACCGA
Found at i:705324 original size:34 final size:33
Alignment explanation
Indices: 705281--705348 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 33
705271 TTTGTGTACT
*
705281 TTATTCTTTTAAATAACTAATCATACTTTAAAAA
1 TTATTCTTTTAAATAACTAATCACAC-TTAAAAA
705315 TTATTCTTTTAAATAACTAATCACACTTAAAAA
1 TTATTCTTTTAAATAACTAATCACACTTAAAAA
705348 T
1 T
705349 GATGGCAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 8 0.24
34 25 0.76
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (33 bp):
TTATTCTTTTAAATAACTAATCACACTTAAAAA
Found at i:706430 original size:2 final size:2
Alignment explanation
Indices: 706423--706448 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
706413 AAACAACGTC
706423 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
706449 ACCTCATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:711377 original size:24 final size:26
Alignment explanation
Indices: 711350--711408 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
711340 TCCTACATGG
*
711350 TTAATTT-A-CTTCACTGTAATTTGT
1 TTAATTTCATCTTCAATGTAATTTGT
711374 TTAATTGCTTCATCTTCAATGTAATTTGT
1 TTAA-T--TTCATCTTCAATGTAATTTGT
711403 TTAATT
1 TTAATT
711409 GTTTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 4 0.14
25 1 0.03
26 1 0.03
27 2 0.07
28 2 0.07
29 19 0.66
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (26 bp):
TTAATTTCATCTTCAATGTAATTTGT
Found at i:711566 original size:20 final size:20
Alignment explanation
Indices: 711506--711568 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
711496 ACTTGTTATT
711506 TTGTTAAGGTAATCTGTTTAA
1 TTGTT-AGGTAATCTGTTTAA
** *
711527 TTGTTTATCTATAATATGTTTAA
1 TTG-TTA--GGTAATCTGTTTAA
711550 TTGTTAGGTAATCTGTTTA
1 TTGTTAGGTAATCTGTTTA
711569 GAATTTAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 10 0.30
21 4 0.12
22 5 0.15
23 14 0.42
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (20 bp):
TTGTTAGGTAATCTGTTTAA
Found at i:713730 original size:20 final size:21
Alignment explanation
Indices: 713696--713734 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
713686 ATTTTTAAAT
713696 TTTTTAATAATAAAAATAATA
1 TTTTTAATAATAAAAATAATA
*
713717 TTTTTAATTA-AAAAATAA
1 TTTTTAATAATAAAAATAA
713735 AAAGTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTTAATAATAAAAATAATA
Found at i:713944 original size:15 final size:15
Alignment explanation
Indices: 713924--713966 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
713914 TTACCGTCAC
713924 CTAAAATCCCTAAAT
1 CTAAAATCCCTAAAT
*
713939 CTAAAATCCC-CAAT
1 CTAAAATCCCTAAAT
*
713953 ATAGAAATCCCTAA
1 CTA-AAATCCCTAA
713967 TTCTCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 5 0.22
15 17 0.74
16 1 0.04
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (15 bp):
CTAAAATCCCTAAAT
Found at i:714503 original size:19 final size:19
Alignment explanation
Indices: 714479--714517 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
714469 TCGAATGCAT
714479 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
714498 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
714517 T
1 T
714518 GATTTAATTA
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:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:714542 original size:64 final size:64
Alignment explanation
Indices: 714434--714626 Score: 191
Period size: 64 Copynumber: 3.0 Consensus size: 64
714424 TGCATCAATA
* * * *
714434 CCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCATTCCATGCACCGATGCACTC
1 CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGCATT-CATGCATCGATGCACTC
714498 T
64 T
* ** *
714499 CCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATTTGATGCATCGATATA-TAA
1 CCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-TTCATGCATCGATGCACT-C
714562 T
64 T
* *
714563 CCATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCACTTCATGCATCGATGCACT
1 CCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA-TTCATGCATCGATGCACT
714625 CT
63 CT
714627 TAGTGCACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
63 2 0.02
64 80 0.75
65 18 0.17
66 6 0.06
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (64 bp):
CCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTCATGCATCGATGCACTCT
Found at i:717029 original size:2 final size:2
Alignment explanation
Indices: 717022--717048 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
717012 TAAAATAGGG
717022 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
717049 CATGGTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:720099 original size:24 final size:23
Alignment explanation
Indices: 720054--720133 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
720044 CACTTAATAA
*
720054 TGCATCAATGCATCCCTTTGAATG
1 TGCATCGATGCATCCC-TTGAATG
*
720078 TGCATCGATGCATCCACATGAA--
1 TGCATCGATGCATCC-CTTGAATG
