Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 18 of 425
Found at i:4795315 original size:42 final size:42
Alignment explanation
Indices: 4795260--4795341 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
4795250 TATTTGGTTT
* *
4795260 TAAGCACCATAGATAGGATTGTGGAGCATAATTATTGTTTTA
1 TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTTTA
* * * *
4795302 TAAGCGCCTTAGATAGGATTTTGGAGTACAATTACTGTTT
1 TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTT
4795342 CATATTTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (42 bp):
TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTTTA
Found at i:4800037 original size:6 final size:7
Alignment explanation
Indices: 4800012--4800044 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
4800002 CCAGCTCTAA
4800012 CCCTCTC
1 CCCTCTC
4800019 CCCTCTC
1 CCCTCTC
4800026 CCCTCT-
1 CCCTCTC
4800032 CCCTCTTC
1 CCCTC-TC
4800040 CCCTC
1 CCCTC
4800045 CATAGCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 5 0.21
7 14 0.58
8 5 0.21
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (7 bp):
CCCTCTC
Found at i:4809819 original size:2 final size:2
Alignment explanation
Indices: 4809812--4809837 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4809802 CGACTTTAAC
4809812 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
4809838 AATTTTTTAA
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):
TA
Found at i:4811509 original size:20 final size:20
Alignment explanation
Indices: 4811484--4811524 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4811474 ACTTACGTAA
4811484 GCAGAACACTATCTATCAAG
1 GCAGAACACTATCTATCAAG
4811504 GCAGAACACTATCTATCAAG
1 GCAGAACACTATCTATCAAG
4811524 G
1 G
4811525 TCGAAGGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
GCAGAACACTATCTATCAAG
Found at i:4813425 original size:14 final size:14
Alignment explanation
Indices: 4813406--4813456 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
4813396 ATTTTATAAT
4813406 TATATTTAAAACTA
1 TATATTTAAAACTA
* *
4813420 TATATTTGAAGCTA
1 TATATTTAAAACTA
4813434 TA-ACTTTAAAA-TA
1 TATA-TTTAAAACTA
*
4813447 AATATTTAAA
1 TATATTTAAA
4813457 TTGAAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (14 bp):
TATATTTAAAACTA
Found at i:4813456 original size:13 final size:14
Alignment explanation
Indices: 4813438--4813470 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4813428 AAGCTATAAC
4813438 TTTAAAAT-AAATA
1 TTTAAAATGAAATA
*
4813451 TTTAAATTGAAATA
1 TTTAAAATGAAATA
4813465 TTTAAA
1 TTTAAA
4813471 GTCTTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTAAAATGAAATA
Found at i:4813775 original size:20 final size:21
Alignment explanation
Indices: 4813750--4813797 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
4813740 ACATTAGAAA
4813750 ATATAAAAA-TAGAAATAA-AT
1 ATATAAAAATTAGAAA-AATAT
4813770 ATATAAAAATTTAGAAAAATAT
1 ATATAAAAA-TTAGAAAAATAT
4813792 ATATAA
1 ATATAA
4813798 TCTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.36
21 2 0.08
22 14 0.56
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
ATATAAAAATTAGAAAAATAT
Found at i:4813875 original size:13 final size:13
Alignment explanation
Indices: 4813853--4813882 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4813843 AAACTATTAC
4813853 AAAA-TGTAAAAA
1 AAAATTGTAAAAA
4813865 AAAATTGTAAAAA
1 AAAATTGTAAAAA
4813878 AAAAT
1 AAAAT
4813883 AGAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (13 bp):
AAAATTGTAAAAA
Found at i:4814273 original size:28 final size:29
Alignment explanation
Indices: 4814220--4814279 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
4814210 GTTAAAAGTG
*
4814220 TTTTTAATATTTAATATTATATTTTTCTAT
1 TTTTTAATATTAAATATTATATTTTT-TAT
4814250 TTTTTAAT-TTAAAT-TTA-ATGTTTTTAT
1 TTTTTAATATTAAATATTATAT-TTTTTAT
4814277 TTT
1 TTT
4814280 AAATAAGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 8 0.29
28 7 0.25
29 5 0.18
30 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (29 bp):
TTTTTAATATTAAATATTATATTTTTTAT
Found at i:4820698 original size:40 final size:41
Alignment explanation
Indices: 4820643--4820747 Score: 171
Period size: 40 Copynumber: 2.6 Consensus size: 41
4820633 CCTCATAATC
4820643 GTTTGAGAGATTAAGTGCAGGATTAAGCAGCAAC-A-ATACA
1 GTTTGAGAGATTAAGTGCAGGATTAAGCAGCAACGACAT-CA
*
4820683 GTTTGAGAGATTAAGTGCAAGATTAAGCAGCAACGACATCA
1 GTTTGAGAGATTAAGTGCAGGATTAAGCAGCAACGACATCA
4820724 -TTTGAGAGATTAAGTGCAGGATTA
1 GTTTGAGAGATTAAGTGCAGGATTA
4820748 CAGTAATGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
40 56 0.92
41 3 0.05
42 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (41 bp):
GTTTGAGAGATTAAGTGCAGGATTAAGCAGCAACGACATCA
Found at i:4824698 original size:16 final size:16
Alignment explanation
Indices: 4824679--4824734 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
4824669 GGATTCAGAA
4824679 TTTTTTGGGCTTAAGT
1 TTTTTTGGGCTTAAGT
*
4824695 TTTTTTCGGGATT-AGAT
1 TTTTTT-GGGCTTAAG-T
* *
4824712 TTTTTTGGGCTCAATT
1 TTTTTTGGGCTTAAGT
4824728 TTTTTTG
1 TTTTTTG
4824735 TGCTCGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.12, C:0.07, G:0.21, T:0.59
Consensus pattern (16 bp):
TTTTTTGGGCTTAAGT
Found at i:4824721 original size:33 final size:34
Alignment explanation
Indices: 4824669--4824733 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
4824659 AATTTTCTTT
*
4824669 GGATTCAGAATTTTTTGGGCTTAAGTTTTTTTCG
1 GGATTCAGAATTTTTTGGGCTCAAGTTTTTTTCG
* *
4824703 GGATT-AGATTTTTTTGGGCTCAATTTTTTTT
1 GGATTCAGAATTTTTTGGGCTCAAGTTTTTTT
4824734 GTGCTCGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.54
Consensus pattern (34 bp):
GGATTCAGAATTTTTTGGGCTCAAGTTTTTTTCG
Found at i:4824996 original size:13 final size:13
Alignment explanation
Indices: 4824978--4825011 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4824968 TGTAAAATTC
4824978 ATTATATT-TTATT
1 ATTATATTATTA-T
4824991 ATTATATTATTAT
1 ATTATATTATTAT
4825004 ATTATATT
1 ATTATATT
4825012 GTCAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATATTATTAT
Found at i:4825749 original size:2 final size:2
Alignment explanation
Indices: 4825742--4825773 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4825732 AATAGTTATT
*
4825742 TA TA TA TA TA TA TA TG 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
4825774 CTAATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4826375 original size:24 final size:24
Alignment explanation
Indices: 4826319--4826375 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
4826309 GCAATTGCAG
4826319 TTCAGATACAGAGTTAGATGCAAA
1 TTCAGATACAGAGTTAGATGCAAA
* * * *
4826343 ATCACATACAGATTTAGATGCATA
1 TTCAGATACAGAGTTAGATGCAAA
4826367 TTCAGATAC
1 TTCAGATAC
4826376 TACCATCATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (24 bp):
TTCAGATACAGAGTTAGATGCAAA
Found at i:4830815 original size:27 final size:27
Alignment explanation
Indices: 4830776--4830830 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
4830766 GAAGCACACG
4830776 TCGACACCCAATTTCATCCAAATTTAT
1 TCGACACCCAATTTCATCCAAATTTAT
*
4830803 TCGACACCTAATTTCATCCAAATTTAT
1 TCGACACCCAATTTCATCCAAATTTAT
4830830 T
1 T
4830831 TCTTCCTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (27 bp):
TCGACACCCAATTTCATCCAAATTTAT
Found at i:4831456 original size:22 final size:22
Alignment explanation
Indices: 4831430--4831473 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4831420 AAAAATTTTG
4831430 AATGAGAAAATAGAATTTAAAA
1 AATGAGAAAATAGAATTTAAAA
