Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 37 of 84
Found at i:8621286 original size:32 final size:34
Alignment explanation
Indices: 8621229--8621295 Score: 120
Period size: 32 Copynumber: 2.0 Consensus size: 34
8621219 CTCATCTAAA
8621229 CAGAGGCAACGAAACTTTGAAAAGTAAATTGCTC
1 CAGAGGCAACGAAACTTTGAAAAGTAAATTGCTC
8621263 CAGAGGCAACG-AAC-TTGAAAAGTAAATTGCTC
1 CAGAGGCAACGAAACTTTGAAAAGTAAATTGCTC
8621295 C
1 C
8621296 TCTAAACAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 19 0.58
33 3 0.09
34 11 0.33
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (34 bp):
CAGAGGCAACGAAACTTTGAAAAGTAAATTGCTC
Found at i:8622571 original size:9 final size:9
Alignment explanation
Indices: 8622559--8622605 Score: 55
Period size: 8 Copynumber: 5.6 Consensus size: 9
8622549 CTTTTTTTAA
8622559 TTTTTCA-T
1 TTTTTCATT
8622567 TTTTTCA-T
1 TTTTTCATT
*
8622575 TTTCTCATT
1 TTTTTCATT
*
8622584 TTTTTCTTT
1 TTTTTCATT
8622593 TTTTTC-TT
1 TTTTTCATT
8622601 TTTTT
1 TTTTT
8622606 TTCTCTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 21 0.60
9 14 0.40
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCATT
Found at i:8622571 original size:15 final size:16
Alignment explanation
Indices: 8622546--8622587 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
8622536 TCAATTTGGA
*
8622546 TCTCTTTTTTTAATTT
1 TCTCATTTTTTAATTT
*
8622562 T-TCATTTTTTCATTT
1 TCTCATTTTTTAATTT
8622577 TCTCATTTTTT
1 TCTCATTTTTT
8622588 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (16 bp):
TCTCATTTTTTAATTT
Found at i:8622595 original size:10 final size:10
Alignment explanation
Indices: 8622582--8622614 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8622572 CATTTTCTCA
8622582 TTTTTTTC-T
1 TTTTTTTCTT
8622591 TTTTTTTCTT
1 TTTTTTTCTT
8622601 TTTTTTTCTCT
1 TTTTTTTCT-T
8622612 TTT
1 TTT
8622615 CTCATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 8 0.36
10 10 0.45
11 4 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:8622596 original size:19 final size:20
Alignment explanation
Indices: 8622574--8622623 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 20
8622564 CATTTTTTCA
8622574 TTTTCTCATTTTTTTCTT-T-
1 TTTTCTCATTTTTTT-TTCTC
8622593 TTTT-TC-TTTTTTTTTCTC
1 TTTTCTCATTTTTTTTTCTC
8622611 TTTTCTCATTTTT
1 TTTTCTCATTTTT
8622624 CATCCAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.07
17 8 0.30
18 6 0.22
19 6 0.22
20 5 0.19
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTCATTTTTTTTTCTC
Found at i:8622606 original size:9 final size:9
Alignment explanation
Indices: 8622582--8622606 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8622572 CATTTTCTCA
8622582 TTTTTTTCT
1 TTTTTTTCT
8622591 TTTTTTTCT
1 TTTTTTTCT
8622600 TTTTTTT
1 TTTTTTT
8622607 TCTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:8626564 original size:27 final size:27
Alignment explanation
Indices: 8626473--8626564 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
8626463 TTGTGTAGGG
*
8626473 AAAATTGATACTTTCAACTTTTCCTCA
1 AAAATTGATACTTTCAACTTTTTCTCA
* ** *
8626500 AAAATAT-TTTTTTTCGAAACTTTATTCTTAA
1 AAAAT-TGATACTTTC--AACTTT-TTC-TCA
8626531 GGAAAATTGATACTTTCAACTTTTTCTCA
1 --AAAATTGATACTTTCAACTTTTTCTCA
8626560 AAAAT
1 AAAAT
8626565 CTTTTTTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
27 15 0.31
28 1 0.02
29 8 0.17
30 5 0.10
31 8 0.17
32 1 0.02
33 10 0.21
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCTCA
Found at i:8626599 original size:59 final size:59
Alignment explanation
Indices: 8626471--8626632 Score: 247
Period size: 59 Copynumber: 2.7 Consensus size: 59
8626461 TCTTGTGTAG
* *
8626471 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTCGAAACTTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT-GAAAATGTATTCTTAA
* *
8626531 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATCTTTTTTTTGAAAATGTATT-TCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATGTATTCT-TAA
8626590 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTT
8626633 TTGAAAAATT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
58 2 0.02
59 51 0.54
60 41 0.44
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATGTATTCTTAA
Found at i:8626691 original size:20 final size:21
Alignment explanation
Indices: 8626660--8626699 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
8626650 TATTTGAAGA
8626660 AAATAGAATAATAAAAAATAT
1 AAATAGAATAATAAAAAATAT
8626681 AAATA-AATAATAAAAAATA
1 AAATAGAATAATAAAAAATA
8626700 AAGAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (21 bp):
AAATAGAATAATAAAAAATAT
Found at i:8626696 original size:21 final size:21
Alignment explanation
Indices: 8626659--8626795 Score: 79
Period size: 21 Copynumber: 6.2 Consensus size: 21
8626649 TTATTTGAAG
8626659 AAAATAGAA-TAAT-AAAAAAT
1 AAAATA-AACTAATAAAAAAAT
8626679 ATAAATAAA-TAAT-AAAAAAT
1 A-AAATAAACTAATAAAAAAAT
*
8626699 AAAGA-AAAGTAA-AACAAAAAT
1 AAA-ATAAACTAATAA-AAAAAT
8626720 AAAAATAAAACTAAGATAAAAAGAAT
1 -AAAAT-AAACT-A-ATAAAAA-AAT
*
8626746 ATTAAATAAACCTAATATAATAAAT
1 A--AAATAAA-CTAATA-AAAAAAT
* *
8626771 AAAAAAAACAAATAAAAAAAT
1 AAAATAAACTAATAAAAAAAT
8626792 AAAA
1 AAAA
8626796 AAAATTCAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 31
0.73 0.04 0.23
Matches are distributed among these distances:
19 5 0.05
20 20 0.21
21 22 0.23
22 8 0.08
23 10 0.10
24 1 0.01
25 12 0.12
26 12 0.12
27 6 0.06
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAATAAACTAATAAAAAAAT
Found at i:8626723 original size:17 final size:17
Alignment explanation
Indices: 8626681--8626741 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
8626671 TAAAAAATAT
8626681 AAATAAATAATAAAA-AA
1 AAATAAA-AATAAAACAA
* *
8626698 TAAAGAAAAGTAAAACAA
1 -AAATAAAAATAAAACAA
*
8626716 AAATAAAAATAAAACTA
1 AAATAAAAATAAAACAA
*
8626733 AGATAAAAA
1 AAATAAAAA
8626742 GAATATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (17 bp):
AAATAAAAATAAAACAA
Found at i:8626786 original size:17 final size:16
Alignment explanation
Indices: 8626764--8626817 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
8626754 AACCTAATAT
*
8626764 AATAAATAAAAAAAACA
1 AATAAA-AAAAAAAAAA
8626781 AATAAAAAAATAAAAAA
1 AATAAAAAAA-AAAAAA
8626798 AATTCAAAGAAAAAAAAAA
1 AA-T-AAA-AAAAAAAAAA
8626817 A
1 A
8626818 CCTGGAGCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.12
17 13 0.41
18 1 0.03
19 10 0.31
20 4 0.12
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (16 bp):
AATAAAAAAAAAAAAA
Found at i:8626796 original size:21 final size:22
Alignment explanation
Indices: 8626767--8626817 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
8626757 CTAATATAAT
*
8626767 AAATAAAAAAAA-CAAATAAAA
1 AAATAAAAAAAATCAAAGAAAA
8626788 AAATAAAAAAAATTCAAAGAAAA
1 AAATAAAAAAAA-TCAAAGAAAA
8626811 AAA-AAAA
1 AAATAAAA
8626818 CCTGGAGCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.44
22 4 0.15
23 11 0.41
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.10
Consensus pattern (22 bp):
AAATAAAAAAAATCAAAGAAAA
Found at i:8626799 original size:10 final size:10
Alignment explanation
