Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015381.1 Kokia drynarioides strain JFW-HI SEQ_130428, 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: 2291099
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Warning! 587 characters in sequence are not A, C, G, or T
File 1 of 8
Found at i:40 original size:17 final size:16
Alignment explanation
Indices: 18--80 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
8 TGGACTTTTC
18 TAAATTTAATTTTATAA
1 TAAATTTAATTTTA-AA
*
35 TAAATTTAAATTTCAAA
1 TAAATTT-AATTTTAAA
* *
52 TAAACTTAAATTTAAAA
1 TAAA-TTTAATTTTAAA
*
69 TAAATTCAATTT
1 TAAATTTAATTT
81 CCAATGGGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 7 0.17
17 25 0.62
18 8 0.20
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATTTAATTTTAAA
Found at i:1622 original size:21 final size:21
Alignment explanation
Indices: 1592--1631 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1582 AAAATGATTT
*
1592 TTTTATTTTTAATTTTTAAAA
1 TTTTAATTTTAATTTTTAAAA
*
1613 TTTTAATTTTGATTTTTAA
1 TTTTAATTTTAATTTTTAA
1632 GGAGTAAAAC
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:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTAATTTTAATTTTTAAAA
Found at i:6759 original size:27 final size:26
Alignment explanation
Indices: 6702--6760 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
6692 TTTTTTTTTC
* * * *
6702 TTTTTGAAATTAATGTTTCTTGTATT
1 TTTTTTAAATTAATATTACTTGAATT
*
6728 ATTTTTAAATTAATATTACTTGCAATT
1 TTTTTTAAATTAATATTACTTG-AATT
6755 TTTTTT
1 TTTTTT
6761 GGTGAATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (26 bp):
TTTTTTAAATTAATATTACTTGAATT
Found at i:9688 original size:18 final size:18
Alignment explanation
Indices: 9654--9688 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9644 TCGATTAACT
* *
9654 GACCGATTAACCGAATTC
1 GACCGATTAAACAAATTC
9672 GACCGATTAAACAAATT
1 GACCGATTAAACAAATT
9689 AATTTAGTTT
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:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (18 bp):
GACCGATTAAACAAATTC
Found at i:16578 original size:16 final size:15
Alignment explanation
Indices: 16557--16628 Score: 72
Period size: 16 Copynumber: 4.5 Consensus size: 15
16547 TGAATTACTG
16557 ATTACAGTCCTATTCC
1 ATTACAG-CCTATTCC
* *
16573 ATTACAACCTCATTTC
1 ATTACAGCCT-ATTCC
* *
16589 ATTACAACCCTATTTC
1 ATTAC-AGCCTATTCC
16605 ATTACAGCTCTATTCC
1 ATTACAGC-CTATTCC
16621 ATTACAGC
1 ATTACAGC
16629 GAACCAAACG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
15 5 0.10
16 39 0.81
17 4 0.08
ACGTcount: A:0.29, C:0.31, G:0.04, T:0.36
Consensus pattern (15 bp):
ATTACAGCCTATTCC
Found at i:16624 original size:32 final size:32
Alignment explanation
Indices: 16565--16626 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
16555 TGATTACAGT
*
16565 CCTATTCCATTACAACCTCATTTCATTACAAC
1 CCTATTCCATTACAACCTCATTCCATTACAAC
* *
16597 CCTATTTCATTAC-AGCTCTATTCCATTACA
1 CCTATTCCATTACAACCTC-ATTCCATTACA
16627 GCGAACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.29, C:0.32, G:0.02, T:0.37
Consensus pattern (32 bp):
CCTATTCCATTACAACCTCATTCCATTACAAC
Found at i:17049 original size:18 final size:20
Alignment explanation
Indices: 17026--17069 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
17016 ATTGTTATTT
17026 GAAATTATA-TAA-TTAAAA
1 GAAATTATATTAATTTAAAA
*
17044 GAAATTATATTAATTTAGAA
1 GAAATTATATTAATTTAAAA
17064 GAAATT
1 GAAATT
17070 TATGTGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
GAAATTATATTAATTTAAAA
Found at i:17350 original size:2 final size:2
Alignment explanation
Indices: 17343--17367 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17333 CAAGTTCAAT
17343 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
17368 TTTTTTTCAA
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:27322 original size:17 final size:17
Alignment explanation
Indices: 27296--27341 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
27286 GGCCCAACAG
* **
27296 AATTTGAATTTATTTTA
1 AATTTAAATTTATTAGA
27313 AATTTAAATTTATTAGA
1 AATTTAAATTTATTAGA
27330 AATTTAAATTTA
1 AATTTAAATTTA
27342 AATTTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
AATTTAAATTTATTAGA
Found at i:29518 original size:29 final size:29
Alignment explanation
Indices: 29366--29562 Score: 163
Period size: 29 Copynumber: 6.8 Consensus size: 29
29356 AAACTTTTCT
* *
29366 AAACTTCCAAAATTTACA-TTTTACCCCC
1 AAACTTCCAAAAATTACATTTTTACCCTC
* *
29394 AAACTTCCCAAAATTACATTTTTACCCTT
1 AAACTTCCAAAAATTACATTTTTACCCTC
* * *
29423 GAATTTCCAAAAATTTCATTTTTGA-CC-C
1 AAACTTCCAAAAATTACATTTTT-ACCCTC
* *
29451 AAATTCTCCTAAAATTACCA-TTTTACCCTC
1 AAACT-TCCAAAAATTA-CATTTTTACCCTC
* *
29481 AAACTTTCCAAAAATTACATTTTTACTCTT
1 AAAC-TTCCAAAAATTACATTTTTACCCTC
* *
29511 GAACTTCCAAAAATTACCATTTTTTCCC-C
1 AAACTTCCAAAAATTA-CATTTTTACCCTC
* *
29540 GAA-TATCCAAAAATTCCATTTTT
1 AAACT-TCCAAAAATTACATTTTT
29563 GGTCGCGAAA
Statistics
Matches: 138, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
28 29 0.21
29 71 0.51
30 37 0.27
31 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.38
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTACCCTC
Found at i:29524 original size:59 final size:57
Alignment explanation
Indices: 29370--29598 Score: 176
Period size: 59 Copynumber: 3.9 Consensus size: 57
29360 TTTTCTAAAC
* *** * **
29370 TTCCAAAATTTACATTTTACCCCCAAACTTCCCAAAATTA-CATTTTTACCCTTGAAT
1 TTCCAAAAATTACATTTTTGACCCAAACTTCCAAAAATTACCA-TTTTACCCTCAAAT
* * *
29427 TTCCAAAAATTTCATTTTTGACCCAAATTCTCCTAAAATTACCATTTTACCCTCAAACT
1 TTCCAAAAATTACATTTTTGACCCAAACT-TCCAAAAATTACCATTTTACCCTCAAA-T
** * *
29486 TTCCAAAAATTACATTTTT-ACTCTTGAACTTCCAAAAATTACCATTTTTTCCC-CGAAT
1 TTCCAAAAATTACATTTTTGAC-C-CAAACTTCCAAAAATTACCA-TTTTACCCTCAAAT
* * * * * * *
29544 ATCCAAAAATTCCATTTTTGGTCGCGAAATTTTCAAAAATTATCATTTTACCCTC
1 TTCCAAAAATTACATTTTT-GAC-CCAAACTTCCAAAAATTACCATTTTACCCTC
29599 GGATGTTTAA
Statistics
Matches: 137, Mismatches: 26, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
57 23 0.17
58 48 0.35
59 54 0.39
60 12 0.09
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (57 bp):
TTCCAAAAATTACATTTTTGACCCAAACTTCCAAAAATTACCATTTTACCCTCAAAT
Found at i:29553 original size:88 final size:87
Alignment explanation
Indices: 29371--29561 Score: 244
Period size: 88 Copynumber: 2.2 Consensus size: 87
29361 TTTCTAAACT
* * *
29371 TCCAAAATTTA-CATTTTACCCCCAAACTTCCCAAAATTACATTTTTACCCTTGAATTTCCAAAA
1 TCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTACATTTTTACCCTTGAACTTCCAAAA
* *
29435 ATTTCATTTTTGACCCAAATTC
66 ATTCCATTTTTGACCCAAATTA
* * *
29457 TCCTAAAATTACCATTTTACCCTCAAACTTTCCAAAAATTACATTTTTACTCTTGAACTTCCAAA
1 TCCAAAAATTACCATTTTACCCCCAAAC-TTCCAAAAATTACATTTTTACCCTTGAACTTCCAAA
** *
29522 AATTACCATTTTTTCCCCGAA-TA
65 AATT-CCATTTTTGACCCAAATTA
29545 TCCAAAAATT-CCATTTT
1 TCCAAAAATTACCATTTT
29562 TGGTCGCGAA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
86 9 0.10
87 22 0.24
88 47 0.52
89 12 0.13
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (87 bp):
TCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTACATTTTTACCCTTGAACTTCCAAAA
ATTCCATTTTTGACCCAAATTA
Found at i:31972 original size:22 final size:22
Alignment explanation
Indices: 31923--31972 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
31913 AATTAAAACA
**
31923 AAAATAAATAAAGTTAAATAATT
1 AAAA-AAATAAAAATAAATAATT
31946 AAAAAAATAAAAATAAA-AATT
1 AAAAAAATAAAAATAAATAATT
*
31967 ACAAAA
1 AAAAAA
31973 GACGAATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 11 0.46
23 4 0.17
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAAAATAAAAATAAATAATT
Found at i:42927 original size:31 final size:32
Alignment explanation
Indices: 42874--42933 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
42864 GAGCCCAATG
*
42874 ACTTAAATAAAAAACTTTTGAATAGTTTTGTA
1 ACTTAAATAAAAAACTTTTGAATAATTTTGTA
* *
42906 ACTTAAAT-GAAAATTTTTGAATAATTTT
1 ACTTAAATAAAAAACTTTTGAATAATTTT
42934 ATGACCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (32 bp):
ACTTAAATAAAAAACTTTTGAATAATTTTGTA
Found at i:45529 original size:23 final size:23
Alignment explanation
Indices: 45468--45535 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 23
45458 AAAAATAATT
*
45468 ATATAGTATTAAATAA-AATAACA
1 ATATAATATT-AATAATAATAACA
*
45491 ATATAATCA-TAATAATAATTACA
1 ATATAAT-ATTAATAATAATAACA
45514 ATA-AATATTAACTAATTAATAA
1 ATATAATATTAA-TAA-TAATAA
45536 TATAAACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 1 0.03
22 11 0.30
23 19 0.51
24 6 0.16
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (23 bp):
ATATAATATTAATAATAATAACA
Found at i:45886 original size:15 final size:15
Alignment explanation
Indices: 45850--45887 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
45840 AAATGACATG
45850 AAAATAAATAACAAC
1 AAAATAAATAACAAC
*
45865 AATATAAATAAACAA-
1 AAAATAAAT-AACAAC
45880 AAAATAAA
1 AAAATAAA
45888 AATAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAATAAATAACAAC
Found at i:46910 original size:49 final size:49
Alignment explanation
Indices: 46845--47608 Score: 545
Period size: 49 Copynumber: 15.6 Consensus size: 49
46835 TTTAATTTGT
* * * *
46845 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCGTCGTCT-CGCCTTCAACCTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGT-TACGACTTCAACCTA
* * * * * * * * *
46894 TCCCTTTTCTATTTTAAGGTGTAAGATTCGTCGTTGCGACTTCAATCTT
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * * *
46943 TCCCTCTTCGA-TTTAGGGTGTTAGGTCCGTCATTACGATTTCAACCTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * * * *
46991 TCCCTCTTCGATTTTAAGGTGTTAAGTCCACCATTGCGGCTTCAACCTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* ** * ** * *
47040 TCCCTCTTC-AGTTTTAAGGTGTAAGGTTTACCGTCGCGGCTTCAACCTT
1 TCCCTCTTCGA-TTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * * * * ** * * * *
47089 TCCCTTTTTGGTTTTAAGGTGTTAGATTCGCCATTACAACTTAAATCTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * *
47138 TCCCTCTTCTG-TTTTAAGGTGTTAGGTCCGTCATTATGACTTCAACCTA
1 TCCCTCTTC-GATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * * * * * * * * *
47187 TTCCTATTCGATTTTAAGCTGTAAGATCCGTTGTTATGACTTCAATCTT
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
** ** * *
47236 TCCCTCTTCGATTTTTTTGGTGTTAGGTCTGTCGTTGCGACTTTAACCTA
1 TCCCTCTTCGA-TTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * * * * * * *
47286 TCCCTATTCAATTTTAAGGTGTGAAGTCCATCGTTACGGCTTTAATCTT
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * * * *
47335 TCCCTCTTCGATTTTAGGGTGTTAGATCTACCGTTACGACTTCAATCTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * * * ** * *