4831452 AATGAGAAAATAGAATTTAAAA
1 AATGAGAAAATAGAATTTAAAA
4831474 TTATTGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.23
Consensus pattern (22 bp):
AATGAGAAAATAGAATTTAAAA
Found at i:4836598 original size:16 final size:16
Alignment explanation
Indices: 4836559--4836614 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
4836549 CGTTTGGTTG
4836559 GCTGTAATGGAATA-A
1 GCTGTAATGGAATAGA
* *
4836574 GGCTATAATTGAATAGA
1 -GCTGTAATGGAATAGA
*
4836591 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
4836607 GCTGTAAT
1 GCTGTAAT
4836615 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:4836688 original size:44 final size:46
Alignment explanation
Indices: 4836596--4836689 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
4836586 ATAGAGTTGT
*
4836596 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
***
4836642 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
4836686 AATG
1 AATG
4836690 ATCTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
Found at i:4836911 original size:58 final size:58
Alignment explanation
Indices: 4836780--4836916 Score: 143
Period size: 58 Copynumber: 2.4 Consensus size: 58
4836770 TATTCTTATT
* * *
4836780 AAATTTTAATA-AGATTATTATTAAAAATAATTTCATAAATATAATAAATAATTTAACC
1 AAATTTTAACATA-ATTATTATTAAAAATAATTTAATAAATATAATAAATAATTTAACA
* ** * * *
4836838 ATATTTTAACATAATTATTATTAATTATAATTTAAT-AATATGATATATAATTTAATA
1 AAATTTTAACATAATTATTATTAAAAATAATTTAATAAATATAATAAATAATTTAACA
**
4836895 AAATTCTTAATGTAATTATTAT
1 AAATT-TTAACATAATTATTAT
4836917 ATGAATTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
57 21 0.32
58 43 0.66
59 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (58 bp):
AAATTTTAACATAATTATTATTAAAAATAATTTAATAAATATAATAAATAATTTAACA
Found at i:4840026 original size:33 final size:33
Alignment explanation
Indices: 4839989--4840053 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
4839979 ATGAAGGAAA
4839989 GAAGAAAGCTCCAGACGTGAGAAAGAAATGGAT
1 GAAGAAAGCTCCAGACGTGAGAAAGAAATGGAT
*
4840022 GAAGAAAGGTCCAGACGTGAGAAAGAAATGGA
1 GAAGAAAGCTCCAGACGTGAGAAAGAAATGGA
4840054 AGGGTAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.11, G:0.32, T:0.11
Consensus pattern (33 bp):
GAAGAAAGCTCCAGACGTGAGAAAGAAATGGAT
Found at i:4843790 original size:16 final size:16
Alignment explanation
Indices: 4843739--4843784 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
4843729 CAATAATGCT
* *
4843739 ATTACAGCTCTATTCC
1 ATTACAGTTATATTCC
*
4843755 ATTACAGTTTTATTCC
1 ATTACAGTTATATTCC
4843771 ATTACAGTTATATT
1 ATTACAGTTATATT
4843785 TTATTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.46
Consensus pattern (16 bp):
ATTACAGTTATATTCC
Found at i:4849028 original size:27 final size:27
Alignment explanation
Indices: 4848998--4849057 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
4848988 TAAAAATGAC
4848998 AATATCCCAAAATTACATTTCTCTTTT
1 AATATCCCAAAATTACATTTCTCTTTT
4849025 AATATCCCAAAATTACATTTCTCTTTT
1 AATATCCCAAAATTACATTTCTCTTTT
4849052 ACATAT
1 A-ATAT
4849058 ATTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (27 bp):
AATATCCCAAAATTACATTTCTCTTTT
Found at i:4851063 original size:36 final size:36
Alignment explanation
Indices: 4850988--4851065 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
4850978 TTTAATTATT
* *
4850988 AAACTTAAAAATTATTAAAATATTATAATAATTTAA
1 AAACATAAAAATTATTAAAATATTATAATAATATAA
* *
4851024 AAACATAAAAATTATTAATATATTATGAA-AATATGA
1 AAACATAAAAATTATTAAAATATTAT-AATAATATAA
4851060 AAACAT
1 AAACAT
4851066 TATAATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (36 bp):
AAACATAAAAATTATTAAAATATTATAATAATATAA
Found at i:4851273 original size:20 final size:20
Alignment explanation
Indices: 4851236--4851273 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4851226 TTTGTTATTT
*
4851236 TTAAAAAATATTAGAAATTA
1 TTAAAAAATATTAAAAATTA
4851256 TTAAAAAAT-TATAAAAAT
1 TTAAAAAATAT-TAAAAAT
4851274 AGAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
TTAAAAAATATTAAAAATTA
Found at i:4851485 original size:19 final size:20
Alignment explanation
Indices: 4851443--4851490 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
4851433 TTTTTTACTA
**
4851443 TTTTAATATTTTTATATAAC
1 TTTTAATAACTTTATATAAC
* *
4851463 TTTTTATAACTTTA-ATAAT
1 TTTTAATAACTTTATATAAC
4851482 TTTTAATAA
1 TTTTAATAA
4851491 TAAATTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATAACTTTATATAAC
Found at i:4851486 original size:10 final size:10
Alignment explanation
Indices: 4851443--4851491 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
4851433 TTTTTTACTA
4851443 TTTTAAT-AT
1 TTTTAATAAT
4851452 TTTTATATAACT
1 TTTTA-ATAA-T
4851464 TTTT-ATAA-
1 TTTTAATAAT
*
4851472 CTTTAATAAT
1 TTTTAATAAT
4851482 TTTTAATAAT
1 TTTTAATAAT
4851492 AAATTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
8 3 0.09
9 9 0.27
10 15 0.45
11 1 0.03
12 5 0.15
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:4852756 original size:26 final size:24
Alignment explanation
Indices: 4852716--4852775 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
4852706 TTATTTTATT
* * *
4852716 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
4852740 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
4852766 AAATAAATAT
1 AAATAAATAT
4852776 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:4852787 original size:22 final size:22
Alignment explanation
Indices: 4852746--4852804 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
4852736 ATAATAAATC
* *
4852746 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
4852766 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
4852788 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
4852805 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:4854570 original size:18 final size:18
Alignment explanation
Indices: 4854534--4854610 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
4854524 TGAATAAAGG
* * *
4854534 TACTGAATGACTGACTGT
1 TACTGAATAATTGATTGT
*
4854552 TATTGAATAATTGATTGT
1 TACTGAATAATTGATTGT
* *
4854570 TACTGAATAACTGATTGC
1 TACTGAATAATTGATTGT
*
4854588 TACTGAA-AATTTGATTGC
1 TACTGAATAA-TTGATTGT
4854606 TACTG
1 TACTG
4854611 GATGATAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
17 2 0.04
18 48 0.96
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGATTGT
Found at i:4854574 original size:36 final size:36
Alignment explanation
Indices: 4854534--4854615 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
4854524 TGAATAAAGG
* * *
4854534 TACTGAATGACTGACTGTTATTGAATAA-TTGATTGT
1 TACTGAATGACTGACTGCTACTGAA-AATTTGATTGC
* *
4854570 TACTGAATAACTGATTGCTACTGAAAATTTGATTGC
1 TACTGAATGACTGACTGCTACTGAAAATTTGATTGC
*
4854606 TACTGGATGA
1 TACTGAATGA
4854616 TAATTTAGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 2 0.05
36 36 0.95
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (36 bp):
TACTGAATGACTGACTGCTACTGAAAATTTGATTGC
Found at i:4855355 original size:21 final size:21
Alignment explanation
Indices: 4855316--4855371 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
4855306 CGGGCTCTCA
*
4855316 ACACGGCCATGTGACCTAGCG
1 ACACGGCCGTGTGACCTAGCG
** * *
4855337 ACATTGCCGTGTGATCTAGTG
1 ACACGGCCGTGTGACCTAGCG
4855358 ACACGGCCGTGTGA
1 ACACGGCCGTGTGA
4855372 GTCACACAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.21
Consensus pattern (21 bp):
ACACGGCCGTGTGACCTAGCG
Found at i:4862966 original size:8 final size:8
Alignment explanation
