Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 70 of 117
Found at i:14976343 original size:35 final size:34
Alignment explanation
Indices: 14976291--14976389 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 34
14976281 ACTGAACCAT
* *
14976291 AAGTTAAAAAAATAAATGACCGAGATTGAAGC-GC
1 AAGTCAAAAAAAAAAATGACCGAGATTG-AGCTGC
** *
14976325 AAGTCAAAAAATAAAAATGATTGAGATTGAGCTGT
1 AAGTCAAAAAA-AAAAATGACCGAGATTGAGCTGC
* * * *
14976360 AAGTCAAAAAAAGAATTGACCAAGAATGAG
1 AAGTCAAAAAAAAAAATGACCGAGATTGAG
14976390 TTATAAGTCA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
34 26 0.50
35 26 0.50
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.19
Consensus pattern (34 bp):
AAGTCAAAAAAAAAAATGACCGAGATTGAGCTGC
Found at i:14976926 original size:21 final size:21
Alignment explanation
Indices: 14976902--14976958 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
14976892 ATCTAATTTG
14976902 AAAGACTTACGAATCT-TGCTT
1 AAAGACTTA-GAATCTATGCTT
*
14976923 AAAGGACTTAGAAACTATGCTT
1 AAA-GACTTAGAATCTATGCTT
14976945 AAAGATCTTAGAAT
1 AAAGA-CTTAGAAT
14976959 TCTCAACACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (21 bp):
AAAGACTTAGAATCTATGCTT
Found at i:14977437 original size:23 final size:23
Alignment explanation
Indices: 14977409--14977559 Score: 146
Period size: 23 Copynumber: 6.7 Consensus size: 23
14977399 CTTGGGTGCC
*
14977409 AGCTAATCTAGGCTTAAAGTATT
1 AGCTAATCTAGGCTTAAAGTGTT
*
14977432 AGCTAATCTGGGCTT-AAGTGTT
1 AGCTAATCTAGGCTTAAAGTGTT
*
14977454 AGCTAATCT-GAGCTTAAAGTGTC
1 AGCTAATCTAG-GCTTAAAGTGTT
* * **
14977477 AACTAATCTGGGCTTAAAGTGCC
1 AGCTAATCTAGGCTTAAAGTGTT
* * * *
14977500 AACTAATTTGGGCTT-AAGTGCT
1 AGCTAATCTAGGCTTAAAGTGTT
* *
14977522 AGCTAATCTAGGCTTGAGGTGTT
1 AGCTAATCTAGGCTTAAAGTGTT
*
14977545 AGCTAATTTAGGCTT
1 AGCTAATCTAGGCTT
14977560 TGGGTACTAG
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.01
22 37 0.33
23 72 0.65
24 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (23 bp):
AGCTAATCTAGGCTTAAAGTGTT
Found at i:14977438 original size:45 final size:45
Alignment explanation
Indices: 14977387--14977574 Score: 139
Period size: 45 Copynumber: 4.2 Consensus size: 45
14977377 ATTTGGATGC
* * *
14977387 AGCTAATTTGGGCTTGGGTGCCAGCTAATCTAGGCTTAAAGTATT
1 AGCTAATCTGGGCTTAGGTGCCAGCTAATCTAGGCTTAAAGTACT
* ** *
14977432 AGCTAATCTGGGCTTAAGTGTTAGCTAATCT-GAGCTTAAAGT-GT
1 AGCTAATCTGGGCTTAGGTGCCAGCTAATCTAG-GCTTAAAGTACT
* * * * * *
14977476 CAACTAATCTGGGCTTAAAGTGCCAACTAATTTGGGCTT-AAGTGCT
1 -AGCTAATCTGGGCTT-AGGTGCCAGCTAATCTAGGCTTAAAGTACT
* ** * ***
14977522 AGCTAATCTAGGCTTGAGGTGTTAGCTAATTTAGGCTTTGGGTACT
1 AGCTAATCTGGGCTT-AGGTGCCAGCTAATCTAGGCTTAAAGTACT
14977568 AGCTAAT
1 AGCTAAT
14977575 TTAGGCTTTG
Statistics
Matches: 114, Mismatches: 23, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
44 2 0.02
45 83 0.73
46 28 0.25
47 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (45 bp):
AGCTAATCTGGGCTTAGGTGCCAGCTAATCTAGGCTTAAAGTACT
Found at i:14977570 original size:23 final size:23
Alignment explanation
Indices: 14977520--14977585 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
14977510 GGCTTAAGTG
* *
14977520 CTAGCTAATCTAGGC-TTGAGGTG
1 CTAGCTAATTTAGGCTTTG-GGTA
*
14977543 TTAGCTAATTTAGGCTTTGGGTA
1 CTAGCTAATTTAGGCTTTGGGTA
14977566 CTAGCTAATTTAGGCTTTGG
1 CTAGCTAATTTAGGCTTTGG
14977586 TGTTAACTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 35 0.92
24 3 0.08
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (23 bp):
CTAGCTAATTTAGGCTTTGGGTA
Found at i:14977574 original size:68 final size:67
Alignment explanation
Indices: 14977387--14977617 Score: 196
Period size: 68 Copynumber: 3.4 Consensus size: 67
14977377 ATTTGGATGC
* * * *
14977387 AGCTAATTTGGGCTTG-GGTGCCAGCTAATCTAGGCTTAAAGTATTAGCTAATCTGGGCTTAAGT
1 AGCTAATCT-GGCTTGAGGTGTCAGCTAATCTAGGCTTAAAGTACTAGCTAATTTGGGCTTAAGT
*
14977451 GTT
65 GCT
* * * * * * *
14977454 AGCTAATCTGAGCTTAAAGTGTCAACTAATCTGGGCTTAAAGTGCCAACTAATTTGGGCTTAAGT
1 AGCTAATCTG-GCTTGAGGTGTCAGCTAATCTAGGCTTAAAGTACTAGCTAATTTGGGCTTAAGT
14977519 GCT
65 GCT
* * *** * **
14977522 AGCTAATCTAGGCTTGAGGTGTTAGCTAATTTAGGCTTTGGGTACTAGCTAATTTAGGCTTTGGT
1 AGCTAATCT-GGCTTGAGGTGTCAGCTAATCTAGGCTTAAAGTACTAGCTAATTTGGGCTTAAGT
*
14977587 GTT
65 GCT
* * *
14977590 AACTAATATGGACTT-AGGTGCCAGCTAA
1 AGCTAATCTGG-CTTGAGGTGTCAGCTAA
14977618 ACCGAGTTTG
Statistics
Matches: 128, Mismatches: 32, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
66 1 0.01
67 25 0.20
68 101 0.79
69 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (67 bp):
AGCTAATCTGGCTTGAGGTGTCAGCTAATCTAGGCTTAAAGTACTAGCTAATTTGGGCTTAAGTG
CT
Found at i:14977873 original size:18 final size:19
Alignment explanation
Indices: 14977852--14977888 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14977842 TTCATGATAA
14977852 GCTTCTTTTT-CTCTTTTT
1 GCTTCTTTTTGCTCTTTTT
*
14977870 GCTTTTTTTTGCTCTTTTT
1 GCTTCTTTTTGCTCTTTTT
14977889 TGTTGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (19 bp):
GCTTCTTTTTGCTCTTTTT
Found at i:14977897 original size:19 final size:18
Alignment explanation
Indices: 14977852--14977898 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
14977842 TTCATGATAA
*
14977852 GCTTCTTTTTCTCTTTTT
1 GCTTGTTTTTCTCTTTTT
*
14977870 GCTTTTTTTTGCTCTTTTTT
1 GCTTGTTTTT-CTC-TTTTT
14977890 G-TTGTTTTT
1 GCTTGTTTTT
14977899 TTTTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.00, C:0.15, G:0.11, T:0.74
Consensus pattern (18 bp):
GCTTGTTTTTCTCTTTTT
Found at i:14979986 original size:16 final size:18
Alignment explanation
Indices: 14979965--14980002 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14979955 TCTTTTTTGC
14979965 TTTTTC-TT-TTGTTTAT
1 TTTTTCTTTGTTGTTTAT
14979981 TTTTTCTTTGTTGTTTAT
1 TTTTTCTTTGTTGTTTAT
14979999 TTTT
1 TTTT
14980003 CTTGCCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTGTTGTTTAT
Found at i:14982405 original size:38 final size:38
Alignment explanation
Indices: 14982347--14982446 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
14982337 CTATCTATTG
* * * * *
14982347 AGATGTGCATAAGGTAGAATGCATGTAATGCCTAATTA
1 AGATGTGCATGAGATGGAATGCATGTAATACCCAATTA
** * *
14982385 AGATGTGCATGAGATGGAATGTGTGTATTACCCACTTA
1 AGATGTGCATGAGATGGAATGCATGTAATACCCAATTA
* *
14982423 AGATGTACATGAGATGGAAAGCAT
1 AGATGTGCATGAGATGGAATGCAT
14982447 ATATTATTAT
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (38 bp):
AGATGTGCATGAGATGGAATGCATGTAATACCCAATTA
Found at i:14983695 original size:15 final size:15
Alignment explanation
Indices: 14983675--14983707 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14983665 ACTATTTTTC
14983675 AAAAGAATTAAAATT
1 AAAAGAATTAAAATT
*
14983690 AAAAGAATTAACATT
1 AAAAGAATTAAAATT
14983705 AAA
1 AAA
14983708 TATCAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (15 bp):
AAAAGAATTAAAATT
Found at i:14984844 original size:15 final size:15
Alignment explanation
Indices: 14984824--14984883 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
14984814 TAAGATTTCA
*
14984824 AAATTTTAGGGTTTT
1 AAATTTTAGGCTTTT
14984839 AAATTTTAGAG-TTTT
1 AAATTTTAG-GCTTTT
*
14984854 AGATTTTAGGCTTTT
1 AAATTTTAGGCTTTT
* *
14984869 GAACTTTAGGCTTTT
1 AAATTTTAGGCTTTT
14984884 GAAGGTTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (15 bp):
AAATTTTAGGCTTTT
Found at i:14984884 original size:15 final size:15
Alignment explanation
Indices: 14984858--14984886 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14984848 AGTTTTAGAT
14984858 TTTAGGCTTTTGAAC
1 TTTAGGCTTTTGAAC
14984873 TTTAGGCTTTTGAA
1 TTTAGGCTTTTGAA
14984887 GGTTTTCGAG
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:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTAGGCTTTTGAAC
Found at i:14984925 original size:34 final size:34
Alignment explanation
Indices: 14984887--14984960 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
14984877 GGCTTTTGAA
* * *
14984887 GGTTTTCGAGGGTTTTGGGTTTTAAGGTTTCGAG
1 GGTTTTCGAGGGTTTTAGATTTTAAGGTTTCAAG
** * *
14984921 GGTTTTTTAGGGTTTTAGATTTTTAGGTTTTAAG
1 GGTTTTCGAGGGTTTTAGATTTTAAGGTTTCAAG
14984955 GGTTTT
1 GGTTTT
14984961 GAAATTTTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.14, C:0.03, G:0.32, T:0.51
Consensus pattern (34 bp):
GGTTTTCGAGGGTTTTAGATTTTAAGGTTTCAAG
Found at i:14984945 original size:16 final size:16
Alignment explanation
Indices: 14984924--14985000 Score: 54
Period size: 16 Copynumber: 4.8 Consensus size: 16
14984914 TTTCGAGGGT
14984924 TTTTTAGGGTTTTAGA
1 TTTTTAGGGTTTTAGA
*
14984940 TTTTTA-GGTTTTAAGG
1 TTTTTAGGGTTTT-AGA
* **
14984956 GTTTT-GAAATTTTAGGA
1 TTTTTAG-GGTTTTA-GA
14984973 TTTTGTA--GTTTTAGA
1 TTTT-TAGGGTTTTAGA
14984988 TTTTTAGGGTTTT
1 TTTTTAGGGTTTT
14985001 GAGTTTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
14 2 0.04
15 12 0.26
16 23 0.50
17 8 0.17
18 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.57
Consensus pattern (16 bp):
TTTTTAGGGTTTTAGA
Found at i:14985008 original size:24 final size:23
Alignment explanation
Indices: 14984932--14985007 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
14984922 GTTTTTTAGG
*
14984932 GTTTTAGATTTTTA-GGTTTTAAGG
1 GTTTTAGATTTTTAGGGTTTT--GA
* *
14984956 GTTTT-GAAATTTTAGGATTTTGTA
1 GTTTTAG-ATTTTTAGGGTTTTG-A
14984980 GTTTTAGATTTTTAGGGTTTTGA
1 GTTTTAGATTTTTAGGGTTTTGA
14985003 GTTTT
1 GTTTT
14985008 TTTTTTTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
23 8 0.19
24 29 0.67
25 6 0.14
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.57
Consensus pattern (23 bp):
GTTTTAGATTTTTAGGGTTTTGA
Found at i:14988904 original size:24 final size:24
Alignment explanation
Indices: 14988877--14988923 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
14988867 TTAAATCATA
14988877 AAAAAGTATTGAAATACCTTAAGT
1 AAAAAGTATTGAAATACCTTAAGT
*
14988901 AAAAAGTATTGAAATATCTTAAG
1 AAAAAGTATTGAAATACCTTAAG
14988924 AAAGAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (24 bp):
AAAAAGTATTGAAATACCTTAAGT
Found at i:14988932 original size:21 final size:22
Alignment explanation
Indices: 14988878--14988934 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
14988868 TAAATCATAA