47384 TCTCTTTTCGATTTTAGGGTGTTAGGTTCATTATTGCGTCTTCAACCTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
* * * * * ** *
47433 TCACTCTTCGATTTTAAAGTGTAAGATCCACCGTTAC-AGCTTCAATATT
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGA-CTTCAACCTA
*
47482 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTGC-AGCTTCAACCTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGA-CTTCAACCTA
* * * * *
47531 TCCCTCTTC-AGTTTTAAGGTGTAAGGTCCACCGTTATGGCTTCAACCTT
1 TCCCTCTTCGA-TTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
47580 TCCCTCTTCGATTTT-AGGATGTTAGGTCC
1 TCCCTCTTCGATTTTAAGG-TGTTAGGTCC
47609 GCCGTTGTGG
Statistics
Matches: 556, Mismatches: 147, Indels: 24
0.76 0.20 0.03
Matches are distributed among these distances:
48 46 0.08
49 473 0.85
50 37 0.07
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (49 bp):
TCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGACTTCAACCTA
Found at i:51967 original size:24 final size:24
Alignment explanation
Indices: 51938--52053 Score: 169
Period size: 24 Copynumber: 4.8 Consensus size: 24
51928 CATACAAGAT
** *
51938 TTAGCTCACACGAGCCCAGAATGA
1 TTAGCTCTTACGAGCCCAGAATGG
51962 TTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
51986 TTAGCTCTTATGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
* *
52010 TTAGCTCTTACGAGCCAAAAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
52034 TTAGCTCTTATGAGCCCAGA
1 TTAGCTCTTACGAGCCCAGA
52054 CAGAGTTTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:54092 original size:24 final size:24
Alignment explanation
Indices: 54067--54110 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
54057 CTCACTTTTT
54067 TTTTTCT-TCTCTTT-TTTTTCCC
1 TTTTTCTCTCTCTTTATTTTTCCC
*
54089 TTTTTCTCTCTTTTTATTTTTC
1 TTTTTCTCTCTCTTTATTTTTC
54111 TAGTTTGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTCTCTCTCTTTATTTTTCCC
Found at i:61694 original size:29 final size:29
Alignment explanation
Indices: 61622--61685 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
61612 CAATCAAATA
* * *
61622 TAATTAATAACATAAAAATATAATTATAG
1 TAATAAATAAAATAAAAATATAATCATAG
* *
61651 TATTAAATAAAATAACAATATAATCATAG
1 TAATAAATAAAATAAAAATATAATCATAG
61680 TAATAA
1 TAATAA
61686 TGACAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (29 bp):
TAATAAATAAAATAAAAATATAATCATAG
Found at i:61954 original size:4 final size:4
Alignment explanation
Indices: 61945--62008 Score: 51
Period size: 4 Copynumber: 15.2 Consensus size: 4
61935 AAATTTAATT
* *
61945 ATAA ATAA ATAA ATAA ACAA ATAA GATAA TAAAA ATAA ATGCAA ATTAA
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATAA -ATAA ATAA AT--AA A-TAA
61994 ATAA A-AA AT-A ATAA A
1 ATAA ATAA ATAA ATAA A
62009 AGAGATAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
3 6 0.12
4 29 0.59
5 10 0.20
6 3 0.06
7 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:62027 original size:6 final size:6
Alignment explanation
Indices: 62013--62063 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
62003 AATAAAAGAG
* * * *
62013 ATAACA ATAAAA ATAAGA ATATAA ATAAACA AAAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA-A ATAAAA ATAAAA ATAAAA
62062 AT
1 AT
62064 TAAATGCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:62043 original size:25 final size:25
Alignment explanation
Indices: 62015--62063 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
62005 TAAAAGAGAT
* * *
62015 AACAATAAAAATAAGAATATAAATA
1 AACAAAAAAAATAAAAATAAAAATA
62040 AACAAAAAAAATAAAAATAAAAAT
1 AACAAAAAAAATAAAAATAAAAAT
62064 TAAATGCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (25 bp):
AACAAAAAAAATAAAAATAAAAATA
Found at i:62142 original size:15 final size:16
Alignment explanation
Indices: 62121--62162 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
62111 ATTAGGCATG
*
62121 AAAATAAATGAA-AAA
1 AAAATAAATAAACAAA
*
62136 TAAATAAATAAACAAA
1 AAAATAAATAAACAAA
62152 AAAAT-AATAAA
1 AAAATAAATAAA
62163 TTAAATGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAATAAATAAACAAA
Found at i:62175 original size:20 final size:19
Alignment explanation
Indices: 62152--62200 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
62142 AATAAACAAA
*
62152 AAAATAATAAATTAAATGT
1 AAAATAATAAATTAAATAT
62171 CAAAATAA-ATAATTAAATAT
1 -AAAATAATA-AATTAAATAT
62191 -AAATAATAAA
1 AAAATAATAAA
62201 AAAAGAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.31
19 2 0.08
20 16 0.62
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATAATAAATTAAATAT
Found at i:77142 original size:23 final size:24
Alignment explanation
Indices: 77110--77159 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
77100 GTATATTGGT
*
77110 TAACTATTCTGGGCTCGTAAGAGC
1 TAACTATTCTGGGCTCGTAAGACC
77134 TAAC-ATTCTGGGCTCGTAAGACC
1 TAACTATTCTGGGCTCGTAAGACC
77157 TAA
1 TAA
77160 TGTTGTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
TAACTATTCTGGGCTCGTAAGACC
Found at i:81650 original size:24 final size:23
Alignment explanation
Indices: 81601--81659 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
81591 ATGAGCCATG
81601 CATAAATTATTTAAATATTAAGA
1 CATAAATTATTTAAATATTAAGA
*
81624 CATAAATTATATTTAATAATTAA-A
1 CATAAATTAT-TTAAAT-ATTAAGA
*
81648 CATGAATTATTT
1 CATAAATTATTT
81660 CATTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 12 0.38
24 15 0.47
25 5 0.16
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (23 bp):
CATAAATTATTTAAATATTAAGA
Found at i:83946 original size:21 final size:22
Alignment explanation
Indices: 83893--83948 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
83883 TTGTTTTTAC
*
83893 TGTTATTTTTGCTACTATTTTGGT
1 TGTTATTTTT--TACTATTTTGGA
*
83917 TGTTA-TTTTTAGTA-TTTGGA
1 TGTTATTTTTTACTATTTTGGA
83937 TGTTATTTTTTA
1 TGTTATTTTTTA
83949 TGCATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 10 0.34
23 4 0.14
24 5 0.17
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (22 bp):
TGTTATTTTTTACTATTTTGGA
Found at i:84108 original size:12 final size:12
Alignment explanation
Indices: 84091--84115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84081 TTTGTTTATT
84091 TTTTAATGTTTG
1 TTTTAATGTTTG
84103 TTTTAATGTTTG
1 TTTTAATGTTTG
84115 T
1 T
84116 AAGTGTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTTAATGTTTG
Found at i:97777 original size:2 final size:2
Alignment explanation
Indices: 97770--97808 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
97760 TCATAGCGTC
97770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97809 CAATCATAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100674 original size:15 final size:15
Alignment explanation
Indices: 100646--100688 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
100636 CATTATTTAA
* * *
100646 ATTTGAGATGATATT
1 ATTTGAAATAATATG
100661 ATTTGAAATAATATG
1 ATTTGAAATAATATG
100676 ATTTTGAAATAAT
1 A-TTTGAAATAAT
100689 TCAATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (15 bp):
ATTTGAAATAATATG
Found at i:100799 original size:16 final size:16
Alignment explanation
Indices: 100772--100809 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
100762 AATTGAAAGA
*
100772 TCAAATTTAAAATAAT
1 TCAAACTTAAAATAAT
*
100788 TTAAACTTAAAATAAT
1 TCAAACTTAAAATAAT
100804 TCAAAC
1 TCAAAC
100810 CCAAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
TCAAACTTAAAATAAT
Found at i:108133 original size:23 final size:23
Alignment explanation
Indices: 108107--108192 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
108097 AATGTTCACA
*
108107 AACATGTTCATTTAAC-TTAATCG
1 AACATGTTCA-TGAACATTAATCG
* *
108130 AACATGTTCACGAACATTAAACG
1 AACATGTTCATGAACATTAATCG
*
108153 AACATGTTCATGAACATATAATTG
1 AACATGTTCATGAACAT-TAATCG
*
108177 AACATGTTCACGAACA
1 AACATGTTCATGAACA
108193 ATGTTAATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.59
24 19 0.35
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (23 bp):
AACATGTTCATGAACATTAATCG
Found at i:108145 original size:12 final size:12
Alignment explanation
Indices: 108128--108197 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
108118 TTAACTTAAT
108128 CGAACATGTTCA
1 CGAACATGTTCA
**
108140 CGAACAT-TAAA
1 CGAACATGTTCA
108151 CGAACATGTTCA
1 CGAACATGTTCA
* * *
108163 TGAACAT-ATAA
1 CGAACATGTTCA
*
108174 TTGAACATGTTCA
1 -CGAACATGTTCA
108187 CGAACAATGTT
1 CGAAC-ATGTT
108198 AATGAATAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
11 11 0.25
12 26 0.59
13 7 0.16
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:110275 original size:17 final size:17
Alignment explanation
Indices: 110247--110319 Score: 103
Period size: 17 Copynumber: 4.4 Consensus size: 17
110237 TTGGAAATTG
110247 AATTTA-TTTAAATTTA
1 AATTTATTTTAAATTTA
*
110263 AGTTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
110280 AATTTATTTGAAATTTA
1 AATTTATTTTAAATTTA
* *
110297 AATTTATTATAAAATTA
1 AATTTATTTTAAATTTA
110314 AATTTA
1 AATTTA
110320 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
16 5 0.10
17 45 0.90
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:110295 original size:7 final size:6
Alignment explanation
Indices: 110252--110319 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
110242 AATTGAATTT
* *
110252 ATTTAA ATTTAA GTTT-A TTTTAA ATTTAA ATTT-- ATTTGAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA
*
110298 ATTT-- ATTATAA AATTAA ATTTA
1 ATTTAA ATT-TAA ATTTAA ATTTA
110320 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
4 7 0.14
5 5 0.10
6 32 0.64
7 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:111077 original size:3 final size:3
Alignment explanation
Indices: 111071--111097 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
111061 ATAATAAATT
111071 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
111098 ATGTAACATT
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):
TAA
Found at i:112238 original size:29 final size:29
Alignment explanation
Indices: 112184--112729 Score: 373
Period size: 30 Copynumber: 18.6 Consensus size: 29
112174 CCCTGAAGGT
*
112184 CCCTAAACTGTTCAAAAAT-TCTATTTTTAC
1 CCCTAAACT-TCCAAAAATCTC-ATTTTTAC
112214 CCCTAAACTTCCAAAAATCTCATTTTTAAC
1 CCCTAAACTTCCAAAAATCTCATTTTT-AC
* *
112244 CCCAAAACTTACAAAAAT-TCCATTTTTA-
1 CCCTAAACTTCCAAAAATCT-CATTTTTAC
* *
112272 TCCTCGAACTTCCAAAAATCTCATTTTTGAC
1 CCCT-AAACTTCCAAAAATCTCATTTTT-AC
* * *
112303 CACAAAACTTCCAAAAAT-TCCAATTTTAC
1 CCCTAAACTTCCAAAAATCT-CATTTTTAC
112332 CCCTAAACTTCCAAAAATCTCATTTTTGAC
1 CCCTAAACTTCCAAAAATCTCATTTTT-AC
* * * **
112362 CTCAAAACTTCCAAAAATTTTGTTTTTATC
1 CCCTAAACTTCCAAAAATCTCATTTTTA-C