Indices: 4862955--4863006 Score: 81
Period size: 8 Copynumber: 6.8 Consensus size: 8
4862945 ATATATTAAT
4862955 TTATATTA
1 TTATATTA
4862963 TTATATTA
1 TTATATTA
4862971 TTATATTA
1 TTATATTA
*
4862979 TTACATTA
1 TTATATTA
4862987 -TATA-TA
1 TTATATTA
4862993 TTATATTA
1 TTATATTA
4863001 TTATAT
1 TTATAT
4863007 ATATATGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 2 0.05
7 7 0.17
8 31 0.77
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:4867117 original size:46 final size:46
Alignment explanation
Indices: 4867057--4867467 Score: 646
Period size: 46 Copynumber: 8.9 Consensus size: 46
4867047 CTTGACATGA
* * * * * * *
4867057 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTTATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
* ** *
4867103 TGCCATGGTATCTTTCAGCCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
4867149 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
* *
4867195 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
4867241 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
4867287 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-AGT
4867333 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
4867379 TGCCATTGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
4867425 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
4867468 GAGAGCACAC
Statistics
Matches: 342, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 6 0.02
46 335 0.98
47 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
Found at i:4869935 original size:29 final size:30
Alignment explanation
Indices: 4869883--4869950 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
4869873 CACCCTTAAA
* * *
4869883 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
* *
4869913 ATATTTACACT-TTAATTCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
4869942 AGTATTTAC
1 A-TATTTAC
4869951 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:4874155 original size:28 final size:28
Alignment explanation
Indices: 4874124--4874193 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
4874114 CCAGTTTCTA
4874124 TTAAAAAGAGAGAATTTTCATTTTCACC
1 TTAAAAAGAGAGAATTTTCATTTTCACC
4874152 TTAAAAAGAGAGAATTTTCATTTTCACC
1 TTAAAAAGAGAGAATTTTCATTTTCACC
* *
4874180 CTAAAAAAAGAGAA
1 TTAAAAAGAGAGAA
4874194 AATTTTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (28 bp):
TTAAAAAGAGAGAATTTTCATTTTCACC
Found at i:4879405 original size:32 final size:33
Alignment explanation
Indices: 4879348--4879410 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
4879338 CTTAAGATTG
*
4879348 TTATATTCAAAATTAAAAAAAGAAAA-AAAATA
1 TTATACTCAAAATTAAAAAAAGAAAAGAAAATA
** *
4879380 TTATACTCAAAATTGTAAAAGGAAAAGAAAA
1 TTATACTCAAAATTAAAAAAAGAAAAGAAAA
4879411 AAAAAAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (33 bp):
TTATACTCAAAATTAAAAAAAGAAAAGAAAATA
Found at i:4880541 original size:8 final size:8
Alignment explanation
Indices: 4880528--4880565 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
4880518 GTTAGTCGAT
4880528 AAATTAAA
1 AAATTAAA
4880536 AAATTAAA
1 AAATTAAA
4880544 AAATTAAA
1 AAATTAAA
*
4880552 AAATTGAA
1 AAATTAAA
4880560 AAATTA
1 AAATTA
4880566 GTGTTGCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
AAATTAAA
Found at i:4882128 original size:20 final size:19
Alignment explanation
Indices: 4882099--4882139 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
4882089 TAATTTGATT
4882099 TTAAAAAATT-ATAAAATAA
1 TTAAAAAATTAATAAAA-AA
4882118 TTAATAAAATTAATAAAAAA
1 TTAA-AAAATTAATAAAAAA
4882138 TT
1 TT
4882140 TTATTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAAAATTAATAAAAAA
Found at i:4883177 original size:34 final size:34
Alignment explanation
Indices: 4883129--4883204 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
4883119 ATCATTAAAC
*
4883129 AAAACCTAGACAACTTTATCAACAACAACTAGAA
1 AAAATCTAGACAACTTTATCAACAACAACTAGAA
4883163 AAAATCTAGACAACTTTATCAACAACAACTAGAA
1 AAAATCTAGACAACTTTATCAACAACAACTAGAA
4883197 AAAATCTA
1 AAAATCTA
4883205 AGTAGATTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.54, C:0.21, G:0.05, T:0.20
Consensus pattern (34 bp):
AAAATCTAGACAACTTTATCAACAACAACTAGAA
Found at i:4886473 original size:11 final size:11
Alignment explanation
Indices: 4886445--4886474 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4886435 TTTAAAGCAA
*
4886445 AAAAAAAAAAG
1 AAAAAAGAAAG
4886456 AAAAAAGAAAG
1 AAAAAAGAAAG
4886467 AAAAAAGA
1 AAAAAAGA
4886475 GATACTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:4890080 original size:5 final size:5
Alignment explanation
Indices: 4890072--4890108 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
4890062 AGAATTAAAT
**
4890072 TGAAG TGAAG TGAAG TGAAG TGAAG TGGTG TGAAG TG
1 TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TG
4890109 GATGTTGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.43, T:0.24
Consensus pattern (5 bp):
TGAAG
Found at i:4896562 original size:29 final size:30
Alignment explanation
Indices: 4896515--4896582 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4896505 TGGCCCAAGA
* *
4896515 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
4896545 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
4896575 GCAAATAT
1 GTAAATAT
4896583 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:4899038 original size:46 final size:46
Alignment explanation
Indices: 4898986--4899259 Score: 424
Period size: 46 Copynumber: 6.0 Consensus size: 46
4898976 AGTGTGCTTT
*
4898986 CTGATATGAAATGTGTAAGACCATGTTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4899032 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4899078 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
4899124 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
4899170 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
4899216 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
4899260 TCATGTCAAA
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 212 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:4901378 original size:15 final size:15
Alignment explanation
Indices: 4901345--4901374 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4901335 TATTTTCTGT
4901345 ATTTATAATGTGTGA
1 ATTTATAATGTGTGA
4901360 ATTTAT-ATGTGTGA
1 ATTTATAATGTGTGA
4901374 A
1 A
4901375 ATTTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
ATTTATAATGTGTGA
Found at i:4902561 original size:43 final size:43
Alignment explanation
Indices: 4902497--4902626 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 43
4902487 AATAGGATTT
*
4902497 TCGATATGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTCTCGAGTAAGACCACGTCTGGGACGTTGGCA
*
4902540 TCGATATGTGTTCTCGAGTAAGACC-CTGTCTAGGACAG-TGGCA
1 TCGATATGTGTTCTCGAGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * * *
4902583 TCGATATGTGATT-AC-ATGTAAGACTACATTTGGGACGTTGGCA
1 TCGATATGTG-TTCTCGA-GTAAGACCACGTCTGGGACGTTGGCA
4902626 T
1 T
4902627 TGTACGATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
42 3 0.04
43 67 0.91
44 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGATATGTGTTCTCGAGTAAGACCACGTCTGGGACGTTGGCA
Found at i:4906560 original size:49 final size:45
Alignment explanation
Indices: 4906472--4906573 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 45
4906462 TCTATATAGA
* *
4906472 ACTACACTTCTTTTATTTTATTTTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCGTTTATTTTATTTTAGAATAAGGTGTTTCAACCTT