14988878 AAAAGTATTGAAATACCTTAAG
1 AAAAGTATTGAAATACCTTAAG
*
14988900 TAAAAAGTATTGAAATATCTTAAG
1 --AAAAGTATTGAAATACCTTAAG
*
14988924 -AAAGAATTGAA
1 AAAAGTATTGAA
14988935 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 10 0.32
24 21 0.68
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (22 bp):
AAAAGTATTGAAATACCTTAAG
Found at i:14996069 original size:123 final size:120
Alignment explanation
Indices: 14995664--14996118 Score: 425
Period size: 123 Copynumber: 3.7 Consensus size: 120
14995654 GATTTTTTGA
* * * *
14995664 ATTATAAAAACA-TGTTTGAATAATCCTAAAATCAATTAATTAAATAGAATGTAATATTTAACAA
1 ATTATAAAAGCAGTGTTTGAATAAT-TTAAAACCAATTAATTAAATAAAATGTAATATTTAACAA
* * * * * * ** *
14995728 GCACAACATTTTTCTTTGTATAAGC-CTTAATATTTGACAATCACGATGTTTTGATC
65 GCACGACATTTTTATTT-TATAAACACTTAATATTAGACAAACACAACATTTTGGTC
* *
14995784 ATTATAAAAACAGTGTTTGAATAATTCTAAAACCAATTAACTAAATAAAATGTAATATTTAACAA
1 ATTATAAAAGCAGTGTTTGAATAATT-TAAAACCAATTAATTAAATAAAATGTAATATTTAACAA
* * * * *
14995849 GTATGA-ATTTTTTTCTTTTTATAAACACCCTAATATTATACAAACACAACATTTTGGTC
65 GCACGACA--TTTTT-ATTTTATAAACA-CTTAATATTAGACAAACACAACATTTTGGTC
* * * * * *
14995908 ATTATAAACGCAATGTTTGAATACTCTTCAAACTAATTAATTAAATAAAATGTTATATTTAACAA
1 ATTATAAAAGCAGTGTTTGAATAAT-TTAAAACCAATTAATTAAATAAAATGTAATATTTAACAA
* * * *
14995973 GCACGATGC-TTTTTGTTTTATAAACATTTTAATATTGGACAAGCACAACATTTTGGTC
65 GCACGA--CATTTTTATTTTATAAACA-CTTAATATTAGACAAACACAACATTTTGGTC
* * * * * *
14996031 CTTATAAATGCAGTATTTAAATAATTAAAAAACCAATTAATTAAATAAAATGCT-ATATTTGACA
1 ATTATAAAAGCAGTGTTTGAATAATT-TAAAACCAATTAATTAAATAAAATG-TAATATTTAACA
*
14996095 AGTACGACATTTTTATTTTATAAA
64 AGCACGACATTTTTATTTTATAAA
14996119 TGCTATAATA
Statistics
Matches: 275, Mismatches: 46, Indels: 26
0.79 0.13 0.07
Matches are distributed among these distances:
120 13 0.05
121 51 0.19
122 26 0.09
123 96 0.35
124 88 0.32
125 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (120 bp):
ATTATAAAAGCAGTGTTTGAATAATTTAAAACCAATTAATTAAATAAAATGTAATATTTAACAAG
CACGACATTTTTATTTTATAAACACTTAATATTAGACAAACACAACATTTTGGTC
Found at i:15002077 original size:11 final size:11
Alignment explanation
Indices: 15002063--15002089 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15002053 TGAATGAAAA
15002063 ATTTTGAATTT
1 ATTTTGAATTT
15002074 ATTTTGAATTT
1 ATTTTGAATTT
15002085 ATTTT
1 ATTTT
15002090 ATACAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (11 bp):
ATTTTGAATTT
Found at i:15004491 original size:55 final size:54
Alignment explanation
Indices: 15004239--15004776 Score: 391
Period size: 56 Copynumber: 9.8 Consensus size: 54
15004229 AATTTTAATC
* * * * * * **
15004239 TTAAGGAAAAGTTGAAATTTCAA-TTTCTTCTTTAAAATTTTGAAATTGTTCTCATT
1 TTAAGGAAAATTTGATATTTCAACTTT-TTC-TCAAATTTTTAAAATTATT-TTGTT
* * * * * *
15004295 TTAAGGAAATTTTGATGTTTCAACTTTTTCCTCATA-TCTTGAAATTGTTTT-TGT
1 TTAAGGAAAATTTGATATTTCAACTTTTT-CTCAAATTTTTAAAATTATTTTGT-T
* ** * * *
15004349 TTAGGGAAAAAATGATATTTTAAC--TTTCTC-CA--TTTAAAATTAATTTTGCT
1 TTAAGGAAAATTTGATATTTCAACTTTTTCTCAAATTTTTAAAATT-ATTTTGTT
* * *
15004399 TTAAGGAAAATTTGATATTTCAATTTTTTTCTTAAATTTTTAAAATTATTTTCCTT
1 TTAAGGAAAATTTGATATTTCAA-CTTTTTCTCAAATTTTTAAAATTATTTT-GTT
* * * *
15004455 CTAAGGAAAAGTTGATATTTCAACTTTTTCTCAAATTCTTAAAATTATTTTAGTG
1 TTAAGGAAAATTTGATATTTCAACTTTTTCTCAAATTTTTAAAATTATTTT-GTT
* * * *
15004510 TTAAGGAAAAATTGATATTTCAACTTTTTCCTCTAATTTTAAAAATTATTATAGTT
1 TTAAGGAAAATTTGATATTTCAACTTTTT-CTCAAATTTTTAAAATTATT-TTGTT
* * * *
15004566 TTAAGGAAAATTTTATATTTTAATTTTTTCTTCAAAATTTT-AAATTATTTT-TAT
1 TTAAGGAAAATTTGATATTTCAACTTTTTC-TCAAATTTTTAAAATTATTTTGT-T
** * * * *
15004620 CTTAAGGAAAATTTTTTTTTTTCAAATTTTTTCCTCAAA-TTTTGAAATTATTTTTATT
1 -TTAAGGAAAA-TTTGATATTTC-AACTTTTT-CTCAAATTTTTAAAATTA-TTTTGTT
* * *
15004678 TTAAGGAAATTTTGATATTTCAACTTTTTCCTCAAAATTTTGAAATTATTTT-TT
1 TTAAGGAAAATTTGATATTTCAACTTTTT-CTCAAATTTTTAAAATTATTTTGTT
15004732 TTAAGGAAAATTT-ATTATTTCAACTTTTTCTTCAAAATTTTTAAA
1 TTAAGGAAAATTTGA-TATTTCAACTTTTTC-TC-AAATTTTTAAA
15004777 TTAAAAAATT
Statistics
Matches: 393, Mismatches: 62, Indels: 55
0.77 0.12 0.11
Matches are distributed among these distances:
49 7 0.02
50 25 0.06
51 3 0.01
52 3 0.01
53 9 0.02
54 53 0.13
55 116 0.30
56 137 0.35
57 33 0.08
58 6 0.02
59 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (54 bp):
TTAAGGAAAATTTGATATTTCAACTTTTTCTCAAATTTTTAAAATTATTTTGTT
Found at i:15004525 original size:111 final size:108
Alignment explanation
Indices: 15004230--15004776 Score: 368
Period size: 111 Copynumber: 5.0 Consensus size: 108
15004220 TTTTAGAAAA
* * * * * *
15004230 ATTTTAATCTTAAGGAAAAGTTGAAATTTCAA-TTTCTTCTTTAAAATTTTGAAATTGTTCTCAT
1 ATTTTAATTTTAAGGAAAATTTGATATTTCAACTTT-TTC-TCAAAATTTTAAAATTATT-T--T
** * * * * * *
15004294 TTTAAGGAAATTTTGATGTTTCAACTTTTTCCTCATA-TCTTGAAATT
61 TTTAAGGAAAAATTGATATTTCAATTTTTTCCTTAAATTTTTAAAATT
* * ** * *
15004341 GTTTT--TGTTTAGGGAAAAAATGATATTTTAAC--TTTCTC--CA-TTTAAAATTAATTTTGCT
1 ATTTTAAT-TTTAAGGAAAATTTGATATTTCAACTTTTTCTCAAAATTTTAAAATT-ATTTT--T
* *
15004399 TTAAGGAAAATTTGATATTTCAATTTTTTTCTTAAATTTTTAAAATT
62 TTAAGGAAAAATTGATATTTCAATTTTTTCCTTAAATTTTTAAAATT
** * *
15004446 ATTTTCCTTCTAAGGAAAAGTTGATATTTCAACTTTTTCTC-AAATTCTTAAAATTATTTTAGTG
1 ATTTTAATTTTAAGGAAAATTTGATATTTCAACTTTTTCTCAAAATT-TTAAAATTATTTT--T-
* *
15004510 TTAAGGAAAAATTGATATTTCAACTTTTTCCTCT-AATTTTAAAAATT
62 TTAAGGAAAAATTGATATTTCAATTTTTTCCT-TAAATTTTTAAAATT
* * * * *
15004557 ATTATAGTTTTAAGGAAAATTTTATATTTTAATTTTTTCTTCAAAATTTT-AAATTATTTTTATC
1 ATTTTAATTTTAAGGAAAATTTGATATTTCAACTTTTTC-TCAAAATTTTAAAATTA-TTTT-T-
* ** * * *
15004621 TTAAGGAAAATTTTTTTTTTTCAAATTTTTTCCTCAAA-TTTTGAAATT
62 TTAAGGAAAA-ATTGATATTTC-AATTTTTTCCTTAAATTTTTAAAATT
* * *
15004669 ATTTTTATTTTAAGGAAATTTTGATATTTCAACTTTTTCCTCAAAATTTTGAAATTATTTTTTTT
1 ATTTTAATTTTAAGGAAAATTTGATATTTCAACTTTTT-CTCAAAATTTTAAAATTA-TTTTTTT
* *
15004734 AAGG-AAAATTTATTATTTCAACTTTTT-CTTCAAAATTTTTAAA
64 AAGGAAAAATTGA-TATTTCAATTTTTTCCTT--AAATTTTTAAA
15004777 TTAAAAAATT
Statistics
Matches: 346, Mismatches: 63, Indels: 54
0.75 0.14 0.12
Matches are distributed among these distances:
102 1 0.00
104 40 0.12
105 15 0.04
106 20 0.06
107 2 0.01
108 11 0.03
109 13 0.04
110 36 0.10
111 113 0.33
112 66 0.19
113 29 0.08
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (108 bp):
ATTTTAATTTTAAGGAAAATTTGATATTTCAACTTTTTCTCAAAATTTTAAAATTATTTTTTTAA
GGAAAAATTGATATTTCAATTTTTTCCTTAAATTTTTAAAATT
Found at i:15004733 original size:28 final size:28
Alignment explanation
Indices: 15004646--15004733 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
15004636 TTTTTTCAAA
15004646 TTTTTTCCTC-AAATTTTGAAATTATTT
1 TTTTTTCCTCAAAATTTTGAAATTATTT
* * * **
15004673 TTATTT--TAAGGAAATTTTGATATT-TCAA
1 TTTTTTCCTCA--AAATTTTGAAATTAT-TT
*
15004701 CTTTTTCCTCAAAATTTTGAAATTATTT
1 TTTTTTCCTCAAAATTTTGAAATTATTT
15004729 TTTTT
1 TTTTT
15004734 AAGGAAAATT
Statistics
Matches: 42, Mismatches: 12, Indels: 13
0.63 0.18 0.19
Matches are distributed among these distances:
25 1 0.02
27 6 0.14
28 32 0.76
29 1 0.02
30 2 0.05
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTTTTCCTCAAAATTTTGAAATTATTT
Found at i:15005852 original size:13 final size:13
Alignment explanation
Indices: 15005834--15005883 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
15005824 ACAAATAAAT
15005834 AAAATAAAAAGTA
1 AAAATAAAAAGTA
*
15005847 AAAATAAAAAGGA
1 AAAATAAAAAGTA
* *
15005860 TAAAGTAAAAAATA
1 -AAAATAAAAAGTA
15005874 AAAATAAAAA
1 AAAATAAAAA
15005884 TCCTAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 21 0.68
14 10 0.32
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (13 bp):
AAAATAAAAAGTA
Found at i:15005868 original size:27 final size:27
Alignment explanation
Indices: 15005832--15005883 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
15005822 ATACAAATAA
*
15005832 ATAAAATAAAAAGTAAAAATAAAAAGG
1 ATAAAATAAAAAATAAAAATAAAAAGG
*
15005859 ATAAAGTAAAAAATAAAAATAAAAA
1 ATAAAATAAAAAATAAAAATAAAAA
15005884 TCCTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (27 bp):
ATAAAATAAAAAATAAAAATAAAAAGG
Found at i:15005890 original size:27 final size:27
Alignment explanation
Indices: 15005832--15005892 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
15005822 ATACAAATAA
* *
15005832 ATAAAATAAAAAGTAAAAATAAAAAGG
1 ATAAAATAAAAAATAAAAATAAAAAGC
* *
15005859 ATAAAGTAAAAAATAAAAATAAAAATC
1 ATAAAATAAAAAATAAAAATAAAAAGC
*
15005886 CTAAAAT
1 ATAAAAT
15005893 TCAACAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.18
Consensus pattern (27 bp):
ATAAAATAAAAAATAAAAATAAAAAGC
Found at i:15006344 original size:84 final size:85
Alignment explanation
Indices: 15006190--15006356 Score: 239
Period size: 84 Copynumber: 2.0 Consensus size: 85
15006180 AGTTTGAAAT
* * *
15006190 GGAAATGTCAACTAATTTTACATTTTTTGGTCCATTTGAATGAGTAATGAGATTAACTTTTTTAA
1 GGAAATGTCAACTAATTTTACATTTTTTGGTCCATTTAAATGAGTAATGAGATTAACTCTATTAA
*
15006255 TATTGAACACAACAATTGAG
66 TATTGAAAACAACAATTGAG
* * * *
15006275 GGAAATGTCAACTAATTTTA-TTTTTTTGGTCCATTTAAATG-GATGATGGGATTGACTCTATTA
1 GGAAATGTCAACTAATTTTACATTTTTTGGTCCATTTAAATGAG-TAATGAGATTAACTCTATTA
15006338 ATATTGAAAACAACAATTG
65 ATATTGAAAACAACAATTG
15006357 TGGTAAGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
83 1 0.01
84 52 0.71
85 20 0.27
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (85 bp):
GGAAATGTCAACTAATTTTACATTTTTTGGTCCATTTAAATGAGTAATGAGATTAACTCTATTAA
TATTGAAAACAACAATTGAG
Found at i:15006968 original size:30 final size:30
Alignment explanation
Indices: 15006895--15006969 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
15006885 ATGAGCCCTC
* * * *
15006895 AACCTTTAGTTTGCATTCAAATAAGTTTTT
1 AACCTTTAATTTGTATACAAATAAGCTTTT
15006925 AACCTTTAATTTGTATACAAATAAGCTTTT
1 AACCTTTAATTTGTATACAAATAAGCTTTT
*
15006955 AATCTTTAATTTGTA
1 AACCTTTAATTTGTA
15006970 CATAAATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (30 bp):
AACCTTTAATTTGTATACAAATAAGCTTTT
Found at i:15006986 original size:30 final size:30
Alignment explanation
Indices: 15006912--15006987 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
15006902 AGTTTGCATT
** *
15006912 CAAATAAGTTTTTAACCTTTAATTTGTATA