Indices: 8626666--8626729 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
8626656 AAGAAAATAG
*
8626666 AATAATAAAA
1 AATAAAAAAA
* *
8626676 AATATAAATA
1 AATAAAAAAA
*
8626686 AATAATAAAA
1 AATAAAAAAA
*
8626696 AATAAAGAAA
1 AATAAAAAAA
*
8626706 AGTAAAACAAA
1 AATAAAA-AAA
8626717 AATAAAAATAA
1 AATAAAAA-AA
8626728 AA
1 AA
8626730 CTAAGATAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 28 0.68
11 13 0.32
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:8627692 original size:17 final size:18
Alignment explanation
Indices: 8627672--8627711 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8627662 AATTAGAAAG
*
8627672 GATAGGAAAAAAA-ATCA
1 GATAAGAAAAAAAGATCA
*
8627689 GATAATAAAAAAAGATCA
1 GATAAGAAAAAAAGATCA
8627707 GATAA
1 GATAA
8627712 AATTAACAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.65, C:0.05, G:0.15, T:0.15
Consensus pattern (18 bp):
GATAAGAAAAAAAGATCA
Found at i:8628002 original size:20 final size:21
Alignment explanation
Indices: 8627977--8628015 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8627967 TTACCCTATT
8627977 TGGGCCAGG-CCCAATTGGTC
1 TGGGCCAGGACCCAATTGGTC
*
8627997 TGGGCCTGGACCCAATTGG
1 TGGGCCAGGACCCAATTGG
8628016 GTGTCTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (21 bp):
TGGGCCAGGACCCAATTGGTC
Found at i:8634881 original size:20 final size:21
Alignment explanation
Indices: 8634848--8634887 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8634838 TTTCAATTTT
*
8634848 TAAATAAACTAAAAACAAAAA
1 TAAATAAACAAAAAACAAAAA
8634869 TAAA-AAACAAAAAACAAAA
1 TAAATAAACAAAAAACAAAA
8634888 GCGTTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (21 bp):
TAAATAAACAAAAAACAAAAA
Found at i:8636929 original size:15 final size:15
Alignment explanation
Indices: 8636909--8636952 Score: 70
Period size: 17 Copynumber: 2.8 Consensus size: 15
8636899 ATAAAATAAA
8636909 ATAATTTTATTTAAT
1 ATAATTTTATTTAAT
8636924 ATAATTTTATTTATAAT
1 ATAATTTTA-TT-TAAT
8636941 ATAATTTTATTT
1 ATAATTTTATTT
8636953 TATTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
17 13 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATAATTTTATTTAAT
Found at i:8639068 original size:99 final size:100
Alignment explanation
Indices: 8638958--8639153 Score: 324
Period size: 101 Copynumber: 2.0 Consensus size: 100
8638948 TCGATAAATG
8638958 AATCAAGTCAGCATT-ATTTTCATAATTCTGTTATAAAAAA-ATTCTAGTGTGCTTTTGAAAATA
1 AATCAAGTCAGCATTAATTTT-ATAATTCTGTTATAAAAAAGATTCTAGTGTGCTTTTGAAAATA
8639021 AAGTAAATCTTTTACATTATTTTAATATATAAAGTA
65 AAGTAAATCTTTTACATTATTTTAATATATAAAGTA
* * * *
8639057 AATCAAGTCAGCATTAATTTTGTAATTCTTTTGTAAAAAAGGCTTCTAGTGTGCTTTTGAAAATA
1 AATCAAGTCAGCATTAATTTTATAATTCTGTTATAAAAAA-GATTCTAGTGTGCTTTTGAAAATA
8639122 AAGTAAATCTTTTACATTATTTTAATATATAA
65 AAGTAAATCTTTTACATTATTTTAATATATAA
8639154 TATTATTTAT
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
99 31 0.34
100 5 0.06
101 54 0.60
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (100 bp):
AATCAAGTCAGCATTAATTTTATAATTCTGTTATAAAAAAGATTCTAGTGTGCTTTTGAAAATAA
AGTAAATCTTTTACATTATTTTAATATATAAAGTA
Found at i:8641778 original size:14 final size:15
Alignment explanation
Indices: 8641759--8641792 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8641749 TAAATTAAAT
*
8641759 ATTTTTAATTAGTAA
1 ATTTTGAATTAGTAA
*
8641774 ATTTTGAATTATTAA
1 ATTTTGAATTAGTAA
8641789 ATTT
1 ATTT
8641793 AAATAGTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
ATTTTGAATTAGTAA
Found at i:8641855 original size:30 final size:27
Alignment explanation
Indices: 8641808--8641862 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
8641798 GTATCATTTT
8641808 TCTTCTTTTTTTCATTTTTCTTTTTGG
1 TCTTCTTTTTTTCATTTTTCTTTTTGG
*
8641835 TCTTCTCTTTTCTCTCATTTTTTTTTTT
1 TCTTCT-TTTT-T-TCATTTTTCTTTTT
8641863 TTTTTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 4 0.17
29 1 0.04
30 13 0.54
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.75
Consensus pattern (27 bp):
TCTTCTTTTTTTCATTTTTCTTTTTGG
Found at i:8641980 original size:15 final size:15
Alignment explanation
Indices: 8641953--8641998 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
8641943 ATTTTTGATA
*
8641953 ATTTTTTCAAAAAAACT
1 ATTTTTT-AAAAATA-T
8641970 ATTTTTTAAAAATAT
1 ATTTTTTAAAAATAT
*
8641985 TTTTTTTAAAAATA
1 ATTTTTTAAAAATA
8641999 ATTCTAGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 14 0.52
16 6 0.22
17 7 0.26
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTTTAAAAATAT
Found at i:8642097 original size:25 final size:25
Alignment explanation
Indices: 8642069--8642116 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
8642059 AATTAAAAAG
8642069 AAAGAAAATAAAATGAAACTAGTGA
1 AAAGAAAATAAAATGAAACTAGTGA
*
8642094 AAAGAAAATAAAATGAAATTAGT
1 AAAGAAAATAAAATGAAACTAGT
8642117 TAATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.15, T:0.19
Consensus pattern (25 bp):
AAAGAAAATAAAATGAAACTAGTGA
Found at i:8665496 original size:27 final size:27
Alignment explanation
Indices: 8665412--8665496 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
8665402 TTGATTAATT
*
8665412 TTGAATTAAATTATTTAAATTTAAATTAA
1 TTGAATTAAATTATTTAATTTTAAA--AA
** * **
8665441 TTGAATTATGTTATTTATTTTTATTAA
1 TTGAATTAAATTATTTAATTTTAAAAA
*
8665468 TTGAATTAAATTTTTTAATTTTAAAAA
1 TTGAATTAAATTATTTAATTTTAAAAA
8665495 TT
1 TT
8665497 AATCAATTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
27 25 0.57
29 19 0.43
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
TTGAATTAAATTATTTAATTTTAAAAA
Found at i:8665518 original size:56 final size:56
Alignment explanation
Indices: 8665412--8665551 Score: 142
Period size: 56 Copynumber: 2.5 Consensus size: 56
8665402 TTGATTAATT
* ** *
8665412 TTGAATTAAATTATTTAAATTTAAATTAATTGAATTATGTTATTTATTTTTATTAA
1 TTGAATTAAATTATTTAAATTTAAATTAATTCAATTAAATTAATTATTTTTATTAA
* *
8665468 TTGAATTAAATTTTTTAATTTTAAAAATTAA-TCAATTAAATTAATT-TTTTTATTAA
1 TTGAATTAAATTATTTAAATTT--AAATTAATTCAATTAAATTAATTATTTTTATTAA
* *
8665524 TTAAATAATAAAATATTTTAAA-TTAAAT
1 TTGAAT--TAAATTA-TTTAAATTTAAAT
8665552 AATATTTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
56 39 0.57
57 11 0.16
58 14 0.20
59 5 0.07
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (56 bp):
TTGAATTAAATTATTTAAATTTAAATTAATTCAATTAAATTAATTATTTTTATTAA
Found at i:8665546 original size:17 final size:16
Alignment explanation
Indices: 8665524--8665563 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8665514 TTTTTATTAA
8665524 TTAAATAATAAAATATT
1 TTAAATAA-AAAATATT
*
8665541 TTAAATTAAATAATATT
1 TTAAA-TAAAAAATATT
8665558 TTAAAT
1 TTAAAT
8665564 TCTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.81
18 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATAAAAAATATT
Found at i:8665803 original size:12 final size:12
Alignment explanation
Indices: 8665745--8665849 Score: 62
Period size: 12 Copynumber: 9.2 Consensus size: 12
8665735 AAAAATTAAT
8665745 TTAATTTAA-AA
1 TTAATTTAATAA
*
8665756 TT-TTTTAA-AA
1 TTAATTTAATAA
*
8665766 TTATTTTAATAA
1 TTAATTTAATAA
*
8665778 -TAGA-TCAA-AA
1 TTA-ATTTAATAA
8665788 TTAATTTAATAA
1 TTAATTTAATAA
*
8665800 TTAATTTATTAA
