Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 57 of 109
Found at i:11302779 original size:12 final size:12
Alignment explanation
Indices: 11302758--11302792 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
11302748 CCCTTCCATT
11302758 CCTCCACCTCCG
1 CCTCCACCTCCG
*
11302770 CCTCCGCCTCCG
1 CCTCCACCTCCG
11302782 CCTCCACCTCC
1 CCTCCACCTCC
11302793 AGCCGGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.69, G:0.09, T:0.17
Consensus pattern (12 bp):
CCTCCACCTCCG
Found at i:11303935 original size:31 final size:31
Alignment explanation
Indices: 11303895--11304011 Score: 81
Period size: 38 Copynumber: 3.5 Consensus size: 31
11303885 GGTGTTGAAG
***
11303895 TTATATTTTTAAAATTTTAAATTTAAAAAAA
1 TTATATTTTTAAAATAAAAAATTTAAAAAAA
* * *
11303926 TTATGTTTTTAAGATAAAAAATATAATAAATGTTGAAA
1 TTATATTTTTAAAATAAAAAAT-T--TAAA----AAAA
*
11303964 TTATATTTTTAAAATATAAAATTTTAATAAAAA
1 TTATATTTTTAAAATA-AAAAATTTAA-AAAAA
*
11303997 TTATGTTTTTAAAAT
1 TTATATTTTTAAAAT
11304012 TATAAATGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
31 17 0.26
32 1 0.02
33 17 0.26
34 4 0.06
36 3 0.05
37 1 0.02
38 18 0.27
39 5 0.08
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (31 bp):
TTATATTTTTAAAATAAAAAATTTAAAAAAA
Found at i:11303960 original size:69 final size:69
Alignment explanation
Indices: 11303807--11304008 Score: 280
Period size: 69 Copynumber: 2.9 Consensus size: 69
11303797 TTAAAAATAT
* * *
11303807 ATATAGTAAATATTGAAATTATATTTTTAAAATTTTAAAATTTTATAAAATTTATGTTTTTAAGA
1 ATATAGTAAATGTTGAAATTATATTTTTAAAATTTT-AAATTTTAAAAAAATTATGTTTTTAAGA
11303872 TAAAA
65 TAAAA
* ** *
11303877 ATACAGTAGGTGTTGAAGTTATATTTTTAAAATTTTAAA-TTTAAAAAAATTATGTTTTTAAGAT
1 ATATAGTAAATGTTGAAATTATATTTTTAAAATTTTAAATTTTAAAAAAATTATGTTTTTAAGAT
11303941 AAAAA
66 -AAAA
* * *
11303946 ATATAATAAATGTTGAAATTATATTTTTAAAATATAAAATTTTAATAAAAATTATGTTTTTAA
1 ATATAGTAAATGTTGAAATTATATTTTTAAAATTTTAAATTTTAA-AAAAATTATGTTTTTAA
11304009 AATTATAAAT
Statistics
Matches: 115, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
68 23 0.20
69 39 0.34
70 36 0.31
71 17 0.15
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (69 bp):
ATATAGTAAATGTTGAAATTATATTTTTAAAATTTTAAATTTTAAAAAAATTATGTTTTTAAGAT
AAAA
Found at i:11320088 original size:29 final size:29
Alignment explanation
Indices: 11320051--11320110 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
11320041 AATTAATAGA
* *
11320051 TTTATAATTTAAATATTATATCAAATATT
1 TTTAAAATTTAAATATCATATCAAATATT
*
11320080 TTTAAAATTTAAATATCATATTAAATATT
1 TTTAAAATTTAAATATCATATCAAATATT
11320109 TT
1 TT
11320111 AAGGTTAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTAAAATTTAAATATCATATCAAATATT
Found at i:11321284 original size:2 final size:2
Alignment explanation
Indices: 11321277--11321306 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11321267 AGTGATTAAA
11321277 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