1 CAAATAAGCCTTTAACCTTTAATTTGTACA
* *
15006942 CAAATAAGCTTTTAATCTTTAATTTGTACA
1 CAAATAAGCCTTTAACCTTTAATTTGTACA
*
15006972 TAAATTAA-CCTTTAAC
1 CAAA-TAAGCCTTTAAC
15006988 ATAATACATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 36 0.92
31 3 0.08
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.43
Consensus pattern (30 bp):
CAAATAAGCCTTTAACCTTTAATTTGTACA
Found at i:15009233 original size:23 final size:26
Alignment explanation
Indices: 15009190--15009242 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 26
15009180 AAAACTTATT
*
15009190 TATTTAATTTTTGAATATATT-GT-A
1 TATTTAATTTTTAAATATATTAGTAA
15009214 TATTT-ATTTTATAAAT-TATTAGTAA
1 TATTTAATTTT-TAAATATATTAGTAA
15009239 TATT
1 TATT
15009243 ATTACATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 9 0.36
24 11 0.44
25 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TATTTAATTTTTAAATATATTAGTAA
Found at i:15011974 original size:25 final size:24
Alignment explanation
Indices: 15011921--15011979 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
15011911 TAAAATTTTA
* *
15011921 TTTTTCTTTCTCATTTTTTTGTTTT
1 TTTTTCTTTCT-ATTTTTTTATTTG
15011946 TTTTTCTTTCT-TTTCTTCTTATTTG
1 TTTTTCTTTCTATTT-TT-TTATTTG
*
15011971 TTTTCCTTT
1 TTTTTCTTT
15011980 TCTCTCTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 24 0.83
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTCTATTTTTTTATTTG
Found at i:15012939 original size:25 final size:25
Alignment explanation
Indices: 15012910--15012958 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
15012900 ATAATTATTC
15012910 AATGATAAAATTTTA-AGAAATTTCA
1 AATGATAAAATTTTATA-AAATTTCA
*
15012935 AATGATAAATTTTTATAAAATTTC
1 AATGATAAAATTTTATAAAATTTC
15012959 TAGGTGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (25 bp):
AATGATAAAATTTTATAAAATTTCA
Found at i:15017136 original size:7 final size:7
Alignment explanation
Indices: 15017126--15017250 Score: 69
Period size: 7 Copynumber: 17.4 Consensus size: 7
15017116 TGGGAAAAGA
15017126 AAAAATG
1 AAAAATG
15017133 AAAAATGGAG
1 AAAAAT---G
15017143 AAAAAATG
1 A-AAAATG
15017151 AAAAATG
1 AAAAATG
**
15017158 GGAAATG
1 AAAAATG
*
15017165 AAAAAGG
1 AAAAATG
*
15017172 AAAAAAG
1 AAAAATG
*
15017179 AAAAAGG
1 AAAAATG
*
15017186 AAAAAAG
1 AAAAATG
*
15017193 AAAAAAG
1 AAAAATG
*
15017200 AAAAAAG
1 AAAAATG
15017207 AAAAA--
1 AAAAATG
15017212 AAGGAAA-G
1 AA--AAATG
15017220 ACAAAATG
1 A-AAAATG
*
15017228 -AAAATA
1 AAAAATG
*
15017234 AAAAATA
1 AAAAATG
15017241 AAAAATG
1 AAAAATG
15017248 AAA
1 AAA
15017251 GAAAAAAAAG
Statistics
Matches: 98, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
5 2 0.02
6 5 0.05
7 79 0.81
8 4 0.04
9 1 0.01
10 2 0.02
11 5 0.05
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.07
Consensus pattern (7 bp):
AAAAATG
Found at i:15017137 original size:14 final size:14
Alignment explanation
Indices: 15017108--15017211 Score: 72
Period size: 14 Copynumber: 7.1 Consensus size: 14
15017098 GATGTATAAG
*
15017108 AGAAAAAATGGGAAA
1 AGAAAAAAT-GAAAA
15017123 AGAAAAAATGAAAAA
1 AGAAAAAATG-AAAA
15017138 TGGAGAAAAAATGAAAA
1 ---AGAAAAAATGAAAA
**
15017155 ATG-GGAAATGAAAA
1 A-GAAAAAATGAAAA
15017169 AGGAAAAAA-GAAAA
1 A-GAAAAAATGAAAA
15017183 AGGAAAAAA-GAAAAA
1 A-GAAAAAATG-AAAA
15017198 AGAAAAAA-GAAAA
1 AGAAAAAATGAAAA
15017211 A
1 A
15017212 AAGGAAAGAC
Statistics
Matches: 76, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
13 5 0.07
14 36 0.47
15 21 0.28
17 4 0.05
18 10 0.13
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (14 bp):
AGAAAAAATGAAAA
Found at i:15017146 original size:18 final size:18
Alignment explanation
Indices: 15017123--15017162 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
15017113 AAATGGGAAA
15017123 AGAAAAAATGAAAAATGG
1 AGAAAAAATGAAAAATGG
15017141 AGAAAAAATGAAAAATGG
1 AGAAAAAATGAAAAATGG
15017159 -GAAA
1 AGAAA
15017163 TGAAAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.10
Consensus pattern (18 bp):
AGAAAAAATGAAAAATGG
Found at i:15017188 original size:21 final size:21
Alignment explanation
Indices: 15017120--15017212 Score: 87
Period size: 21 Copynumber: 4.2 Consensus size: 21
15017110 AAAAAATGGG
15017120 AAAAGAAAAAATGAAAAATGGAGAA
1 AAAAGAAAAAA-GAAAAA---AGAA
* ** *
15017145 AAAATGAAAAATGGGAAATGAA
1 AAAA-GAAAAAAGAAAAAAGAA
* *
15017167 AAAGGAAAAAAGAAAAAGGAA
1 AAAAGAAAAAAGAAAAAAGAA
15017188 AAAAGAAAAAAGAAAAAAGAA
1 AAAAGAAAAAAGAAAAAAGAA
15017209 AAAA
1 AAAA
15017213 AGGAAAGACA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 36 0.64
22 6 0.11
25 8 0.14
26 6 0.11
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAAAGAAAAAAGAA
Found at i:15017212 original size:14 final size:14
Alignment explanation
Indices: 15017120--15017212 Score: 87
Period size: 14 Copynumber: 6.3 Consensus size: 14
15017110 AAAAAATGGG
15017120 AAAAGAAAAAATGAA
1 AAAAGAAAAAA-GAA
15017135 AAATGGAGAAAAAATGAA
1 AAA---AGAAAAAA-GAA
* ** *
15017153 AAATGGGAAATGAA
1 AAAAGAAAAAAGAA
*
15017167 AAAGGAAAAAAGAA
1 AAAAGAAAAAAGAA
*
15017181 AAAGGAAAAAAGAA
1 AAAAGAAAAAAGAA
15017195 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
15017209 AAAA
1 AAAA
15017213 AGGAAAGACA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
14 44 0.67
15 7 0.11
18 15 0.23
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.05
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:15018631 original size:20 final size:20
Alignment explanation
Indices: 15018598--15018636 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15018588 AAAATCTATG
* *
15018598 GAATGTGAATCTTTGAACTC
1 GAATGAGAAGCTTTGAACTC
15018618 GAATGAGAAGCTTTGAACT
1 GAATGAGAAGCTTTGAACT
15018637 TTTGGATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (20 bp):
GAATGAGAAGCTTTGAACTC
Found at i:15018722 original size:108 final size:109
Alignment explanation
Indices: 15018494--15018866 Score: 572
Period size: 109 Copynumber: 3.4 Consensus size: 109
15018484 GTTTTGAATA
*
15018494 TGAATCTTTGAACTTGAATGAGAAGCTTTGAACTTTTGGATGTGAACCCTAAATTTTTTTGAATG
1 TGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAACCCTAAATTTTTTTGAATG
* *
15018559 AGAACCTTTGAATTTAAATGAGAAACTCTAAAATCTAT-GGAATG
66 AGAACCTTTGAATTTAGATGAAAAACTCTAAAATCTATCGG-ATG
* *
15018603 TGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATATGAATCCTAAA-TTTTTTGAATG
1 TGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAACCCTAAATTTTTTTGAATG
* *
15018667 AGAACCTTTAAATTTAGATGAAAAATTCTAAAATCTATCGGATG
66 AGAACCTTTGAATTTAGATGAAAAACTCTAAAATCTATCGGATG
* * * * *
15018711 TGAATTTTTGAACTTGAATGAGAAACTTTGAACTTTTGGATGCGAACCCCAAATTTTTTTGAATG
1 TGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAACCCTAAATTTTTTTGAATG
* *
15018776 AGAACCTTTGAATTTAGAT-AAGAAACTCTAAATTCTATCGAATG
66 AGAACCTTTGAATTTAGATGAA-AAACTCTAAAATCTATCGGATG
*
15018820 TGAATATTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAAC
1 TGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAAC
15018867 TTCAAATTTA
Statistics
Matches: 239, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
108 96 0.40
109 143 0.60
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (109 bp):
TGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAACCCTAAATTTTTTTGAATG
AGAACCTTTGAATTTAGATGAAAAACTCTAAAATCTATCGGATG
Found at i:15018838 original size:20 final size:20
Alignment explanation
Indices: 15018813--15018853 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15018803 CTAAATTCTA
* *
15018813 TCGAATGTGAATATTTGAAC
1 TCGAATGAGAAGATTTGAAC
*
15018833 TCGAATGAGAAGCTTTGAAC
1 TCGAATGAGAAGATTTGAAC
15018853 T
1 T
15018854 TTTGGATGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (20 bp):
TCGAATGAGAAGATTTGAAC
Found at i:15018849 original size:64 final size:63
Alignment explanation
Indices: 15018771--15018915 Score: 168
Period size: 64 Copynumber: 2.3 Consensus size: 63
15018761 AAATTTTTTT
* *
15018771 GAATGAGAACCTTTGAA-TTTAGATAAGAAAC-TCTAAATTCTATCGAATGTGAATATTTGAACT
1 GAATGAGAAGCTTTGAACTTTAGATAAG-AACTTC-AAATT-TATCAAATGTGAATATTTGAACT
15018834 C
63 C
* ** * *
15018835 GAATGAGAAGCTTTGAACTTTTGGATGTGAACTTCAAATTTATCAAATGTGAATCTTTGAACTT
1 GAATGAGAAGCTTTGAAC-TTTAGATAAGAACTTCAAATTTATCAAATGTGAATATTTGAACTC
*
15018899 GAATAAGAAGCTTTGAA
1 GAATGAGAAGCTTTGAA
15018916 ATTTTGGATG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
64 53 0.76
65 8 0.11
66 9 0.13
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (63 bp):
GAATGAGAAGCTTTGAACTTTAGATAAGAACTTCAAATTTATCAAATGTGAATATTTGAACTC
Found at i:15018921 original size:64 final size:65
Alignment explanation
Indices: 15018805--15018925 Score: 190
Period size: 64 Copynumber: 1.9 Consensus size: 65
15018795 AAGAAACTCT
* * *
15018805 AAATTCTATCGAATGTGAATATTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAACTTC
1 AAATTCTATCAAATGTGAATATTTGAACTCGAATAAGAAGCTTTGAAATTTTGGATGTGAACTTC
* *
15018870 AAATT-TATCAAATGTGAATCTTTGAACTTGAATAAGAAGCTTTGAAATTTTGGATG
1 AAATTCTATCAAATGTGAATATTTGAACTCGAATAAGAAGCTTTGAAATTTTGGATG
15018926 AAATCTTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
64 46 0.90
65 5 0.10
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (65 bp):
AAATTCTATCAAATGTGAATATTTGAACTCGAATAAGAAGCTTTGAAATTTTGGATGTGAACTTC
Found at i:15021855 original size:55 final size:56
Alignment explanation
Indices: 15021776--15021884 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 56
15021766 AAAGAACAGG
15021776 AAAAAAAAAGAAAGAAAGAAAAGATTAGGAATAATTTACACATGTATCAAATGTAC
1 AAAAAAAAAGAAAGAAAGAAAAGATTAGGAATAATTTACACATGTATCAAATGTAC
* * *
15021832 AAAAGAAAA-AAAGAAAGAAAAGATTATGAATAATTTATACATGTATCAAATGT
1 AAAAAAAAAGAAAGAAAGAAAAGATTAGGAATAATTTACACATGTATCAAATGT
15021885 GTTAACTATG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
55 42 0.84
56 8 0.16
ACGTcount: A:0.59, C:0.06, G:0.14, T:0.22
Consensus pattern (56 bp):
AAAAAAAAAGAAAGAAAGAAAAGATTAGGAATAATTTACACATGTATCAAATGTAC
Found at i:15024729 original size:10 final size:10
Alignment explanation
Indices: 15024706--15024734 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15024696 ATTTTATTAG
15024706 TTAAAATA-A
1 TTAAAATATA
15024715 TTAAAATATA
1 TTAAAATATA
15024725 TTAAAATATA
1 TTAAAATATA