*
4906517 ATTACACTTCGTTTATTTGATATTGATTAGAATAAGGTGTTTCAACCTT
1 ACTACACTTCGTTTATTT--TATT--TTAGAATAAGGTGTTTCAACCTT
4906566 ACTACACT
1 ACTACACT
4906574 CCTTCTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 16 0.33
47 4 0.08
49 29 0.59
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (45 bp):
ACTACACTTCGTTTATTTTATTTTAGAATAAGGTGTTTCAACCTT
Found at i:4909550 original size:6 final size:6
Alignment explanation
Indices: 4909541--4909573 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
4909531 AAAAGAAAAG
4909541 AAAGCC AAAGCC AAAGCC AAAGCC AAAGCC AAA
1 AAAGCC AAAGCC AAAGCC AAAGCC AAAGCC AAA
4909574 CGAAAACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.30, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGCC
Found at i:4912892 original size:46 final size:46
Alignment explanation
Indices: 4912825--4913040 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
4912815 GGCAACCTGA
4912825 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
4912871 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
4912917 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
4912963 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
4913009 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
4913041 TCATGTCAAG
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:4913020 original size:138 final size:130
Alignment explanation
Indices: 4912775--4913040 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
4912765 AGTGTGCTCT
*
4912775 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
4912840 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
4912905 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
4912970 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
4913035 ATGGCA
123 ATGGCA
4913041 TCATGTCAAG
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:4914066 original size:19 final size:17
Alignment explanation
Indices: 4914018--4914052 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4914008 GTGAATTTTA
*
4914018 AATATTCAATTGTGCTT
1 AATATTTAATTGTGCTT
4914035 AATATTTAATTGTGCTT
1 AATATTTAATTGTGCTT
4914052 A
1 A
4914053 TTATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (17 bp):
AATATTTAATTGTGCTT
Found at i:4916783 original size:49 final size:49
Alignment explanation
Indices: 4916687--4916783 Score: 110
Period size: 49 Copynumber: 2.0 Consensus size: 49
4916677 TTTTATTTTG
* * *
4916687 GAATAAGGTTTTTCAAACTTATCGCACATCATCTATTTGATATTGATTA
1 GAATAAGGTGTTTCAAACTTATCACACATCATCTATTAGATATTGATTA
*
4916736 GAATAAGGTGTTTCAACCTTA-CTACAC-TCATCCTATTAGA-ATATGATT
1 GAATAAGGTGTTTCAAACTTATC-ACACATCAT-CTATTAGATAT-TGATT
4916784 TTTCAAGCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
48 7 0.17
49 34 0.83
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (49 bp):
GAATAAGGTGTTTCAAACTTATCACACATCATCTATTAGATATTGATTA
Found at i:4916919 original size:11 final size:11
Alignment explanation
Indices: 4916903--4916935 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4916893 CGTAAAAATA
4916903 TATTTTTTCTT
1 TATTTTTTCTT
4916914 TA-TTTTTCTT
1 TATTTTTTCTT
*
4916924 TCTTTTTTCTT
1 TATTTTTTCTT
4916935 T
1 T
4916936 GCGATACATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (11 bp):
TATTTTTTCTT
Found at i:4923110 original size:2 final size:2
Alignment explanation
Indices: 4923103--4923147 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
4923093 TGAATCTATG
4923103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4923144 TA TA
1 TA TA
4923148 CGTCAGGAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4925585 original size:16 final size:15
Alignment explanation
Indices: 4925545--4925585 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
4925535 TTAAAATTTT
4925545 ATTTTAATAAT-AAA
1 ATTTTAATAATAAAA
*
4925559 A-TTTAACAATAAAA
1 ATTTTAATAATAAAA
4925573 ATTTTAAATAATA
1 ATTTT-AATAATA
4925586 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.36
14 5 0.23
15 3 0.14
16 6 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTTAATAATAAAA
Found at i:4925682 original size:21 final size:21
Alignment explanation
Indices: 4925659--4925710 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
4925649 ATATTTAATA
*
4925659 ATAAATGTTTTATAGTATATAAT
1 ATAAATATTTTA-AGTATAT-AT
*
4925682 ATAAATATTTTAATTATATAT
1 ATAAATATTTTAAGTATATAT
4925703 ATAAATAT
1 ATAAATAT
4925711 GAGTATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATAAATATTTTAAGTATATAT
Found at i:4925701 original size:24 final size:23
Alignment explanation
Indices: 4925649--4925710 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
4925639 CAATTTATAA
* *
4925649 ATATTTAATAATAAATGTTTTAT
1 ATATATAATAATAAATATTTTAT
4925672 AGTATATAAT-ATAAATATTTTA-
1 A-TATATAATAATAAATATTTTAT
4925694 AT-TAT-ATATATAAATAT
1 ATATATAATA-ATAAATAT
4925711 GAGTATTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 9 0.26
22 1 0.03
23 12 0.35
24 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
ATATATAATAATAAATATTTTAT
Found at i:4931948 original size:42 final size:41
Alignment explanation
Indices: 4931889--4932007 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 41
4931879 TAGGGTTAGT
4931889 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGAATCGATA
* * * *
4931931 TGAGACTTCGTGTAAGACCATAGCTGAGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGGAATCGATA
* *
4931974 TGAGATCCCATGTAAGACCATATCTGGGATATGG
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATGG
4932008 CATTGGTATG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGAATCGATA
Found at i:4932139 original size:20 final size:20
Alignment explanation
Indices: 4932094--4932139 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4932084 GGAAAAGTTT
*
4932094 AAGTTGTGAAAGACTATGGT
1 AAGTTGTGAAAGACTATGGC
* *
4932114 ATGTTGTGAAAGATTATGGC
1 AAGTTGTGAAAGACTATGGC
4932134 AAGTTG
1 AAGTTG
4932140 CAAGTTTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (20 bp):
AAGTTGTGAAAGACTATGGC
Found at i:4937210 original size:46 final size:44
Alignment explanation
Indices: 4937106--4937213 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4937096 TGTCTTTGAC
** * * *
4937106 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4937150 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4937196 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4937214 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4944596 original size:46 final size:44
Alignment explanation
Indices: 4944492--4944599 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4944482 TGTCTTTGAC
** * * *
4944492 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4944536 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4944582 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4944600 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4945743 original size:2 final size:2
Alignment explanation
Indices: 4945736--4945761 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4945726 AATAATAATA
4945736 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
4945762 TTTTTTACCC
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:4947191 original size:33 final size:33
Alignment explanation
Indices: 4947154--4947261 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 33
4947144 TACCCAAATG
* * *
4947154 GTACAACTTGAAAATGTTATGTACACTTTGTGT
1 GTACCACTTGAAAATGTTAGGTATACTTTGTGT
* **
4947187 GTA-CACTTGGAAGGGTTAGGTATACTTTGTGT