1 TTAATTTAATAA
* *
8665812 TTTATTTATTAA
1 TTAATTTAATAA
* *
8665824 TTTA-TTAATTTA
1 TTAATTTAA-TAA
*
8665836 TTAATTTATTAA
1 TTAATTTAATAA
8665848 TT
1 TT
8665850 CGATTAAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
10 12 0.16
11 21 0.28
12 39 0.52
13 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (12 bp):
TTAATTTAATAA
Found at i:8665810 original size:8 final size:8
Alignment explanation
Indices: 8665799--8665849 Score: 74
Period size: 8 Copynumber: 6.9 Consensus size: 8
8665789 TAATTTAATA
8665799 ATTAATTT
1 ATTAATTT
8665807 ATTAA--T
1 ATTAATTT
8665813 -TT-ATTT
1 ATTAATTT
8665819 ATTAATTT
1 ATTAATTT
8665827 ATTAATTT
1 ATTAATTT
8665835 ATTAATTT
1 ATTAATTT
8665843 ATTAATT
1 ATTAATT
8665850 CGATTAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 2 0.05
6 2 0.05
7 2 0.05
8 32 0.82
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTAATTT
Found at i:8665812 original size:20 final size:20
Alignment explanation
Indices: 8665787--8665841 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
8665777 ATAGATCAAA
*
8665787 ATTAATTTAATAATTAATTT
1 ATTAATTTATTAATTAATTT
*
8665807 ATTAATTTATTTATTAATTT
1 ATTAATTTATTAATTAATTT
8665827 ATTAATTTATTAATT
1 ATTAATTTATTAATT
8665842 TATTAATTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTAATTTATTAATTAATTT
Found at i:8666006 original size:14 final size:14
Alignment explanation
Indices: 8665969--8666006 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
8665959 TTGGAATTGG
*
8665969 TTTTGTTTTTCTTT
1 TTTTTTTTTTCTTT
*
8665983 TTTCTTTTTTCTTT
1 TTTTTTTTTTCTTT
8665997 TTTTTTTTTT
1 TTTTTTTTTT
8666007 TTGGGGGGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTCTTT
Found at i:8666008 original size:7 final size:7
Alignment explanation
Indices: 8665974--8666005 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
8665964 ATTGGTTTTG
8665974 TTTTTCT
1 TTTTTCT
8665981 TTTTTCT
1 TTTTTCT
8665988 TTTTTCT
1 TTTTTCT
8665995 TTTTT-T
1 TTTTTCT
8666001 TTTTT
1 TTTTT
8666006 TTTGGGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTCT
Found at i:8667481 original size:2 final size:2
Alignment explanation
Indices: 8667474--8667502 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8667464 CCTGTCGCCC
8667474 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8667503 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8680939 original size:11 final size:11
Alignment explanation
Indices: 8680923--8680947 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8680913 ACACAGTCAC
8680923 AGTGGCATTAT
1 AGTGGCATTAT
8680934 AGTGGCATTAT
1 AGTGGCATTAT
8680945 AGT
1 AGT
8680948 AAATAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (11 bp):
AGTGGCATTAT
Found at i:8684792 original size:2 final size:2
Alignment explanation
Indices: 8684785--8684816 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8684775 GAAGTCGAAC
8684785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8684817 TTGCAGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8688783 original size:52 final size:52
Alignment explanation
Indices: 8688721--8688829 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
8688711 TGGATAAGAA
* * *
8688721 GACTTGTAAAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGTAAGTTT
1 GACTTGTAAAAAAAAAATTCTAAAAGAAAAAAGATTCTTAATAGGTAAGTTT
*
8688773 GACTTGTAAAAAAAAAATTCTAAAAGAAAAAAGATTTTTAATAGGTAAGTTT
1 GACTTGTAAAAAAAAAATTCTAAAAGAAAAAAGATTCTTAATAGGTAAGTTT
8688825 GACTT
1 GACTT
8688830 ACAGGAGAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (52 bp):
GACTTGTAAAAAAAAAATTCTAAAAGAAAAAAGATTCTTAATAGGTAAGTTT
Found at i:8689443 original size:25 final size:25
Alignment explanation
Indices: 8689409--8689456 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8689399 AAGTGGTATC
**
8689409 AGAGCTGAAGATTTGAAATGTGAGA
1 AGAGCTGAAGATTCAAAATGTGAGA
*
8689434 AGAGTTGAAGATTCAAAATGTGA
1 AGAGCTGAAGATTCAAAATGTGA
8689457 AAATAGCCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (25 bp):
AGAGCTGAAGATTCAAAATGTGAGA
Found at i:8689781 original size:11 final size:11
Alignment explanation
Indices: 8689752--8689796 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
8689742 AATCCCATAA
*
8689752 GAGATTTATTT
1 GAGATTTGTTT
8689763 GAGATTTGTTT
1 GAGATTTGTTT
8689774 GAGATTTG-TT
1 GAGATTTGTTT
8689784 -AGATATTGTTT
1 GAGAT-TTGTTT
8689795 GA
1 GA
8689797 TGTATAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 4 0.13
10 5 0.17
11 20 0.67
12 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:8689900 original size:52 final size:52
Alignment explanation
Indices: 8689807--8689932 Score: 157
Period size: 52 Copynumber: 2.4 Consensus size: 52
8689797 TGTATAAGAA
* *
8689807 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGAAAGAAAATTCTTAATAGGCAAGTTT
* * *
8689859 GACTTGCAATAGAAGAATTTTAAAATGAAAGAAAATT-TTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAA-GAAAGAAAATTCTTAATAGGCAAGTTT
* **
8689911 GACTTACAGGAGAA-AATTCTAA
1 GACTTGCAAAAGAAGAATTCTAA
8689933 GAGGAGAGGG
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 7 0.11
52 47 0.73
53 10 0.16
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAAAGAAAGAAAATTCTTAATAGGCAAGTTT
Found at i:8692940 original size:28 final size:29
Alignment explanation
Indices: 8692898--8692956 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
8692888 AAACTCTTAC
* ** *
8692898 AAATTCATGTTTCATTGTAATTATATAAT
1 AAATTCATGCTTCATAATAATCATATAAT
8692927 AAATT-ATGCTTCATAATAATCATATAAT
1 AAATTCATGCTTCATAATAATCATATAAT
8692955 AA
1 AA
8692957 GCTATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (29 bp):
AAATTCATGCTTCATAATAATCATATAAT
Found at i:8695305 original size:2 final size:2
Alignment explanation
Indices: 8695293--8695321 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8695283 CTTTTGCTAC
8695293 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8695322 CAAACTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8700957 original size:16 final size:17
Alignment explanation
Indices: 8700933--8700966 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8700923 AATCAAATAA
8700933 TAAAATATA-TTTAAAT
1 TAAAATATATTTTAAAT
*
8700949 TAAATTATATTTTAAAT
1 TAAAATATATTTTAAAT
8700966 T
1 T
8700967 CTAATTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAATATATTTTAAAT
Found at i:8707707 original size:2 final size:2
Alignment explanation
Indices: 8707700--8707725 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8707690 AAGAATGATC
8707700 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8707726 GAATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8707789 original size:12 final size:12
Alignment explanation
Indices: 8707774--8707798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8707764 TTTTAATTAC
8707774 TAAAATTAAAAA
1 TAAAATTAAAAA
8707786 TAAAATTAAAAA
1 TAAAATTAAAAA
8707798 T
1 T
8707799 TTAATGTTTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:8713068 original size:36 final size:35
Alignment explanation
Indices: 8713028--8713099 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