15024735 AAACTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAAATATA
Found at i:15026105 original size:14 final size:13
Alignment explanation
Indices: 15026042--15026131 Score: 58
Period size: 13 Copynumber: 6.9 Consensus size: 13
15026032 AAGGTTACAT
*
15026042 TTTAGGGTTTTAG
1 TTTAGGGTTTTAA
**
15026055 TTTAGGG-TTTCG
1 TTTAGGGTTTTAA
* *
15026067 TTTAGGATTTCAA
1 TTTAGGGTTTTAA
**
15026080 TTTATAGTTTTAA
1 TTTAGGGTTTTAA
15026093 TGTTAGGGTTTT-A
1 T-TTAGGGTTTTAA
* *
15026106 TTAAGGGTTTCAA
1 TTTAGGGTTTTAA
*
15026119 CCTTAGGGTTTTA
1 -TTTAGGGTTTTA
15026132 TTTTGAGTTT
Statistics
Matches: 57, Mismatches: 16, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
12 18 0.32
13 22 0.39
14 17 0.30
ACGTcount: A:0.21, C:0.06, G:0.23, T:0.50
Consensus pattern (13 bp):
TTTAGGGTTTTAA
Found at i:15027809 original size:3 final size:3
Alignment explanation
Indices: 15027796--15027847 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
15027786 TTGTATTTAT
*
15027796 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15027842 TTA TTA
1 TTA TTA
15027848 GTTTTAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15029205 original size:6 final size:6
Alignment explanation
Indices: 15029182--15029249 Score: 63
Period size: 6 Copynumber: 11.3 Consensus size: 6
15029172 TACCCTAATA
*
15029182 TCTTTT ATCTTATT TCTTTT TCTTTT TC---T TCTTTT TCTCTTT CCTTATT
1 TCTTTT -TCTT-TT TCTTTT TCTTTT TCTTTT TCTTTT TCT-TTT TCTT-TT
15029231 TCTTTT TCTTTT T-TTTT TC
1 TCTTTT TCTTTT TCTTTT TC
15029250 AAATGCCTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
3 3 0.06
5 5 0.10
6 24 0.46
7 18 0.35
8 2 0.04
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:15029207 original size:20 final size:19
Alignment explanation
Indices: 15029182--15029243 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
15029172 TACCCTAATA
15029182 TCTTTTATCTTATTTCTTTT
1 TCTTTT-TCTTATTTCTTTT
15029202 TCTTTTTC----TTCTTTT
1 TCTTTTTCTTATTTCTTTT
*
15029217 TCTCTTTCCTTATTTCTTTT
1 TCT-TTTTCTTATTTCTTTT
15029237 TCTTTTT
1 TCTTTTT
15029244 TTTTTCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
15 10 0.29
16 4 0.11
19 5 0.14
20 16 0.46
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (19 bp):
TCTTTTTCTTATTTCTTTT
Found at i:15029937 original size:11 final size:10
Alignment explanation
Indices: 15029922--15029960 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15029912 TTTTCCTCTC
15029922 TTTTTCTTTT
1 TTTTTCTTTT
*
15029932 TCTTTTCCTTT
1 T-TTTTCTTTT
*
15029943 TTTTCCTTTT
1 TTTTTCTTTT
15029953 TTTTTCTT
1 TTTTTCTT
15029961 GTCTTTTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:15031895 original size:285 final size:283
Alignment explanation
Indices: 15031386--15031952 Score: 985
Period size: 285 Copynumber: 2.0 Consensus size: 283
15031376 TTTGGGTGCC
*
15031386 TAGTTTCCCATTCACCTTTTAGTAGGTGAATCACTAAGGTTGAATCCCCATATACTTTCAATATA
1 TAGTTTCCCATTCACCTTTTAGTAGGTAAATCACTAAGGTTGAATCCCCATATACTTTCAATATA
* *
15031451 TCAATTTTTCTTTCAATAGCCATTTGTAATCCCAAAGCACATGTTTCATATTTAGTTACATTATT
66 TCAATTTCTCTTTCAATAGCCATTTGTAATCCCAAAGCACATGCTTCATATTTAGTTACATTATT
*
15031516 TGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGGATATTAATACTA
131 TGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGAATATTAATACTA
*
15031581 CTTCAATGCCATGTCTTATTATATTAGATGCCTCATCAAAAAACATCTTCTATAACTTTTTTCAC
196 CTTCAATGCCATGTCTTATTATATTAGATGCCTCATCAAAAAACATCTTCTATAAC-TTTTTAAC
*
15031646 AGGTTCTTCATCTTTATCTTTTAG
260 AGGCTCTTCATCTTTATCTTTTAG
** *
15031670 TAGTTTCCCATTCAGTTTTTAGTAGGTAAATCACTAAGGTTGAATCCCCATGTACTTTTCAATAT
1 TAGTTTCCCATTCACCTTTTAGTAGGTAAATCACTAAGGTTGAATCCCCATATAC-TTTCAATAT
*
15031735 ATCAATCTTCT-TTTCAATGGCCATTTGTAATCCCAAAGCACATGCTTCATATTTAGTTACATTA
65 ATCAAT-TTCTCTTTCAATAGCCATTTGTAATCCCAAAGCACATGCTTCATATTTAGTTACATTA
15031799 TTTGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGAATATTAATAC
129 TTTGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGAATATTAATAC
*
15031864 TACCTT-AATGCCATGTCTTATTATATTAGATGCCTCATCAAAGAACATCTTCTATAACTTTTTA
194 TA-CTTCAATGCCATGTCTTATTATATTAGATGCCTCATCAAAAAACATCTTCTATAACTTTTTA
15031928 ACAGGCTCTTCATCTTTATCTTTTA
258 ACAGGCTCTTCATCTTTATCTTTTA
15031953 AGATTGCCAT
Statistics
Matches: 269, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
284 80 0.30
285 183 0.68
286 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.40
Consensus pattern (283 bp):
TAGTTTCCCATTCACCTTTTAGTAGGTAAATCACTAAGGTTGAATCCCCATATACTTTCAATATA
TCAATTTCTCTTTCAATAGCCATTTGTAATCCCAAAGCACATGCTTCATATTTAGTTACATTATT
TGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGAATATTAATACTA
CTTCAATGCCATGTCTTATTATATTAGATGCCTCATCAAAAAACATCTTCTATAACTTTTTAACA
GGCTCTTCATCTTTATCTTTTAG
Found at i:15042983 original size:9 final size:8
Alignment explanation
Indices: 15042969--15043012 Score: 52
Period size: 9 Copynumber: 5.1 Consensus size: 8
15042959 CACTTTTGTA
15042969 TTTATTTAT
1 TTTA-TTAT
15042978 TTTATTAT
1 TTTATTAT
15042986 TATTATTAT
1 T-TTATTAT
15042995 TATTATTAT
1 T-TTATTAT
*
15043004 TTTGTTAT
1 TTTATTAT
15043012 T
1 T
15043013 AGTTTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
8 12 0.36
9 21 0.64
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTATTAT
Found at i:15042987 original size:3 final size:3
Alignment explanation
Indices: 15042974--15043013 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
15042964 TTGTATTTAT
*
15042974 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT- TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15043014 GTTTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:15043948 original size:33 final size:34
Alignment explanation
Indices: 15043876--15043954 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 34
15043866 GAGCTGTAAG
*
15043876 TCAAAAAATAAAGGATGATGGGATTGAATAGCAAT
1 TCAAAAAATAAA-GATGATGGGATTGAATAGCAAA
* **
15043911 TCAAAAAA-AAA-ATGATTGGGATTGAGTCTCAAA
1 TCAAAAAATAAAGATGA-TGGGATTGAATAGCAAA
15043944 TCAAAAAATAA
1 TCAAAAAATAA
15043955 GGACAACTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 4 0.11
33 21 0.55
34 5 0.13
35 8 0.21
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.23
Consensus pattern (34 bp):
TCAAAAAATAAAGATGATGGGATTGAATAGCAAA
Found at i:15044380 original size:20 final size:19
Alignment explanation
Indices: 15044347--15044402 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
15044337 ATATCTTTTA
15044347 TCTTATTTCTTTTCTTTTCT
1 TCTT-TTTCTTTTCTTTTCT
*
15044367 TCTTTTTCTCTTTCCTTAT-T
1 TCTTTTTCT-TTT-CTTTTCT
15044387 TCTTTTTCTTTT-TTTT
1 TCTTTTTCTTTTCTTTT
15044403 TTCAATGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 3 0.09
19 8 0.25
20 17 0.53
21 4 0.12
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (19 bp):
TCTTTTTCTTTTCTTTTCT
Found at i:15045087 original size:11 final size:10
Alignment explanation
Indices: 15045075--15045113 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
15045065 TTTTCCTCTC
15045075 TTTTCTTTTT
1 TTTTCTTTTT
15045085 CTTTTCCTTTTT
1 -TTTT-CTTTTT
*
15045097 TTTTCCTTTT
1 TTTTCTTTTT
15045107 TTTTCTT
1 TTTTCTT
15045114 GTCTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 11 0.44
11 8 0.32
12 6 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:15045094 original size:17 final size:17
Alignment explanation
Indices: 15045074--15045106 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15045064 TTTTTCCTCT
15045074 CTTTTCTTTTT-CTTTTC
1 CTTTT-TTTTTCCTTTTC
15045091 CTTTTTTTTTCCTTTT
1 CTTTTTTTTTCCTTTT
15045107 TTTTCTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTTTTTTCCTTTTC
Found at i:15047042 original size:285 final size:283
Alignment explanation
Indices: 15046533--15047099 Score: 976
Period size: 285 Copynumber: 2.0 Consensus size: 283
15046523 TTTGGGTGCC
*
15046533 TAGTTTCCCATTCACCTTTTAGTAAGTGAATCACTAAGGTTGAATCCCCATATACTTTCAATATA
1 TAGTTTCCCATTCACCTTTTAGTAAGTAAATCACTAAGGTTGAATCCCCATATACTTTCAATATA
* *
15046598 TCAATTTTTCTTTCAATGGCCATTTGTAATCCCAAAGCACATGTTTCATATTTAGTTACATTATT
66 TCAATTTCTCTTTCAATGGCCATTTGTAATCCCAAAGCACATGCTTCATATTTAGTTACATTATT
*
15046663 TGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGGATATTAATACTA
131 TGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGAATATTAATACTA
* *
15046728 CTTCAATGCCATGTCTTATTATATTAGATGCCTCATCAAAAAACATCTTTTATAACTTTTTTCAC
196 CTTCAATGCCATGTCTTATTATATTAGATGCCTCATCAAAAAACATCTTCTATAAC-TTTTTAAC
*
15046793 AGGTTCTTCATCTTTATCTTTTAG
260 AGGCTCTTCATCTTTATCTTTTAG
* * *
15046817 TAGTTTCCCATTCAGCTTTTAGTAGGTAAATCACTAAGGTTGAATCCCCATGTACTTTTCAATAT
1 TAGTTTCCCATTCACCTTTTAGTAAGTAAATCACTAAGGTTGAATCCCCATATAC-TTTCAATAT
15046882 ATCAATCTTCT-TTTCAATGGCCATTTGTAATCCCAAAGCACATGCTTCATATTTAGTTACATTA
65 ATCAAT-TTCTCTTTCAATGGCCATTTGTAATCCCAAAGCACATGCTTCATATTTAGTTACATTA
*
15046946 TTTGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAGTTCCCTTATGGGAATATTAATAC
129 TTTGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGAATATTAATAC
*
15047011 TACCTT-AATGCCATGTCTTATTATATTAGATGCCTCATCAAAGAACATCTTCTATAACTTTTTA
194 TA-CTTCAATGCCATGTCTTATTATATTAGATGCCTCATCAAAAAACATCTTCTATAACTTTTTA
15047075 ACAGGCTCTTCATCTTTATCTTTTA
258 ACAGGCTCTTCATCTTTATCTTTTA
15047100 AGATTGCCAT
Statistics
Matches: 268, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
284 80 0.30
285 182 0.68
286 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (283 bp):
TAGTTTCCCATTCACCTTTTAGTAAGTAAATCACTAAGGTTGAATCCCCATATACTTTCAATATA
TCAATTTCTCTTTCAATGGCCATTTGTAATCCCAAAGCACATGCTTCATATTTAGTTACATTATT
TGTGCAATTAAAATCTAGTCTTGCAGTGCTAGGATAATAATTCCCTTATGGGAATATTAATACTA
CTTCAATGCCATGTCTTATTATATTAGATGCCTCATCAAAAAACATCTTCTATAACTTTTTAACA
GGCTCTTCATCTTTATCTTTTAG
Found at i:15054674 original size:23 final size:25
Alignment explanation
Indices: 15054646--15054700 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
15054636 TAAAAAGGTA
15054646 GATGAG-CC-CCAAATCCTAAAATG
1 GATGAGCCCACCAAATCCTAAAATG
*
15054669 GATGAGCCCATCCAAATCTTAAAATG
1 GATGAGCCCA-CCAAATCCTAAAATG
15054695 GATGAG
1 GATGAG
15054701 ATTAAAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 6 0.21
24 2 0.07
26 20 0.71