11321307 TCCACTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11321806 original size:2 final size:2
Alignment explanation
Indices: 11321799--11321830 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11321789 ATTGAGGGAG
11321799 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
11321831 ATACTATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11338889 original size:15 final size:17
Alignment explanation
Indices: 11338869--11338914 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
11338859 ATACATGAGT
11338869 TTAAATTT-T-ATTAAA
1 TTAAATTTATAATTAAA
11338884 TTAAATTTATAATTAAA
1 TTAAATTTATAATTAAA
11338901 -TAATTATTTATAAT
1 TTAA--ATTTATAAT
11338915 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.30
16 4 0.15
17 6 0.22
18 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTTATAATTAAA
Found at i:11348486 original size:23 final size:23
Alignment explanation
Indices: 11348460--11348505 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11348450 ATCTTAATGT
*
11348460 CTGGTGTGATCTTAGATCTGTGA
1 CTGGTGTGATCTTAGACCTGTGA
*
11348483 CTGGTGTGATTTTAGACCTGTGA
1 CTGGTGTGATCTTAGACCTGTGA
11348506 TTGGATTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.13, G:0.30, T:0.39
Consensus pattern (23 bp):
CTGGTGTGATCTTAGACCTGTGA
Found at i:11348697 original size:35 final size:35
Alignment explanation
Indices: 11348651--11348720 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
11348641 ACCCAACCTT
11348651 ACGAAATATTGTTTGCTTTTGACCCGAAAGTCTCA
1 ACGAAATATTGTTTGCTTTTGACCCGAAAGTCTCA
* * *
11348686 ACGAAGTATTGTTTGCTTTTGACCTGAAGGTCTCA
1 ACGAAATATTGTTTGCTTTTGACCCGAAAGTCTCA
11348721 TAGTTTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (35 bp):
ACGAAATATTGTTTGCTTTTGACCCGAAAGTCTCA
Found at i:11349474 original size:35 final size:35
Alignment explanation
Indices: 11349428--11349500 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
11349418 TTGTTAAGCC
11349428 GAACCAAGATCACACTTCAATGTTGGATTGAGAGT
1 GAACCAAGATCACACTTCAATGTTGGATTGAGAGT
11349463 GAACCAAGATCACACTTCAATGTTGGATTGAGAGT
1 GAACCAAGATCACACTTCAATGTTGGATTGAGAGT
11349498 GAA
1 GAA
11349501 GCTTGACGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (35 bp):
GAACCAAGATCACACTTCAATGTTGGATTGAGAGT
Found at i:11362214 original size:28 final size:27
Alignment explanation
Indices: 11362156--11362213 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
11362146 AAAGACAATG
*
11362156 AAAACATTTTTACTTATTGTACCTGAA
1 AAAACATTTTTACTTATTGTAACTGAA
* *
11362183 AAAACATTTTTGCTTCTTGTAACTGAA
1 AAAACATTTTTACTTATTGTAACTGAA
11362210 AAAA
1 AAAA
11362214 ATGACTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAACATTTTTACTTATTGTAACTGAA
Found at i:11363368 original size:18 final size:18
Alignment explanation
Indices: 11363347--11363384 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
11363337 ATATTGAGTT
11363347 AAAATATAAAAGTTTTGA
1 AAAATATAAAAGTTTTGA
11363365 AAAATATAAAAGTTTTGA
1 AAAATATAAAAGTTTTGA
11363383 AA
1 AA