* *
720100 -GCACCGATGCATGCCTTGAATG
1 TGCATCGATGCATCCCTTGAATG
720122 TGCATCGATGCA
1 TGCATCGATGCA
720134 CAAGACCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 5 0.11
21 12 0.26
23 10 0.22
24 18 0.39
25 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (23 bp):
TGCATCGATGCATCCCTTGAATG
Found at i:722706 original size:21 final size:21
Alignment explanation
Indices: 722682--722721 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
722672 TTTTCAAAGG
722682 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
722703 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
722722 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:722771 original size:19 final size:19
Alignment explanation
Indices: 722747--722785 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
722737 TCGAATGCAT
722747 TCCATGCACCAATGCACTC
1 TCCATGCACCAATGCACTC
* * *
722766 TCCATGTATCGATGCACTC
1 TCCATGCACCAATGCACTC
722785 T
1 T
722786 GATTTAATTA
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:0.23, C:0.36, G:0.13, T:0.28
Consensus pattern (19 bp):
TCCATGCACCAATGCACTC
Found at i:722809 original size:64 final size:64
Alignment explanation
Indices: 722702--722894 Score: 187
Period size: 64 Copynumber: 3.0 Consensus size: 64
722692 TGCATCAATA
* * * * *
722702 CCATGCATCGATGCATCAATGA-ATAAATTGAAACATCGAATGCATTCCATGCACCAATGCACTC
1 CCATGCATCGATGCA-CCAGGATATTAATTAAAACATCGAATGCATT-CATGCATCAATGCACTC
722766 T
64 T
* * * * * **
722767 CCATGTATCGATGCACTC-TGAT-TTAATTAAAACATCGAATGCATTTGATGCATCGATGTACAA
1 CCATGCATCGATGCAC-CAGGATATTAATTAAAACATCGAATGCA-TTCATGCATCAATGCACTC
722830 T
64 T
* *
722831 CCATGCATCGATGCACCAGGATATT-TTTCAAACATCGAATGCACTTCATGCATCAATGCACTCT
1 CCATGCATCGATGCACCAGGATATTAATTAAAACATCGAATGCA-TTCATGCATCAATGCACTCT
722895 TAGTGCACCG
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
63 1 0.01
64 84 0.82
65 18 0.17
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (64 bp):
CCATGCATCGATGCACCAGGATATTAATTAAAACATCGAATGCATTCATGCATCAATGCACTCT
Found at i:726637 original size:26 final size:26
Alignment explanation
Indices: 726595--726700 Score: 97
Period size: 26 Copynumber: 3.8 Consensus size: 26
726585 AATAAATTAA
726595 ATATTAATGTTTAATATTATATTATAG
1 ATATTAAT-TTTAATATTATATTATAG
* * *
726622 ATATTAATTTTAATATTAAATTTTTAA
1 ATATTAATTTTAATATTATA-TTATAG
726649 ATAAATTAATTTTTTTAATATTATATTATAG
1 AT--ATTAA---TTTTAATATTATATTATAG
*
726680 ATATTTAATTTT-ATATCATAT
1 ATA-TTAATTTTAATATTATAT
726701 AAATTATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
26 19 0.29
27 18 0.28
29 6 0.09
30 4 0.06
31 6 0.09
32 12 0.18
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (26 bp):
ATATTAATTTTAATATTATATTATAG
Found at i:726639 original size:12 final size:12
Alignment explanation
Indices: 726539--726645 Score: 69
Period size: 13 Copynumber: 8.7 Consensus size: 12
726529 GGTTTTATAT
726539 TTAATTTT-ATA
1 TTAATTTTAATA
* *
726550 TT-ATGTTTGATT
1 TTAAT-TTTAATA
*
726562 TTAATTTTAATG
1 TTAATTTTAATA
726574 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
726587 -TAAATTAAATA
1 TTAATTTTAATA
726598 TTAATGTTTAATA
1 TTAAT-TTTAATA
*
726611 TTATATTATAGATA
1 TTA-ATTTTA-ATA
726625 TTAATTTTAATA
1 TTAATTTTAATA
726637 TTAAATTTT
1 TT-AATTTT
726646 TAAATAAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
10 6 0.08
11 6 0.08
12 24 0.32
13 25 0.33
14 14 0.19
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:726646 original size:63 final size:60
Alignment explanation
Indices: 726537--726692 Score: 205
Period size: 63 Copynumber: 2.6 Consensus size: 60
726527 GTGGTTTTAT
* * * *
726537 ATTTAATTTT-ATATTATGTT-T-GATTTTAATTTTAATGTTAATTTTTTAAATAAATTAA
1 ATTTAATTTTAATATTATATTATAGATATTAATTTTAATATTAAATTTTTAAATAAATT-A
726595 ATATTAATGTTTAATATTATATTATAGATATTAATTTTAATATTAAATTTTTAAATAAATTA
1 AT-TTAAT-TTTAATATTATATTATAGATATTAATTTTAATATTAAATTTTTAAATAAATTA
726657 ATTT--TTTTAATATTATATTATAGATATTTAATTTTA
1 ATTTAATTTTAATATTATATTATAGATA-TTAATTTTA
726693 TATCATATAA
Statistics
Matches: 88, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
58 23 0.26
59 15 0.17
60 3 0.03
61 11 0.12
62 4 0.05
63 32 0.36
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (60 bp):
ATTTAATTTTAATATTATATTATAGATATTAATTTTAATATTAAATTTTTAAATAAATTA
Found at i:726671 original size:15 final size:15
Alignment explanation
Indices: 726629--726671 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
726619 TAGATATTAA
726629 TTTTAATATTAAATT
1 TTTTAATATTAAATT
* *
726644 TTTAAATAAATTAATTT
1 TTTTAAT--ATTAAATT
726661 TTTTAATATTA
1 TTTTAATATTA
726672 TATTATAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 10 0.43
17 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAATATTAAATT
Found at i:726747 original size:20 final size:19
Alignment explanation