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (25 bp):
GATGAGCCCACCAAATCCTAAAATG
Found at i:15056896 original size:23 final size:23
Alignment explanation
Indices: 15056870--15056923 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
15056860 AATGTGTGCA
15056870 AAAAAAAAAG-AAAAAAAGCAAAC
1 AAAAAAAAAGTAAAAAAA-CAAAC
** *
15056893 AAAAAAAGGGTAAAAAAATAAAC
1 AAAAAAAAAGTAAAAAAACAAAC
15056916 AAAAAAAA
1 AAAAAAAA
15056924 GACAAATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAGTAAAAAAACAAAC
Found at i:15059751 original size:13 final size:13
Alignment explanation
Indices: 15059735--15059764 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15059725 TCTTTTTCCA
15059735 TTTTCATTTTATT
1 TTTTCATTTTATT
*
15059748 TTTTGATTTTATT
1 TTTTCATTTTATT
15059761 TTTT
1 TTTT
15059765 TAATTATTTA
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:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTTCATTTTATT
Found at i:15059780 original size:13 final size:13
Alignment explanation
Indices: 15059764--15059788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15059754 TTTTATTTTT
15059764 TTAATTATTTATC
1 TTAATTATTTATC
15059777 TTAATTATTTAT
1 TTAATTATTTAT
15059789 TTCATTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATTATTTATC
Found at i:15059807 original size:18 final size:19
Alignment explanation
Indices: 15059784--15059828 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
15059774 ATCTTAATTA
*
15059784 TTTATTTCATTTT-TAGTT
1 TTTATTTAATTTTATAGTT
15059802 TTTATTTAATTTTACTAGTT
1 TTTATTTAATTTTA-TAGTT
15059822 TTTATTT
1 TTTATTT
15059829 TTAAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.50
20 12 0.50
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTATTTAATTTTATAGTT
Found at i:15063082 original size:24 final size:24
Alignment explanation
Indices: 15063033--15063082 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
15063023 TTAAAAAGCA
* *
15063033 TTTTTTAAATAAAGAATTATATAT
1 TTTTTTAAACAAAGAATTATAAAT
*
15063057 TTTTATTAAACAAA-AATTTTAAAT
1 TTTT-TTAAACAAAGAATTATAAAT
15063081 TT
1 TT
15063083 GAAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTTTAAACAAAGAATTATAAAT
Found at i:15063166 original size:23 final size:22
Alignment explanation
Indices: 15063119--15063160 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15063109 TTTTTTTTTA
*
15063119 AAATTTAAATTTTGAAAAAAAT
1 AAATTTAAATTTTCAAAAAAAT
*
15063141 AAATTTATATTTTCAAAAAA
1 AAATTTAAATTTTCAAAAAA
15063161 TCTAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATTTAAATTTTCAAAAAAAT
Found at i:15063201 original size:24 final size:22
Alignment explanation
Indices: 15063174--15063255 Score: 60
Period size: 24 Copynumber: 3.5 Consensus size: 22
15063164 AAAAAATTCT
15063174 AAAATTAAAAATATTGAATTATTA
1 AAAATTAAAAAT-TTGAATT-TTA
*
15063198 AAAA-AATAAAATTTG-ATTTTA
1 AAAATTA-AAAATTTGAATTTTA
*
15063219 ATAAGATTCAAAAATTATGATTTTTTA
1 A-AA-ATT-AAAAATT-TGA-ATTTTA
15063246 AAAATTAAAA
1 AAAATTAAAA
15063256 TATTGGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
21 4 0.09
22 5 0.11
23 5 0.11
24 19 0.40
25 6 0.13
26 2 0.04
27 6 0.13
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (22 bp):
AAAATTAAAAATTTGAATTTTA
Found at i:15063202 original size:25 final size:21
Alignment explanation
Indices: 15063174--15063256 Score: 58
Period size: 25 Copynumber: 3.5 Consensus size: 21
15063164 AAAAAATTCT
15063174 AAAATTAAAAATATTGAATTATTAA
1 AAAATT-AAAAT-TTG-ATT-TTAA
*
15063199 AAAAATAAAATTTGATTTTAA
1 AAAATTAAAATTTGATTTTAA
* *
15063220 TAAGATTCAAAAATTATGATTTTTTA
1 -AAAATT--AAAATT-TGA-TTTTAA
15063246 AAAATTAAAAT
1 AAAATTAAAAT
15063257 ATTGGAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
21 4 0.08
22 7 0.15
23 8 0.17
24 11 0.23
25 13 0.27
26 5 0.10
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAATTAAAATTTGATTTTAA
Found at i:15064102 original size:18 final size:18
Alignment explanation
Indices: 15064078--15064120 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
15064068 AAAAATTAAA
*
15064078 ATATTTTATTTAAAAAACT
1 ATATTTT-TATAAAAAACT
15064097 -TATTTTTATAAAAAACT
1 ATATTTTTATAAAAAACT
15064114 ATATTTT
1 ATATTTT
15064121 CTTGATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTTTATAAAAAACT
Found at i:15065100 original size:14 final size:15
Alignment explanation
Indices: 15065081--15065110 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15065071 TATATTTAAG
15065081 AATTTTA-TAAATAA
1 AATTTTATTAAATAA
15065095 AATTTTATTAAATAA
1 AATTTTATTAAATAA
15065110 A
1 A
15065111 TATATATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTTATTAAATAA
Found at i:15072279 original size:23 final size:24
Alignment explanation
Indices: 15072253--15072300 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
15072243 AAAACTTTAG
15072253 TGTATTTAATATTAAA-TTTAATA
1 TGTATTTAATATTAAATTTTAATA
15072276 TGTATTTAATATTAAATTTTAATA
1 TGTATTTAATATTAAATTTTAATA
15072300 T
1 T
15072301 TTTTTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
TGTATTTAATATTAAATTTTAATA
Found at i:15073024 original size:3 final size:3
Alignment explanation
Indices: 15073016--15073060 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
15073006 AAGACGAGTC
15073016 TAT TAT TAT TAT TAT 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
15073061 GCAGTCCTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15075374 original size:3 final size:3
Alignment explanation
Indices: 15075358--15075542 Score: 74
Period size: 3 Copynumber: 64.0 Consensus size: 3
15075348 GGCCAATTGG
* * * * * *
15075358 ATT ATT TTT TTT ATT ATT ATT GTT ATT TTT ATC ATTT GTT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
15075403 ATT A-T ATT GCATT GTG ATT A-T ATT ATAT ATT ATT ATT ATAT ATT -GT
1 ATT ATT ATT --ATT ATT ATT ATT ATT AT-T ATT ATT ATT AT-T ATT ATT
* * * *
15075449 ATT A-C ATT A-C AGT A-T ATT ATT ATC A-T ATT A-T ATT ATGT CATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T -ATT
* *
15075491 A-T ATT ATT A-T ATT A-T ATG A-T ATT A-T ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15075534 ATT ATT ATT
1 ATT ATT ATT
15075543 CTTTCCTTTT
Statistics
Matches: 136, Mismatches: 25, Indels: 42
0.67 0.12 0.21
Matches are distributed among these distances:
2 23 0.17
3 99 0.73
4 9 0.07
5 5 0.04
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:15075407 original size:5 final size:5
Alignment explanation
Indices: 15075397--15075538 Score: 76
Period size: 5 Copynumber: 27.2 Consensus size: 5
15075387 TATCATTTGT
* * *
15075397 TATTA TATTA TATTG CATTG TGATTA TATTA TA-TA TTATTA T-TATA
1 TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA -TATTA TAT-TA
* * * * *
15075443 TATTG TATTA CATTA CAGTA TATTA TTATCA TATTA TATTA TGTCATTA
1 TATTA TATTA TATTA TATTA TATTA -TATTA TATTA TATTA --T-ATTA
* *
15075492 TA-T- TATTA TATTA TATGA TATTA TACTA TTATTA TTATTA TTATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA -TATTA -TATTA -TATTA
15075538 T
1 T
15075539 TATTCTTTCC
Statistics
Matches: 109, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
3 2 0.02
4 5 0.05
5 69 0.63
6 28 0.26
7 1 0.01
8 4 0.04
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:15075442 original size:18 final size:18
Alignment explanation
Indices: 15075396--15075542 Score: 85
Period size: 18 Copynumber: 8.1 Consensus size: 18
15075386 TTATCATTTG
*
15075396 TTATTATATTATATTGCATTG
1 TTATTATATTATA-T--ATTA
*
15075417 TGATTATATTATATATTA
1 TTATTATATTATATATTA
*
15075435 TTATTATA-TATTGTATTA
1 TTATTATATTA-TATATTA
* * *
15075453 -CATTACA--GTATATTA
1 TTATTATATTATATATTA
*
15075468 TTATCATA-T-TATATTA
1 TTATTATATTATATATTA
15075484 TGTCATTATATTATTATATTA
1 T-T-ATTATATTA-TATATTA
*
15075505 -TATGATATTATACTATTA
1 TTATTATATTATA-TATTA
15075523 TTATTATTATTAT-TATTA
1 TTATTA-TATTATATATTA
15075541 TT
1 TT
15075543 CTTTCCTTTT
Statistics
Matches: 101, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
15 6 0.06
16 12 0.12
17 10 0.10
18 41 0.41
19 6 0.06
20 7 0.07
21 19 0.19
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (18 bp):
TTATTATATTATATATTA
Found at i:15076006 original size:11 final size:11
Alignment explanation
Indices: 15075990--15076033 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
15075980 AGAAGTTTAG
*
15075990 ATTTTTTGAAA
1 ATTTTTGGAAA
**
15076001 ATTTTTGGGGA
1 ATTTTTGGAAA
15076012 ATTTTTGGAAA
1 ATTTTTGGAAA
15076023 ATTTTTGGAAA
1 ATTTTTGGAAA
15076034 TCTAGGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (11 bp):
ATTTTTGGAAA
Found at i:15081995 original size:66 final size:66
Alignment explanation
Indices: 15081844--15082002 Score: 187
Period size: 66 Copynumber: 2.4 Consensus size: 66
15081834 TTCTTAACTC
* * *
15081844 ATGGTTTCATCCCGATCATTCATTTTTGACCTCGATTCAGTCCTGGTCACTTTATCTTTTAGACG
1 ATGGTTTCATCCCGATCATTCATTTTTGACCTCAACTCAGTCCTGGTCACCTTATCTTTTAGACG
15081909 T
66 T
* * * * *
15081910 GTGGTTTTATCCCAATCATTCATTTTTTACCTTAACTC-GATCCTGGTCACCTTATCTTTTAGA-
1 ATGGTTTCATCCCGATCATTCATTTTTGACCTCAACTCAG-TCCTGGTCACCTTATCTTTTAGAC
15081973 GTT
65 G-T
* *
15081976 ATGGTTTCATCCTGGTCATTCGATTTT
1 ATGGTTTCATCCCGATCATTC-ATTTT
15082003 GGCTCAATCC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
65 2 0.03
66 70 0.91
67 5 0.06
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (66 bp):
ATGGTTTCATCCCGATCATTCATTTTTGACCTCAACTCAGTCCTGGTCACCTTATCTTTTAGACG
T
Found at i:15082407 original size:5 final size:5
Alignment explanation
Indices: 15082397--15082512 Score: 67
Period size: 5 Copynumber: 22.2 Consensus size: 5
15082387 TATTATTTGT
* * * *
15082397 TATTA TATTA TATTG CATTG TGATTA TATTA TA-TA TTATTATA TATTG
1 TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA -TA-T-TA TATTA
* * *
15082445 TATTA CATTA TAGTA TATTA TTATCA TATTA TATTA TGTCATTA TA-T-
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA --T-ATTA TATTA
*
15082492 TATTA TATTA TATGA TATTA T
1 TATTA TATTA TATTA TATTA T
15082513 TATTTTTATT
Statistics
Matches: 86, Mismatches: 14, Indels: 22
0.70 0.11 0.18
Matches are distributed among these distances:
3 2 0.02
4 4 0.05
5 61 0.71
6 10 0.12
7 3 0.03
8 6 0.07