11363385 CTTTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
AAAATATAAAAGTTTTGA
Found at i:11364802 original size:18 final size:19
Alignment explanation
Indices: 11364769--11364804 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11364759 TAAATAAATT
*
11364769 ATTATTCATAAAAGTTATG
1 ATTATACATAAAAGTTATG
11364788 ATTATACAT-AAAGTTAT
1 ATTATACATAAAAGTTAT
11364805 AACCATTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (19 bp):
ATTATACATAAAAGTTATG
Found at i:11366007 original size:2 final size:2
Alignment explanation
Indices: 11366000--11366027 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11365990 AATGGTGACT
11366000 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11366028 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11370548 original size:21 final size:21
Alignment explanation
Indices: 11370524--11370666 Score: 101
Period size: 21 Copynumber: 6.6 Consensus size: 21
11370514 TAAATAAAAA
*
11370524 TTGATAACTTTTGATATAATT
1 TTGATAACTTTTAATATAATT
*
11370545 TTGATTTTCTAACTTTTAATAAAATT
1 TTGA-----TAACTTTTAATATAATT
* *
11370571 TT-AGTAACATTTGATATAATT
1 TTGA-TAACTTTTAATATAATT
* *
11370592 TTGATAACTTTTAATATTAGT
1 TTGATAACTTTTAATATAATT
* *
11370613 TTGATAACTTATAATACAATT
1 TTGATAACTTTTAATATAATT
* * *
11370634 TTGGTAACTATTGATA-AACTT
1 TTGATAACTTTTAATATAA-TT
*
11370655 TTAATAACTTTT
1 TTGATAACTTTT
11370667 TGATGTAAAT
Statistics
Matches: 94, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
20 2 0.02
21 73 0.78
22 1 0.01
25 1 0.01
26 17 0.18
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.50
Consensus pattern (21 bp):
TTGATAACTTTTAATATAATT
Found at i:11371061 original size:22 final size:22
Alignment explanation
Indices: 11370994--11371232 Score: 108
Period size: 22 Copynumber: 10.8 Consensus size: 22
11370984 GACAATTATG
*
11370994 TTATCAATGATTTATTATTATA
1 TTATCAATGATTTATTATTAAA
*
11371016 TTATC-ATGATTATATATTGTTAAA
1 TTATCAATGA-T-T-TATTATTAAA
* *
11371040 TTATCAATAATTTATTACTAAA
1 TTATCAATGATTTATTATTAAA
* * * * *
11371062 TTAGCATTGAATTACTATTAAT
1 TTATCAATGATTTATTATTAAA
* *
11371084 TTATGAATGATTTACTATTAAA
1 TTATCAATGATTTATTATTAAA
* * *
11371106 TTATGAATTATTTACTT-CTAAA
1 TTATCAATGATTTA-TTATTAAA
* ** * * *
11371128 TTGTTGATGATTTACTACTATA
1 TTATCAATGATTTATTATTAAA
* * * *
11371150 TTACCGATAATTTGTTA-TAAA
1 TTATCAATGATTTATTATTAAA
* * *
11371171 GTTAT-AATTTATTTGTTATTAAT
1 -TTATCAA-TGATTTATTATTAAA
* **
11371194 TTATCAATGATTTACTACAAAA
1 TTATCAATGATTTATTATTAAA
* *
11371216 TTATCAACGATTAATTA
1 TTATCAATGATTTATTA
11371233 ATTTAGTACT
Statistics
Matches: 161, Mismatches: 46, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
21 9 0.06
22 127 0.79
23 8 0.05
24 14 0.09
25 3 0.02
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.48
Consensus pattern (22 bp):
TTATCAATGATTTATTATTAAA
Found at i:11371254 original size:22 final size:21
Alignment explanation
Indices: 11371231--11371325 Score: 84
Period size: 22 Copynumber: 4.3 Consensus size: 21