* *
112392 CCC-GAACTTCCAAAAATCTCAGTTTTGAC
1 CCCTAAACTTCCAAAAATCTCA-TTTTTAC
* *
112421 CCCGAAACTTCCAAAAAT-TCTGTTTTTA-
1 CCCTAAACTTCCAAAAATCTC-ATTTTTAC
* * *
112449 CCCTCGAACTTCCAAAAA-CACTATTTTTGAT
1 CCCT-AAACTTCCAAAAATCTC-ATTTTT-AC
* * *
112480 CCCGAAATTTCTAAAAAT-TCCATTTTTAC
1 CCCTAAACTTCCAAAAATCT-CATTTTTAC
** * *
112509 CCCCGAACTTCCAAAAATCCCA-TTTTCC
1 CCCTAAACTTCCAAAAATCTCATTTTTAC
* * * * *
112537 CCCTGAAGTTCCCAAATTCCCATTTTTGAC
1 CCCTAAACTTCCAAAAATCTCATTTTT-AC
* * * *
112567 TCCGAAACTTCCAAAAATCCCA-TTTTCC
1 CCCTAAACTTCCAAAAATCTCATTTTTAC
** *
112595 CCCCGAACTTCCAAAAATCCCAGTTTTTAC
1 CCCTAAACTTCCAAAAATCTCA-TTTTTAC
* *
112625 CTCGAAACTT-C-AAAATCTCCATTTTTAC
1 CCCTAAACTTCCAAAAATCT-CATTTTTAC
* * *
112653 CCCCAAACTTTCAAAAATCCCATTTTTGAC
1 CCCTAAACTTCCAAAAATCTCATTTTT-AC
* *
112683 CTCGAAACTTCCAAAAAT-TCCATTTTTAC
1 CCCTAAACTTCCAAAAATCT-CATTTTTAC
***
112712 CCCCGCACTTCCAAAAAT
1 CCCTAAACTTCCAAAAAT
112730 ACCGTTTTTG
Statistics
Matches: 410, Mismatches: 76, Indels: 61
0.75 0.14 0.11
Matches are distributed among these distances:
28 69 0.17
29 157 0.38
30 179 0.44
31 5 0.01
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.32
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATCTCATTTTTAC
Found at i:112288 original size:59 final size:58
Alignment explanation
Indices: 112196--112795 Score: 465
Period size: 59 Copynumber: 10.2 Consensus size: 58
112186 CTAAACTGTT
* * * * *
112196 CAAAAATTCTATTTTTACCCCTAAACTTCCAAAAATCTCATTTTTAACCCCAAAACTTA
1 CAAAAATTCCATTTTTACCTC-GAACTTCCAAAAATCTCATTTTTGACCCCAAAACTTC
*
112255 CAAAAATTCCATTTTTATCCTCGAACTTCCAAAAATCTCATTTTTGACCACAAAACTTC
1 CAAAAATTCCATTTTTA-CCTCGAACTTCCAAAAATCTCATTTTTGACCCCAAAACTTC
* * * *
112314 CAAAAATTCCAATTTTACCCCTAAACTTCCAAAAATCTCATTTTTGACCTCAAAACTTC
1 CAAAAATTCCATTTTTACCTC-GAACTTCCAAAAATCTCATTTTTGACCCCAAAACTTC
*** * * *
112373 CAAAAATTTTGTTTTTATCCCCGAACTTCCAAAAATCTCAGTTTTGACCCCGAAACTTC
1 CAAAAATTCCATTTTTA-CCTCGAACTTCCAAAAATCTCATTTTTGACCCCAAAACTTC
** * * * *
112432 CAAAAATTCTGTTTTTACCCTCGAACTTCCAAAAA-CACTATTTTTGATCCCGAAATTTC
1 CAAAAATTCCATTTTTA-CCTCGAACTTCCAAAAATCTC-ATTTTTGACCCCAAAACTTC
* * * * ** *
112491 TAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCA-TTTT-CCCCCTGAAGTTC
1 CAAAAATTCCATTTTTA-CCTCGAACTTCCAAAAATCTCATTTTTGACCCCAAAACTTC
* * * **
112548 C-CAAATTCCCATTTTTGA-CTCCGAAACTTCCAAAAATCCCA-TTTT-CCCCCCGAACTTC
1 CAAAAATT-CCATTTTT-ACCT-CG-AACTTCCAAAAATCTCATTTTTGACCCCAAAACTTC
* * *
112606 CAAAAATCCCAGTTTTTACCTCGAAACTT-C-AAAATCTCCATTTTT-ACCCCCAAACTTT
1 CAAAAATTCCA-TTTTTACCTCG-AACTTCCAAAAATCT-CATTTTTGACCCCAAAACTTC
* ***
112664 CAAAAATCCCATTTTTGACCTCGAAACTTCCAAAAAT-TCCATTTTT-ACCCCCGCACTTC
1 CAAAAATTCCATTTTT-ACCTCG-AACTTCCAAAAATCT-CATTTTTGACCCCAAAACTTC
* * * * * **
112723 CAAAAATACCGTTTTTGATCTCGAAATTTCTAAAAAT-TCTATTTTT-ACCCCCGAA-TATC
1 CAAAAATTCCATTTTT-ACCTCG-AACTTCCAAAAATCTC-ATTTTTGACCCCAAAACT-TC
*
112782 TAAAAATTCCATTT
1 CAAAAATTCCATTT
112796 AAAAAAAAAA
Statistics
Matches: 464, Mismatches: 58, Indels: 38
0.83 0.10 0.07
Matches are distributed among these distances:
56 12 0.03
57 26 0.06
58 94 0.20
59 318 0.69
60 14 0.03
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (58 bp):
CAAAAATTCCATTTTTACCTCGAACTTCCAAAAATCTCATTTTTGACCCCAAAACTTC
Found at i:112737 original size:29 final size:29
Alignment explanation
Indices: 112196--112795 Score: 406
Period size: 29 Copynumber: 20.5 Consensus size: 29
112186 CTAAACTGTT
* **
112196 CAAAAATTCTATTTTTACCCCTAAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTC
** *
112225 CAAAAA-TCTCATTTTTAACCCCAAAACTTA
1 CAAAAATTC-CATTTTT-ACCCCCGAACTTC
* *
112255 CAAAAATTCCATTTTTATCCTCGAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTC
* **
112284 CAAAAA-TCTCATTTTTGACCACAAAACTTC
1 CAAAAATTC-CATTTTT-ACCCCCGAACTTC
* **
112314 CAAAAATTCCAATTTTACCCCTAAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTC
* **
112343 CAAAAA-TCTCATTTTTGACCTCAAAACTTC
1 CAAAAATTC-CATTTTT-ACCCCCGAACTTC
*** *
112373 CAAAAATTTTGTTTTTATCCCCGAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTC
*
112402 CAAAAA-TCTCAGTTTTGA-CCCCGAAACTTC
1 CAAAAATTC-CA-TTTTTACCCCCG-AACTTC
** *
112432 CAAAAATTCTGTTTTTACCCTCGAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTC
** * * *
112461 CAAAAACACTATTTTTGA-TCCCGAAATTTC
1 CAAAAATTCCATTTTT-ACCCCCG-AACTTC
*
112491 TAAAAATTCCATTTTTACCCCCGAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTC
* *
112520 CAAAAATCCCA-TTTT-CCCCCTGAAGTTC
1 CAAAAATTCCATTTTTACCCCC-GAACTTC
* *
112548 C-CAAATTCCCATTTTTGA-CTCCGAAACTTC
1 CAAAAATT-CCATTTTT-ACCCCCG-AACTTC
* *
112578 CAAAAATCCCA-TTTTCCCCCCGAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTC
* *
112606 CAAAAATCCCAGTTTTTA-CCTCGAAACTT-
1 CAAAAATTCCA-TTTTTACCCCCG-AACTTC
* *
112635 C-AAAATCTCCATTTTTACCCCCAAACTTT
1 CAAAAAT-TCCATTTTTACCCCCGAACTTC
* *
112664 CAAAAATCCCATTTTTGA-CCTCGAAACTTC
1 CAAAAATTCCATTTTT-ACCCCCG-AACTTC
*
112694 CAAAAATTCCATTTTTACCCCCGCACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTC
* * * * *
112723 CAAAAATACCGTTTTTGA-TCTCGAAATTTC
1 CAAAAATTCCATTTTT-ACCCCCG-AACTTC
* *
112753 TAAAAATTCTATTTTTACCCCCGAA-TATC
1 CAAAAATTCCATTTTTACCCCCGAACT-TC
*
112782 TAAAAATTCCATTT
1 CAAAAATTCCATTT
112796 AAAAAAAAAA
Statistics
Matches: 450, Mismatches: 82, Indels: 78
0.74 0.13 0.13
Matches are distributed among these distances:
27 9 0.02
28 55 0.12
29 195 0.43
30 180 0.40
31 11 0.02
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (29 bp):
CAAAAATTCCATTTTTACCCCCGAACTTC
Found at i:124758 original size:37 final size:37
Alignment explanation
Indices: 124708--124853 Score: 112
Period size: 37 Copynumber: 3.6 Consensus size: 37
124698 AAAAGGTTAG
*
124708 CTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGC
1 CTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGC
* * * *
124745 CTTCTTGAGGAGATACAGAGAAGCGAGTTGAAACAAATGACGCGATC
1 CTTCCTGATGAGATACAGAG-A---AG-TGAACCAAAT---TCG--C
* * *
124792 ATCTTCTTGATAAGATACTGAGAAGTGAACCAAATTCGC
1 --CTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGC
124831 CTTCCTGATGAGATACAGAGAAG
1 CTTCCTGATGAGATACAGAGAAG
124854 CGAGTTGAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
37 37 0.44
38 1 0.01
39 1 0.01
41 4 0.05
42 9 0.11
44 9 0.11
45 4 0.05
47 1 0.01
48 1 0.01
49 17 0.20
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (37 bp):
CTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGC
Found at i:124863 original size:86 final size:86
Alignment explanation
Indices: 124708--124902 Score: 291
Period size: 86 Copynumber: 2.3 Consensus size: 86
124698 AAAAGGTTAG
* *
124708 CTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGCCTTCTTGAGGAGATACAGAGAAGCGAGT
1 CTTCCTGATAAGATACTGAGAAGTGAACCAAATTCGCCTTCCTGAGGAGATACAGAGAAGCGAGT
*
124773 TGAAACAAATGACGCGATCAT
66 TGAAACAAACGACGCGATCAT
* *
124794 CTTCTTGATAAGATACTGAGAAGTGAACCAAATTCGCCTTCCTGATGAGATACAGAGAAGCGAGT
1 CTTCCTGATAAGATACTGAGAAGTGAACCAAATTCGCCTTCCTGAGGAGATACAGAGAAGCGAGT
* *
124859 TGAAACAAACGACGTGGTCAT
66 TGAAACAAACGACGCGATCAT
* ** *
124880 CTTTCTGACGAGACACTGAGAAG
1 CTTCCTGATAAGATACTGAGAAG
124903 AAGTCCCAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 97 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (86 bp):
CTTCCTGATAAGATACTGAGAAGTGAACCAAATTCGCCTTCCTGAGGAGATACAGAGAAGCGAGT
TGAAACAAACGACGCGATCAT
Found at i:125223 original size:204 final size:201
Alignment explanation
Indices: 124812--125231 Score: 497
Period size: 204 Copynumber: 2.1 Consensus size: 201
124802 TAAGATACTG
* * *
124812 AGAAGTGAACCAAATTCGCCTTCCTGATGAGATACAGAGAAGCGAGTTGAAACAAACGACGTGGT
1 AGAAGTGAACCAAATTCACCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGACGTGAT
* * * ** * *
124877 CATCTTTCTGACGAGACACTGAGAAGAAGTCCCAAACAAAGCTCAAAGTGAGCAACGTCTTTGAA
66 CATCTTCCTGACGAGACACTGAAAAGAAGACCCAAACAAAGCTCAAAACGAGCAACATCTTCGAA
* * *
124942 CCCCAACTTCCTAATGAGACACTGAGAAGTAGGTCGAAGCAATAGAAGGTTAGCTTCCTGATGAG
131 CCCCAACTTCCTAATAAGACACTAAGAAGTAGGTCGAAGCAATAGAAGGTTAGCTCCCTGATGAG
* **
125007 GTACTG
196 ATACCA
* * *
125013 AGAAGTGAACCAAATTCATCTTCC-GAATGAGATACGGAGGAGCGAATTGAAACAAAC-AGCGAT
1 AGAAGTGAACCAAATTCACCTTCCTG-ATGAGATACAGAGAAGCGAATTGAAACAAACGA-CG-T
* * * * *
125076 GTAATCATCTTCCTGATGGGGCACTGAAAAGAAGACCCAAACGAGGCTCAAAACGAGCAA-ATCT
63 G--ATCATCTTCCTGACGAGACACTGAAAAGAAGACCCAAACAAAGCTCAAAACGAGCAACATCT
* * * *
125140 TCGAACCCCAGCTTCCTGATAAGACGCTAAGAAGTAGGTCGAAGCCATA-AAGTGGTTAGCTCCC
126 TCGAACCCCAACTTCCTAATAAGACACTAAGAAGTAGGTCGAAGCAATAGAA--GGTTAGCTCCC
125204 TGATGAGATACCA
189 TGATGAGATACCA
125217 AGAAGTGAACCAAAT
1 AGAAGTGAACCAAAT
125232 CCTAATGAAA
Statistics
Matches: 184, Mismatches: 28, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
200 2 0.01
201 52 0.28
202 4 0.02
203 45 0.24
204 81 0.44
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (201 bp):
AGAAGTGAACCAAATTCACCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGACGTGAT
CATCTTCCTGACGAGACACTGAAAAGAAGACCCAAACAAAGCTCAAAACGAGCAACATCTTCGAA
CCCCAACTTCCTAATAAGACACTAAGAAGTAGGTCGAAGCAATAGAAGGTTAGCTCCCTGATGAG
ATACCA
Found at i:125662 original size:17 final size:17
Alignment explanation
Indices: 125634--125689 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 17
125624 TTGGAAATTG
125634 AATTTA-TTTAAATTTA
1 AATTTATTTTAAATTTA
*
125650 AGTTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
125667 AATTTATTATAAAATTA
1 AATTTATTTTAAATTTA
125684 AATTTA
1 AATTTA
125690 GAAAGTCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
16 5 0.14
17 30 0.86
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:125749 original size:15 final size:15
Alignment explanation
Indices: 125729--125760 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
125719 GTACAGATCT
*
125729 AAATGGGCCAATTAC
1 AAATGGCCCAATTAC
125744 AAATGGCCCAATTAC
1 AAATGGCCCAATTAC
125759 AA
1 AA
125761 TCTTGGACCC
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:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (15 bp):
AAATGGCCCAATTAC
Found at i:126450 original size:3 final size:3
Alignment explanation
Indices: 126444--126479 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
126434 ATAAATTTAT
126444 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
126480 ATGTAACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:127672 original size:59 final size:59
Alignment explanation
Indices: 127574--128032 Score: 625
Period size: 59 Copynumber: 7.7 Consensus size: 59
127564 GAAGGTCCCT
** * ***
127574 AAACTGTCCAAAAATTTTATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACCTTG
1 AAACT-TCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
127634 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCC-TTATTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATT-TTTGACCCCA
* *
127693 AAACTTCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAATCTCATTTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
** *
127752 AAACTTCCAAAAATTCCATTTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACCCTA
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
* * *
127811 AAACTTTCAAAAATTCCATTTTTATCCTCGAACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
** * * * *
127870 AAACTTCCAAAAATTCCATTTTTACCCCTAAACTTCCAAAAA-CATCGTTTTTGATCCCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATC-CCATTTTTGACCCCA
* * * * * **
127929 AAATTTCTAAAAATTCCATTTTTTCCCCCGAACTTTTCAAAAATCCCATTTTTGACTCTG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAAC-TTCCAAAAATCCCATTTTTGACCCCA
127989 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATC
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATC
128033 TAATTTTCCC
Statistics
Matches: 353, Mismatches: 41, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
58 3 0.01
59 294 0.83
60 55 0.16
61 1 0.00
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
Found at i:128166 original size:30 final size:29
Alignment explanation
Indices: 127574--128162 Score: 525
Period size: 30 Copynumber: 20.0 Consensus size: 29
127564 GAAGGTCCCT
** *
127574 AAACTGTCCAAAAATTTTATTTTTACCCCC
1 AAACT-TCCAAAAATTCCATTTTTACCCCG
* **
127604 AAACTTCCAAAAATCCCATTTTTGACCTTG
1 AAACTTCCAAAAATTCCATTTTT-ACCCCG
127634 AAACTTCCAAAAATTCCATTTTTACCCCCG
1 AAACTTCCAAAAATTCCATTTTTA-CCCCG
* *
127664 -AACTTCCAAAAA-TCCCTTATTTGACCCCA
1 AAACTTCCAAAAATTCCATT-TTT-ACCCCG
*
127693 AAACTTCCAAAAATTCCATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCG
*
127722 AAACTTCCAAAAA-TCTCATTTTTGACCCCA
1 AAACTTCCAAAAATTC-CATTTTT-ACCCCG
*
127752 AAACTTCCAAAAATTCCATTTTTACCCCT
1 AAACTTCCAAAAATTCCATTTTTACCCCG
* **
127781 AAACTTCCAAAAATCCCATTTTTGACCCTA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCG
* *
127811 AAACTTTCAAAAATTCCATTTTTATCCTCG
1 AAACTTCCAAAAATTCCATTTTTA-CCCCG
* *
127841 -AACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCG
*
127870 AAACTTCCAAAAATTCCATTTTTACCCCT
1 AAACTTCCAAAAATTCCATTTTTACCCCG
* * *
127899 AAACTTCCAAAAACAT-CGTTTTTGATCCCG
1 AAACTTCCAAAAA-TTCCATTTTT-ACCCCG
* * *
127929 AAATTTCTAAAAATTCCATTTTTTCCCCCG
1 AAACTTCCAAAAATTCCA-TTTTTACCCCG
* * * *
127959 -AACTTTTCAAAAATCCCATTTTTGACTCTG
1 AAAC-TTCCAAAAATTCCATTTTT-ACCCCG
127989 AAACTTCCAAAAATTCCATTTTTACCCCCG
1 AAACTTCCAAAAATTCCATTTTTA-CCCCG
* * *
128019 -AACTTCCAAAAA-TCTAATTTTCCCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCC-CG
* *
128047 -AACTTCC-AAAACTCCAATTTTTAACCTCG
1 AAACTTCCAAAAATTCC-ATTTTT-ACCCCG
*
128076 AAACTTCCAAAAATTCTATTTTTACCCCCG
1 AAACTTCCAAAAATTCCATTTTTA-CCCCG
* * ** *
128106 -TACATCCAAAAACACCATTTTTTATCCCG
1 AAACTTCCAAAAATTCCA-TTTTTACCCCG
* * *
128135 AAATTTCTAAAAATTCTATTTTTACCCC
1 AAACTTCCAAAAATTCCATTTTTACCCC
128163 CGAATGTCTA
Statistics
Matches: 455, Mismatches: 74, Indels: 61
0.77 0.13 0.10
Matches are distributed among these distances:
27 7 0.02
28 25 0.05
29 189 0.42
30 213 0.47
31 21 0.05
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTTACCCCG
Found at i:128176 original size:59 final size:60
Alignment explanation
Indices: 128006--128166 Score: 188
Period size: 59 Copynumber: 2.8 Consensus size: 60
127996 CAAAAATTCC
* * * * *
128006 ATTTTTACCCCCG-AACTTCCAAAAA-TCTAATTTT-CCCCTCGAACTTCC-AAAACTCCA
1 ATTTTTAACCTCGAAACTTCCAAAAATTCTATTTTTACCCC-CGAACATCCAAAAACACCA
*
128063 ATTTTTAACCTCGAAACTTCCAAAAATTCTATTTTTACCCCCGTACATCCAAAAACACCA
1 ATTTTTAACCTCGAAACTTCCAAAAATTCTATTTTTACCCCCGAACATCCAAAAACACCA
* * * *
128123 TTTTTTATCC-CGAAATTTCTAAAAATTCTATTTTTACCCCCGAA
1 ATTTTTAACCTCGAAACTTCCAAAAATTCTATTTTTACCCCCGAA
128167 TGTCTAAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
57 11 0.12
58 12 0.13
59 46 0.52
60 20 0.22
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.34
Consensus pattern (60 bp):
ATTTTTAACCTCGAAACTTCCAAAAATTCTATTTTTACCCCCGAACATCCAAAAACACCA
Found at i:132566 original size:31 final size:31
Alignment explanation
Indices: 132528--132589 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
132518 TTCAAAAGAA
132528 TGGTTATATCAATCTAAGTAATGATGAGTTT
1 TGGTTATATCAATCTAAGTAATGATGAGTTT
132559 TGGTTATATCAATCTAAGTAATGATGAGTTT
1 TGGTTATATCAATCTAAGTAATGATGAGTTT
132590 GTGGATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (31 bp):
TGGTTATATCAATCTAAGTAATGATGAGTTT
Found at i:136511 original size:74 final size:73
Alignment explanation
Indices: 136422--136565 Score: 252
Period size: 74 Copynumber: 2.0 Consensus size: 73
136412 TTAATGTGAC
* *
136422 TATTACATAATATTCCAAGAAGCATTTTCATGGAGGGTTAATCTATTACATTTGTTCTTCTAACA
1 TATTACATAATATTCCAAGAAGCATTTTCATGAAGGGTTAATCCATTACA-TTGTTCTTCTAACA
136487 TTTACCTAT
65 TTTACCTAT
*
136496 TATTACATAATATTCCAAGAAGCATTTTCATGAAGGGTTAATCCATTATATTGTTCTTCTAACAT
1 TATTACATAATATTCCAAGAAGCATTTTCATGAAGGGTTAATCCATTACATTGTTCTTCTAACAT
136561 TTACC
66 TTACC
136566 CATCCATTGA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
73 20 0.30
74 47 0.70
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (73 bp):
TATTACATAATATTCCAAGAAGCATTTTCATGAAGGGTTAATCCATTACATTGTTCTTCTAACAT
TTACCTAT
Found at i:139319 original size:40 final size:40
Alignment explanation
Indices: 139256--139369 Score: 120
Period size: 40 Copynumber: 2.9 Consensus size: 40
139246 AGCACTACGA
* * * * * *
139256 TGCTCCTGATAACACTACAGTGCTCTTGATATCACATTCG
1 TGCTCCTGTTAGCACTACGGTGCTCTTAATAGCACATTAG
** ** *
139296 TGCTTTTGTTAGCACTGTGGTGCTCCTAATAGCACATTAG
1 TGCTCCTGTTAGCACTACGGTGCTCTTAATAGCACATTAG
*
139336 TTCTCCTGTTAGCACTACGGTGCTCTTAATAGCA
1 TGCTCCTGTTAGCACTACGGTGCTCTTAATAGCA
139370 TATTTATGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
TGCTCCTGTTAGCACTACGGTGCTCTTAATAGCACATTAG
Found at i:147507 original size:19 final size:20
Alignment explanation
Indices: 147470--147507 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
147460 TGAAAAAAAT
147470 AAAATATATAAACTTTAAAC
1 AAAATATATAAACTTTAAAC
147490 AAAATATATAAA-TTTAAA
1 AAAATATATAAACTTTAAA
147508 AATAGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATATATAAACTTTAAAC
Found at i:149879 original size:3 final size:3
Alignment explanation
Indices: 149871--149899 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
149861 TTTATATTTA
149871 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
149900 AAGTTTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:152223 original size:12 final size:12
Alignment explanation
Indices: 152206--152241 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
152196 TTAAGAAGGG
*
152206 GAAAAATAAGAA
1 GAAAAAGAAGAA
152218 GAAAAAGAAGAA
1 GAAAAAGAAGAA
*
152230 GAAGAAGAAGAA
1 GAAAAAGAAGAA
152242 AATGGAGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (12 bp):
GAAAAAGAAGAA
Found at i:154491 original size:33 final size:33
Alignment explanation
Indices: 154446--154535 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
154436 TTAAACCTAC
* * *
154446 CAGACCACAAACAAACATTTAATACGTCATTAT
1 CAGACCAAAAACAAACATTTAATACATCACTAT
* *
154479 CAGACCAGAAACAAACTTTTAATACATCACTAT
1 CAGACCAAAAACAAACATTTAATACATCACTAT
*
154512 CAGACAAAAAACAAACATTTAATA
1 CAGACCAAAAACAAACATTTAATA
154536 TAACACAGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (33 bp):
CAGACCAAAAACAAACATTTAATACATCACTAT
Found at i:155010 original size:39 final size:40
Alignment explanation
Indices: 154967--155064 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 40
154957 TGCATGTAAT
*
154967 ATATATATCTGTCAAAC-AGTACTTGAATATATATAGAGC
1 ATATATATCTGTCAAACTAGTACTTGAATATATAGAGAGC
***
155006 ATATATAT-AAACAAACTATAGTACTTGAATATATAGAGAGC
1 ATATATATCTGTCAAAC--TAGTACTTGAATATATAGAGAGC
155047 ATTTATATATCTGTCAAA
1 A--TATATATCTGTCAAA
155065 TATAAAATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
38 5 0.11
39 8 0.17
41 22 0.48
43 7 0.15
44 4 0.09
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (40 bp):
ATATATATCTGTCAAACTAGTACTTGAATATATAGAGAGC
Found at i:159423 original size:50 final size:48
Alignment explanation
Indices: 159369--159524 Score: 127
Period size: 50 Copynumber: 3.1 Consensus size: 48
159359 TCGAAATAGT
*
159369 TAAAAACTCAAAACTTTGTTTAAAAATTTAAACATTTTCTTTAAAATTAA
1 TAAAAA-TCAAAACTTTGTTTAAAAATTTAAAC-TTTTATTTAAAATTAA
* *** * **
159419 TAAAAAACAGATTTTTTTTTTTTAAATTTAAACTTTTATTTCGAAATAATTAA
1 TAAAAATCA-AAACTTTGTTTAAAAATTTAAACTTTTATTT---AA-AATTAA
* * *
159472 -AAAAATCAAAACTTTGATGAAAAATTTAAACTTTTTTTTAAAA-TAA
1 TAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTATTTAAAATTAA
159518 CTAAAAA
1 -TAAAAA
159525 ACATATTTTT
Statistics
Matches: 81, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
46 3 0.04
47 2 0.02
48 7 0.09
49 9 0.11
50 23 0.28
51 22 0.27
52 9 0.11
53 6 0.07
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (48 bp):
TAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTATTTAAAATTAA
Found at i:159456 original size:100 final size:100
Alignment explanation
Indices: 159352--159554 Score: 293
Period size: 100 Copynumber: 2.0 Consensus size: 100
159342 AAATCCAAAT
* * * *
159352 TTTTATTTCGAAATAGTT-AAAAACTCAAAACTTTGTTTAAAAATTTAAACATTTTCTTTAAAAT
1 TTTTATTTCGAAATAATTAAAAAAATCAAAACTTTGATGAAAAATTTAAAC-TTTTCTTTAAAA-
* * *
159416 TAA-TAAAAAACAGATTTTTTTTTTTTAAATTTAAAC
64 TAACTAAAAAACAGATTTTTATTTTTAAAATATAAAC
*
159452 TTTTATTTCGAAATAATTAAAAAAATCAAAACTTTGATGAAAAATTTAAACTTTTTTTTAAAATA
1 TTTTATTTCGAAATAATTAAAAAAATCAAAACTTTGATGAAAAATTTAAACTTTTCTTTAAAATA
*
159517 ACTAAAAAACATATTTTTATTTTTAAAATATAAAC
66 ACTAAAAAACAGATTTTTATTTTTAAAATATAAAC
159552 TTT
1 TTT
159555 CTCTTTTTTA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
99 3 0.03
100 60 0.65
101 29 0.32
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (100 bp):
TTTTATTTCGAAATAATTAAAAAAATCAAAACTTTGATGAAAAATTTAAACTTTTCTTTAAAATA
ACTAAAAAACAGATTTTTATTTTTAAAATATAAAC
Found at i:160835 original size:42 final size:42
Alignment explanation
Indices: 160496--160847 Score: 420
Period size: 42 Copynumber: 8.4 Consensus size: 42
160486 ACATCTGGGA
* *
160496 CTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTAGGT
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGC
* * **
160538 CTCTAAATGCGATGAAATGTAAATGGACCTCCACACAGAGGC
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGC
** * * *
160580 CTCTAAATGTGATGAAAAGTAAATGGACCTCCATACATGGGC
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGC
* *
160622 CTCTAAATGCACTGAAAAGTAAATGGACCTCCACACCT-GGAT
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGG-C
* * * ** *
160664 TTCTAAATGCGATGAAAAGTAAATGAACCTCCACATATGGGC
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGC
*
160706 CTCTAAATGCGATGAAAAGTAAATGGACCTCCAC-CCTTAGGC
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACC-TAGGC
* * * *
160748 CTTTAAATACAATGAAAAGTAAATGGATCTCCACACCTGGGC
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGC
* **
160790 CTCTAAATGCAATGAAAAGTAAATAGACCTCCACACCTAAAC
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGC
*
160832 CTCTAAATGTAATGAA
1 CTCTAAATGCAATGAA
160848 TGCTTTGCTT
Statistics
Matches: 264, Mismatches: 42, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
41 2 0.01
42 258 0.98
43 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (42 bp):
CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGC
Found at i:160847 original size:126 final size:125
Alignment explanation
Indices: 160496--160847 Score: 470
Period size: 126 Copynumber: 2.8 Consensus size: 125
160486 ACATCTGGGA
* * *
160496 CTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTAGGTCTCTAAATGCGATGAAATGTAAA
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCGATGAAAAGTAAA
* * *
160561 TGGACCTCCACACAGAGGCCTCTAAATGTGATGAAAAGTAAATGGACCTCCATACATGGGC
66 T-GACCTCCACACATAGGCCTCTAAATGTGATGAAAAGTAAATGGACCTCCACACATAGGC
* * *
160622 CTCTAAATGCACTGAAAAGTAAATGGACCTCCACACCTGGATTTCTAAATGCGATGAAAAGTAAA
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCGATGAAAAGTAAA
* * * * *
160687 TGAACCTCCACATATGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACCCTTAGGC
66 TG-ACCTCCACACATAGGCCTCTAAATGTGATGAAAAGTAAATGGACCTCCACACATAGGC
* * * * *
160748 CTTTAAATACAATGAAAAGTAAATGGATCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAA
1 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCGATGAAAAGTAAA
* ** *
160813 TAGACCTCCACACCTAAACCTCTAAATGTAATGAA
66 T-GACCTCCACACATAGGCCTCTAAATGTGATGAA
160848 TGCTTTGCTT
Statistics
Matches: 195, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
125 1 0.01
126 193 0.99
127 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (125 bp):
CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCGATGAAAAGTAAA
TGACCTCCACACATAGGCCTCTAAATGTGATGAAAAGTAAATGGACCTCCACACATAGGC
Found at i:161274 original size:22 final size:23
Alignment explanation
Indices: 161249--161297 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
161239 GCTCTCTTTA
*
161249 TTTTCTCT-TCTTTTTTTGTTGT
1 TTTTCTCTCTCTTTTTCTGTTGT
*
161271 TTTTCTCTCTCTTTTTCTGTTTT
1 TTTTCTCTCTCTTTTTCTGTTGT
161294 TTTT
1 TTTT
161298 ATTGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTCTCTCTCTTTTTCTGTTGT
Found at i:161291 original size:20 final size:22
Alignment explanation
Indices: 161249--161294 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
161239 GCTCTCTTTA
* *
161249 TTTTCTCTTCTTTTTTTGTTGT
1 TTTTCTCTTCTCTTTTTGCTGT
161271 TTTTCTC-TCTCTTTTT-CTGT
1 TTTTCTCTTCTCTTTTTGCTGT
161291 TTTT
1 TTTT
161295 TTTATTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (22 bp):
TTTTCTCTTCTCTTTTTGCTGT
Found at i:167068 original size:21 final size:21
Alignment explanation
Indices: 167024--167076 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
167014 CCTATGCAAG
*
167024 TTCTACCAATACAAGTATAAC
1 TTCTACCGATACAAGTATAAC
*
167045 TTCTACCGATACAAGTCAT-GC
1 TTCTACCGATACAAGT-ATAAC
167066 TTCTACCGATA
1 TTCTACCGATA
167077 TTAAGAACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTATAAC
Found at i:167748 original size:39 final size:42
Alignment explanation
Indices: 167687--167765 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
167677 TTTAACAACC
* *
167687 GAGTCGTAAATCTTCCTTTTTAAACA-ATCTT-ATGCTCTACA
1 GAGTCATAAATCTTCC-TTTTAAACATAACTTGATGCTCTACA
*
167728 GAGTCATAATTCTTCC-TTTAAACATAACTTGATGCTCT
1 GAGTCATAAATCTTCCTTTTAAACATAACTTGATGCTCT
167766 TTCCGAGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 8 0.24
40 4 0.12
41 21 0.64
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (42 bp):
GAGTCATAAATCTTCCTTTTAAACATAACTTGATGCTCTACA
Found at i:167847 original size:43 final size:43
Alignment explanation
Indices: 167738--168000 Score: 313
Period size: 43 Copynumber: 6.2 Consensus size: 43
167728 GAGTCATAAT
* * * * *
167738 TCTTCC-TTTAAACATAA-CTTGATGCTCTTTCCGAGTCACGAG
1 TCTTCCATTTATACATAATC-TCATGCTCATTCCGAGACATGAG
* * *
167780 TCTTCC--TTAAACATAATCTCATGCTCATTCCAAGTCATGAG
1 TCTTCCATTTATACATAATCTCATGCTCATTCCGAGACATGAG
* * * *
167821 TCTTCAATTTATACATAATCTAATGCTCATTCCGAGTCACGAG
1 TCTTCCATTTATACATAATCTCATGCTCATTCCGAGACATGAG
*
167864 TCTTCCATTTATACATAATCTCATGCTCATCCCGAGACATGAG
1 TCTTCCATTTATACATAATCTCATGCTCATTCCGAGACATGAG
* *
167907 TCTTCCTTTTATACATAATCTCATGCTCA-TCTCAAGACATGAG
1 TCTTCCATTTATACATAATCTCATGCTCATTC-CGAGACATGAG
*
167950 TCTTCTATTTATACATAATCTCATGCTCA-TCTCGAGACATGAG
1 TCTTCCATTTATACATAATCTCATGCTCATTC-CGAGACATGAG
167993 TCTTCCAT
1 TCTTCCAT
168001 CTACGCCAAG
Statistics
Matches: 196, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
41 34 0.17
42 8 0.04
43 154 0.79
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (43 bp):
TCTTCCATTTATACATAATCTCATGCTCATTCCGAGACATGAG
Found at i:167953 original size:129 final size:127
Alignment explanation
Indices: 167738--168000 Score: 345
Period size: 129 Copynumber: 2.1 Consensus size: 127
167728 GAGTCATAAT
* * * *
167738 TCTTCC-TTTAAACATAACTTGATGCTCTTTCCGAGTCACGAGTCTTCCTTAAACATAATCTCAT
1 TCTTCCATTTAAACATAACTTCATGCTCATCCCGAGACACGAGTCTTCCTTAAACATAATCTCAT
* *
167802 GCTCATTCCAAGTCATGAGTCTTCAATTTATACATAATCTAATGCTCAT-TCCGAGTCACGAG
66 GCTCATTCCAAGACATGAGTCTTCAATTTATACATAATCTAATGCTCATCT-CGAGACACGAG
* * *
167864 TCTTCCATTTATACATAA-TCTCATGCTCATCCCGAGACATGAGTCTTCCTTTTATACATAATCT
1 TCTTCCATTTAAACATAACT-TCATGCTCATCCCGAGACACGAGTCTTCC--TTAAACATAATCT
* * *
167928 CATGCTCA-TCTCAAGACATGAGTCTTCTATTTATACATAATCTCATGCTCATCTCGAGACATGA
63 CATGCTCATTC-CAAGACATGAGTCTTCAATTTATACATAATCTAATGCTCATCTCGAGACACGA
167992 G
127 G
167993 TCTTCCAT
1 TCTTCCAT
168001 CTACGCCAAG
Statistics
Matches: 119, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
126 7 0.06
127 34 0.29
128 2 0.02
129 75 0.63
130 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (127 bp):
TCTTCCATTTAAACATAACTTCATGCTCATCCCGAGACACGAGTCTTCCTTAAACATAATCTCAT
GCTCATTCCAAGACATGAGTCTTCAATTTATACATAATCTAATGCTCATCTCGAGACACGAG
Found at i:172884 original size:41 final size:42
Alignment explanation
Indices: 172834--173014 Score: 206
Period size: 43 Copynumber: 4.3 Consensus size: 42
172824 TTTTTAAATG
* * ** *
172834 ATCTTATGCTC-TACAGAGTCATAAGTCCTCCTTTAAACATA
1 ATCTCATGCTCATTCAGAGTCACGAGTCTTCCTTTAAACATA
* *
172875 ATTTCATGCTCATTCTGAGTCACGAGTCTTCC-TTAAACATA
1 ATCTCATGCTCATTCAGAGTCACGAGTCTTCCTTTAAACATA
* *
172916 ATCTCATGCTCATTCCGAGTCACGAGTCTTCCATTTATACATA
1 ATCTCATGCTCATTCAGAGTCACGAGTCTTCC-TTTAAACATA
* * *
172959 ATCTCATGCTCATCCCGAGACACGAGTCTTCCATTTATAA-ATA
1 ATCTCATGCTCATTCAGAGTCACGAGTCTTCC-TTTA-AACATA
173002 ATCTCATGCTCAT
1 ATCTCATGCTCAT
173015 CTCAAGACAT
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
41 48 0.39
42 15 0.12
43 59 0.48
44 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (42 bp):
ATCTCATGCTCATTCAGAGTCACGAGTCTTCCTTTAAACATA
Found at i:172971 original size:43 final size:43
Alignment explanation
Indices: 172857--173081 Score: 235
Period size: 43 Copynumber: 5.3 Consensus size: 43
172847 CAGAGTCATA
* * * * *
172857 AGTCCTCC-TTTAAACATAATTTCATGCTCATTCTGAGTCACG
1 AGTCTTCCATTTATACATAATCTCATGCTCATTCCGAGACACG
* *
172899 AGTCTTCC--TTAAACATAATCTCATGCTCATTCCGAGTCACG
1 AGTCTTCCATTTATACATAATCTCATGCTCATTCCGAGACACG
*
172940 AGTCTTCCATTTATACATAATCTCATGCTCATCCCGAGACACG
1 AGTCTTCCATTTATACATAATCTCATGCTCATTCCGAGACACG
* * *
172983 AGTCTTCCATTTATAAATAATCTCATGCTCA-TCTCAAGACATG
1 AGTCTTCCATTTATACATAATCTCATGCTCATTC-CGAGACACG
* * ** *
173026 AGTCCTCCATTTATGCATAATCTTGTGCTCA-TCTCGAGACATG
1 AGTCTTCCATTTATACATAATCTCATGCTCATTC-CGAGACACG
* *
173069 AGCCTTTCATTTA
1 AGTCTTCCATTTA
173082 CGCCAAGTGA
Statistics
Matches: 161, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
41 39 0.24
42 8 0.05
43 114 0.71
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (43 bp):
AGTCTTCCATTTATACATAATCTCATGCTCATTCCGAGACACG
Found at i:182750 original size:150 final size:149
Alignment explanation
Indices: 182573--183092 Score: 642
Period size: 151 Copynumber: 3.5 Consensus size: 149
182563 AAATCAAAAG
* * * * * * *
182573 TTTTCTTTTGATTAAATCAAAATCACTATTTTACTTCAAAATCAAAACTTTTATTTCTAAATAGT
1 TTTTCTTTT-TTTTAATGAAAAACACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGT
* * *
182638 TAAAAAAATCAAAATTTTGTTTAAAAAATTAAACTTTTTCTTTAAAATCACTAAAAAATAGATTT
65 TAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAAACATATTT
*
182703 TTATTTTTTTAAAATAT-AA
130 TTATTTTTTAAAAATATAAA
* * *
182722 TTTTCTTTCATTTTTAATGAAAAACACTACTTTACTTAAAAATCCAAACTTTTATTTTGAAATTG
1 TTTTCTTT--TTTTTAATGAAAAACACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAG
* *
182787 TTAAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTATTTCTTTAAAATCACTAAAAACCATAT
64 TT-AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAAACATAT
* *
182852 TTTTATTTTTAAAAAATCTAAA
128 TTTTATTTTTTAAAAATATAAA
* * *
182874 TTTTCTTTTTTTTTTAATGAAAATCACTACCTTACTT-AAAATCCAAACTTTTATTTCGAAATAG
1 TTTTC--TTTTTTTTAATGAAAAACACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAG
* * * *
182938 TTTAAAAAATCAAAACTTTGTTT-AAAATTTTAA--TTTT-TTTAAAATAACTAAAAAACATATT
64 TTAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAAACATATT
182999 TTTA-TTTTTAAAAATATAAA
129 TTTATTTTTTAAAAATATAAA
* * *
183019 CTTTCTCTTTTTTTAAAGAAAATA-ACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATTA
1 TTTTCT-TTTTTTTAATGAAAA-ACACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAA-TA
*
183083 TTTAAAAAAA
63 GTTAAAAAAA
183093 AACCAAAACT
Statistics
Matches: 323, Mismatches: 38, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
143 1 0.00
144 24 0.07
145 41 0.13
146 36 0.11
147 3 0.01
149 17 0.05
150 65 0.20
151 101 0.31
152 32 0.10
154 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (149 bp):
TTTTCTTTTTTTTAATGAAAAACACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTT
AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAAACATATTTT
TATTTTTTAAAAATATAAA
Found at i:183494 original size:3 final size:3
Alignment explanation
Indices: 183486--183516 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
183476 TATGAAACCC
*
183486 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