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:15082479 original size:13 final size:12
Alignment explanation
Indices: 15082419--15082515 Score: 70
Period size: 13 Copynumber: 7.4 Consensus size: 12
15082409 TTGCATTGTG
15082419 ATTATATTATAT
1 ATTATATTATAT
*
15082431 ATTATTATATATTGT
1 ATTA-TAT-TA-TAT
*
15082446 ATTACATTATAGT
1 ATTATATTATA-T
15082459 A-TATTATTATCAT
1 ATTA-TATTAT-AT
*
15082472 ATTATATTATGT
1 ATTATATTATAT
15082484 CATTATATTATTAT
1 -ATTATATTA-TAT
*
15082498 ATTATATGATATT
1 ATTATATTATA-T
15082511 ATTAT
1 ATTAT
15082516 TTTTATTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 19
0.72 0.07 0.20
Matches are distributed among these distances:
12 10 0.15
13 43 0.63
14 9 0.13
15 6 0.09
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (12 bp):
ATTATATTATAT
Found at i:15097449 original size:51 final size:52
Alignment explanation
Indices: 15097355--15097464 Score: 136
Period size: 51 Copynumber: 2.1 Consensus size: 52
15097345 GGATATGGAA
* * *
15097355 GGTTTAGGGTTTTGATTTTAGAGTTTCGAGATTTTAAGGTTTGGGTTTT-GT
1 GGTTTGGGGTTTTGATTTTAGAGTTTCGAGATTTTAAGGTTTGGATTTTGGG
* *
15097406 GGTTTGGGGTTTTGATTTTAGGGTTT-G-GATTTTAAAGATTTTGGATTTTGGG
1 GGTTTGGGGTTTTGATTTTAGAGTTTCGAGATTTT-AAG-GTTTGGATTTTGGG
15097458 GGTTTGG
1 GGTTTGG
15097465 ATTTTGTGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
49 6 0.12
50 4 0.08
51 33 0.65
52 8 0.16
ACGTcount: A:0.15, C:0.01, G:0.35, T:0.50
Consensus pattern (52 bp):
GGTTTGGGGTTTTGATTTTAGAGTTTCGAGATTTTAAGGTTTGGATTTTGGG
Found at i:15097465 original size:15 final size:15
Alignment explanation
Indices: 15097411--15097541 Score: 122
Period size: 16 Copynumber: 8.5 Consensus size: 15
15097401 TTTGTGGTTT
*
15097411 GGGGTTTTGATTTTA
1 GGGGTTTGGATTTTA
15097426 -GGGTTTGGATTTTAA
1 GGGGTTTGGATTTT-A
* ** *
15097441 AGATTTTGGATTTTG
1 GGGGTTTGGATTTTA
15097456 GGGGTTTGGATTTT-
1 GGGGTTTGGATTTTA
**
15097470 GTGGGTTTCAAATTTTA
1 G-GGGTTT-GGATTTTA
*
15097487 GGAGTTTGGATTTTTA
1 GGGGTTTGGA-TTTTA
15097503 GGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
15097518 GGAGGTTTTGGATTTTA
1 GG-GG-TTTGGATTTTA
15097535 GGGGTTT
1 GGGGTTT
15097542 TAGAAACCTA
Statistics
Matches: 95, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
14 13 0.14
15 29 0.31
16 39 0.41
17 14 0.15
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (15 bp):
GGGGTTTGGATTTTA
Found at i:15097501 original size:16 final size:16
Alignment explanation
Indices: 15097421--15097533 Score: 83
Period size: 15 Copynumber: 7.2 Consensus size: 16
15097411 GGGGTTTTGA
15097421 TTTTAGG-GTTTGGAT
1 TTTTAGGAGTTTGGAT
* * *
15097436 TTTAAAGATTTTGGA-
1 TTTTAGGAGTTTGGAT
* *
15097451 TTTTGGGGGTTTGGAT
1 TTTTAGGAGTTTGGAT
** *
15097467 TTTGT-GG-GTTTCAAA
1 TTT-TAGGAGTTTGGAT
15097482 TTTTAGGAGTTTGGAT
1 TTTTAGGAGTTTGGAT
*
15097498 TTTTAGGGGTTTGGA-
1 TTTTAGGAGTTTGGAT
15097513 TTTTAGGAGGTTTTGGAT
1 TTTTAGGA-G-TTTGGAT
15097531 TTT
1 TTT
15097534 AGGGGTTTTA
Statistics
Matches: 74, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
14 1 0.01
15 32 0.43
16 31 0.42
17 7 0.09
18 3 0.04
ACGTcount: A:0.17, C:0.01, G:0.32, T:0.50
Consensus pattern (16 bp):
TTTTAGGAGTTTGGAT
Found at i:15097516 original size:31 final size:30
Alignment explanation
Indices: 15097411--15097541 Score: 122
Period size: 31 Copynumber: 4.2 Consensus size: 30
15097401 TTTGTGGTTT
*
15097411 GGGGTTTTGATTTTAGG-GTTTGGATTTTAA
1 GGGGTTTGGATTTTAGGAGTTTGGATTTT-A
* ** * *
15097441 AGATTTTGGATTTTGGGGGTTTGGATTTT-
1 GGGGTTTGGATTTTAGGAGTTTGGATTTTA
**
15097470 GTGGGTTTCAAATTTTAGGAGTTTGGATTTTTA
1 G-GGGTTT-GGATTTTAGGAGTTTGGA-TTTTA
15097503 GGGGTTTGGATTTTAGGAGGTTTTGGATTTTA
1 GGGGTTTGGATTTTAGGA-G-TTTGGATTTTA
15097535 GGGGTTT
1 GGGGTTT
15097542 TAGAAACCTA
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
30 16 0.20
31 34 0.43
32 23 0.29
33 7 0.09
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (30 bp):
GGGGTTTGGATTTTAGGAGTTTGGATTTTA
Found at i:15098969 original size:15 final size:14
Alignment explanation
Indices: 15098940--15099008 Score: 77
Period size: 14 Copynumber: 4.9 Consensus size: 14
15098930 TATTTTTCTA
*
15098940 TTTTTTTG-CTTTT
1 TTTTTTTGTATTTT
*
15098953 TTTTCTTGTATTTT
1 TTTTTTTGTATTTT
*
15098967 TTTGTTTTGTATTAT
1 TTT-TTTTGTATTTT
* *
15098982 TTTTTTGGTATTTA
1 TTTTTTTGTATTTT
15098996 TTTTTTTGTATTT
1 TTTTTTTGTATTT
15099009 CATATAATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
13 7 0.15
14 27 0.59
15 12 0.26
ACGTcount: A:0.09, C:0.03, G:0.10, T:0.78
Consensus pattern (14 bp):
TTTTTTTGTATTTT
Found at i:15098997 original size:18 final size:18
Alignment explanation
Indices: 15098961--15099002 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15098951 TTTTTTCTTG
*
15098961 TATTTTTTTGTTTTGTAT
1 TATTTTTTTGTATTGTAT
15098979 TATTTTTTTGGTATT-TAT
1 TATTTTTTT-GTATTGTAT
15098997 T-TTTTT
1 TATTTTT
15099003 GTATTTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.79
Consensus pattern (18 bp):
TATTTTTTTGTATTGTAT
Found at i:15099348 original size:110 final size:110
Alignment explanation
Indices: 15099145--15099371 Score: 314
Period size: 110 Copynumber: 2.1 Consensus size: 110
15099135 AAAAAAAAAC
* * * * *
15099145 ACAAAA-CGATTAGGATGACACCGTAAGTTAAAAAATAATAAATTGATCGAGATAATATCACGAA
1 ACAAAATCGATTAGGATAACACCGCAAGTTAAAAAATAATAAATCGATCGAGATAACACCACGAA
* *
15099209 TCAAATTTATGCCCGGAAGTCTTACAAATCATGCTCGAAGATCTT
66 TCAAATTTATGCCCGGAAGTCTTACAAATCATACCCGAAGATCTT
* * *
15099254 ACAAAATCGATTGGGATAACACTGCAAGTTAAAAAATAA-AGAATCGATTGAGATAACACCACGA
1 ACAAAATCGATTAGGATAACACCGCAAGTTAAAAAATAATA-AATCGATCGAGATAACACCACGA
* *
15099318 ATCGAATTTATGCCCGGAAGTCTTAGAAATCATACCCGAAGATCTT
65 ATCAAATTTATGCCCGGAAGTCTTACAAATCATACCCGAAGATCTT
*
15099364 ACAGAATC
1 ACAAAATC
15099372 ATGCCTGGAG
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
109 7 0.07
110 96 0.93
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (110 bp):
ACAAAATCGATTAGGATAACACCGCAAGTTAAAAAATAATAAATCGATCGAGATAACACCACGAA
TCAAATTTATGCCCGGAAGTCTTACAAATCATACCCGAAGATCTT
Found at i:15099497 original size:133 final size:132
Alignment explanation
Indices: 15099224--15099519 Score: 334
Period size: 133 Copynumber: 2.2 Consensus size: 132
15099214 TTTATGCCCG
* * * *
15099224 GAAGTCTTACA-AATCATG-CTCGAAGATCTTACAAAATCGATTGGGATAACACTGCAAGTTAAA
1 GAAGTCTTACAGAATCATGCCT-GGAGGTCTTACAAAATCGACTGGGATAACACTGCAAGTCAAA
* *
15099287 AAATAAAGAATCGATTGAGATAACACCACGAATCGAATTTATGCCCGGAAGTCTTAGAAATCATA
65 AAATAAAGAATCGATCGAGATAACACCACAAATCGAATTTATGCCCGGAAGTCTTAGAAATCATA
*
15099352 CCC
130 CAC
* *
15099355 GAAGATCTTACAGAATCATGCCTGGAGGTCTTACAGAATCGACTGGGATAATA-TCGCAAGTCAA
1 GAAG-TCTTACAGAATCATGCCTGGAGGTCTTACAAAATCGACTGGGATAACACT-GCAAGTCAA
* * * ** *
15099419 AAGATAAAGAATCGATCGGGATAACATCGTAAATCGAATTTATGCCCGGAGGTCTT-GAAAATCA
64 AAAATAAAGAATCGATCGAGATAACACCACAAATCGAATTTATGCCCGGAAGTCTTAG-AAATCA
* *
15099483 TGCAT
128 TACAC
*
15099488 GAAAGTCTTACAGAAT--TGCCCCGGAGGTCTTA
1 G-AAGTCTTACAGAATCATG-CCTGGAGGTCTTA
15099520 GAAATCATGC
Statistics
Matches: 140, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
131 6 0.04
132 21 0.15
133 108 0.77
134 5 0.04
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (132 bp):
GAAGTCTTACAGAATCATGCCTGGAGGTCTTACAAAATCGACTGGGATAACACTGCAAGTCAAAA
AATAAAGAATCGATCGAGATAACACCACAAATCGAATTTATGCCCGGAAGTCTTAGAAATCATAC
AC
Found at i:15099517 original size:22 final size:21
Alignment explanation
Indices: 15099492--15099549 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
15099482 ATGCATGAAA
15099492 GTCTTACAGAATTGCCCCGGAG
1 GTCTTACAGAATTG-CCCGGAG
*
15099514 GTCTTAGA-AATCATGCCCGGAG
1 GTCTTACAGAAT--TGCCCGGAG
15099536 GTCTTACAGAATTG
1 GTCTTACAGAATTG
15099550 ACTAGGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 5 0.16
22 21 0.68
23 5 0.16
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (21 bp):
GTCTTACAGAATTGCCCGGAG
Found at i:15099525 original size:44 final size:44
Alignment explanation
Indices: 15099463--15099549 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
15099453 CGAATTTATG
*
15099463 CCCGGAGGTCTTGAAAATCATGCATGAAAGTCTTACAGAATTGC
1 CCCGGAGGTCTTGAAAATCATGCACGAAAGTCTTACAGAATTGC
* * *
15099507 CCCGGAGGTCTT-AGAAATCATGCCCGGAGGTCTTACAGAATTG
1 CCCGGAGGTCTTGA-AAATCATGCACGAAAGTCTTACAGAATTG
15099550 ACTAGGATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (44 bp):
CCCGGAGGTCTTGAAAATCATGCACGAAAGTCTTACAGAATTGC
Found at i:15099638 original size:22 final size:22
Alignment explanation
Indices: 15099608--15099699 Score: 121
Period size: 22 Copynumber: 4.2 Consensus size: 22
15099598 ACCGTGAATC
* *
15099608 AAATTATGCTCGGAGGTCTTAT
1 AAATTATGCCCGGAGGTCTTAG
*
15099630 AAATCATGCCCGGAGGTCTTAG
1 AAATTATGCCCGGAGGTCTTAG
*
15099652 AGATTATGCCCGGAGGTCTTAG
1 AAATTATGCCCGGAGGTCTTAG
* * *
15099674 AGATTATGCACGGAGGTCTTAC
1 AAATTATGCCCGGAGGTCTTAG
15099696 AAAT
1 AAAT
15099700 CTCAAAATCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (22 bp):
AAATTATGCCCGGAGGTCTTAG
Found at i:15099692 original size:153 final size:153
Alignment explanation
Indices: 15099327--15099700 Score: 441
Period size: 154 Copynumber: 2.4 Consensus size: 153
15099317 AATCGAATTT
* * * * * *
15099327 ATGCCCGGAAGTCTTAGAAATCATACCCGAAGATCTTACAGAATCATGCCTGGAGGTCTTACAGA
1 ATGCCCGGAAGTCTTAGAGATTATGCCCGGAGGTCTTAGAG-ATCATGCC-GGAGGTCTTACAGA
* * * *
15099392 ATCGACTGGGATAATATCGCAAGTCAAAAGATAAAGAATCGATCGGGATAACATCGTAAATCGAA
64 ATCGACTAGGATAACACCGCAAGTCAAAAGATAAAGAATCGATCGGGATAACACCGTAAATCGAA
*
15099457 TTTATGCCCGGAGGTCTTGAAAATC
129 ATTATGCCCGGAGGTCTTGAAAATC
** * * * *
15099482 ATGCATGAAAGTCTTACAGAAT-TGCCCCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGA
1 ATGCCCGGAAGTCTTAGAGATTATG-CCCGGAGGTCTTAGAGATCATG-CCGGAGGTCTTACAGA
* * * * *
15099546 ATTGACTAGGATAACACCGCAAGTCAAAAGATAAAGCATTGATTGGGATAACACCGTGAATC-AA
64 ATCGACTAGGATAACACCGCAAGTCAAAAGATAAAGAATCGATCGGGATAACACCGTAAATCGAA
*
15099610 ATTATGCTCGGAGGTCTT-ATAAATC
129 ATTATGCCCGGAGGTCTTGA-AAATC
* *
15099635 ATGCCCGGAGGTCTTAGAGATTATGCCCGGAGGTCTTAGAGATTATGCACGGAGGTCTTACA-AA
1 ATGCCCGGAAGTCTTAGAGATTATGCCCGGAGGTCTTAGAGATCATGC-CGGAGGTCTTACAGAA
15099699 TC
65 TC
15099701 TCAAAATCTT
Statistics