11371221 AACGATTAAT
*
11371231 TAATTTAGTACTAAATTATCAT
1 TAATTTA-TACTAAATTATCAA
*
11371253 TAATTTATAACTAAATTGT-AA
1 TAATTTAT-ACTAAATTATCAA
* * *
11371274 GTGATTTACTACTAAACTGTCAA
1 -TAATTTA-TACTAAATTATCAA
*
11371297 TAATTTACATCTAAATTATCAA
1 TAATTTATA-CTAAATTATCAA
11371319 TAATTTA
1 TAATTTA
11371326 CTATTATGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
21 3 0.05
22 54 0.90
23 3 0.05
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (21 bp):
TAATTTATACTAAATTATCAA
Found at i:11371325 original size:44 final size:44
Alignment explanation
Indices: 11371231--11371328 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
11371221 AACGATTAAT
* * * * *
11371231 TAATTTAGTACTAAATTATCATTAATTTATAACTAAATTGTAAG
1 TAATTTACTACTAAACTATCAATAATTTACAACTAAATTATAAG
* * *
11371275 TGATTTACTACTAAACTGTCAATAATTTACATCTAAATTATCAA-
1 TAATTTACTACTAAACTATCAATAATTTACAACTAAATTAT-AAG
11371319 TAATTTACTA
1 TAATTTACTA
11371329 TTATGTTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (44 bp):
TAATTTACTACTAAACTATCAATAATTTACAACTAAATTATAAG
Found at i:11371337 original size:22 final size:22
Alignment explanation
Indices: 11371293--11371357 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
11371283 TACTAAACTG
**
11371293 TCAATAATTTAC-ATCTAAATTA
1 TCAATAATTTACTAT-TATGTTA
11371315 TCAATAATTTACTATTATGTTA
1 TCAATAATTTACTATTATGTTA
* *
11371337 T-TATACTTTTACTATTATGTT
1 TCAATA-ATTTACTATTATGTT
11371358 TGCTTGACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.08
22 32 0.86
23 2 0.05
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (22 bp):
TCAATAATTTACTATTATGTTA
Found at i:11371566 original size:22 final size:21
Alignment explanation
Indices: 11371533--11371640 Score: 85
Period size: 22 Copynumber: 5.0 Consensus size: 21
11371523 TTAAGTTTCC
*
11371533 AATTATTAACTATTAAATTAT
1 AATTATTTACTATTAAATTAT
*
11371554 AATTGATTTACTACTAAATTATT
1 AATT-ATTTACTATTAAATTA-T
* * *
11371577 TATAATATACTATT-AATTAT
1 AATTATTTACTATTAAATTAT
* *
11371597 CAATTAATTACTACTAAATTGA-
1 -AATTATTTACTATTAAATT-AT
*
11371619 AACTTATTTACTATTAAGTTAT
1 AA-TTATTTACTATTAAATTAT
11371641 TACTAATTTA
Statistics
Matches: 66, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
20 1 0.02
21 21 0.32
22 40 0.61
23 4 0.06
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (21 bp):
AATTATTTACTATTAAATTAT
Found at i:11371674 original size:11 final size:11
Alignment explanation
Indices: 11371630--11371684 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
11371620 ACTTATTTAC
11371630 TATTAAGTTAT
1 TATTAAGTTAT
* *
11371641 TACTAATTTAT
1 TATTAAGTTAT
*
11371652 TGTTAA-TATAT
1 TATTAAGT-TAT
*
11371663 TATTGAGTTAT
1 TATTAAGTTAT
11371674 TATTAAGTTAT
1 TATTAAGTTAT
11371685 CGATGATTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
10 1 0.03
11 33 0.94
12 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.55
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:11372037 original size:22 final size:22