183517 TTGGGCTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:186167 original size:25 final size:25
Alignment explanation
Indices: 186117--186175 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
186107 TAAGATAATT
*
186117 ATATAAAAAATTTAATAAATAAAAA
1 ATATATAAAATTTAATAAATAAAAA
* *
186142 ATATATAAAA-TTATTAAATATTAAA
1 ATATATAAAATTTAATAAATA-AAAA
186167 ATAATATAA
1 AT-ATATAA
186176 TATAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.31
25 14 0.48
26 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
ATATATAAAATTTAATAAATAAAAA
Found at i:193461 original size:12 final size:13
Alignment explanation
Indices: 193430--193465 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
193420 TCATTTTAAG
193430 TTTATAATATTTTA
1 TTTAT-ATATTTTA
193444 TTTATATATTTT-
1 TTTATATATTTTA
193456 TTTATATATT
1 TTTATATATT
193466 ACATAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 7 0.32
14 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:193581 original size:25 final size:26
Alignment explanation
Indices: 193514--193595 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 26
193504 AAATAATATA
*
193514 AAAAATTAATAAATAA-ATAATGTTT
1 AAAAATTAAAAAATAATATAATGTTT
*
193539 AAAACA--AAATAAAT-ATAT-ATTTTT
1 AAAA-ATTAAA-AAATAATATAATGTTT
193563 AAAAATTAAAAAATAATATGAATGGATTT
1 AAAAATTAAAAAATAATAT-AAT-G-TTT
193592 AAAA
1 AAAA
193596 TGGATTTGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
23 1 0.02
24 16 0.36
25 17 0.39
26 1 0.02
27 2 0.05
29 7 0.16
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAAATTAAAAAATAATATAATGTTT
Found at i:196206 original size:12 final size:13
Alignment explanation
Indices: 196184--196212 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
196174 TTGACTTACC
196184 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
196197 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
196210 TTT
1 TTT
196213 TAAATTTTAC
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:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:196602 original size:19 final size:19
Alignment explanation
Indices: 196562--196604 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
196552 CATTTTCTTA
* *
196562 AAATTTTTTTAAAATACAT
1 AAATTGTTTTAAAATAAAT
196581 AAATTGTTTTAAAA-AAATT
1 AAATTGTTTTAAAATAAA-T
196600 AAATT
1 AAATT
196605 AAAGCAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATTGTTTTAAAATAAAT
Found at i:200980 original size:81 final size:78
Alignment explanation
Indices: 200823--200982 Score: 239
Period size: 81 Copynumber: 2.0 Consensus size: 78
200813 AGTTAACAAA
* * *
200823 AATATCAAGAAGATTGAGACCTACAAAGATTGGCATAAGTTATCATTTGCTCTCTACGCTTATTG
1 AATATCAAGAAGATCGAGACCTACAAAGATTGACATAAGTTATCATTTGCTCTCTACGCTTATTA
*
200888 AATATCAATCAAG
66 AACATCAATCAAG
* *
200901 AATATCAAGAAGATCGAGACCTACAAAGATTGACATGAGAAGTTATCATTTGCTTTCTATGCTTA
1 AATATCAAGAAGATCGAGACCTACAAAGATTGACAT---AAGTTATCATTTGCTCTCTACGCTTA
200966 TTAAACATCAATCAAG
63 TTAAACATCAATCAAG
200982 A
1 A
200983 TTTTGTTGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 34 0.47
81 39 0.53
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (78 bp):
AATATCAAGAAGATCGAGACCTACAAAGATTGACATAAGTTATCATTTGCTCTCTACGCTTATTA
AACATCAATCAAG
Found at i:201439 original size:15 final size:14
Alignment explanation
Indices: 201421--201468 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
201411 AAATAAAAAT
*
201421 AAAAAAAGGGAAGAG
1 AAAAAAAAGGAA-AG
201436 AAAAAAAA-GAAAG
1 AAAAAAAAGGAAAG
*
201449 AAAAAAAAGAAAAAG
1 AAAAAAAAG-GAAAG
201464 AAAAA
1 AAAAA
201469 GAAAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 10 0.34
14 3 0.10
15 16 0.55
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGGAAAG
Found at i:201453 original size:29 final size:28
Alignment explanation
Indices: 201407--201496 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
201397 ATTTCACCTC
* * * *
201407 AAAAAAATAAAAATAAAAAAAGGGAAGAG
1 AAAAAAA-AAAAAGAAAAAAAAGAAAAAG
*
201436 AAAAAAAAGAAAGAAAAAAAAGAAAAAG
1 AAAAAAAAAAAAGAAAAAAAAGAAAAAG
* *
201464 AAAAAGAAAAAAAGAAGGAAAAAGAAAAGG
1 AAAAA-AAAAAAAGAA-AAAAAAGAAAAAG
201494 AAA
1 AAA
201497 GGTTGAGGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 21 0.41
29 16 0.31
30 14 0.27
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (28 bp):
AAAAAAAAAAAAGAAAAAAAAGAAAAAG
Found at i:201463 original size:6 final size:6
Alignment explanation
Indices: 201439--201496 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
201429 GGAAGAGAAA
* *
201439 AAAAAG AAAGAAA AAAAAG AAAAAG AAAAAG AAAAA- AAGAAGG AAAAAG
1 AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG
*
201488 AAAAGG AAA
1 AAAAAG AAA
201497 GGTTGAGGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 2 0.05
6 35 0.80
7 7 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:201484 original size:24 final size:24
Alignment explanation
Indices: 201409--201496 Score: 83
Period size: 24 Copynumber: 3.6 Consensus size: 24
201399 TTCACCTCAA
* *
201409 AAAAATAAAAATAAAAAAAGGGAAGAG
1 AAAAAGAAAAAGAAAAAAA--GAAG-G
*
201436 AAAAAAAAGAAAG-AAAAAA-AA-G
1 AAAAAGAA-AAAGAAAAAAAGAAGG
201458 AAAAAGAAAAAGAAAAAAAGAAGG
1 AAAAAGAAAAAGAAAAAAAGAAGG
*
201482 AAAAAGAAAAGGAAA
1 AAAAAGAAAAAGAAA
201497 GGTTGAGGTG
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
21 4 0.08
22 14 0.26
23 2 0.04
24 17 0.32
27 13 0.25
28 3 0.06
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (24 bp):
AAAAAGAAAAAGAAAAAAAGAAGG
Found at i:202019 original size:112 final size:112
Alignment explanation
Indices: 201868--202102 Score: 339
Period size: 112 Copynumber: 2.1 Consensus size: 112
201858 CACCTTAGAA
* *
201868 CAAGCATTCTTGCATCAAAATAGCGGTTACTGGACCAATG-ATTCGTAATCTTTTCATTAATACG
1 CAAGCATTTTTGCATCAAAATAACGGTTACTGGACCAATGAATT-GTAATCTTTTCATTAATACG
* * * *
201932 AGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTTACAATATTGTT
65 AGCTTTGACTCCAATAAAATTCAATTTTATCCACCTTACAACACTGTT
* * * *
201980 CAAGCATTTTTGCATCAAAATAACGGTT-CGTGGACCAATGAATTTTATTCTTTTCATTTATGCG
1 CAAGCATTTTTGCATCAAAATAACGGTTAC-TGGACCAATGAATTGTAATCTTTTCATTAATACG
*
202044 AGCTTTGACTCCAATAAAATTCAATTTTATCCACCTTACAACCCTGTT
65 AGCTTTGACTCCAATAAAATTCAATTTTATCCACCTTACAACACTGTT
202092 CAAGCATTTTT
1 CAAGCATTTTT
202103 ACATTTAAAT
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
111 1 0.01
112 106 0.96
113 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (112 bp):
CAAGCATTTTTGCATCAAAATAACGGTTACTGGACCAATGAATTGTAATCTTTTCATTAATACGA
GCTTTGACTCCAATAAAATTCAATTTTATCCACCTTACAACACTGTT
Found at i:203352 original size:39 final size:40
Alignment explanation
Indices: 203297--203427 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
203287 AAGTTACATC
*
203297 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTG-CA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* *
203336 GCCATCCAATCTCTTACTCCGATCATGGGGCAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* * *
203376 ACCATCCAATCTCTTACCTCGATCATAGGGCTGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
203416 ACCATCCAATCT
1 ACCATCCAATCT
203428 TGTTGGAATT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.42
40 48 0.58
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (40 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
Found at i:203555 original size:40 final size:40
Alignment explanation
Indices: 203500--204095 Score: 536
Period size: 40 Copynumber: 15.0 Consensus size: 40
203490 AAGTTACATC
203500 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* * * *
203540 ACCATCCAATCTCTTACCCTGAGCATGAGGCAAATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* *
203580 ACCACCCAATCTCTTATCCCGATCATGGGGCAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* * * * *
203620 ACCATCCGATCTTTTACCCCGATCATGGGTCAGA-TCATA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* *
203659 ACCATCCAATCTCTTACCCCGATTATAGGGCAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
**
203699 ACCATCCAATCTCTTACCTTGATCATGGGGCAGATTG--A
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* * ** * *
203737 AGCATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAG
1 ACCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAA
** * *
203777 ACACA-CCGGTCTTTTACCCC-ATCATGGGGTAGATTG-AA
1 AC-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* *** * * *
203815 A-CATCCAATTTCTTACCTTAATTA-GAAGGCAGATTGAAG
1 ACCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAA
* * *
203854 A-CATTGCCAATATCTTACCTCGATCATGGGGCATATTGAAGA
1 ACCA-T-CCAATCTCTTACCCCGATCATGGGGCAGATTGAA-A
* * * * *
203896 CATCATCTAATCACTTACCTCGATCATGGGGCAAATTTG-AA
1 -ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TTGAAA
* * *
203937 GCCATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAG
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* * *
203977 ACGCA-CCAATCTATTACCCCAATCATAGGGCAGATTG-AA
1 AC-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* * *
204016 GCCATCCAATCTCTTACCCCGATCATGAGGCATATTGAAGA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-A
* *
204057 CATCAACCAATCTCTTA-CCCGATCATGGGGCAGATTGAA
1 -ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
204096 TCCACAATCC
Statistics
Matches: 448, Mismatches: 85, Indels: 45
0.78 0.15 0.08
Matches are distributed among these distances:
36 2 0.00
37 11 0.02
38 46 0.10
39 80 0.18
40 210 0.47
41 52 0.12
42 40 0.09
43 5 0.01
44 2 0.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (40 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
Found at i:203699 original size:79 final size:80
Alignment explanation
Indices: 203500--204095 Score: 511
Period size: 79 Copynumber: 7.5 Consensus size: 80
203490 AAGTTACATC
* * *
203500 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAACCATCCAATCTCTTACCCTGAGCA
1 ACCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAAACCATCCAATCTCTTACCCCGATCA
* * *
203565 TGAGGCAAATTGAAA
66 TGGGGCAGATTGATA
* * * * *
203580 ACCACCCAATCTCTTATCCCGATCATGGGGCAGATTGAAAACCATCCGATCTTTTACCCCGATCA
1 ACCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAAACCATCCAATCTCTTACCCCGATCA
* *
203645 TGGGTCAGA-TCATA
66 TGGGGCAGATTGATA
* **
203659 ACCATCCAATCTCTTACCCCGATTATAGGGCAGATTGAAAACCATCCAATCTCTTACCTTGATCA
1 ACCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAAACCATCCAATCTCTTACCCCGATCA
203724 TGGGGCAGATTG--A
66 TGGGGCAGATTGATA
* * ** * * * ** *
203737 AGCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACACA-CCGGTCTTTTACCCC-ATC
1 ACCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAAAC-CATCCAATCTCTTACCCCGATC