8713018 CCCCTTTTTT
8713028 TGTTATTACGAAAATCTGCCTTATTACTAATAATAG
1 TGTTATTACGAAAATCTGCCTT-TTACTAATAATAG
* *
8713064 TGTTATTATGAGAATCTGCCTTTTACTAATAATAG
1 TGTTATTACGAAAATCTGCCTTTTACTAATAATAG
8713099 T
1 T
8713100 AAATATGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 14 0.41
36 20 0.59
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (35 bp):
TGTTATTACGAAAATCTGCCTTTTACTAATAATAG
Found at i:8714489 original size:13 final size:12
Alignment explanation
Indices: 8714462--8714488 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8714452 GCAGCAGCAC
8714462 AAAGCTAAAAAA
1 AAAGCTAAAAAA
8714474 AAAGCTAAAAAA
1 AAAGCTAAAAAA
8714486 AAA
1 AAA
8714489 AAACAAAAAA
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:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAGCTAAAAAA
Found at i:8715196 original size:21 final size:21
Alignment explanation
Indices: 8715170--8715220 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
8715160 AGGTGTTGAT
8715170 TTTTTTGAAAAGAAAAG-ATAA
1 TTTTTTGAAAA-AAAAGAATAA
* *
8715191 TTTTTTTAAAAAAATGAATAA
1 TTTTTTGAAAAAAAAGAATAA
8715212 TTTTTTGAA
1 TTTTTTGAA
8715221 GATAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
TTTTTTGAAAAAAAAGAATAA
Found at i:8715382 original size:17 final size:18
Alignment explanation
Indices: 8715360--8715395 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8715350 ACTTATTCTT
*
8715360 TAAT-AAAAATTAAAAAA
1 TAATAAAAAATGAAAAAA
8715377 TAATAAAAAATGAAAAAA
1 TAATAAAAAATGAAAAAA
8715395 T
1 T
8715396 GATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
TAATAAAAAATGAAAAAA
Found at i:8715898 original size:19 final size:20
Alignment explanation
Indices: 8715870--8715908 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8715860 CCTTATTCTC
*
8715870 AAATCC-AAAATTATTTTTT
1 AAATCCAAAAATGATTTTTT
*
8715889 AAATCTAAAAATGATTTTTT
1 AAATCCAAAAATGATTTTTT
8715909 TAATAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (20 bp):
AAATCCAAAAATGATTTTTT
Found at i:8716396 original size:28 final size:26
Alignment explanation
Indices: 8716351--8716408 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
8716341 TTTTGTAAAT
* *
8716351 TTAA-ATAATTTTTTATAAATATTTA
1 TTAATATAATTTTTTATAAAAATATA
8716376 TTAATATATATTTTTTAATAAAAATATA
1 TTAATATA-ATTTTTT-ATAAAAATATA
8716404 TTAAT
1 TTAAT
8716409 TTTAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.14
26 3 0.11
27 7 0.25
28 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTAATATAATTTTTTATAAAAATATA
Found at i:8728834 original size:42 final size:42
Alignment explanation
Indices: 8728775--8728859 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
8728765 TCACCCACAT
* *
8728775 AGCCTGTAACCTAATAGCCAAAAAAGCAAAAACAAAAAGAAA
1 AGCCTGAAACCTAATAGCAAAAAAAGCAAAAACAAAAAGAAA
*
8728817 AGCCTGAAACCTAATAGCAAAAAAAGCAAAAACGAAAAGAAA
1 AGCCTGAAACCTAATAGCAAAAAAAGCAAAAACAAAAAGAAA
8728859 A
1 A
8728860 CGAAAACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.61, C:0.18, G:0.13, T:0.08
Consensus pattern (42 bp):
AGCCTGAAACCTAATAGCAAAAAAAGCAAAAACAAAAAGAAA
Found at i:8730854 original size:25 final size:25
Alignment explanation
Indices: 8730820--8730872 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
8730810 CATCTAATCA
8730820 TTTAAAAAATGAAACTATGATAAAC
1 TTTAAAAAATGAAACTATGATAAAC
8730845 TTTAAAAAATGAAACTATGATAAAC
1 TTTAAAAAATGAAACTATGATAAAC
8730870 TTT
1 TTT
8730873 TCGATTCGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (25 bp):
TTTAAAAAATGAAACTATGATAAAC
Found at i:8730891 original size:26 final size:27
Alignment explanation
Indices: 8730855--8730924 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 27
8730845 TTTAAAAAAT
* * *
8730855 GAAACTATGATAAACTTTTC-GATTCG
1 GAAACTTTGATAAACTATGCAGATTCG
* *
8730881 GAAACTTTGATCAACCTATGCATGATTTG
1 GAAACTTTGAT-AAACTATGCA-GATTCG
8730910 GAAACTTTGATAAAC
1 GAAACTTTGATAAAC
8730925 AGATGCTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 10 0.29
27 6 0.17
28 3 0.09
29 16 0.46
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (27 bp):
GAAACTTTGATAAACTATGCAGATTCG
Found at i:8730930 original size:29 final size:29
Alignment explanation
Indices: 8730875--8730930 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
8730865 TAAACTTTTC
* **
8730875 GATTCGGAAACTTTGATCAACCTATGCAT
1 GATTCGGAAACTTTGATAAACAGATGCAT
*
8730904 GATTTGGAAACTTTGATAAACAGATGC
1 GATTCGGAAACTTTGATAAACAGATGC
8730931 TTGCTATCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (29 bp):
GATTCGGAAACTTTGATAAACAGATGCAT
Found at i:8742977 original size:2 final size:2
Alignment explanation
Indices: 8742966--8743024 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
8742956 TCTCGAACGG
* * *
8742966 TA TA TG TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
8743008 TA TA TA TA TC TA TA TA T
1 TA TA TA TA TA TA TA TA T
8743025 GAAGCCTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8744959 original size:2 final size:2
Alignment explanation
Indices: 8744952--8744981 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8744942 TACTTGTTTC
8744952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8744982 AAACTTGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8756658 original size:2 final size:2
Alignment explanation
Indices: 8756651--8756684 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8756641 CATCGTCTTT
8756651 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8756685 AATAGATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8756964 original size:15 final size:16
Alignment explanation
Indices: 8756944--8756986 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
8756934 ATAATTTAAC
8756944 TCTAATAAGTTATTA-
1 TCTAATAAGTTATTAT
8756959 TCTAATAAGTTATTAT
1 TCTAATAAGTTATTAT
*
8756975 TCTAATGAGTTA
1 TCTAATAAGTTA
8756987 GAGTAGAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (16 bp):
TCTAATAAGTTATTAT
Found at i:8758682 original size:14 final size:14
Alignment explanation
Indices: 8758663--8758693 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8758653 AGGAAAGAAG
8758663 TTTTTATTTAGTTA
1 TTTTTATTTAGTTA
8758677 TTTTTATTTAGTTA
1 TTTTTATTTAGTTA
8758691 TTT
1 TTT
8758694 AAATGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTTTATTTAGTTA
Found at i:8761030 original size:11 final size:11
Alignment explanation
Indices: 8761009--8761051 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8760999 TATTAAACTA
*
8761009 AAAAGATAAAT
1 AAAATATAAAT
*
8761020 AAATTATAAAT
1 AAAATATAAAT
*
8761031 AAAATAAAAAT
1 AAAATATAAAT
*
8761042 AAAATTTAAA
1 AAAATATAAA
8761052 CTCTAGATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:8761369 original size:22 final size:20
Alignment explanation
Indices: 8761335--8761382 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
8761325 TATATTGAAA
8761335 TATATAGAATATTTATATATTC
1 TATATAGAATA-TTATAT-TTC
*
8761357 TATATA-AATTATTCTATTTC
1 TATATAGAA-TATTATATTTC
8761377 TATATA
1 TATATA
8761383 TATAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 9 0.38
21 7 0.29
22 8 0.33
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (20 bp):