Matches: 182, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
152 5 0.03
153 72 0.40
154 76 0.42
155 29 0.16
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (153 bp):
ATGCCCGGAAGTCTTAGAGATTATGCCCGGAGGTCTTAGAGATCATGCCGGAGGTCTTACAGAAT
CGACTAGGATAACACCGCAAGTCAAAAGATAAAGAATCGATCGGGATAACACCGTAAATCGAAAT
TATGCCCGGAGGTCTTGAAAATC
Found at i:15099890 original size:15 final size:16
Alignment explanation
Indices: 15099872--15099905 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15099862 AACTTTAAAA
15099872 TTTGAAAA-GTTTTTT
1 TTTGAAAATGTTTTTT
15099887 TTTGAAAATGTTTTTT
1 TTTGAAAATGTTTTTT
15099903 TTT
1 TTT
15099906 TCAATTAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTGAAAATGTTTTTT
Found at i:15100473 original size:33 final size:33
Alignment explanation
Indices: 15100430--15100812 Score: 449
Period size: 33 Copynumber: 11.7 Consensus size: 33
15100420 TTTATTAAAA
* * **
15100430 GCCAGCTAAACTGAGCTTAAATTTTCATTTGA-G
1 GCCAGATAAACTGGGCTTAAAGCTTCA-TTGATG
*
15100463 GCCAGATAAACTGGGCTTAAATCTTCATTTGA-G
1 GCCAGATAAACTGGGCTTAAAGCTTCA-TTGATG
* * * *
15100496 GCCAGATAAACTAGGTTTAAAACCTCATTGATG
1 GCCAGATAAACTGGGCTTAAAGCTTCATTGATG
* * *
15100529 GCCAGA-AAAGCTGGGCTTAAAACTTCATTAATA
1 GCCAGATAAA-CTGGGCTTAAAGCTTCATTGATG
*
15100562 GCCAGATAAACTGGGCTTAAAGCTTCATTAATG
1 GCCAGATAAACTGGGCTTAAAGCTTCATTGATG
*
15100595 GCCAGATAAACTAGGCTTAAAGCTTCATTGATG
1 GCCAGATAAACTGGGCTTAAAGCTTCATTGATG
* * *
15100628 GCCATATAAACTGGACTTAAAACTTCATTGATG
1 GCCAGATAAACTGGGCTTAAAGCTTCATTGATG
15100661 GCCAGATAAACTGGGCTTAAAGCTTCATTGATG
1 GCCAGATAAACTGGGCTTAAAGCTTCATTGATG
* **
15100694 GCCAAATAAACTGGGCTTAAATTTTCATTTGA-G
1 GCCAGATAAACTGGGCTTAAAGCTTCA-TTGATG
* *
15100727 GCCAGATAAATTGCGCTTAAA--TATCATTGATG
1 GCCAGATAAACTGGGCTTAAAGCT-TCATTGATG
15100759 GCCAGATAAACTGGGCTTAAAGCTTCATTTGA-G
1 GCCAGATAAACTGGGCTTAAAGCTTCA-TTGATG
*
15100792 GCCAGAT-AATTGGGCTTAAAG
1 GCCAGATAAACTGGGCTTAAAG
15100813 TTTTGCTTTT
Statistics
Matches: 309, Mismatches: 32, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
31 5 0.02
32 43 0.14
33 249 0.81
34 12 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (33 bp):
GCCAGATAAACTGGGCTTAAAGCTTCATTGATG
Found at i:15102097 original size:12 final size:11
Alignment explanation
Indices: 15102080--15102117 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
15102070 TCATAACCAA
15102080 TTTTTTCTTCTT
1 TTTTTTC-TCTT
15102092 TTTTTTCT-TT
1 TTTTTTCTCTT
*
15102102 TTATTTCTCTT
1 TTTTTTCTCTT
15102113 TTTTT
1 TTTTT
15102118 GTTGTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 9 0.39
11 7 0.30
12 7 0.30
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:15102131 original size:17 final size:16
Alignment explanation
Indices: 15102111--15102142 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15102101 TTTATTTCTC
15102111 TTTTTTTGTTGTTTTTG
1 TTTTTTTGTT-TTTTTG
15102128 TTTTTTTGTTTTTTT
1 TTTTTTTGTTTTTTT
15102143 ATGCCCCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (16 bp):
TTTTTTTGTTTTTTTG
Found at i:15102142 original size:9 final size:9
Alignment explanation
Indices: 15102080--15102134 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
15102070 TCATAACCAA
15102080 TTTTTTCTTC
1 TTTTTT-TTC
15102090 TTTTTTTTC
1 TTTTTTTTC
15102099 TTTTTATTTC
1 TTTTT-TTTC
*
15102109 TCTTTTTTTG
1 T-TTTTTTTC
* *
15102119 TTGTTTTTG
1 TTTTTTTTC
15102128 TTTTTTT
1 TTTTTTT
15102135 GTTTTTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
9 21 0.52
10 15 0.38
11 4 0.10
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:15108926 original size:51 final size:52
Alignment explanation
Indices: 15108838--15108941 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 52
15108828 GGAAGGTCTA
* *
15108838 GGGTTTTGATTTTAGAGTTTGGAGATTTTAAGGTTTGGGTTTT-GTGGTTTG
1 GGGTTTTGATTTTAGAGTTTGGAGATTTTAAGGTTTGGATTTTGGGGGTTTG
* *
15108889 GGGTTTTGATTTTAGGGTTT-G-GATTTTAAAGATTTTGGATTTTGGGGGTTTG
1 GGGTTTTGATTTTAGAGTTTGGAGATTTT-AAG-GTTTGGATTTTGGGGGTTTG
15108941 G
1 G
15108942 ATTTTGGGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 6 0.13
50 4 0.09
51 28 0.61
52 8 0.17
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (52 bp):
GGGTTTTGATTTTAGAGTTTGGAGATTTTAAGGTTTGGATTTTGGGGGTTTG
Found at i:15108942 original size:15 final size:15
Alignment explanation
Indices: 15108922--15109034 Score: 91
Period size: 15 Copynumber: 7.2 Consensus size: 15
15108912 TTTTAAAGAT
15108922 TTTGGATTTTGGGGG
1 TTTGGATTTTGGGGG
15108937 TTTGGATTTTGGGGG
1 TTTGGATTTTGGGGG
* * *
15108952 TTTCGAATTTTAGGAG
1 TTT-GGATTTTGGGGG
* **
15108968 TTTGGATTTAAGGGAT
1 TTTGGATTT-TGGGGG
*
15108984 TTTGGATTTTTAGGGG
1 TTTGGA-TTTTGGGGG
* *
15109000 TTTGGATTTTAAGAGGT
1 TTTGGATTTT--GGGGG
*
15109017 TTTGGATTTTAGGGG
1 TTTGGATTTTGGGGG
15109032 TTT
1 TTT
15109035 TAGAAACCTA
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
15 32 0.42
16 29 0.38
17 15 0.20
ACGTcount: A:0.16, C:0.01, G:0.35, T:0.48
Consensus pattern (15 bp):
TTTGGATTTTGGGGG
Found at i:15108987 original size:16 final size:16
Alignment explanation
Indices: 15108889--15109035 Score: 119
Period size: 16 Copynumber: 9.4 Consensus size: 16
15108879 TTGTGGTTTG
15108889 GGGTTTT-GATTTT-A
1 GGGTTTTGGATTTTAA
15108903 GGG-TTTGGATTTTAA
1 GGGTTTTGGATTTTAA
* * *
15108918 AGATTTTGGATTTT-G
1 GGGTTTTGGATTTTAA
* **
15108933 GGGGTTTGGATTTTGG
1 GGGTTTTGGATTTTAA
* *
15108949 GGGTTTCGAATTTT-A
1 GGGTTTTGGATTTTAA
15108964 GGAG-TTTGGA-TTTAA
1 GG-GTTTTGGATTTTAA
*
15108979 GGGATTTTGGATTTTTA
1 GGG-TTTTGGATTTTAA
*
15108996 GGGGTTTGGATTTTAA
1 GGGTTTTGGATTTTAA
*
15109012 GAGGTTTTGGATTTTAG
1 G-GGTTTTGGATTTTAA
15109029 GGGTTTT
1 GGGTTTT
15109036 AGAAACCTAG
Statistics
Matches: 106, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
13 3 0.03
14 13 0.12
15 22 0.21
16 47 0.44
17 21 0.20
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.48
Consensus pattern (16 bp):
GGGTTTTGGATTTTAA
Found at i:15109003 original size:32 final size:32
Alignment explanation
Indices: 15108892--15109034 Score: 163
Period size: 31 Copynumber: 4.6 Consensus size: 32
15108882 TGGTTTGGGG
*
15108892 TTTT-GATTTTA-GGGTTTGGATTTTAA-AGA
1 TTTTGGATTTTAGGGGTTTGGATTTTAAGGGA
* * *
15108921 TTTTGGATTTTGGGGGTTTGGATTTT-GGGGG
1 TTTTGGATTTTAGGGGTTTGGATTTTAAGGGA
* * *
15108952 TTTCGAATTTTAGGAGTTTGGA-TTTAAGGGA
1 TTTTGGATTTTAGGGGTTTGGATTTTAAGGGA
15108983 TTTTGGATTTTTAGGGGTTTGGATTTTAAGAGG-
1 TTTTGGA-TTTTAGGGGTTTGGATTTTAAG-GGA
15109016 TTTTGGATTTTAGGGGTTT
1 TTTTGGATTTTAGGGGTTT
15109035 TAGAAACCTA
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
29 4 0.04
30 9 0.10
31 40 0.43
32 26 0.28
33 13 0.14
34 2 0.02
ACGTcount: A:0.17, C:0.01, G:0.33, T:0.49
Consensus pattern (32 bp):
TTTTGGATTTTAGGGGTTTGGATTTTAAGGGA
Found at i:15110176 original size:12 final size:11
Alignment explanation
Indices: 15110156--15110185 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
15110146 CTGTGGTTTC
15110156 TGTTTTTTTTT
1 TGTTTTTTTTT
15110167 TGTATTTTTTTT
1 TGT-TTTTTTTT
15110179 TGTTTTT
1 TGTTTTT
15110186 GACAGAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:15110453 original size:17 final size:17
Alignment explanation
Indices: 15110429--15110515 Score: 65
Period size: 16 Copynumber: 5.2 Consensus size: 17
15110419 CATCCTTAAT
15110429 TATTTTTTTGTTTTTCTG
1 TATTTTTTTGTTTTT-TG
* *
15110447 -CTTTTTTT-TTTCTTG
1 TATTTTTTTGTTTTTTG
15110462 TATTTTTTTGTTTTGTAT-
1 TATTTTTTTGTTTT-T-TG
* * *
15110480 TATTTTTTTGGTATTTA
1 TATTTTTTTGTTTTTTG
*
15110497 T-TTTTTTTGTATTTTG
1 TATTTTTTTGTTTTTTG
15110513 TAT
1 TAT
15110516 AATATTATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
15 2 0.04
16 24 0.45
17 13 0.25
18 13 0.25
19 1 0.02
ACGTcount: A:0.09, C:0.03, G:0.10, T:0.77
Consensus pattern (17 bp):
TATTTTTTTGTTTTTTG
Found at i:15110467 original size:15 final size:14
Alignment explanation
Indices: 15110449--15110511 Score: 81
Period size: 15 Copynumber: 4.3 Consensus size: 14
15110439 TTTTTCTGCT
15110449 TTTTTTTTTCTTGTA
1 TTTTTTTTT-TTGTA
15110464 TTTTTTTGTTTTGTA
1 TTTTTTT-TTTTGTA
* *
15110479 TTATTTTTTTGGTA
1 TTTTTTTTTTTGTA
15110493 TTTATTTTTTTTGTA
1 TTT-TTTTTTTTGTA
15110508 TTTT
1 TTTT
15110512 GTATAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 9 0.21
15 31 0.74
16 2 0.05
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTTTGTA
Found at i:15110469 original size:18 final size:18
Alignment explanation
Indices: 15110448--15110489 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15110438 GTTTTTCTGC
15110448 TTTTTT-TTTTCT-TGTAT
1 TTTTTTGTTTTCTAT-TAT
*
15110465 TTTTTTGTTTTGTATTAT
1 TTTTTTGTTTTCTATTAT
15110483 TTTTTTG
1 TTTTTTG
15110490 GTATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 15 0.68
19 1 0.05
ACGTcount: A:0.07, C:0.02, G:0.10, T:0.81
Consensus pattern (18 bp):
TTTTTTGTTTTCTATTAT
Found at i:15110495 original size:29 final size:30
Alignment explanation
Indices: 15110452--15110509 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
15110442 TTCTGCTTTT
*
15110452 TTTTTTCTTGTATTT-TTTTGTTTTGTATTA
1 TTTTTTCTGGTATTTATTTT-TTTTGTATTA
15110482 TTTTTT-TGGTATTTATTTTTTTTGTATT
1 TTTTTTCTGGTATTTATTTTTTTTGTATT
15110510 TTGTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (30 bp):
TTTTTTCTGGTATTTATTTTTTTTGTATTA
Found at i:15110498 original size:18 final size:18
Alignment explanation
Indices: 15110462--15110509 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
15110452 TTTTTTCTTG
*
15110462 TATTTTTTTGTTTTGTAT
1 TATTTTTTTGTATTGTAT
15110480 TATTTTTTTGGTATT-TA-
1 TATTTTTTT-GTATTGTAT
15110497 T-TTTTTTTGTATT
1 TATTTTTTTGTATT
15110510 TTGTATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.18
16 7 0.25
17 1 0.04
18 11 0.39
19 4 0.14
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.77
Consensus pattern (18 bp):
TATTTTTTTGTATTGTAT
Found at i:15112099 original size:15 final size:13
Alignment explanation
Indices: 15112071--15112095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15112061 TAATATTATA
15112071 AAAAATTTTAAAT
1 AAAAATTTTAAAT
15112084 AAAAATTTTAAA
1 AAAAATTTTAAA
15112096 AATATAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATTTTAAAT
Found at i:15113428 original size:142 final size:141
Alignment explanation
Indices: 15113172--15113454 Score: 548
Period size: 142 Copynumber: 2.0 Consensus size: 141
15113162 ATGTAAAATG
15113172 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
*
15113237 AGAGCTTAGGTGCGACTGTTTATATTTAAGATCCCAATTTTATTATACTTTTTTATTTATTAATC
66 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATAC-TTTTTATTTATTAATC
15113302 TTATTATTAATA
130 TTATTATTAATA
15113314 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
15113379 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
66 AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
15113444 TATTATTAATA
131 TATTATTAATA
15113455 TGAATTATGA
Statistics
Matches: 140, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
141 28 0.20
142 112 0.80
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (141 bp):
AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
AGAGCTTAGGTGCGACTGTTTATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
TATTATTAATA
Found at i:15115283 original size:15 final size:16
Alignment explanation
Indices: 15115265--15115299 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
15115255 TAATAATATA
15115265 AAAATTAAAATA-TTT
1 AAAATTAAAATATTTT
15115280 AAAATTAAAATATTTT
1 AAAATTAAAATATTTT
15115296 AAAA
1 AAAA
15115300 CTTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATTAAAATATTTT
Found at i:15115558 original size:18 final size:18
Alignment explanation
Indices: 15115535--15115570 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15115525 CTCAAGTTTA
15115535 GTAATCATATTCGAGATT
1 GTAATCATATTCGAGATT
15115553 GTAATCATATTCGAGATT
1 GTAATCATATTCGAGATT
15115571 TGACTTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
GTAATCATATTCGAGATT
Found at i:15118610 original size:23 final size:22
Alignment explanation
Indices: 15118573--15118616 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15118563 GAACTTGAAA
*
15118573 TGTAAGTAAACAAAAAGAAAATG
1 TGTAAGAAAAC-AAAAGAAAATG
*
15118596 TGTAAGAAAATAAAAGAAAAT
1 TGTAAGAAAACAAAAGAAAAT
15118617 CTCATTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.18
Consensus pattern (22 bp):
TGTAAGAAAACAAAAGAAAATG
Found at i:15120462 original size:31 final size:31
Alignment explanation
Indices: 15120403--15120475 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 31
15120393 TAAAGATCAT
* * *
15120403 AGAAATTAAAGTACTTGAAAGATAAATTGCA
1 AGAAAGTAAAGAAGTTGAAAGATAAATTGCA
15120434 AGTAAAGTAAAGAAGTTGAAA-ATAAATTGCA
1 AG-AAAGTAAAGAAGTTGAAAGATAAATTGCA
*
15120465 AGAAATTAAAG
1 AGAAAGTAAAG
15120476 GTGCATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 8 0.22
31 14 0.38
32 15 0.41
ACGTcount: A:0.55, C:0.04, G:0.18, T:0.23
Consensus pattern (31 bp):
AGAAAGTAAAGAAGTTGAAAGATAAATTGCA
Found at i:15120491 original size:31 final size:31
Alignment explanation
Indices: 15120452--15120537 Score: 86
Period size: 32 Copynumber: 2.8 Consensus size: 31
15120442 AAAGAAGTTG
15120452 AAAA-TAAATTGCAAGAAATTAAAGGTGCAT
1 AAAATTAAATTGCAAGAAATTAAAGGTGCAT
** * *
15120482 AAAATTAAATAACAAGTAATTTAAAGTTGCAT
1 AAAATTAAATTGCAAG-AAATTAAAGGTGCAT
* *
15120514 AAATTTAAA-TGCCAAAAAATTAAA
1 AAAATTAAATTG-CAAGAAATTAAA
15120538 TTGCTGGAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
30 4 0.09
31 16 0.36
32 24 0.55
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (31 bp):
AAAATTAAATTGCAAGAAATTAAAGGTGCAT
Found at i:15122772 original size:13 final size:13
Alignment explanation
Indices: 15122754--15122791 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
15122744 CTTCTCAATG
15122754 TCTTTATATATGT
1 TCTTTATATATGT
*
15122767 TCTTTACATATGT
1 TCTTTATATATGT
*
15122780 TTTTTATATATG
1 TCTTTATATATG
15122792 CATTTTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (13 bp):
TCTTTATATATGT
Found at i:15124438 original size:161 final size:161
Alignment explanation
Indices: 15124262--15124709 Score: 421
Period size: 161 Copynumber: 2.8 Consensus size: 161
15124252 ATTTTTGTTG
* * * * * * * * * *
15124262 TTAAAATGTAAAAATACAAATTTGTTGTTATTATTCTATTTAAATAGTTTGTATGGCCTCATTAC
1 TTAAAAGGCAAAAATACAAAATTGCTATTATTATTCTATTTAAACAATTTGGATAGCCTCAATAC
* *
15124327 ACGATATTAAA-TAGTTTT-GAATGATTGAACTTGGT-TTCCACAGTTGATATATGTGA-AAAGG
66 ACGATATTAAACT--TTTTCGAAAGATTGAACTTGGTATT-CACAATTGATATATGTGACAAA-G
* *
15124388 TTGTTGTTTACCTCTGTTCAGGA-TTTTTTGGGTCA
127 TTGTTGTTTACCTCTGTTAAGGACTTTTTT-GGCCA
* * * * * *
15124423 TTAAAAGGGAAAAATACAAAATTGCTATTATTATTTTGTTTTAGCAATTTGGATAGCTTCAATAC
1 TTAAAAGGCAAAAATACAAAATTGCTATTATTATTCTATTTAAACAATTTGGATAGCCTCAATAC
*
15124488 ATGATATTAAACTTTTTCGAAAGATTGAACTTGGTATTCACAATTGATATATGTGACAAAGTTGT
66 ACGATATTAAACTTTTTCGAAAGATTGAACTTGGTATTCACAATTGATATATGTGACAAAGTTGT
* *
15124553 TGTTTACCTCTGTTAATGACTTTTTTTGCCA
131 TGTTTACCTCTGTTAAGGACTTTTTTGGCCA
* * * * * * * *
15124584 TTAAAAGGCAAAAATACAAAGTTGCTATTAGTCA-CCATGTTTTAATAGTTTGGATAGCTTCAAT
1 TTAAAAGGCAAAAATACAAAATTGCTATTA-TTATTC-TATTTAAACAATTTGGATAGCCTCAAT
* * * *
15124648 ACATGATATTAAACTTGTTC-AAATGATTGAATTTGGT-TTC-CATGATTGATATGTGTGA-AAA
64 ACACGATATTAAACTTTTTCGAAA-GATTGAACTTGGTATTCACA--ATTGATATATGTGACAAA
15124709 G
126 G
15124710 CCAAAATACT
Statistics
Matches: 244, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
160 6 0.02
161 156 0.64
162 82 0.34
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (161 bp):
TTAAAAGGCAAAAATACAAAATTGCTATTATTATTCTATTTAAACAATTTGGATAGCCTCAATAC
ACGATATTAAACTTTTTCGAAAGATTGAACTTGGTATTCACAATTGATATATGTGACAAAGTTGT
TGTTTACCTCTGTTAAGGACTTTTTTGGCCA
Found at i:15125920 original size:17 final size:16
Alignment explanation
Indices: 15125895--15125928 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15125885 CAATAAATAT
*
15125895 AAAAATAAATTTTTTA
1 AAAAATAAATTTCTTA
15125911 AAAAAGTAAATTTCTTA
1 AAAAA-TAAATTTCTTA
15125928 A
1 A
15125929 TTTTGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAATAAATTTCTTA
Found at i:15126015 original size:33 final size:33
Alignment explanation
Indices: 15125968--15126040 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
15125958 CTAAATTTAA
*
15125968 AATTTAGTGGCGTTTGTAGC-ATA-AAATGCCGCT
1 AATTTAGTGACGTTT-T-GCTATACAAATGCCGCT
*
15126001 AATTTAGTGACGTTTTGCTATACAAATGCTGCT
1 AATTTAGTGACGTTTTGCTATACAAATGCCGCT
15126034 AATTTAG
1 AATTTAG
15126041 CGACATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 2 0.06
32 4 0.11
33 30 0.83
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (33 bp):
AATTTAGTGACGTTTTGCTATACAAATGCCGCT
Found at i:15126170 original size:34 final size:34
Alignment explanation
Indices: 15126132--15126249 Score: 130
Period size: 34 Copynumber: 3.5 Consensus size: 34
15126122 TTTAGGCTAT
* * *
15126132 AAATGCCACTAATTTAGAGGCATTTATCTAATAC
1 AAATGCTACTAATTTAGAGGCATTTATATGATAC
* * * * *
15126166 AAATGCTATTAAATTAGTGACATTT-TATGCTAC
1 AAATGCTACTAATTTAGAGGCATTTATATGATAC
*
15126199 AAATGCTGCTAATTTAGAGGCATTTATATGATAC
1 AAATGCTACTAATTTAGAGGCATTTATATGATAC
* *
15126233 AAATGTTGCTAATTTAG
1 AAATGCTACTAATTTAG
15126250 CGACGATTGT
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
33 25 0.37
34 43 0.63
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (34 bp):
AAATGCTACTAATTTAGAGGCATTTATATGATAC
Found at i:15126180 original size:67 final size:67
Alignment explanation
Indices: 15126108--15126237 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 67
15126098 CAAACATTAC
* * *
15126108 TAAATTAGCGACGTTTTAGGCTATAAATGCCACTAATTTAGAGGCATTTATCTAATACAAATGCT
1 TAAATTAGCGACATTTTAGGCTACAAATGCCACTAATTTAGAGGCATTTATATAATACAAATGCT
15126173 AT
66 AT
* * ** *
15126175 TAAATTAGTGACATTTTATGCTACAAATGCTGCTAATTTAGAGGCATTTATATGATACAAATG
1 TAAATTAGCGACATTTTAGGCTACAAATGCCACTAATTTAGAGGCATTTATATAATACAAATG
15126238 TTGCTAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (67 bp):
TAAATTAGCGACATTTTAGGCTACAAATGCCACTAATTTAGAGGCATTTATATAATACAAATGCT
AT
Found at i:15126205 original size:33 final size:34
Alignment explanation
Indices: 15126105--15126237 Score: 108
Period size: 33 Copynumber: 4.0 Consensus size: 34
15126095 ACACAAACAT
* * * * *
15126105 TACTAAATTAGCGACGTTT-TAGGCTATAAATGC
1 TACTAAATTAGAGACATTTATATGATACAAATGC
* * * * *
15126138 CACTAATTTAGAGGCATTTATCTAATACAAATGC
1 TACTAAATTAGAGACATTTATATGATACAAATGC
* * *
15126172 TATTAAATTAGTGACATTT-TATGCTACAAATGC
1 TACTAAATTAGAGACATTTATATGATACAAATGC
* * *
15126205 TGCTAATTTAGAGGCATTTATATGATACAAATG
1 TACTAAATTAGAGACATTTATATGATACAAATG
15126238 TTGCTAATTT
Statistics
Matches: 74, Mismatches: 24, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
33 39 0.53
34 35 0.47
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (34 bp):
TACTAAATTAGAGACATTTATATGATACAAATGC
Found at i:15126270 original size:67 final size:66
Alignment explanation
Indices: 15126105--15126283 Score: 155
Period size: 67 Copynumber: 2.7 Consensus size: 66
15126095 ACACAAACAT
* * * *
15126105 TACTAAATTAGCGACGTTTTAGGCTATAAATGCCACTAATTTAGAGGCATTTATCTAATACAAAT
1 TACTAAATTAGCGACATTTCA-TCTATAAATGCCACTAATTTAGAGGCATTTATATAATACAAAT
15126170 GC
65 GC
* * * * ** *
15126172 TATTAAATTAGTGACATTTTATGCTACAAATGCTGCTAATTTAGAGGCATTTATATGATACAAAT
1 TACTAAATTAGCGACATTTCAT-CTATAAATGCCACTAATTTAGAGGCATTTATATAATACAAAT
*
15126237 GT
65 GC
* * * * *
15126239 TGCTAATTTAGCGACGATTGTCCT-TATAAATGTCACTCA-TTAGAG
1 TACTAAATTAGCGAC-ATT-TCATCTATAAATGCCACTAATTTAGAG
15126284 CAATGTTTTA
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
66 6 0.07
67 77 0.88
68 3 0.03
69 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (66 bp):
TACTAAATTAGCGACATTTCATCTATAAATGCCACTAATTTAGAGGCATTTATATAATACAAATG
C
Found at i:15132412 original size:46 final size:46
Alignment explanation
Indices: 15132323--15132412 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
15132313 ATGAATACTT
* * * * * *
15132323 CGTGGTTTATTGAAGGTGTTTTTGGCTAAAAATGCCTTGAATAATA
1 CGTGGATTATTCAAGGTGTTTTAGGCCAAAAACGCCTTCAATAATA
*
15132369 CGTGGATTATTCAAGGTGTTTTAGGCCAAAAACGCTTTCAATAA
1 CGTGGATTATTCAAGGTGTTTTAGGCCAAAAACGCCTTCAATAA
15132413 ACCCATTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (46 bp):
CGTGGATTATTCAAGGTGTTTTAGGCCAAAAACGCCTTCAATAATA
Done.