Indices: 726687--726748 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
726677 TAGATATTTA
*
726687 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
726706 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
726724 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
726744 ATTTT
1 ATTTT
726749 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:726856 original size:22 final size:22
Alignment explanation
Indices: 726830--726920 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 22
726820 TATAAGTATT
726830 TTGATTTATTTTAAAATATAGA
1 TTGATTTATTTTAAAATATAGA
726852 TTGATTTATTTTAAATAATTTATTAGTA
1 TTGATTTATTTT-AA-AA--TA-TAG-A
* *
726880 TGGATTGATTTATTTTAAAATATGGA
1 TTGA-T---TTATTTTAAAATATAGA
726906 TTGATTTATTTTAAA
1 TTGATTTATTTTAAA
726921 TAATTTATTA
Statistics
Matches: 56, Mismatches: 3, Indels: 20
0.71 0.04 0.25
Matches are distributed among these distances:
22 22 0.39
23 2 0.04
24 2 0.04
25 1 0.02
26 6 0.11
27 5 0.09
28 6 0.11
29 1 0.02
30 2 0.04
31 2 0.04
32 7 0.12
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (22 bp):
TTGATTTATTTTAAAATATAGA
Found at i:726886 original size:32 final size:32
Alignment explanation
Indices: 726850--726952 Score: 136
Period size: 32 Copynumber: 3.5 Consensus size: 32
726840 TTAAAATATA
726850 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
726882 GATTGATTTA-TTT---TAA---A--A-TATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
726904 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
726936 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
726953 ATATGAATTG
Statistics
Matches: 61, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
22 14 0.23
23 4 0.07
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.07
32 31 0.51
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:727002 original size:80 final size:80
Alignment explanation
Indices: 726900--727049 Score: 291
Period size: 80 Copynumber: 1.9 Consensus size: 80
726890 TATTTTAAAA
726900 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
726965 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
726980 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
727045 TTATT
66 TTATT
727050 TTAAATAATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
TTATTATTGTAGTTG
Found at i:727020 original size:32 final size:32
Alignment explanation
Indices: 726979--727083 Score: 122
Period size: 32 Copynumber: 3.6 Consensus size: 32
726969 TATTGTAGTT
726979 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
727011 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
727034 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
727065 GTATGAATTGATTTTTTTT
1 GTATGGATTGATTTATTTT
727084 TAAAATATGA
Statistics
Matches: 61, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
22 14 0.23
23 4 0.07
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.07
32 31 0.51
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.54
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:727037 original size:22 final size:22
Alignment explanation
Indices: 727012--727054 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
727002 AATTTATTAG
727012 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
727034 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
727055 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:727129 original size:81 final size:80
Alignment explanation
Indices: 727034--727184 Score: 248
Period size: 81 Copynumber: 1.9 Consensus size: 80
727024 TATTTTAAAA
* *
727034 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTTTTTTTAAAATATGAATTGA
1 TATGGATTGATTTATATTAAATAATTTATTAGTATGAATTGA-TTTATTTTAAAATATGAATTGA
727099 TTTATTATTGTAGTTG
65 TTTATTATTGTAGTTG
* **
727115 TATGGATTGATTTATATTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGGTTGAT
1 TATGGATTGATTTATATTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
727180 TTATT
66 TTATT
727185 TTAAATAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 25 0.38
81 40 0.62
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (80 bp):
TATGGATTGATTTATATTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
TTATTATTGTAGTTG
Found at i:727150 original size:32 final size:32
Alignment explanation
Indices: 727114--727221 Score: 119
Period size: 32 Copynumber: 3.7 Consensus size: 32
727104 TATTGTAGTT
*
727114 GTATGGATTGATTTATATTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
727146 GTATGTATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
727172 G---GG-TTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
727200 GTATAGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
727222 ATATGAATTG
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
22 12 0.19
23 3 0.05
24 2 0.03
26 3 0.05
27 2 0.03
28 3 0.05
30 2 0.03
31 3 0.05