Alignment explanation
Indices: 11371978--11372039 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
11371968 ACTATAAAAA
*
11371978 AAGTTATCAATAATTAACAATT
1 AAGTTATCAATAATTTACAATT
* * * * *
11372000 AAGTTATTAGTTATTTCCTATT
1 AAGTTATCAATAATTTACAATT
*
11372022 AAGTTATCAATGATTTAC
1 AAGTTATCAATAATTTAC
11372040 TACTAAACTA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (22 bp):
AAGTTATCAATAATTTACAATT
Found at i:11372076 original size:22 final size:22
Alignment explanation
Indices: 11372030--11372081 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
11372020 TTAAGTTATC
*
11372030 AATGATTTACTACTAAACTATT
1 AATGATTTACTACTAAACTACT
* **
11372052 AATGATTTACTTCTAATTTACT
1 AATGATTTACTACTAAACTACT
*
11372074 AATAATTT
1 AATGATTT
11372082 GCCATTTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (22 bp):
AATGATTTACTACTAAACTACT
Found at i:11372321 original size:22 final size:22
Alignment explanation
Indices: 11372247--11372350 Score: 74
Period size: 22 Copynumber: 4.9 Consensus size: 22
11372237 TAACTTCTAC
*
11372247 TAAATTA-TAACTAATTGAC-AA
1 TAAATTATTAA-TAATTTACTAA
11372268 CTAAATTATTAATAATTTACTAA
1 -TAAATTATTAATAATTTACTAA
* * **
11372291 TATATTATTAGTAATTTACTTT
1 TAAATTATTAATAATTTACTAA
* * *
11372313 TAAACTA-T--TACTTTACTAC
1 TAAATTATTAATAATTTACTAA
*
11372332 TAAATTATTAATGATTTAC
1 TAAATTATTAATAATTTAC
11372351 CATGATATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
19 14 0.22
20 1 0.02
21 1 0.02
22 43 0.67
23 5 0.08
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (22 bp):
TAAATTATTAATAATTTACTAA
Found at i:11372510 original size:22 final size:21
Alignment explanation
Indices: 11372476--11372590 Score: 99
Period size: 22 Copynumber: 5.3 Consensus size: 21
11372466 AGTTACTACA
11372476 GATTTA-TATTAAATTATGCAT
1 GATTTATTATTAAATTAT-CAT
11372497 GATTTATTATTAAATTATCACT
1 GATTTATTATTAAATTATCA-T
* * *
11372519 GATTAACTATTACATTATCAAT
1 GATTTATTATTAAATTATC-AT
* * *
11372541 GATTTACTACTAAGTTAT-ATT
1 GATTTATTATTAAATTATCA-T
* *
11372562 GATTTATTTTTAAATTTTCAAT
1 GATTTATTATTAAATTATC-AT
11372584 GATTTAT
1 GATTTAT
11372591 CAATTGTTTA
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
20 1 0.01
21 22 0.29
22 51 0.67
23 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.50
Consensus pattern (21 bp):
GATTTATTATTAAATTATCAT
Found at i:11372610 original size:22 final size:22
Alignment explanation
Indices: 11372585--11372634 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
11372575 ATTTTCAATG
*
11372585 ATTTATCAATTG-TTTACTATTA
1 ATTTATC-ATTGATTTACTACTA
11372607 ATTTATCATTGATTTACTACTA
1 ATTTATCATTGATTTACTACTA
*
11372629 AATTAT
1 ATTTAT
11372635 TTGTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (22 bp):
ATTTATCATTGATTTACTACTA
Found at i:11372796 original size:22 final size:23
Alignment explanation
Indices: 11372771--11372820 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
11372761 TACTAAAAAG
11372771 TTATCAATT-ATTTATTACTAAA