1 GTACCACTTGAAAATGTTAGGTATACTTTGTGT
* **
4947219 ATACCA-TATGAAAATGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAATGTTAGGTATACTTTGTGT
4947252 GTACCACTTG
1 GTACCACTTG
4947262 GAAAGGAATG
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
32 26 0.44
33 32 0.54
34 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (33 bp):
GTACCACTTGAAAATGTTAGGTATACTTTGTGT
Found at i:4949986 original size:42 final size:42
Alignment explanation
Indices: 4949939--4950022 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
4949929 AAGAATACTT
4949939 ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
1 ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
*
4949981 ACCTAATCAAGCAAAATAAGTTGGTTTGAGCTTAGGTTGCCA
1 ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
4950023 TGGCTAGGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (42 bp):
ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
Found at i:4952333 original size:8 final size:8
Alignment explanation
Indices: 4952322--4952351 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4952312 TTAAAAATTT
4952322 TAAAATAA
1 TAAAATAA
4952330 TAAAATAA
1 TAAAATAA
*
4952338 TATAATAA
1 TAAAATAA
4952346 TAAAAT
1 TAAAAT
4952352 TATATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAATAA
Found at i:4952362 original size:16 final size:16
Alignment explanation
Indices: 4952325--4952356 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4952315 AAAATTTTAA
4952325 AATAATAAAATAATAT
1 AATAATAAAATAATAT
*
4952341 AATAATAAAATTATAT
1 AATAATAAAATAATAT
4952357 TCTAATCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAATAAAATAATAT
Found at i:4952797 original size:2 final size:2
Alignment explanation
Indices: 4952790--4952829 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4952780 TCAGAGCTGA
4952790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4952830 GTATGACATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4966992 original size:16 final size:16
Alignment explanation
Indices: 4966971--4967013 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
4966961 CCAATATCCA
*
4966971 ATTATCATATTTGCAC
1 ATTATCATATTTACAC
*
4966987 ATTATCACATTTACAC
1 ATTATCATATTTACAC
4967003 ATATAT-ATATT
1 AT-TATCATATT
4967014 CATTTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTATCATATTTACAC
Found at i:4967052 original size:2 final size:2
Alignment explanation
Indices: 4967045--4967093 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4967035 TACATTAATA
4967045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4967087 AT AT AT A
1 AT AT AT A
4967094 GAAGCCAACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4968038 original size:18 final size:19
Alignment explanation
Indices: 4968007--4968052 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
4967997 GTTCTTTTTC
*
4968007 TTTC-TTTATGTTTCCTT-
1 TTTCTTTTATCTTTCCTTA
*
4968024 TTTCTTTTATCTTTCTTTA
1 TTTCTTTTATCTTTCCTTA
4968043 TTTCTTTTAT
1 TTTCTTTTAT
4968053 TACTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTCTTTTATCTTTCCTTA
Found at i:4972471 original size:2 final size:2
Alignment explanation
Indices: 4972454--4972494 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
4972444 ATTTAGGTTT
*
4972454 TA TA TA T- TA AA T- TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4972493 TA
1 TA
4972495 ATGATTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4972686 original size:8 final size:8
Alignment explanation
Indices: 4972673--4972697 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4972663 AGATATTTGT
4972673 TAATTAAA
1 TAATTAAA
4972681 TAATTAAA
1 TAATTAAA
4972689 TAATTAAA
1 TAATTAAA
4972697 T
1 T
4972698 TATGAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATTAAA
Found at i:4974516 original size:39 final size:39
Alignment explanation
Indices: 4974409--4974543 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
4974399 GACCTCGAGT
* * *
4974409 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
4974450 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
* *
4974488 CGATGAGACACTGGGTGTCAACTATTACTTTGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
4974527 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
4974544 CCATATTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.25
39 35 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:4975670 original size:2 final size:2
Alignment explanation
Indices: 4975663--4975702 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4975653 TTTTATTTGA
4975663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4975703 TAATAAGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4979907 original size:40 final size:38
Alignment explanation
Indices: 4979863--4979957 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 38
4979853 ATCGTACCTT
**
4979863 TTGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGGTTGGATGGGTCAATTATATCCCC--AC
* * * *
4979903 TTGGTGTGAAGGTTTGGGTGGGTCAATTCTATCCCCAC
1 TTGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCAC
* *
4979941 ATGGTGTGTTGGGTTGG
1 TTGGTGTGTAGGGTTGG
4979958 TCGGAGATGG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
38 15 0.33
40 30 0.67
ACGTcount: A:0.15, C:0.13, G:0.36, T:0.37
Consensus pattern (38 bp):
TTGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCAC
Found at i:4985372 original size:12 final size:12
Alignment explanation
Indices: 4985355--4985379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4985345 TTTTAAAATT
4985355 ATGAATAATATA
1 ATGAATAATATA
4985367 ATGAATAATATA
1 ATGAATAATATA
4985379 A
1 A
4985380 AACATAAATA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:4985451 original size:14 final size:13
Alignment explanation
Indices: 4985362--4985483 Score: 53
Period size: 14 Copynumber: 9.2 Consensus size: 13
4985352 ATTATGAATA
4985362 ATATAATGAATAAT
1 ATATAAT-AATAAT
4985376 ATA-AA-ACATAAAT
1 ATATAATA-AT-AAT
*
4985389 AATATAACAGATAAT
1 -ATATAATA-ATAAT
* *
4985404 ATACGATATACATAAC
1 ATA-TA-ATA-ATAAT
4985420 ATATAATAA-AA-
1 ATATAATAATAAT
4985431 A-ATAATAAGTAAT
1 ATATAATAA-TAAT
4985444 ATATAATAA-AA-
1 ATATAATAATAAT
**
4985455 ATATAATAAATGTT
1 ATATAAT-AATAAT
4985469 ATATAATAA-AAT
1 ATATAATAATAAT
4985481 ATA
1 ATA
4985484 ATTTAAATAT
Statistics
Matches: 84, Mismatches: 10, Indels: 30
0.68 0.08 0.24
Matches are distributed among these distances:
10 7 0.08
11 9 0.11
12 14 0.17
13 9 0.11
14 26 0.31
15 7 0.08
16 12 0.14
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:4985454 original size:22 final size:22
Alignment explanation
Indices: 4985420--4985481 Score: 54
Period size: 25 Copynumber: 2.7 Consensus size: 22
4985410 TATACATAAC
*
4985420 ATATAATAA-AAAATAATAAGTA
1 ATAT-ATAATAAAATAATAAATA
*
4985442 ATATATAATAAAAATATAATAAATG
1 ATATATAAT--AAA-ATAATAAATA
*
4985467 TTATATAATAAAATA
1 ATATATAATAAAATA
4985482 TAATTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.12
22 7 0.21
23 3 0.09
24 3 0.09
25 16 0.48
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (22 bp):
ATATATAATAAAATAATAAATA
Found at i:4985461 original size:25 final size:25
Alignment explanation
Indices: 4985415--4985498 Score: 93
Period size: 24 Copynumber: 3.4 Consensus size: 25
4985405 TACGATATAC
*
4985415 ATAACATATAATAAAAA-ATAATAA
1 ATAATATATAATAAAAATATAATAA
*
4985439 GTAATATATAATAAAAATATAATAA
1 ATAATATATAATAAAAATATAATAA
**
4985464 ATGTTATATAAT-AAAATATAATTTAA
1 ATAATATATAATAAAAATATAA--TAA