32 32 0.52
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:727172 original size:22 final size:22
Alignment explanation
Indices: 727147--727189 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
727137 AATTTATTAG
*
727147 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
727169 TATGGGTTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
727190 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:727313 original size:80 final size:79
Alignment explanation
Indices: 727169--727735 Score: 665
Period size: 80 Copynumber: 6.9 Consensus size: 79
727159 TATTTTAAAA
* * *
727169 TATGGGTTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
727234 TTATTATTGTAGTTG
66 TTATTATTGTA-TTG
* * *
727249 TATGAATTGATTTATTTTAAATAATTTAATAGTATGGATTGATTTATTTTAAAATATGGGTTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
727314 TTATTATTGTAGTTG
66 TTATTATTGTA-TTG
*
727329 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
727394 TTATTATTGTAGTTG
66 TTATTATTGTA-TTG
* **
727409 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGAATGATTTATTTT-AAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
* *
727473 TATGTATTGATT-TATTTTAAAA
64 -ATTTATT-ATTGTA--TT---G
*
727495 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
727560 TATTTTAAATAATTTATTAG
66 T-TATT--AT--TGTATT-G
* **
727580 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT-AAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** *
727644 TATGGATTGATT-TATTTTAAAA
64 -ATTTATT-ATTGTA--TT---G
*
727666 TATTGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
727731 TTATT
66 TTATT
727736 TTAAATAATT
Statistics
Matches: 425, Mismatches: 40, Indels: 40
0.84 0.08 0.08
Matches are distributed among these distances:
79 4 0.01
80 203 0.48
81 1 0.00
82 10 0.02
83 6 0.01
84 13 0.03
85 61 0.14
86 112 0.26
87 12 0.03
88 1 0.00
89 2 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (79 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTATTG
Found at i:727374 original size:32 final size:32
Alignment explanation
Indices: 727328--727547 Score: 154
Period size: 32 Copynumber: 6.7 Consensus size: 32
727318 TATTGTAGTT
727328 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
727360 GTATAGATTGATTTATTTTAAAATATGGATTGATTTA
1 GTATGGATTGATTTATTTT-AAATA---ATTTA-TTA
* * **
727397 TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1 GTA-TGGA-TTG-ATTTA-T--TTTA-----AATAATTTATTA
*
727440 GTATGGAATGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
727472 GTATGTATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
727498 G-A---ATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
727526 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
727548 ATATGGATTG
Statistics
Matches: 147, Mismatches: 15, Indels: 52
0.69 0.07 0.24
Matches are distributed among these distances:
22 13 0.09
23 2 0.01
24 2 0.01
25 1 0.01
26 3 0.02
27 2 0.01
28 3 0.02
29 1 0.01
30 2 0.01
31 2 0.01
32 63 0.43
33 5 0.03
36 4 0.03
37 9 0.06
38 2 0.01
39 4 0.03
40 6 0.04
41 3 0.02
42 4 0.03
43 8 0.05
44 4 0.03
47 4 0.03
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:727437 original size:14 final size:14
Alignment explanation
Indices: 727418--727470 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
727408 GTATGGATTG
727418 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
727432 ATTTATTAGTATGGAATG
1 ATTTATT--T-T-AAATA
727450 ATTTATTTTAAATA
1 ATTTATTTTAAATA
727464 ATTTATT
1 ATTTATT
727471 AGTATGTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:727489 original size:22 final size:22
Alignment explanation
Indices: 727473--727515 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
727463 AATTTATTAG
*
727473 TATGTATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
727495 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
727516 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:727564 original size:21 final size:22
Alignment explanation
Indices: 727527--727568 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
727517 AATTTATTAG
727527 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
727549 TATGGATTGA-TTATTTTAAA
1 TATGGATTGATTTATTTTAAA
727569 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:727600 original size:32 final size:32
Alignment explanation
Indices: 727549--727718 Score: 254
Period size: 32 Copynumber: 5.7 Consensus size: 32
727539 TATTTTAAAA
727549 TATGGATTGA-TTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
727580 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
727612 TATGTATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
727644 TATGGATTGATTTATTTT--A-AA---A-TA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
727668 T-T-GATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