*
203800 ATGGGGTAGATTGA-A
65 ATGGGGCAGATTGATA
* *** * * * * * *
203815 A-CATCCAATTTCTTACCTTAATTAGAAGGCAGATTGAAGA-CATTGCCAATATCTTACCTCGAT
1 ACCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAAACCA-T-CCAATCTCTTACCCCGAT
*
203878 CATGGGGCATATTGA-A
64 CATGGGGCAGATTGATA
* * * * * *
203894 GACATCATCTAATCACTTACCTCGATCATGGGGCAAATTTG-AAGCCATCCAATCTCTTACCCCG
1 -AC--CATCCAATCTCTTACCCCGATCATAGGGCAGA-TTGAAAACCATCCAATCTCTTACCCCG
*
203958 ATCATGGGGCAAATTGA-A
62 ATCATGGGGCAGATTGATA
* * *
203976 GACGCA-CCAATCTATTACCCCAATCATAGGGCAGATTG-AAGCCATCCAATCTCTTACCCCGAT
1 -AC-CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAAACCATCCAATCTCTTACCCCGAT
* *
204039 CATGAGGCATATTGA-A
64 CATGGGGCAGATTGATA
* *
204055 GACATCAACCAATCTCTTA-CCCGATCATGGGGCAGATTGAA
1 -AC--CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAA
204096 TCCACAATCC
Statistics
Matches: 423, Mismatches: 77, Indels: 31
0.80 0.15 0.06
Matches are distributed among these distances:
75 2 0.00
77 48 0.11
78 57 0.13
79 131 0.31
80 109 0.26
81 13 0.03
82 34 0.08
83 24 0.06
84 5 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (80 bp):
ACCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAAACCATCCAATCTCTTACCCCGATCA
TGGGGCAGATTGATA
Found at i:206396 original size:19 final size:19
Alignment explanation
Indices: 206372--206432 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 19
206362 CATTTTCTTA
206372 TTTTAAAATACATAAATTG
1 TTTTAAAATACATAAATTG
** *
206391 TTTTAAAA-A-AT-TCTTA
1 TTTTAAAATACATAAATTG
206407 TTTTAAAATACATAAATTG
1 TTTTAAAATACATAAATTG
206426 -TTTAAAA
1 TTTTAAAA
206433 AAAAAGTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 10 0.30
17 3 0.09
18 10 0.30
19 10 0.30
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (19 bp):
TTTTAAAATACATAAATTG
Found at i:206408 original size:35 final size:35
Alignment explanation
Indices: 206366--206435 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
206356 GCATGTCATT
*
206366 TTCTTATTTTAAAATACATAAATTGTTTTAAAAAA
1 TTCTTATTTTAAAATACATAAATTGTTTAAAAAAA
206401 TTCTTATTTTAAAATACATAAATTGTTTAAAAAAA
1 TTCTTATTTTAAAATACATAAATTGTTTAAAAAAA
206436 AAGTTAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (35 bp):
TTCTTATTTTAAAATACATAAATTGTTTAAAAAAA
Found at i:206448 original size:35 final size:35
Alignment explanation
Indices: 206374--206448 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
206364 TTTTCTTATT
* ** **
206374 TTAAAATACATAAATTGTTTTAAAAAATTCTTATT
1 TTAAAATACATAAATTGTTTAAAAAAAAACTTAAA
*
206409 TTAAAATACATAAATTGTTTAAAAAAAAAGTTAAA
1 TTAAAATACATAAATTGTTTAAAAAAAAACTTAAA
206444 TTAAA
1 TTAAA
206449 GCAATGTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (35 bp):
TTAAAATACATAAATTGTTTAAAAAAAAACTTAAA
Found at i:206592 original size:109 final size:111
Alignment explanation
Indices: 206450--206667 Score: 269
Period size: 111 Copynumber: 2.0 Consensus size: 111
206440 TAAATTAAAG
* * * * *
206450 CAATGTTCTTTTATTTTAGGGAATTCGAGAAATTGTG-CCTTAATGTGTTGGGTATGATTTTT-C
1 CAATGTTCTATTATTTTAGGGAACTCGAAAAATTGTGCCCCTAACGTGTTGGGTATGATTTTTCC
* * ** *
206513 TTTGAACCTAAATAATTGAGTATCCTATTTAAAATCAATAAATGCT
66 CTTAAACCTAAATAATCAAATATCCTATTTAAAATCAATAAATGCT
* * *
206559 CAATGTTCTATTATTTTAGGGGACTCGAAAAATTGTGCCCCTACCGTGTTGGGTATTATTTTTCC
1 CAATGTTCTATTATTTTAGGGAACTCGAAAAATTGTGCCCCTAACGTGTTGGGTATGATTTTTCC
* * * *
206624 CTTAAACCTGAGTAGTCAAATATCCTATTTAAAATCGATAAATG
66 CTTAAACCTAAATAATCAAATATCCTATTTAAAATCAATAAATG
206668 TCTTTGATCT
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
109 33 0.37
110 21 0.23
111 36 0.40
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (111 bp):
CAATGTTCTATTATTTTAGGGAACTCGAAAAATTGTGCCCCTAACGTGTTGGGTATGATTTTTCC
CTTAAACCTAAATAATCAAATATCCTATTTAAAATCAATAAATGCT
Found at i:209787 original size:40 final size:40
Alignment explanation
Indices: 209732--209840 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
209722 TCTTTGTCGT
*
209732 GACATAGCATGTCTATGTTGCAACAAACTCCC-TATGTCAC
1 GACATAGCATGTCTATGTCGCAACAAAC-CCCTTATGTCAC
* * *
209772 GACATAGAATGTCTATGTCGCGACAAACCCCTTATGTTAC
1 GACATAGCATGTCTATGTCGCAACAAACCCCTTATGTCAC
* * * *
209812 AACATAGCATGTTTATGTCACCACAAACC
1 GACATAGCATGTCTATGTCGCAACAAACC
209841 GTGAAGATGT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.05
40 56 0.95
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (40 bp):
GACATAGCATGTCTATGTCGCAACAAACCCCTTATGTCAC
Found at i:212563 original size:16 final size:17
Alignment explanation
Indices: 212544--212577 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
212534 TATACATATA
212544 TATTCTA-TTTATTTTT
1 TATTCTATTTTATTTTT
*
212560 TATTTTATTTTATTTTT
1 TATTCTATTTTATTTTT
212577 T
1 T
212578 CTTATTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTCTATTTTATTTTT
Found at i:217774 original size:16 final size:16
Alignment explanation
Indices: 217753--217783 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
217743 ATAGTCTGAA
217753 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
217769 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
217784 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:218765 original size:36 final size:37
Alignment explanation
Indices: 218718--218787 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 37
218708 TTCTTGTAGT
* *
218718 GACAGTTTTGGGTGCAATCTGGAAGT-CTCATGCGGA
1 GACAGTTTTGGGCGCAATCTAGAAGTGCTCATGCGGA
218754 GACAGTTTTGGGCGCAATCTAGAAGTGCTCATGC
1 GACAGTTTTGGGCGCAATCTAGAAGTGCTCATGC
218788 AGCGACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 24 0.77
37 7 0.23
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
GACAGTTTTGGGCGCAATCTAGAAGTGCTCATGCGGA
Found at i:220400 original size:146 final size:146
Alignment explanation
Indices: 220136--220429 Score: 570
Period size: 146 Copynumber: 2.0 Consensus size: 146
220126 ATTGCAAATG
220136 ACATATATTTTCTCTCTAAATTAGTGTTTTAATTGTCTCTTTTGTATCTCATTTAGCATGCATCT
1 ACATATATTTTCTCTCTAAATTAGTGTTTTAATTGTCTCTTTTGTATCTCATTTAGCATGCATCT
*
220201 TGAGCATTTCATACTTAGTTTTTACACTTTCTAATTCATTACTGGTTAGTTTTATTTCTTGTTAT
66 AGAGCATTTCATACTTAGTTTTTACACTTTCTAATTCATTACTGGTTAGTTTTATTTCTTGTTAT
220266 TTTTATCTATTTTTGT
131 TTTTATCTATTTTTGT
220282 ACATATATTTTCTCTCTAAATTAGTGTTTTAATTGTCTCTTTTGTATCTCATTTAGCATGCATCT
1 ACATATATTTTCTCTCTAAATTAGTGTTTTAATTGTCTCTTTTGTATCTCATTTAGCATGCATCT
*
220347 AGAGCATTTCATACTTAGTTTTTACACTTTCTAATTCATTATTGGTTAGTTTTATTTCTTGTTAT
66 AGAGCATTTCATACTTAGTTTTTACACTTTCTAATTCATTACTGGTTAGTTTTATTTCTTGTTAT
220412 TTTTATCTATTTTTGT
131 TTTTATCTATTTTTGT
220428 AC
1 AC
220430 TTATGTCAAC
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 146 1.00
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (146 bp):
ACATATATTTTCTCTCTAAATTAGTGTTTTAATTGTCTCTTTTGTATCTCATTTAGCATGCATCT
AGAGCATTTCATACTTAGTTTTTACACTTTCTAATTCATTACTGGTTAGTTTTATTTCTTGTTAT
TTTTATCTATTTTTGT
Found at i:220858 original size:21 final size:21
Alignment explanation
Indices: 220834--220876 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
220824 ATAACAAAGA
*
220834 ATGAAGAAATCATTAAGAGCT
1 ATGAAGAAATCATCAAGAGCT
220855 ATGAAGAAATCATCAAGAGCT
1 ATGAAGAAATCATCAAGAGCT
220876 A
1 A
220877 AGGGATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.21
Consensus pattern (21 bp):
ATGAAGAAATCATCAAGAGCT
Found at i:243028 original size:10 final size:10
Alignment explanation
Indices: 243013--243062 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
243003 TAGTCATTTA
*
243013 AAAAAGAAAC
1 AAAAAGAAAG
243023 AAAAAG--AG
1 AAAAAGAAAG
**
243031 AAAAAGGGAG
1 AAAAAGAAAG
243041 AAAAAGAAA-
1 AAAAAGAAAG
243050 AAAAAGAAAG
1 AAAAAGAAAG
243060 AAA
1 AAA
243063 TTTTTGATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 7 0.21
9 9 0.26
10 18 0.53
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:251706 original size:50 final size:50
Alignment explanation
Indices: 251637--251776 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 50
251627 TGGAATGGAG
* * * * *
251637 TGAAGTTAAAAAACGAAATCCAATATCCTTGAAGTTGCAATGGATCA-GA
1 TGAAGCTACAAAACCAAATCCAATATCCTTGAAGTTGCAATAGAGCAGGA
** * *
251686 TTGAAGCTACAAAGGCAAATCC-TTATCTCTCTGAAGTTGCAGTAGAGCAGGA
1 -TGAAGCTACAAAACCAAATCCAATATC-CT-TGAAGTTGCAATAGAGCAGGA
* *
251738 TGAAGCTACAAAACCAAATCCAATACCCCTGAAGTTGCA
1 TGAAGCTACAAAACCAAATCCAATATCCTTGAAGTTGCA
251777 GTGGGTTGGA
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
49 4 0.06
50 28 0.39
51 35 0.49
52 5 0.07
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (50 bp):
TGAAGCTACAAAACCAAATCCAATATCCTTGAAGTTGCAATAGAGCAGGA
Found at i:251805 original size:101 final size:101
Alignment explanation
Indices: 251700--251889 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 101
251690 AGCTACAAAG
* *
251700 GCAAATCCTTATCT-CTCTGAAGTTGCAGTAGAGCAGGATGAAGCTACAAAACCAAATCCAATAC
1 GCAAATCCTTATCTCCT-TGAAGATGCAGTAGAGCAAGATGAAGCTACAAAACCAAATCCAATAC
* *
251764 CCCTGAAGTTGCAGTGGGTTGGATTAAATTCATGAAA
65 CCCTAAAGTTGCAGTGGATTGGATTAAATTCATGAAA
* * * * * *
251801 GCAAATCTTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATC
1 GCAAATCCTTATCTCCTTGAAGATGCAGTAGAGCAAGATGAAGCTACAAAACCAAATCCAATACC
*
251866 CTTAAAGTTGCAGTGGATTGGATT
66 CCTAAAGTTGCAGTGGATTGGATT
251890 GAGGCTATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 75 0.97
102 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (101 bp):
GCAAATCCTTATCTCCTTGAAGATGCAGTAGAGCAAGATGAAGCTACAAAACCAAATCCAATACC
CCTAAAGTTGCAGTGGATTGGATTAAATTCATGAAA
Found at i:251882 original size:50 final size:50
Alignment explanation
Indices: 251652--251882 Score: 182
Period size: 51 Copynumber: 4.6 Consensus size: 50
251642 TTAAAAAACG
* * * *
251652 AAATCCAATATCCTTGAAGTTGCAATGGATC-AGATTGAAGCTACAAAGGC
1 AAATCCTATATCCTTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACAAAAGC
* * *
251702 AAATCCT-TATCTCTCTGAAGTTGCAGTAGAGCAGGATGAAGCTACAAAACC
1 AAATCCTATATC-CT-TGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAAGC
* * * *** * * *
251753 AAATCCAATACCCCTGAAGTTGCAGTGG-GTTGGATTAA-ATTCATGAAAGC
1 AAATCCTATATCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACA--AAAGC
* * * * *
251803 AAATCTTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATC
1 AAATC-CTATATCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAAGC
*
251854 AAATCCTATATCCTTAAAGTTGCAGTGGA
1 AAATCCTATATCCTTGAAGTTGCAGTGGA
251883 TTGGATTGAG
Statistics
Matches: 137, Mismatches: 35, Indels: 18
0.72 0.18 0.09
Matches are distributed among these distances:
48 3 0.02
49 11 0.08
50 50 0.36
51 59 0.43
52 11 0.08
53 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (50 bp):
AAATCCTATATCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAAGC
Found at i:261092 original size:16 final size:18
Alignment explanation
Indices: 261053--261086 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
261043 GCAATATGCA
261053 ATCACATATTATCTTGTT
1 ATCACATATTATCTTGTT
261071 ATCACAT-TTA-CTTGTT
1 ATCACATATTATCTTGTT
261087 TGCACAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (18 bp):
ATCACATATTATCTTGTT
Found at i:282050 original size:20 final size:18
Alignment explanation
Indices: 282022--282064 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
282012 GTTGATTGAA
282022 AAAAAAGAAAAGAATAAGAG
1 AAAAAAGAAAAGAA-AA-AG
* *
282042 AAAACAGAAAGGAAAAAG
1 AAAAAAGAAAAGAAAAAG
282060 AAAAA
1 AAAAA
282065 TTGCTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 6 0.30
19 2 0.10
20 12 0.60
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAAGAAAAAG
Found at i:291217 original size:20 final size:20
Alignment explanation
Indices: 291192--291232 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
291182 AGCGTGAGAT
291192 TGCTTGGAGTATTGCTAATA
1 TGCTTGGAGTATTGCTAATA
291212 TGCTTGGAGTATTGCTAATA
1 TGCTTGGAGTATTGCTAATA
291232 T
1 T
291233 TAGAGGCATT
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:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (20 bp):
TGCTTGGAGTATTGCTAATA
Found at i:296880 original size:17 final size:18
Alignment explanation
Indices: 296858--296897 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
296848 TCAGACACAT
296858 AAAAAAAGAG-AAAAAGA
1 AAAAAAAGAGAAAAAAGA
* *
296875 AAAAAAGGGGAAAAAAGA
1 AAAAAAAGAGAAAAAAGA
296893 AAAAA
1 AAAAA
296898 TATATATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAGAAAAAAGA
Found at i:299257 original size:24 final size:23
Alignment explanation
Indices: 299214--299258 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
299204 TCCCACTCCA
299214 TCTCACCCCTTTATTTCTCCTTC
1 TCTCACCCCTTTATTTCTCCTTC
299237 TCTCACCATCCTTT-TTTCTCCT
1 TCTCACC--CCTTTATTTCTCCT
299259 CCTTAGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 8 0.40
25 5 0.25
ACGTcount: A:0.09, C:0.42, G:0.00, T:0.49
Consensus pattern (23 bp):
TCTCACCCCTTTATTTCTCCTTC
Found at i:301491 original size:43 final size:43
Alignment explanation
Indices: 301443--301525 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
301433 AATATCATGG
301443 CATTTAGGTGATAATGGAGTGGTTAATTAAGGCTAAAGGTAGA
1 CATTTAGGTGATAATGGAGTGGTTAATTAAGGCTAAAGGTAGA
301486 CATTTAGGTGATAATGGAGTGGTTAATTAAGGCTAAAGGT
1 CATTTAGGTGATAATGGAGTGGTTAATTAAGGCTAAAGGT
301526 GATTAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (43 bp):
CATTTAGGTGATAATGGAGTGGTTAATTAAGGCTAAAGGTAGA
Found at i:303402 original size:21 final size:21
Alignment explanation
Indices: 303378--303426 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
303368 ACTTGCTTCA
*
303378 GTAGAAGAGTCTCTTATATCG
1 GTAGAAGAGTCACTTATATCG
* *
303399 GTAGAACAGTCACTTGTATCG
1 GTAGAAGAGTCACTTATATCG
303420 GTAGAAG
1 GTAGAAG
303427 TTTGCACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (21 bp):
GTAGAAGAGTCACTTATATCG
Found at i:318425 original size:17 final size:17
Alignment explanation
Indices: 318400--318442 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
318390 ATGCATCTCA
*
318400 TTTAATTGTCATTGTAT
1 TTTAATTGTCATTGCAT
* *
318417 TTTAGTTGTCGTTGCAT
1 TTTAATTGTCATTGCAT
*
318434 TTTACTTGT
1 TTTAATTGT
318443 TAGTTCGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.58
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Found at i:319059 original size:10 final size:9
Alignment explanation
Indices: 319016--319063 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 9
319006 GTCACATATA
319016 AAAAAAGAAG
1 AAAAAA-AAG
319026 AAAAATAAAG
1 AAAAA-AAAG
319036 CAAAGAAAAAG
1 -AAA-AAAAAG
319047 AAAAAAGAAG
1 AAAAAA-AAG
319057 AAAAAAA
1 AAAAAAA
319064 TATATTGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 4 0.12
10 20 0.59
11 8 0.24
12 2 0.06
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:322221 original size:36 final size:36
Alignment explanation
Indices: 322180--322253 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
322170 TAACACTCTC
*
322180 CTGTATACCAAAAATGTCCCGTTGAATGGAGCTTAG
1 CTGTATACCAAAAATGTCCCATTGAATGGAGCTTAG
* *
322216 CTGTATACCAAACATGTCCTATTGAATGGAGCTTAG
1 CTGTATACCAAAAATGTCCCATTGAATGGAGCTTAG
322252 CT
1 CT
322254 CACATTCCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (36 bp):
CTGTATACCAAAAATGTCCCATTGAATGGAGCTTAG
Found at i:340752 original size:12 final size:12
Alignment explanation
Indices: 340735--340761 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
340725 AATTCAAGGA
340735 ATATCAATATAC
1 ATATCAATATAC
340747 ATATCAATATAC
1 ATATCAATATAC
340759 ATA
1 ATA
340762 CCTACACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATCAATATAC
Found at i:345254 original size:19 final size:19
Alignment explanation
Indices: 345232--345274 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
345222 AAAGTCTCTA
345232 TGTCACCATTGATTCTCAT
1 TGTCACCATTGATTCTCAT
345251 TGTCACCATTGATTCTCAT
1 TGTCACCATTGATTCTCAT
345270 TGTCA
1 TGTCA
345275 GCTCATTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.42
Consensus pattern (19 bp):
TGTCACCATTGATTCTCAT
Found at i:353094 original size:20 final size:20
Alignment explanation
Indices: 353071--353112 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
353061 TCATAAAAAT
353071 AATT-ATATAATCAAACATAA
1 AATTGATATAATCAAA-ATAA
* *
353091 AATTGATTTAATGAAAATAA
1 AATTGATATAATCAAAATAA
353111 AA
1 AA
353113 GAAACTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (20 bp):
AATTGATATAATCAAAATAA
Found at i:359146 original size:15 final size:15
Alignment explanation
Indices: 359126--359161 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
359116 AACAAACTGT
359126 ACTCTTCGATTGTGG
1 ACTCTTCGATTGTGG
359141 ACTCTTCGATTGTGG
1 ACTCTTCGATTGTGG
*
359156 TCTCTT
1 ACTCTT
359162 TTTTATTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (15 bp):
ACTCTTCGATTGTGG
Found at i:360097 original size:129 final size:129
Alignment explanation
Indices: 359866--360122 Score: 399
Period size: 129 Copynumber: 2.0 Consensus size: 129
359856 TCTACTGTCT
* *
359866 GGTGAATGCCCAAACAATGCCTGGTATTCCAAAGCAACCCCTCCATTGACATCCTCTTTTTTATC
1 GGTGAATGCCCAAACAATGCCTGCTATTCCAAAGCAACCCCTCCATCGACATCCTCTTTTTTATC
* *
359931 AATTCCTTTAACCTGACACTCAGAGAAGCCATCTTGAATGCAGACTGAAGAATCTCTCCCATCA
66 AATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAATGCAGACTGAAGAATCTCTCCCATCA
* *
359995 GGTGAATGTCCAAACAATGCCTCGCT-TTCCAAAGCAACGCCTCCATCGACATCCTCTTTTTTAT
1 GGTGAATGCCCAAACAATGCCT-GCTATTCCAAAGCAACCCCTCCATCGACATCCTCTTTTTTAT
* * * * *
360059 CAATTCCCTTCACCTGACACTCGGAGAAACCATTTTGAATGCAGATTGAAGTATCTCTCCCATC
65 CAATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAATGCAGACTGAAGAATCTCTCCCATC
360123 TGATCGTTGA
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
129 114 0.98
130 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (129 bp):
GGTGAATGCCCAAACAATGCCTGCTATTCCAAAGCAACCCCTCCATCGACATCCTCTTTTTTATC
AATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAATGCAGACTGAAGAATCTCTCCCATCA
Found at i:361471 original size:22 final size:22
Alignment explanation
Indices: 361446--361492 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
361436 TTCTCCTGAG
* * * *
361446 CTTTTTCTCTCGTTCTTTTGTT
1 CTTTTCCTCTCCTTCTGTTCTT
361468 CTTTTCCTCTCCTTCTGTTCTT
1 CTTTTCCTCTCCTTCTGTTCTT
361490 CTT
1 CTT
361493 CTTCACGCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.06, T:0.64
Consensus pattern (22 bp):
CTTTTCCTCTCCTTCTGTTCTT
Found at i:366993 original size:6 final size:6
Alignment explanation
Indices: 366982--367021 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
366972 AGAGTAACAA
366982 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
367022 TCTGTCAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:367466 original size:16 final size:16
Alignment explanation
Indices: 367447--367477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
367437 TTTGATATTA
*
367447 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
367463 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
367478 ACATTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:368882 original size:59 final size:61
Alignment explanation
Indices: 368741--368887 Score: 219
Period size: 59 Copynumber: 2.4 Consensus size: 61
368731 TCAAGGACAT
* * *
368741 TGTGAACA-AATGACGGCATAAATTTTTAATAAATTATTATTACTACAAAAATATGATACGA
1 TGTGAA-ATAATGACGACATAAATTTTTAATAAATTATTATTACTACAAAAATAGGATACAA
* *
368802 TGTGAAATAATGACGACATAAATTTTTAATAAA-TATTATTACTATAAAAA-AGGATGCAA
1 TGTGAAATAATGACGACATAAATTTTTAATAAATTATTATTACTACAAAAATAGGATACAA
368861 TGTGAAATAATGACGACATAAATTTTT
1 TGTGAAATAATGACGACATAAATTTTT
368888 TCAAAAAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
59 33 0.41
60 17 0.21
61 30 0.38
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (61 bp):
TGTGAAATAATGACGACATAAATTTTTAATAAATTATTATTACTACAAAAATAGGATACAA
Found at i:374396 original size:27 final size:27
Alignment explanation
Indices: 374363--374429 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
374353 AGAGAGTATA
*
374363 GCTCATTCGAGCCCAGAACAGTTTGTT
1 GCTCATTCGAGCCCAAAACAGTTTGTT
*
374390 GCTCATTCGAGCCCAAAATAGTTTGTT
1 GCTCATTCGAGCCCAAAACAGTTTGTT
* *
374417 GCTTATTCAAGCC
1 GCTCATTCGAGCC
374430 AGATTCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (27 bp):
GCTCATTCGAGCCCAAAACAGTTTGTT
Found at i:375025 original size:126 final size:126
Alignment explanation
Indices: 374800--375037 Score: 413
Period size: 126 Copynumber: 1.9 Consensus size: 126
374790 AAAATACCCA
* * *
374800 TTTTTTAATAAAACCCGCCATTAGCCACACCTTTAAATATATCATATTAGTCCCTACATGCAATT
1 TTTTTTAATAAAACCCACCATTAGCCACACCTTTAAATATATCATATCAGACCCTACATGCAATT
374865 ATTTCACATCAAATACATTTACTTTTATCATTTTAACAATCTAGTCCCTACATACAATCAT
66 ATTTCACATCAAATACATTTACTTTTATCATTTTAACAATCTAGTCCCTACATACAATCAT
** **
374926 TTTTTTAATAAAACCCATGATTAGCTGCACCTTTAAATATATCATATCAGACCCTACATGCAATT
1 TTTTTTAATAAAACCCACCATTAGCCACACCTTTAAATATATCATATCAGACCCTACATGCAATT
374991 ATTTCACATCAAATACATTTACTTTTATCATTTTAACAATCTAGTCC
66 ATTTCACATCAAATACATTTACTTTTATCATTTTAACAATCTAGTCC
375038 TTAAACGTTA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 105 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (126 bp):
TTTTTTAATAAAACCCACCATTAGCCACACCTTTAAATATATCATATCAGACCCTACATGCAATT
ATTTCACATCAAATACATTTACTTTTATCATTTTAACAATCTAGTCCCTACATACAATCAT
Done.