1 TTATCAATTCATTTATTACTAAA
*
11372793 TTATC-ATTCATTTATTATTAAA
1 TTATCAATTCATTTATTACTAAA
11372815 TTATCA
1 TTATCA
11372821 CTAATGTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATCAATTCATTTATTACTAAA
Found at i:11373702 original size:149 final size:148
Alignment explanation
Indices: 11373492--11373768 Score: 419
Period size: 149 Copynumber: 1.9 Consensus size: 148
11373482 AATAATCACA
* **
11373492 TTTGCATTCTCTATAAAAAATTCTTCTACTAAATGAAAAGATGGTATATTTTTAATCGTTGCATC
1 TTTGCATTCTCCATAAAAAATTCTTCTACTAAATGAAAAGATAATATATTTTTAATCGTTGCATC
**
11373557 ATGCTTATTACCATCATTCAAAATAACTTTTTTGGTATTTTGATACCAATCAACTTCTCCATTTT
66 ATGCTTATTACCATCA-TCAAAATAACTTTTTTAATATTTTGATACCAATCAACTTCTCCATTTT
11373622 GAAAAAAAGGAAAGAATAT
130 GAAAAAAAGGAAAGAATAT
** * * *
11373641 TTTGCATTCTCCATAAAATGTTTTTCTACTAAATGAAAAGATAATATATTTTTAATTGTTGCTTC
1 TTTGCATTCTCCATAAAAAATTCTTCTACTAAATGAAAAGATAATATATTTTTAATCGTTGCATC
* * * *
11373706 ATTCTTATTACCATCATCAAAATAACTTTTTTAATATTTTGATGCCAATCAATTTCTCTATTT
66 ATGCTTATTACCATCATCAAAATAACTTTTTTAATATTTTGATACCAATCAACTTCTCCATTT
11373769 AAAAAGAGTG
Statistics
Matches: 114, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
148 42 0.37
149 72 0.63
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (148 bp):
TTTGCATTCTCCATAAAAAATTCTTCTACTAAATGAAAAGATAATATATTTTTAATCGTTGCATC
ATGCTTATTACCATCATCAAAATAACTTTTTTAATATTTTGATACCAATCAACTTCTCCATTTTG
AAAAAAAGGAAAGAATAT
Found at i:11375165 original size:16 final size:16
Alignment explanation
Indices: 11375144--11375198 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
11375134 TTAAAAAATT
*
11375144 AATTTTTTTATTTAAA
1 AATTTTTTTATATAAA
* **
11375160 AATTTTATTATATATT
1 AATTTTTTTATATAAA
*
11375176 AATTTTTATTAAATAAA
1 AATTTTT-TTATATAAA
11375193 AATTTT
1 AATTTT
11375199 AAAATAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
16 18 0.60
17 12 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTTTTTATATAAA
Found at i:11375196 original size:17 final size:17
Alignment explanation
Indices: 11375156--11375198 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
11375146 TTTTTTTATT
*
11375156 TAAAAA-TTTTATTATA
1 TAAAAATTTTTATTAAA
**
11375172 TATTAATTTTTATTAAA
1 TAAAAATTTTTATTAAA
11375189 TAAAAATTTT
1 TAAAAATTTT
11375199 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAAAATTTTTATTAAA
Found at i:11375207 original size:13 final size:14
Alignment explanation
Indices: 11375186--11375215 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11375176 AATTTTTATT
11375186 AAATAAAAATTTTA
1 AAATAAAAATTTTA
11375200 AAAT-AAAATTTTA
1 AAATAAAAATTTTA
11375213 AAA
1 AAA
11375216 AATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAAAAATTTTA
Found at i:11375216 original size:14 final size:14
Alignment explanation
Indices: 11375186--11375223 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
11375176 AATTTTTATT
11375186 AAATAAAAATTTT-A
1 AAAT-AAAATTTTAA
11375200 AAATAAAATTTTAAA
1 AAATAAAATTTT-AA