TATATAGAATATTATATTTC
Found at i:8761452 original size:25 final size:25
Alignment explanation
Indices: 8761420--8761477 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
8761410 TATCTAATTT
8761420 TTATA-TTTATATTTTA-TTAAAATA
1 TTATATTTTA-ATTTTATTTAAAATA
*
8761444 TTATAATTTTAATTTTATTTAAAATT
1 TTAT-ATTTTAATTTTATTTAAAATA
*
8761470 TTTTATTT
1 TTATATTT
8761478 AAATAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 11 0.38
26 14 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATATTTTAATTTTATTTAAAATA
Found at i:8761673 original size:22 final size:22
Alignment explanation
Indices: 8761645--8761706 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
8761635 ATAAAGGCTA
8761645 ATATTATTAAGATCATTATTAC
1 ATATTATTAAGATCATTATTAC
* *
8761667 ATATTATTAAAATTATTATTAC
1 ATATTATTAAGATCATTATTAC
* *
8761689 GTATTATTAAGACCATTA
1 ATATTATTAAGATCATTA
8761707 ATTTGATGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATTATTAAGATCATTATTAC
Found at i:8764602 original size:19 final size:19
Alignment explanation
Indices: 8764557--8764608 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 19
8764547 AATATTCTAT
*
8764557 ATAATCATTTTTTATTTAA
1 ATAATCATATTTTATTTAA
8764576 AT-A--A-ATTTTATTTAA
1 ATAATCATATTTTATTTAA
*
8764591 ATAATCATATTTTTTTTA
1 ATAATCATATTTTATTTA
8764609 TCTAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 12 0.44
16 2 0.07
18 2 0.07
19 11 0.41
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
ATAATCATATTTTATTTAA
Found at i:8764606 original size:38 final size:38
Alignment explanation
Indices: 8764564--8764658 Score: 113
Period size: 37 Copynumber: 2.5 Consensus size: 38
8764554 TATATAATCA
* *
8764564 TTTTTTATTTAAATAAATTTTATT-TAAATAATCATATT
1 TTTTTTATTTAAATATATTTTATTCGAAAT-ATCATATT
* * *
8764602 TTTTTTATCTAAATATA-TTTATTCGAACTATCGTATT
1 TTTTTTATTTAAATATATTTTATTCGAAATATCATATT
*
8764639 CTTTTTATTTAAATATATTT
1 TTTTTTATTTAAATATATTT
8764659 GTCTAAACTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 28 0.58
38 20 0.42
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (38 bp):
TTTTTTATTTAAATATATTTTATTCGAAATATCATATT
Found at i:8764619 original size:19 final size:19
Alignment explanation
Indices: 8764564--8764621 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
8764554 TATATAATCA
* *
8764564 TTTTTTATTTAAATAAATT
1 TTTTTTATATAAATATATT
* *
8764583 TTATTTAAAT-AATCATATT
1 TTTTTTATATAAAT-ATATT
*
8764602 TTTTTTATCTAAATATATT
1 TTTTTTATATAAATATATT
8764621 T
1 T
8764622 ATTCGAACTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 3 0.10
19 24 0.80
20 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTTATATAAATATATT
Found at i:8765418 original size:3 final size:3
Alignment explanation
Indices: 8765412--8765463 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
8765402 TCGAATAATA
*
8765412 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8765460 TAT T
1 TAT T
8765464 GTTTCTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8765615 original size:45 final size:45
Alignment explanation
Indices: 8765566--8765651 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
8765556 TACGTTGGAT
* * *
8765566 AAAATTTAATCTTAAGATTCAAGTCTGAATTAATTATGTTCAGGC
1 AAAATCTAATCTCAAGATTCAAATCTGAATTAATTATGTTCAGGC
* *
8765611 AAAATCTAATCTCAAGATTCAAATCTGAATTGATTCTGTTC
1 AAAATCTAATCTCAAGATTCAAATCTGAATTAATTATGTTC
8765652 TGAGTCTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (45 bp):
AAAATCTAATCTCAAGATTCAAATCTGAATTAATTATGTTCAGGC
Found at i:8765849 original size:22 final size:21
Alignment explanation
Indices: 8765800--8765867 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 21
8765790 CTGGGATTAA
*
8765800 GAGTTTGAAGTTTTTGGGTTT
1 GAGTTTGAAGTTTCTGGGTTT
8765821 GATGTTTGAAGTTTCTGGGTTTT
1 GA-GTTTGAAGTTTCTGGG-TTT
* * *
8765844 GAGTTT-AAATTTATGGGATT
1 GAGTTTGAAGTTTCTGGGTTT
8765864 GAGT
1 GAGT
8765868 CAAATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 6 0.15
21 11 0.27
22 19 0.46
23 5 0.12
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (21 bp):
GAGTTTGAAGTTTCTGGGTTT
Found at i:8765874 original size:19 final size:19
Alignment explanation
Indices: 8765850--8765893 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8765840 TTTTGAGTTT
8765850 AAATTTATGGGATTGAGTC
1 AAATTTATGGGATTGAGTC
* * * *
8765869 AAATTTTTTGGTTTGGGTC
1 AAATTTATGGGATTGAGTC
8765888 AAATTT
1 AAATTT
8765894 TTGGAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (19 bp):
AAATTTATGGGATTGAGTC
Found at i:8767113 original size:17 final size:17
Alignment explanation
Indices: 8767091--8767124 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8767081 TAATCACACC
*
8767091 TAAACAAAAAATATTGA
1 TAAACAAAAAAGATTGA
8767108 TAAACAAAAAAGATTGA
1 TAAACAAAAAAGATTGA
8767125 CGGTAACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.21
Consensus pattern (17 bp):
TAAACAAAAAAGATTGA
Found at i:8778136 original size:60 final size:60
Alignment explanation
Indices: 8778030--8778172 Score: 137
Period size: 60 Copynumber: 2.4 Consensus size: 60
8778020 TGATCTCGAC
* ** * * *
8778030 TCAGTCCAGATCAT-TTTTTGACCCGCGGTTCAACCTCGATCATTCATTGTAAACTCCGCT
1 TCAGTCCAAATCATCTTTTTGACTAGTGATTCAACCTCGATCATTCATTCTAAACTCCG-T
* * * * * * *
8778090 T-GGTCCAAATCATTTTTTTGACTAGTGATTCAACCTTGGTCGTTCATTCTAATCTCTGT
1 TCAGTCCAAATCATCTTTTTGACTAGTGATTCAACCTCGATCATTCATTCTAAACTCCGT
*
8778149 TCAGTCCTAATCATCTTTTTGACT
1 TCAGTCCAAATCATCTTTTTGACT
8778173 TGCAGCTCAG
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
59 12 0.18
60 54 0.82
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (60 bp):
TCAGTCCAAATCATCTTTTTGACTAGTGATTCAACCTCGATCATTCATTCTAAACTCCGT
Found at i:8778303 original size:3 final size:3
Alignment explanation
Indices: 8778297--8778334 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
8778287 ATTATTATTA
*
8778297 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG CTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
8778335 ACTATTGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.32, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:8778543 original size:45 final size:45
Alignment explanation
Indices: 8778461--8778551 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
8778451 TTAAGTTGGA
* * * ** *
8778461 CAGAATCCAATCTCAGGATTCAAATCTGGATTGGTTCTGTTCAAG
1 CAGAATCCAATCCCAGGATTCAAACCTAGATCAGTTCTATTCAAG
* *
8778506 CAGAATCTAATCCCAGGATTCAAGCCTAGATCAGTTCTATTCAAG
1 CAGAATCCAATCCCAGGATTCAAACCTAGATCAGTTCTATTCAAG
8778551 C
1 C
8778552 CTGGATTAGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
CAGAATCCAATCCCAGGATTCAAACCTAGATCAGTTCTATTCAAG
Found at i:8778549 original size:21 final size:21
Alignment explanation
Indices: 8778523--8778573 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
8778513 TAATCCCAGG
8778523 ATTCAAGCCTAGATCAGTTCT
1 ATTCAAGCCTAGATCAGTTCT
* * *
8778544 ATTCAAGCCTGGATTAGTTTT
1 ATTCAAGCCTAGATCAGTTCT
8778565 ATTCAAGCC
1 ATTCAAGCC
8778574 CTAAAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (21 bp):
ATTCAAGCCTAGATCAGTTCT
Found at i:8780851 original size:29 final size:28