727698 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
727719 ATATGGATTG
Statistics
Matches: 126, Mismatches: 2, Indels: 21
0.85 0.01 0.14
Matches are distributed among these distances:
22 14 0.11
23 1 0.01
24 2 0.02
25 4 0.03
26 1 0.01
28 1 0.01
29 4 0.03
30 2 0.02
31 11 0.09
32 86 0.68
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:727638 original size:117 final size:118
Alignment explanation
Indices: 727495--727718 Score: 423
Period size: 117 Copynumber: 1.9 Consensus size: 118
727485 TATTTTAAAA
727495 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA-
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
727559 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
* *
727612 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
727677 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
727719 ATATGGATTG
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
117 62 0.60
118 42 0.40
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (118 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:727660 original size:22 final size:22
Alignment explanation
Indices: 727644--727686 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
727634 AATTTATTAG
727644 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
727666 TATTGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
727687 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:727723 original size:22 final size:22
Alignment explanation
Indices: 727698--727740 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
727688 AATTTATTAG
727698 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
727720 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
727741 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:727750 original size:54 final size:54
Alignment explanation
Indices: 726830--727398 Score: 364
Period size: 54 Copynumber: 10.6 Consensus size: 54
726820 TATAAGTATT
*
726830 TTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGA
1 TTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
726884 TTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
1 TTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
* *
726938 TTGATTTATTTTAAAATATGAATTGATTTA--TT--AT--TGTAGTT-GTATGGA
1 TTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGA
** ** * ** * * *
726986 TTGATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGA
1 TTGATTTATTTTAAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGA
* * * *
727040 TTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTTTTTTTAA-AA--TA-T-GAATTGA
1 TTGATTTATTTT-AA-AA--TA-T-G---G-ATTGATTTATTTTAAATAATTTATTAGTATGGA
* * *** * *
727099 TTTA-TTATTGTAGTTGTATGGATTGATTTATATTAAATAATTTATTAGTATGTA
1 TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
* *
727153 TTGATTTATTTTAAAATATGGGTTGATTTATTTTAAATAATTTATTAGTATAGA
1 TTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
* * * * *
727207 TTGATTTATTTTAAAATATGAATTGATTTATTATT--GTAGTTGTA-T-GAATTGA
1 TTGATTTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGA
* * **
727259 TTTATTTTAAATAATTTAATAGTATGGATTGATTTATTTT-AA-AA--TATGGGT-T-GA
1 TTGA-TTT--AT--TTTAA-AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
* * *** *
727313 TTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGA
1 TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
727367 TTGATTTATTTTAAAATATGGATTGATTTATT
1 TTGATTTATTTTAAAATATGGATTGATTTATT
727399 ATTGTAGTTG
Statistics
Matches: 398, Mismatches: 69, Indels: 96
0.71 0.12 0.17
Matches are distributed among these distances:
47 4 0.01
48 49 0.12
49 18 0.05
50 12 0.03
51 1 0.00
52 19 0.05
53 12 0.03
54 203 0.51
55 24 0.06
56 2 0.01
57 11 0.03
58 23 0.06
59 9 0.02
60 2 0.01
62 3 0.01
63 3 0.01
64 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (54 bp):
TTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
Found at i:727800 original size:31 final size:31
Alignment explanation
Indices: 727765--727823 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
727755 AGTTGTATGG
* *
727765 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
727796 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
727824 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:731975 original size:29 final size:29
Alignment explanation
Indices: 731940--732016 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 29
731930 CTTTTTCGCT
* *
731940 TAAGTACCTAAAGTATTTTTTGGTTAAAA
1 TAAGTACCTAAAGTATTTTTTAGTCAAAA
*
731969 TAAGTACATAAAGTAATCTTTTTAGTCAAAA
1 TAAGTACCTAAAGT-AT-TTTTTAGTCAAAA
*
732000 TAGGTACCTAAAGTATT
1 TAAGTACCTAAAGTATT
732017 CAATTTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 14 0.34
30 4 0.10
31 23 0.56
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (29 bp):
TAAGTACCTAAAGTATTTTTTAGTCAAAA
Done.