11375215 AAATAAAAT
1 AAATAAAAT
11375224 AAAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 4 0.18
15 10 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATAAAATTTTAA
Found at i:11377087 original size:30 final size:30
Alignment explanation
Indices: 11377047--11377154 Score: 107
Period size: 30 Copynumber: 3.7 Consensus size: 30
11377037 GATTTTAAGG
11377047 TTTT-AGGTTTTAGGATTTTTGTTTTGAGA
1 TTTTGAGGTTTTAGGATTTTTGTTTTGAGA
*
11377076 TTTTGAGGTTTTAAGG-TTTATGATTTT-AGA
1 TTTTGAGGTTTT-AGGATTTTTG-TTTTGAGA
* * * *
11377106 GTTTCAAGTTTTAGGATTTTGGTTTTGAGA
1 TTTTGAGGTTTTAGGATTTTTGTTTTGAGA
* *
11377136 TTTTG-GATTTTAGGGTTTT
1 TTTTGAGGTTTTAGGATTTT
11377155 AAAATTTAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
29 22 0.35
30 34 0.54
31 7 0.11
ACGTcount: A:0.19, C:0.01, G:0.25, T:0.56
Consensus pattern (30 bp):
TTTTGAGGTTTTAGGATTTTTGTTTTGAGA
Found at i:11377101 original size:23 final size:24
Alignment explanation
Indices: 11377074--11377126 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
11377064 TTTGTTTTGA
* *
11377074 GATTTTGAG-GTTTTAAGGTTTAT
1 GATTTTGAGAGTTTCAAGGTTTAG
*
11377097 GATTTT-AGAGTTTCAAGTTTTAG
1 GATTTTGAGAGTTTCAAGGTTTAG
11377120 GATTTTG
1 GATTTTG
11377127 GTTTTGAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.51
Consensus pattern (24 bp):
GATTTTGAGAGTTTCAAGGTTTAG
Found at i:11377101 original size:60 final size:60
Alignment explanation
Indices: 11377023--11377153 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 60
11377013 TAGGGTTTCA
* * * *
11377023 TTTAAGGGTTTCAAGATTTTA-AGGTTTTAGGTTTTAGGATTTTTGTTTTGAGATTTTGAGGT
1 TTTAA-GGTTTCAAGATTTTAGA-GTTTCAAGTTTTAGGATTTTGGTTTTGAGATTTTG-GAT
*
11377085 TTTAAGGTTT-ATGATTTTAGAGTTTCAAGTTTTAGGATTTTGGTTTTGAGATTTTGGAT
1 TTTAAGGTTTCAAGATTTTAGAGTTTCAAGTTTTAGGATTTTGGTTTTGAGATTTTGGAT
*
11377144 TTTAGGGTTT
1 TTTAAGGTTT
11377154 TAAAATTTAG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
59 11 0.18
60 40 0.65
61 6 0.10
62 5 0.08
ACGTcount: A:0.21, C:0.02, G:0.25, T:0.53
Consensus pattern (60 bp):
TTTAAGGTTTCAAGATTTTAGAGTTTCAAGTTTTAGGATTTTGGTTTTGAGATTTTGGAT
Found at i:11377177 original size:38 final size:38
Alignment explanation
Indices: 11377126--11377222 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 38
11377116 TTAGGATTTT
* *
11377126 GGTTTTGAGATTTT-GGATTTTAGGGTTTTAAAATTTAG
1 GGTTTTGAAATTTTAGGATTTT-GAGTTTTAAAATTTAG
* ***
11377164 GGTTTTGAAATTTTAGGGTTTTGAGTTTTAGGGTTTAG
1 GGTTTTGAAATTTTAGGATTTTGAGTTTTAAAATTTAG
* *
11377202 TGTTTTGAAATTTAAGG-TTTT
1 GGTTTTGAAATTTTAGGATTTT
11377223 AAAATTTTAG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 4 0.08
38 40 0.80
39 6 0.12
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.52
Consensus pattern (38 bp):
GGTTTTGAAATTTTAGGATTTTGAGTTTTAAAATTTAG
Found at i:11377178 original size:16 final size:16
Alignment explanation
Indices: 11377142--11377199 Score: 84
Period size: 15 Copynumber: 3.8 Consensus size: 16
11377132 GAGATTTTGG