4985490 AT-ATATATA
1 ATAATATATA
4985499 GGAAAATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
24 24 0.47
25 22 0.43
26 5 0.10
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (25 bp):
ATAATATATAATAAAAATATAATAA
Found at i:4987498 original size:205 final size:206
Alignment explanation
Indices: 4987136--4987717 Score: 1001
Period size: 205 Copynumber: 2.8 Consensus size: 206
4987126 AAATCTATTT
* *
4987136 CTTC-GATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCA
1 CTTCTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA
* * *
4987200 CGCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * *
4987265 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATG
131 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCAAAATA
4987330 GAGATGCCAGA
196 GAGATGCCAGA
* * *
4987341 CTT-TGATTTGTTCTCTGACAATACAGAGATGCCAAACCATCTTAGATTTGCTTTAGTGTAAACA
1 CTTCTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA
*
4987405 CGTGAAAGCCAAATCAGCTATGTGTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
4987470 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCAAAATA
131 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCAAAATA
4987535 GAGATGCCAGA
196 GAGATGCCAGA
4987546 CTTCT-ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC-
1 CTTCTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA
* *
4987609 CGTGAAAGCCAAATCAGTTATGTTTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
4987674 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATG
131 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG
4987718 CTGCGGCCTA
Statistics
Matches: 357, Mismatches: 18, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
204 106 0.30
205 250 0.70
206 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (206 bp):
CTTCTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA
CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCAAAATA
GAGATGCCAGA
Found at i:4999802 original size:12 final size:12
Alignment explanation
Indices: 4999785--4999809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4999775 TTTTAAAATT
4999785 ATGAATAATATA
1 ATGAATAATATA
4999797 ATGAATAATATA
1 ATGAATAATATA
4999809 A
1 A
4999810 AACATAAATA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:4999881 original size:14 final size:13
Alignment explanation
Indices: 4999792--4999913 Score: 53
Period size: 14 Copynumber: 9.2 Consensus size: 13
4999782 ATTATGAATA
4999792 ATATAATGAATAAT
1 ATATAAT-AATAAT
4999806 ATA-AA-ACATAAAT
1 ATATAATA-AT-AAT
*
4999819 AATATAACAGATAAT
1 -ATATAATA-ATAAT
* *
4999834 ATACGATATACATAAC
1 ATA-TA-ATA-ATAAT
4999850 ATATAATAA-AA-
1 ATATAATAATAAT
4999861 A-ATAATAAGTAAT
1 ATATAATAA-TAAT
4999874 ATATAATAA-AA-
1 ATATAATAATAAT
**
4999885 ATATAATAAATGTT
1 ATATAAT-AATAAT
4999899 ATATAATAA-AAT
1 ATATAATAATAAT
4999911 ATA
1 ATA
4999914 ATTTAAATAT
Statistics
Matches: 84, Mismatches: 10, Indels: 30
0.68 0.08 0.24
Matches are distributed among these distances:
10 7 0.08
11 9 0.11
12 14 0.17
13 9 0.11
14 26 0.31
15 7 0.08
16 12 0.14
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:4999884 original size:22 final size:22
Alignment explanation
Indices: 4999850--4999911 Score: 54
Period size: 25 Copynumber: 2.7 Consensus size: 22
4999840 TATACATAAC
*
4999850 ATATAATAA-AAAATAATAAGTA
1 ATAT-ATAATAAAATAATAAATA
*
4999872 ATATATAATAAAAATATAATAAATG
1 ATATATAAT--AAA-ATAATAAATA
*
4999897 TTATATAATAAAATA
1 ATATATAATAAAATA
4999912 TAATTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.12
22 7 0.21
23 3 0.09
24 3 0.09
25 16 0.48
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (22 bp):
ATATATAATAAAATAATAAATA
Found at i:4999891 original size:25 final size:25
Alignment explanation
Indices: 4999845--4999915 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 25
4999835 TACGATATAC
*
4999845 ATAACATATAATAAAAA-ATAATAA
1 ATAATATATAATAAAAATATAATAA
*
4999869 GTAATATATAATAAAAATATAATAA
1 ATAATATATAATAAAAATATAATAA
**
4999894 ATGTTATATAAT-AAAATATAAT
1 ATAATATATAATAAAAATATAAT
4999916 TTAAATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 25 0.61
25 16 0.39
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAATATATAATAAAAATATAATAA
Found at i:5000019 original size:26 final size:27
Alignment explanation
Indices: 4999955--5000019 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
4999945 TAAATAAAAA
4999955 TTTTAT-ATAAATATATAAATAGTACT
1 TTTTATAATAAATATATAAATAGTACT
* ** *
4999981 TTTAATAAT-AATATATGTATAGT-TT
1 TTTTATAATAAATATATAAATAGTACT
5000006 TTTTATAATAAATA
1 TTTTATAATAAATA
5000020 AATTATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 9 0.28
26 21 0.66
27 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (27 bp):
TTTTATAATAAATATATAAATAGTACT
Found at i:5001329 original size:2 final size:2
Alignment explanation
Indices: 5001324--5001349 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5001314 AAAAAAAAAA
5001324 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
5001350 TTTATTATTA
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:5002541 original size:46 final size:44
Alignment explanation
Indices: 5002482--5002596 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
5002472 ACAGGACAGA
* *
5002482 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
5002528 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
5002572 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
5002597 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:5002577 original size:44 final size:45
Alignment explanation
Indices: 5002482--5002615 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
5002472 ACAGGACAGA
* *
5002482 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
5002528 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
5002572 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
5002616 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:5003503 original size:2 final size:2
Alignment explanation
Indices: 5003491--5003548 Score: 84
Period size: 2 Copynumber: 29.5 Consensus size: 2
5003481 GTACGATGTT
5003491 TA TA T- TA 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 TA TA TA TA
*
5003532 T- TA AA TA TGA TA TA TA T
1 TA TA TA TA T-A TA TA TA T
5003549 TTGTTATGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
1 2 0.04
2 47 0.92
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5005182 original size:2 final size:2
Alignment explanation
Indices: 5005175--5005201 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5005165 TTAGAAAAAT
5005175 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
5005202 TCAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5009525 original size:17 final size:19
Alignment explanation
Indices: 5009483--5009528 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
5009473 TATTATAGTA
*
5009483 ATAAAAGAAATAAAGAAAG
1 ATAAAAGAAATAAAGAAAC
*
5009502 ATAAAAGAAA-AAGGAAAC
1 ATAAAAGAAATAAAGAAAC
5009520 AT-AAAGAAA
1 ATAAAAGAAA
5009529 GAAAAAGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 8 0.32
19 10 0.40
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (19 bp):
ATAAAAGAAATAAAGAAAC
Found at i:5017621 original size:41 final size:42
Alignment explanation
Indices: 5017549--5017627 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
5017539 GAATTATAAA
* ** *
5017549 AAAATTATTAGATATTGTAAATATTGTAAAAA-AATATATAC
1 AAAATTATTAGAGATCATAAAGATTGTAAAAATAATATATAC