Alignment explanation
Indices: 8780797--8780851 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
8780787 TTAGATTAAT
* *
8780797 TATAATTAATATATTTTTCATTAAAAAA
1 TATAATTAATATATATTTCATAAAAAAA
*
8780825 TATATATTAATATATATTT-ATGAAAAA
1 TATA-ATTAATATATATTTCATAAAAAA
8780852 TTATCAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
TATAATTAATATATATTTCATAAAAAAA
Found at i:8787726 original size:30 final size:30
Alignment explanation
Indices: 8787667--8787724 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
8787657 TTGTTCTTAA
* *
8787667 AAATAATTTAATAAAAATTTTAATAAAAAT
1 AAATAATATAATAAAAAATTTAATAAAAAT
*
8787697 AAATAATAT-ATAAAAAATTTATTAAAAA
1 AAATAATATAATAAAAAATTTAATAAAAA
8787725 ATTTGATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (30 bp):
AAATAATATAATAAAAAATTTAATAAAAAT
Found at i:8787802 original size:49 final size:48
Alignment explanation
Indices: 8787749--8787899 Score: 123
Period size: 49 Copynumber: 3.2 Consensus size: 48
8787739 TATTTAATGA
*
8787749 TAAAAATTAAGTCAATATTTTTATATTAAAAATATATATTAAAATTTTT
1 TAAAATTTAA-TCAATATTTTTATATTAAAAATATATATTAAAATTTTT
* * ** *** * *
8787798 TAAAATTTTATACACT-TAATTATGCGAAAAA-ATAT-TT-TAATTTAT
1 TAAAATTTAAT-CAATATTTTTATATTAAAAATATATATTAAAATTTTT
* *
8787843 T-AATTTTAATTTTAATATTTTTATATTAAAAATATATATTAAAATTTTT
1 TAAAATTTAA--TCAATATTTTTATATTAAAAATATATATTAAAATTTTT
8787892 TAAAATTT
1 TAAAATTT
8787900 TATACACTTA
Statistics
Matches: 72, Mismatches: 22, Indels: 15
0.66 0.20 0.14
Matches are distributed among these distances:
44 6 0.08
45 9 0.12
46 13 0.18
47 8 0.11
48 13 0.18
49 18 0.25
50 5 0.07
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.50
Consensus pattern (48 bp):
TAAAATTTAATCAATATTTTTATATTAAAAATATATATTAAAATTTTT
Found at i:8787872 original size:94 final size:94
Alignment explanation
Indices: 8787762--8787952 Score: 382
Period size: 94 Copynumber: 2.0 Consensus size: 94
8787752 AAATTAAGTC
8787762 AATATTTTTATATTAAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGAAA
1 AATATTTTTATATTAAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGAAA
8787827 AAATATTTTAATTTATTAATTTTAATTTT
66 AAATATTTTAATTTATTAATTTTAATTTT
8787856 AATATTTTTATATTAAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGAAA
1 AATATTTTTATATTAAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGAAA
8787921 AAATATTTTAATTTATTAATTTTAATTTT
66 AAATATTTTAATTTATTAATTTTAATTTT
8787950 AAT
1 AAT
8787953 TTAATTATTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (94 bp):
AATATTTTTATATTAAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGAAA
AAATATTTTAATTTATTAATTTTAATTTT
Found at i:8787923 original size:49 final size:49
Alignment explanation
Indices: 8787776--8787926 Score: 156
Period size: 49 Copynumber: 3.2 Consensus size: 49
8787766 TTTTTATATT
8787776 AAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGA
1 AAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGA
* * * ***
8787825 AAAAATAT-T-TT--AATTTATTAATTTTAATTTTA-ATA-TT-TTTAT-ATT
1 AAAAATATATATTAAAATTTTTTAA----AATTTTATACACTTAATTATGCGA
8787870 AAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGA
1 AAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGA
8787919 AAAAATAT
1 AAAAATAT
8787927 TTTAATTTAT
Statistics
Matches: 78, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
45 24 0.31
46 7 0.09
47 8 0.10
48 7 0.09
49 32 0.41
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (49 bp):
AAAAATATATATTAAAATTTTTTAAAATTTTATACACTTAATTATGCGA
Found at i:8787934 original size:45 final size:45
Alignment explanation
Indices: 8787791--8787939 Score: 142
Period size: 45 Copynumber: 3.2 Consensus size: 45
8787781 TATATATTAA
*
8787791 AATTTTTTAAAATTTTATACACTTAATTATGCGAAAAAATATTTT
1 AATTTATTAAAATTTTATACACTTAATTATGCGAAAAAATATTTT
* * *** *
8787836 AATTTATTAATTTTAATTTTA-ATA-TT-TTTATATTAAAAATATATATTAA
1 AATTTATTAA----AATTTTATACACTTAATTATGCGAAAAA-ATAT-TT-T
*
8787885 AATTTTTTAAAATTTTATACACTTAATTATGCGAAAAAATATTTT
1 AATTTATTAAAATTTTATACACTTAATTATGCGAAAAAATATTTT
8787930 AATTTATTAA
1 AATTTATTAA
8787940 TTTTAATTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
45 25 0.32
46 13 0.16
47 12 0.15
48 13 0.16
49 16 0.20
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (45 bp):
AATTTATTAAAATTTTATACACTTAATTATGCGAAAAAATATTTT
Found at i:8787948 original size:49 final size:49
Alignment explanation
Indices: 8787801--8787950 Score: 161
Period size: 47 Copynumber: 3.1 Consensus size: 49
8787791 AATTTTTTAA
8787801 AATTTTATACACTTAATTATGCGAAAAAATATTTTAATTTATTAATTTT
1 AATTTTATACACTTAATTATGCGAAAAAATATTTTAATTTATTAATTTT
* * *** * *
8787850 AATTTTA-ATA-TT-TTTATATTAAAAATATATATTAA--AATT--TTTT
1 AATTTTATACACTTAATTATGCGAAAAA-ATATTTTAATTTATTAATTTT
8787893 AAAATTTTATACACTTAATTATGCGAAAAAATATTTTAATTTATTAATTTT
1 --AATTTTATACACTTAATTATGCGAAAAAATATTTTAATTTATTAATTTT
8787944 AATTTTA
1 AATTTTA
8787951 ATTTAATTAT
Statistics
Matches: 77, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
43 4 0.05
45 10 0.13
46 11 0.14
47 20 0.26
48 11 0.14
49 17 0.22
51 4 0.05
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (49 bp):
AATTTTATACACTTAATTATGCGAAAAAATATTTTAATTTATTAATTTT
Found at i:8788388 original size:2 final size:2
Alignment explanation
Indices: 8788348--8788376 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8788338 ACCAAATTTA
8788348 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8788377 TACAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8798170 original size:2 final size:2
Alignment explanation
Indices: 8798163--8798215 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
8798153 AGAAGAAGAA
8798163 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8798205 AG AG AG AG AG A
1 AG AG AG AG AG A
8798216 AGAATATCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8798843 original size:1 final size:1
Alignment explanation
Indices: 8798837--8798878 Score: 84
Period size: 1 Copynumber: 42.0 Consensus size: 1
8798827 ATCATAGAAG
8798837 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8798879 ATCTTATCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8799174 original size:2 final size:2
Alignment explanation
Indices: 8799167--8799207 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
8799157 AATTCAAAGC
* * *
8799167 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA CA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8799208 CTTCATTTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8801756 original size:14 final size:12
Alignment explanation
Indices: 8801736--8801779 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
8801726 ATCGTTGATG
8801736 AATATATTTGTTT
1 AATATATTT-TTT
*
8801749 ATATATATTTTTA
1 A-ATATATTTTTT
8801762 AATATATTTATTT
1 AATATATTT-TTT
8801775 AATAT
1 AATAT
8801780 TTATAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 8 0.30
13 11 0.41
14 8 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
AATATATTTTTT
Found at i:8801796 original size:23 final size:23
Alignment explanation
Indices: 8801753--8801796 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8801743 TTGTTTATAT