5017590 AAAATTATTAGAGATCATAAAAGATTG-AAAAATAATAT
1 AAAATTATTAGAGATCAT-AAAGATTGTAAAAATAATAT
5017628 TAAAATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 20 0.62
42 12 0.38
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.33
Consensus pattern (42 bp):
AAAATTATTAGAGATCATAAAGATTGTAAAAATAATATATAC
Found at i:5020384 original size:42 final size:42
Alignment explanation
Indices: 5020325--5020411 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
5020315 ATTGATCTAC
*
5020325 TTTGCTCGTTGCCCCCGTCTTATTCAACCTTTAGAGACATGA
1 TTTGCTCGTTGCCCCCGTCTTATTCAACCTTTACAGACATGA
5020367 TTTGCTCGTTGCCCCCGTCTTATTCAACCTTTACAGACATGA
1 TTTGCTCGTTGCCCCCGTCTTATTCAACCTTTACAGACATGA
5020409 TTT
1 TTT
5020412 TATATAGCCG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.18, C:0.29, G:0.15, T:0.38
Consensus pattern (42 bp):
TTTGCTCGTTGCCCCCGTCTTATTCAACCTTTACAGACATGA
Found at i:5036234 original size:13 final size:13
Alignment explanation
Indices: 5036216--5036245 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5036206 ATTTTATTCT
*
5036216 TTTTTATTTCTTC
1 TTTTTATCTCTTC
5036229 TTTTTATCTCTTC
1 TTTTTATCTCTTC
5036242 TTTT
1 TTTT
5036246 CCTTTTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATCTCTTC
Found at i:5038340 original size:39 final size:39
Alignment explanation
Indices: 5038282--5038368 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
5038272 CTACTTTCAC
5038282 TTCTTCCTTTTTGGCTTCAACTTTTACAATCTCCTTCTT
1 TTCTTCCTTTTTGGCTTCAACTTTTACAATCTCCTTCTT
*
5038321 TTCTTCCTTTTTGGGTTCAACTTTTACAATCTCCTTCTT
1 TTCTTCCTTTTTGGCTTCAACTTTTACAATCTCCTTCTT
5038360 TTCTTCCTT
1 TTCTTCCTT
5038369 AGCCTCCATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.11, C:0.28, G:0.06, T:0.55
Consensus pattern (39 bp):
TTCTTCCTTTTTGGCTTCAACTTTTACAATCTCCTTCTT
Found at i:5049573 original size:15 final size:14
Alignment explanation
Indices: 5049546--5049582 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
5049536 TGCGTCTTTC
5049546 TTTCTTTTTTCCTT
1 TTTCTTTTTTCCTT
5049560 TTTCTTTCTTTCCTT
1 TTTCTTT-TTTCCTT
*
5049575 TTTGTTTT
1 TTTCTTTT
5049583 CGTTTGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTCTTTTTTCCTT
Found at i:5049661 original size:21 final size:20
Alignment explanation
Indices: 5049613--5049663 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
5049603 TTCTTTTTTT
*
5049613 TTATTCATT-TACTTATTTTA
1 TTATT-ATTATACTTAGTTTA
5049633 TT-TTATTATACATTAGTTTA
1 TTATTATTATAC-TTAGTTTA
5049653 TTATTATTATA
1 TTATTATTATA
5049664 ATGTATATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 5 0.19
20 11 0.41
21 8 0.30
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATTATTATACTTAGTTTA
Found at i:5051048 original size:51 final size:51
Alignment explanation
Indices: 5050935--5051038 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
5050925 CTGATCACAT
*
5050935 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCAC
*
5050986 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCAC
5051037 TT
1 TT
5051039 GTTGTTTGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCAC
Found at i:5060042 original size:34 final size:34
Alignment explanation
Indices: 5059992--5060059 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
5059982 AATTTTAATA
* *
5059992 AAAAGTATAAAAATATTTAAAATGTATTAAAAAT
1 AAAAGTATAAAAATATTTAAAAAGAATTAAAAAT
5060026 AAAA-TATAAAAAATATTTAAAAAGAATTAAAAAT
1 AAAAGTAT-AAAAATATTTAAAAAGAATTAAAAAT
5060060 TATAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 3 0.10
34 28 0.90
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.29
Consensus pattern (34 bp):
AAAAGTATAAAAATATTTAAAAAGAATTAAAAAT
Found at i:5060343 original size:2 final size:2
Alignment explanation
Indices: 5060338--5060362 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5060328 TTAAATGATT
5060338 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
5060363 GAAACATTTG
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:5060965 original size:17 final size:18
Alignment explanation
Indices: 5060912--5060966 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
5060902 TAAAAAGTAT
**
5060912 TTTTTAATAATATTAATGA
1 TTTTT-ATAATATTAAAAA
*
5060931 TTTTTATATATTTTAAAAA
1 TTTTTATA-ATATTAAAAA
5060950 TTTTTA-AATATTAAAAA
1 TTTTTATAATATTAAAAA
5060967 ATTAATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 18 0.58
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTTTATAATATTAAAAA
Found at i:5065480 original size:22 final size:20
Alignment explanation
Indices: 5065439--5065492 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
5065429 ATTTTCGATT
5065439 TAATTATTTAATTAATTAAAA
1 TAATTATTTAATTAATT-AAA
*
5065460 TAATTATTTGATTCAATTAAA
1 TAATTATTTAATT-AATTAAA
5065481 TAAATTATTTAA
1 T-AATTATTTAA
5065493 AAATATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATTATTTAATTAATTAAA
Found at i:5065700 original size:30 final size:30
Alignment explanation
Indices: 5065665--5065721 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
5065655 ATTTTTATAC
5065665 TTTAATCCCCTCAAAATGATAAAATTTTGA
1 TTTAATCCCCTCAAAATGATAAAATTTTGA
* ** *
5065695 TTTAATTCTTTCAAAATTATAAAATTT
1 TTTAATCCCCTCAAAATGATAAAATTT
5065722 CGTATTAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (30 bp):
TTTAATCCCCTCAAAATGATAAAATTTTGA
Found at i:5067746 original size:11 final size:11
Alignment explanation
Indices: 5067730--5067757 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5067720 CTTGAATCTC
5067730 TCAATTTCAAT
1 TCAATTTCAAT
5067741 TCAATTTCAAT
1 TCAATTTCAAT
5067752 TCAATT
1 TCAATT
5067758 ACTTTCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (11 bp):
TCAATTTCAAT
Found at i:5068598 original size:13 final size:12
Alignment explanation
Indices: 5068579--5068606 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5068569 AAAATAAAAA
5068579 ATTAAAAAATTC
1 ATTAAAAAATTC
5068591 ATTAAAAAATTC
1 ATTAAAAAATTC
5068603 ATTA
1 ATTA
5068607 TTTTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (12 bp):
ATTAAAAAATTC
Found at i:5068622 original size:18 final size:18
Alignment explanation
Indices: 5068595--5068651 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 18
5068585 AAATTCATTA
5068595 AAAAATTCATTATTTTTTT
1 AAAAA-TCATTATTTTTTT
**
5068614 AAAAATCATTA--TTTAA
1 AAAAATCATTATTTTTTT
*
5068630 AAAAAACATTATTTTTTT
1 AAAAATCATTATTTTTTT
5068648 AAAA
1 AAAA
5068652 TAATAACGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 13 0.42
18 13 0.42
19 5 0.16
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAAATCATTATTTTTTT
Found at i:5068651 original size:16 final size:17
Alignment explanation
Indices: 5068596--5068652 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
5068586 AATTCATTAA
5068596 AAAATTCATTATTTTTTT
1 AAAA-TCATTATTTTTTT
***
5068614 AAAAATCATTA-TTTAAA
1 -AAAATCATTATTTTTTT
*
5068631 AAAAACATTATTTTTTT
1 AAAATCATTATTTTTTT
5068648 AAAAT
1 AAAAT
5068653 AATAACGAGA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 9 0.31
17 10 0.34
18 6 0.21
19 4 0.14
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATCATTATTTTTTT
Found at i:5077390 original size:32 final size:30
Alignment explanation
Indices: 5077349--5077423 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 30
5077339 ATCTATTTTC
5077349 ATTGTTCAACTTTTTGACAACACGAAAATTCT
1 ATTGTTCAAC-TTTTGAC-ACACGAAAATTCT
5077381 ATTGTTCAAC-----AC-CACGAAAATTCT
1 ATTGTTCAACTTTTGACACACGAAAATTCT
5077405 ATTGTTCAACTCTTTGACA
1 ATTGTTCAACT-TTTGACA
5077424 GTGGTGGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
24 22 0.61
26 2 0.06
30 2 0.06
32 10 0.28
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (30 bp):
ATTGTTCAACTTTTGACACACGAAAATTCT
Found at i:5077398 original size:24 final size:24
Alignment explanation
Indices: 5077369--5077414 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
5077359 TTTTTGACAA
5077369 CACGAAAATTCTATTGTTCAACAC
1 CACGAAAATTCTATTGTTCAACAC
5077393 CACGAAAATTCTATTGTTCAAC
1 CACGAAAATTCTATTGTTCAAC
5077415 TCTTTGACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (24 bp):
CACGAAAATTCTATTGTTCAACAC
Found at i:5077853 original size:94 final size:90
Alignment explanation
Indices: 5077699--5077950 Score: 224
Period size: 94 Copynumber: 2.7 Consensus size: 90
5077689 AGGAAAGGTT
* * *
5077699 TTTTTTTCAGGGA-AAATTATAATAATCACTACTTAATCCATTTCATTGTTGGGGCACTTGGGCT
1 TTTTTTT--GGGATAAA-TATAATAATCACTA-TTATTTCATTTCATT-TTAGGGCACTTGGGCT
* *
5077763 T-AAGTATCGTGCTGCAATAAACTTTTTTTT-AA
61 TCAA-TATAGTACTGCAAT--A-TTTTTTTTAAA
*
5077795 TTTTTTTGGGATAAATATAATAATCACTATTCATTTTATTTCATTTTCAGGGCACTTGGGCTTCA
1 TTTTTTTGGGATAAATATAATAATCACTATT-ATTTCATTTCATTTT-AGGGCACTTGGGCTTCA
* * *
5077860 ATATATTATTGCAGTATTTTTTTTAAAAA
64 ATATAGTACTGCAATATTTTTTTT--AAA
* * * *
5077889 TTTTTTTAGGATAATTATAATAATCACTATTTATTTCATGTCATTTT-GGAGCACTTGAGCTT
1 TTTTTTTGGGATAAATATAATAATCACTA-TTATTTCATTTCATTTTAGG-GCACTTGGGCTT
5077951 GATTTTGGGG
Statistics
Matches: 133, Mismatches: 14, Indels: 21
0.79 0.08 0.12
Matches are distributed among these distances:
91 8 0.06
92 3 0.02
93 15 0.11
94 93 0.70
95 7 0.05
96 7 0.05
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (90 bp):
TTTTTTTGGGATAAATATAATAATCACTATTATTTCATTTCATTTTAGGGCACTTGGGCTTCAAT
ATAGTACTGCAATATTTTTTTTAAA
Found at i:5078259 original size:9 final size:9
Alignment explanation
Indices: 5078214--5078261 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
5078204 CACTCAAATC
5078214 CAATTCTCTT
1 CAATTCTC-T
5078224 C-ATTCTCT
1 CAATTCTCT
**
5078232 TTATTCTCT
1 CAATTCTCT
*
5078241 CATTTCTCT
1 CAATTCTCT
5078250 CAATTCTCT
1 CAATTCTCT
5078259 CAA
1 CAA
5078262 GATTAGTTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
8 1 0.03
9 30 0.94
10 1 0.03
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (9 bp):
CAATTCTCT
Found at i:5079247 original size:19 final size:19
Alignment explanation
Indices: 5079223--5079259 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5079213 ATAATCTTCA
5079223 ATGATATGCAATATTAGAT
1 ATGATATGCAATATTAGAT
*
5079242 ATGATATGCAATCTTAGA
1 ATGATATGCAATATTAGA
5079260 AGATATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATATTAGAT
Found at i:5079285 original size:22 final size:22
Alignment explanation
Indices: 5079223--5079282 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 22
5079213 ATAATCTTCA
*
5079223 ATGATATGCAATATT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5079242 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
5079264 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
5079283 GATTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.41
22 8 0.24
23 12 0.35
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:5079584 original size:17 final size:19
Alignment explanation
Indices: 5079552--5079586 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5079542 TTCCCTGATT
5079552 TTTTTTATATATATTTTAA
1 TTTTTTATATATATTTTAA
5079571 TTTTTTA-ATA-ATTTTA
1 TTTTTTATATATATTTTA
5079587 GTATCACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTATATATATTTTAA
Found at i:5087133 original size:17 final size:17
Alignment explanation
Indices: 5087098--5087147 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
5087088 AAAATGTGAT
5087098 ATAA-TATATAATAAA-A
1 ATAATTATATAA-AAATA
*
5087114 ATATATT-TATAAGAATA
1 ATA-ATTATATAAAAATA
5087131 ATAATTATATAAAAATA
1 ATAATTATATAAAAATA
5087148 TAAAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 8 0.29
17 19 0.68
18 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAATTATATAAAAATA
Found at i:5087561 original size:3 final size:3
Alignment explanation
Indices: 5087553--5087668 Score: 50
Period size: 3 Copynumber: 39.0 Consensus size: 3
5087543 CAAGTAAAAT
* * * *
5087553 ATA ATA ATA ATA TATAA ATA ATA AT- GTA A-A ATA ATA ATA GTTT GTA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* *
5087599 A-A A-A ATA ATA TATA ATAA ATG ATA ATA AT- ATA A-A ATA ATGT ATA
1 ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA
*
5087643 ATA A-A ATA ATT AT- ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA
5087669 TAAAGATATA
Statistics
Matches: 87, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
2 15 0.17
3 55 0.63
4 16 0.18
5 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:5087589 original size:20 final size:20
Alignment explanation
Indices: 5087561--5087646 Score: 54
Period size: 20 Copynumber: 4.2 Consensus size: 20
5087551 ATATAATAAT
5087561 AATATATAAATAATAATGTAA
1 AATA-ATAAATAATAATGTAA
* *
5087582 AATAAT-AATAGT-TTGTAAAA
1 AATAATAAATAATAATGT--AA
* *
5087602 AATAATATATAATAAATG-AT
1 AATAATAAATAAT-AATGTAA
*
5087622 AATAATATAA-AATAATGTAT
1 AATAATA-AATAATAATGTAA
5087642 AATAA
1 AATAA
5087647 AATAATTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
18 3 0.06
19 9 0.18
20 28 0.55
21 9 0.18
23 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (20 bp):
AATAATAAATAATAATGTAA
Found at i:5087589 original size:30 final size:31
Alignment explanation
Indices: 5087553--5087681 Score: 99
Period size: 30 Copynumber: 4.2 Consensus size: 31
5087543 CAAGTAAAAT
*
5087553 ATAATAATAATATATA-AATAATAATGTAAA
1 ATAATAATAATATATATAATAATAATATAAA
* * * * *
5087583 ATAATAATAGTTTGTA-AAAAATAATATATA
1 ATAATAATAATATATATAATAATAATATAAA
* * *
5087613 ATAAATGATAATA-ATATAA-AATAATGTATA
1 AT-AATAATAATATATATAATAATAATATAAA
5087643 ATAA-AATAAT-TATATAATATATAATATAAA
1 ATAATAATAATATATATAATA-ATAATATAAA
5087673 GATATATAA
1 -ATA-ATAA
5087682 ACATTATGTG
Statistics
Matches: 77, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
28 11 0.14
29 3 0.04
30 48 0.62
31 12 0.16
32 1 0.01
33 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (31 bp):
ATAATAATAATATATATAATAATAATATAAA
Found at i:5087665 original size:23 final size:23
Alignment explanation
Indices: 5087600--5087668 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
5087590 TAGTTTGTAA
* *
5087600 AAAATAA-TATATAATAAATGAT
1 AAAATAATTATATAATATATAAT
* * *
5087622 AATAAT-ATAAAATAATGTATAAT
1 AA-AATAATTATATAATATATAAT
5087645 AAAATAATTATATAATATATAAT
1 AAAATAATTATATAATATATAAT
5087668 A
1 A
5087669 TAAAGATATA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
22 6 0.17
23 30 0.83
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (23 bp):
AAAATAATTATATAATATATAAT
Found at i:5087666 original size:15 final size:13
Alignment explanation
Indices: 5087600--5087672 Score: 58
Period size: 15 Copynumber: 5.2 Consensus size: 13
5087590 TAGTTTGTAA
5087600 AAAATAATATATAAT
1 AAAATAAT-TAT-AT
*
5087615 AAATGATAATAATAT
1 AAA--ATAATTATAT
5087630 AAAATAATGTATAAT
1 AAAATAAT-TAT-AT
5087645 AAAATAATTATAT
1 AAAATAATTATAT
* *
5087658 AATAT-ATAATAT
1 AAAATAATTATAT
5087670 AAA
1 AAA
5087673 GATATATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
12 8 0.16
13 11 0.22
14 5 0.10
15 18 0.37
16 2 0.04
17 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AAAATAATTATAT
Done.