* * *
8801753 ATATTTTTAAATATATTTATTTA
1 ATATTTATAAATAAATCTATTTA
8801776 ATATTTATAAATAAATCTATT
1 ATATTTATAAATAAATCTATT
8801797 AAAATTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATTTATAAATAAATCTATTTA
Found at i:8821966 original size:73 final size:73
Alignment explanation
Indices: 8821847--8821991 Score: 254
Period size: 73 Copynumber: 2.0 Consensus size: 73
8821837 CATTTAAAGC
*
8821847 AAAATTCATATCAGGAATGCTGATAAAAGACAAAATGCCCATAAGATACAGATATGTAAAGATGG
1 AAAATTCATATCAGGAAAGCTGATAAAAGACAAAATGCCCATAAGATACAGATATGTAAAGATGG
8821912 CAATTGGT
66 CAATTGGT
* *
8821920 AAAATTCATATCAGTAAAGCTGATAAAAGACAAAATGCCCCTAAGATACAGATATGTAAAGATGG
1 AAAATTCATATCAGGAAAGCTGATAAAAGACAAAATGCCCATAAGATACAGATATGTAAAGATGG
*
8821985 CAGTTGG
66 CAATTGG
8821992 CAAACAAGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (73 bp):
AAAATTCATATCAGGAAAGCTGATAAAAGACAAAATGCCCATAAGATACAGATATGTAAAGATGG
CAATTGGT
Found at i:8823586 original size:18 final size:18
Alignment explanation
Indices: 8823563--8823597 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8823553 ACAGGGATAC
*
8823563 ATGCATAAAGATGAGTAA
1 ATGCATAAACATGAGTAA
*
8823581 ATGCATACACATGAGTA
1 ATGCATAAACATGAGTA
8823598 CATGTGCTCC
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:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (18 bp):
ATGCATAAACATGAGTAA
Found at i:8834672 original size:2 final size:2
Alignment explanation
Indices: 8834665--8834703 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8834655 GCAAGTCAGC
8834665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8834704 GGAGCTGAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8837130 original size:52 final size:52
Alignment explanation
Indices: 8837062--8837160 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
8837052 AGGTTTTTCC
* * *
8837062 ATAGCCACTTTACTTCGTTTATATTTTTATATTTTTATAGTTTTTTTCTGAG
1 ATAGACACTTCACTTCGTTTATATTTTTATATTTTTAGAGTTTTTTTCTGAG
*
8837114 ATAGACACTTCACTTCGTTTATATTTTTATATTTTTAGATTTTTTTT
1 ATAGACACTTCACTTCGTTTATATTTTTATATTTTTAGAGTTTTTTT
8837161 TTCTGAGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.59
Consensus pattern (52 bp):
ATAGACACTTCACTTCGTTTATATTTTTATATTTTTAGAGTTTTTTTCTGAG
Found at i:8844966 original size:27 final size:27
Alignment explanation
Indices: 8844909--8844966 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
8844899 CCATATCTGT
* *
8844909 AAAATAAGAAAAAAAATTGAAAAAAAG
1 AAAACAAGAAAAAAAATTGAAAAAAAC
*
8844936 AAAACAAGAAAAGAAAATTG-AAAGAAC
1 AAAACAAGAAAA-AAAATTGAAAAAAAC
8844963 AAAA
1 AAAA
8844967 ATTAAAGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (27 bp):
AAAACAAGAAAAAAAATTGAAAAAAAC
Found at i:8855291 original size:31 final size:32
Alignment explanation
Indices: 8855239--8855301 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 32
8855229 CCTAGTTTAC
8855239 CTAGCTATAAACTCATTCAAGGATTTTATTCT
1 CTAGCTATAAACTCATTCAAGGATTTTATTCT
*
8855271 CTAGCTAT-AACTGATTCAAGGATTTTATTCT
1 CTAGCTATAAACTCATTCAAGGATTTTATTCT
8855302 TTCCTGGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (32 bp):
CTAGCTATAAACTCATTCAAGGATTTTATTCT
Found at i:8862252 original size:12 final size:12
Alignment explanation
Indices: 8862231--8862262 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
8862221 CCTCGAATCG
8862231 CCCGGTCCCTGT
1 CCCGGTCCCTGT
*
8862243 CCCTGTCCCTGT
1 CCCGGTCCCTGT
8862255 CCCGGTCC
1 CCCGGTCC
8862263 GGCCCATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.53, G:0.22, T:0.25
Consensus pattern (12 bp):
CCCGGTCCCTGT
Found at i:8865479 original size:27 final size:27
Alignment explanation
Indices: 8865433--8865485 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
8865423 GCTGTCTCAA
**
8865433 GTGGACTTTAAGAATTGGCCGAAAAAG
1 GTGGACTTTAAGAAAAGGCCGAAAAAG
*
8865460 GTGGACTTTAAGAAAAGGCCGCAAAA
1 GTGGACTTTAAGAAAAGGCCGAAAAA
8865486 TCCTTGTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (27 bp):
GTGGACTTTAAGAAAAGGCCGAAAAAG
Found at i:8875736 original size:20 final size:19
Alignment explanation
Indices: 8875698--8875736 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8875688 CATCACTTAA
* *
8875698 TTTAATGATTAAAATTTTT
1 TTTAAAGATTAAAAATTTT
8875717 TTTAAAGATATAAAAATTTT
1 TTTAAAGAT-TAAAAATTTT
8875737 AATTTCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTAAAGATTAAAAATTTT
Found at i:8876450 original size:23 final size:23
Alignment explanation
Indices: 8876420--8876464 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8876410 ATCACAATTT
*
8876420 TGACATAAAGTAAAGATGACTTA
1 TGACATAAAGTAAACATGACTTA
*
8876443 TGACATAAAGTAGACATGACTT
1 TGACATAAAGTAAACATGACTT
8876465 GACTAAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (23 bp):
TGACATAAAGTAAACATGACTTA
Found at i:8876490 original size:17 final size:16
Alignment explanation
Indices: 8876459--8876505 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
8876449 AAAGTAGACA
8876459 TGACTTGAC-TAAAGG
1 TGACTTGACATAAAGG
8876474 TAGACTAT-ACATAAAGG
1 T-GACT-TGACATAAAGG
8876491 TGACTTGACATAAAG
1 TGACTTGACATAAAG
8876506 TTATCTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.07
16 18 0.64
17 8 0.29
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (16 bp):
TGACTTGACATAAAGG
Found at i:8887105 original size:6 final size:6
Alignment explanation
Indices: 8887096--8887123 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8887086 AGAAATGGAA
8887096 GGGATG GGGATG GGGATG GGGATG GGGA
1 GGGATG GGGATG GGGATG GGGATG GGGA
8887124 GGTTATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.68, T:0.14
Consensus pattern (6 bp):
GGGATG
Found at i:8888111 original size:2 final size:2
Alignment explanation
Indices: 8888104--8888129 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8888094 CCATACATAC
8888104 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8888130 TCTGAAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8889374 original size:15 final size:14
Alignment explanation
Indices: 8889349--8889382 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
8889339 GGATCGAGGG
*
8889349 GAAAGGAAAGTAAA
1 GAAAAGAAAGTAAA
8889363 GTAAAAGAAAGTAAA
1 G-AAAAGAAAGTAAA
8889378 GAAAA
1 GAAAA
8889383 CAAAACTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.09
Consensus pattern (14 bp):
GAAAAGAAAGTAAA
Found at i:8890012 original size:24 final size:24
Alignment explanation
Indices: 8889985--8890033 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8889975 TATTTTTTAA
* *
8889985 ATATAAATATTTAAATATATAATT
1 ATATAAATATATAAATAAATAATT
* *
8890009 ATATAACTATATATATAAATAATT
1 ATATAAATATATAAATAAATAATT
8890033 A
1 A
8890034 ATTAATTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAAATATATAAATAAATAATT
Found at i:8896264 original size:16 final size:16
Alignment explanation
Indices: 8896223--8896258 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8896213 TGTAACAAGA
*
8896223 ATAGATTGATTTATTG
1 ATAGATTCATTTATTG
*
8896239 GTAGATTCATTTATTG
1 ATAGATTCATTTATTG
8896255 ATAG
1 ATAG
8896259 TATCATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (16 bp):
ATAGATTCATTTATTG
Found at i:8896586 original size:32 final size:32
Alignment explanation
Indices: 8896548--8896609 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
8896538 CCACGATTCA
*
8896548 TATATTTATATTATATAAAATATTAAAATTTT
1 TATATTTATATTATATAAAATATAAAAATTTT
* *
8896580 TATATTTATATTATATTATATATAAAAATT
1 TATATTTATATTATATAAAATATAAAAATT
8896610 ACGTATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TATATTTATATTATATAAAATATAAAAATTTT
Found at i:8896724 original size:25 final size:26
Alignment explanation
Indices: 8896696--8896745 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
8896686 AAATTTTAAA
8896696 TTATATCATATTTATAT-ATATTTTT
1 TTATATCATATTTATATCATATTTTT
* *
8896721 TTATATTATATTTGTATCATATTTT
1 TTATATCATATTTATATCATATTTT
8896746 ACATTATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (26 bp):
TTATATCATATTTATATCATATTTTT
Found at i:8897844 original size:23 final size:22
Alignment explanation
Indices: 8897809--8897864 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
8897799 ATTTATATCT
8897809 AAAAAA-TATATATAAAATTATTA
1 AAAAAATTA-ATATAAAATTA-TA
8897832 AAAAAATTAATATAAAATTATA
1 AAAAAATTAATATAAAATTATA
*
8897854 AAAAGATTAAT
1 AAAAAATTAAT
8897865 TATTCTCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 12 0.39
23 17 0.55
24 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAAATTAATATAAAATTATA
Found at i:8906180 original size:12 final size:12
Alignment explanation
Indices: 8906149--8906182 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8906139 CTTGAGGACG
* *
8906149 GATATATACCAT
1 GATATATTCAAT
8906161 GATATATTCAAT
1 GATATATTCAAT
8906173 GATATATTCA
1 GATATATTCA
8906183 GGTTTCAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (12 bp):
GATATATTCAAT
Found at i:8906734 original size:15 final size:16
Alignment explanation
Indices: 8906709--8906739 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8906699 ATGTTTTGTT
8906709 TTTTATAAAAATTAAA
1 TTTTATAAAAATTAAA
8906725 TTTT-TAAAAATTAAA
1 TTTTATAAAAATTAAA
8906740 AGTAAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTATAAAAATTAAA
Found at i:8907936 original size:18 final size:17
Alignment explanation
Indices: 8907878--8907951 Score: 51
Period size: 17 Copynumber: 4.1 Consensus size: 17
8907868 TTACATAATT
*
8907878 TATATTATAA-AAATTAA
1 TATATT-TAATAAATAAA
* *
8907895 TTTACTTAATAAATAAA
1 TATATTTAATAAATAAA
* *
8907912 TATATTTAATAATTTAA
1 TATATTTAATAAATAAA
8907929 TAATATTTATTATAGAATAAA
1 T-ATATTTA--ATA-AATAAA
8907950 TA
1 TA
8907952 AACTATTACT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
16 3 0.07
17 24 0.56
18 7 0.16
20 4 0.09
21 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
TATATTTAATAAATAAA
Found at i:8908176 original size:17 final size:17
Alignment explanation
Indices: 8908142--8908177 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8908132 ATTATAAATG
**
8908142 ATAAAATTATTTTGATA
1 ATAAAATTATTTCAATA
8908159 ATAAAATTATTTCAATA
1 ATAAAATTATTTCAATA
8908176 AT
1 AT
8908178 TATGTTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
ATAAAATTATTTCAATA
Found at i:8910572 original size:13 final size:13
Alignment explanation
Indices: 8910554--8910583 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
8910544 CTTAGTCTTT
8910554 GGACCGATGATTC
1 GGACCGATGATTC
8910567 GGACCGATGATTC
1 GGACCGATGATTC
8910580 GGAC
1 GGAC
8910584 ACAACTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.20
Consensus pattern (13 bp):
GGACCGATGATTC
Found at i:8919735 original size:18 final size:18
Alignment explanation
Indices: 8919701--8919735 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8919691 AGTAGACGAT
**
8919701 TTTTTTTTTCACCAAAAC
1 TTTTTTTTTCAAAAAAAC
8919719 TTTTTTTTTCAAAAAAA
1 TTTTTTTTTCAAAAAAA
8919736 AAGAGTTGTA
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:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTTTTTTCAAAAAAAC
Found at i:8920449 original size:15 final size:16
Alignment explanation
Indices: 8920419--8920463 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
8920409 AACTTCAATG
* *
8920419 TAAAATGATTTTAATT
1 TAAAATAATTTAAATT
8920435 TAAAA-AATTTAAATT
1 TAAAATAATTTAAATT
8920450 TAAAATAA-TTAAAT
1 TAAAATAATTTAAAT
8920464 CTTTTATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
TAAAATAATTTAAATT
Found at i:8922987 original size:2 final size:2
Alignment explanation
Indices: 8922980--8923009 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8922970 TATAATTTGT
8922980 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8923010 TTAATTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8927236 original size:15 final size:16
Alignment explanation
Indices: 8927206--8927239 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8927196 TTTTATATAT
8927206 TTAAAGTTATTAAAAA
1 TTAAAGTTATTAAAAA
8927222 TTAAA-TTATTTAAAAA
1 TTAAAGTTA-TTAAAAA
8927238 TT
1 TT
8927240 CATCATTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAAAGTTATTAAAAA
Found at i:8937112 original size:20 final size:21
Alignment explanation
Indices: 8937071--8937113 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8937061 ATTTTTTAAA
* *
8937071 TATAATAAAAATATAAATATT
1 TATAAAAAAAAGATAAATATT
8937092 TATAAAAAAAAGATAAA-ATT
1 TATAAAAAAAAGATAAATATT
8937112 TA
1 TA
8937114 ATTATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TATAAAAAAAAGATAAATATT
Found at i:8948660 original size:26 final size:26
Alignment explanation
Indices: 8948631--8948683 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
8948621 TTGAATCTTG
8948631 CCATCTGAGCTTGGTTA-ATCATTGCT
1 CCATCTGAGCTTGGTTACA-CATTGCT
*
8948657 CCATCTGAGTTTGGTTACACATTGCT
1 CCATCTGAGCTTGGTTACACATTGCT
8948683 C
1 C
8948684 TAACAATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (26 bp):
CCATCTGAGCTTGGTTACACATTGCT
Found at i:8951450 original size:15 final size:15
Alignment explanation
Indices: 8951430--8951461 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8951420 AGTGAGTTAA
8951430 AGCCATTGATGGAGC
1 AGCCATTGATGGAGC
8951445 AGCCATTGATGGAGC
1 AGCCATTGATGGAGC
8951460 AG
1 AG
8951462 AGCAGAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.34, T:0.19
Consensus pattern (15 bp):
AGCCATTGATGGAGC
Found at i:8960228 original size:15 final size:15
Alignment explanation
Indices: 8960208--8960236 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8960198 ATTAATCTAA
8960208 ATTTAAATTGATTTG
1 ATTTAAATTGATTTG
8960223 ATTTAAATTGATTT
1 ATTTAAATTGATTT
8960237 TATTCATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTAAATTGATTTG
Found at i:8960318 original size:21 final size:23
Alignment explanation
Indices: 8960274--8960328 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
8960264 TAATTTTTAT
* *
8960274 ATTTTTATATATTATTTTAATAA
1 ATTTTTATATATTACTTAAATAA
8960297 ATTTTTA-ATA-TACTTAAATAA
1 ATTTTTATATATTACTTAAATAA
*
8960318 ATTTATATATA
1 ATTTTTATATA
8960329 ATAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.54
22 6 0.21
23 7 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTTATATATTACTTAAATAA
Done.