11377142 ATTTTAGGGTTTT-AA
1 ATTTTAGGGTTTTGAA
*
11377157 AATTTAGGGTTTTGAA
1 ATTTTAGGGTTTTGAA
11377173 ATTTTAGGGTTTTG-A
1 ATTTTAGGGTTTTGAA
*
11377188 GTTTTAGGGTTT
1 ATTTTAGGGTTT
11377200 AGTGTTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
15 24 0.62
16 15 0.38
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (16 bp):
ATTTTAGGGTTTTGAA
Found at i:11377178 original size:60 final size:60
Alignment explanation
Indices: 11377054--11377192 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
11377044 AGGTTTTAGG
* * * * *
11377054 TTTTAGGATTTTTGTTTTGAGATTTTGAGGTTTTAAGGTTTATGATTTTAGAGTTTCAAG
1 TTTTAGGATTTTGGTTTTGAGATTTTGAGATTTTAAGGTTTATAAATTTAGAGTTTCAAA
* * *
11377114 TTTTAGGATTTTGGTTTTGAGATTTTG-GATTTTAGGGTTT-TAAAATTTAGGGTTTTGAAA
1 TTTTAGGATTTTGGTTTTGAGATTTTGAGATTTTAAGGTTTAT-AAATTTAGAG-TTTCAAA
*
11377174 TTTTAGGGTTTTGAGTTTT
1 TTTTAGGATTTTG-GTTTT
11377193 AGGGTTTAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
58 1 0.01
59 18 0.27
60 43 0.64
61 5 0.07
ACGTcount: A:0.21, C:0.01, G:0.24, T:0.54
Consensus pattern (60 bp):
TTTTAGGATTTTGGTTTTGAGATTTTGAGATTTTAAGGTTTATAAATTTAGAGTTTCAAA
Found at i:11377206 original size:15 final size:15
Alignment explanation
Indices: 11377159--11377207 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
11377149 GGTTTTAAAA
* *
11377159 TTTAGGGTTTTGAAAT
1 TTTAGGGTTTAG-AGT
*
11377175 TTTAGGGTTTTGAGT
1 TTTAGGGTTTAGAGT
*
11377190 TTTAGGGTTTAGTGT
1 TTTAGGGTTTAGAGT
11377205 TTT
1 TTT
11377208 GAAATTTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (15 bp):
TTTAGGGTTTAGAGT
Found at i:11377207 original size:53 final size:54
Alignment explanation
Indices: 11377126--11377233 Score: 148
Period size: 53 Copynumber: 2.0 Consensus size: 54
11377116 TTAGGATTTT
* * *
11377126 GGTTTTGAGATTTTGGATTTTAGGGTTTTAAAATTTAGGGTTTTGAAATTTTAG
1 GGTTTTGAGATTTTGGAGTTTAGGGTTTTAAAATTTAAGGTTTTAAAATTTTAG
* *
11377180 GGTTTTGAG-TTTTAGG-GTTTAGTGTTTTGAAATTTAAGGTTTTAAAATTTTAG
1 GGTTTTGAGATTTT-GGAGTTTAGGGTTTTAAAATTTAAGGTTTTAAAATTTTAG
11377233 G
1 G
11377234 ATTTCAAGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 37 0.77
54 11 0.23
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (54 bp):
GGTTTTGAGATTTTGGAGTTTAGGGTTTTAAAATTTAAGGTTTTAAAATTTTAG
Found at i:11377215 original size:22 final size:22
Alignment explanation
Indices: 11377175--11377221 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11377165 GTTTTGAAAT
** *
11377175 TTTAGGGTTTTGAGTTTTAGGG
1 TTTAGGGTTTTGAAATTTAAGG
*
11377197 TTTAGTGTTTTGAAATTTAAGG
1 TTTAGGGTTTTGAAATTTAAGG
11377219 TTT
1 TTT
11377222 TAAAATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (22 bp):
TTTAGGGTTTTGAAATTTAAGG
Found at i:11377231 original size:38 final size:38
Alignment explanation
Indices: 11377159--11377248 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 38
11377149 GGTTTTAAAA
* * *
11377159 TTTAGGGTTTTGAAATTTTAGGGTTTTGAGTTTTAGGG
1 TTTAGGGTTTTGAAATTTTAAGGTTTTAAATTTTAGGG
* *
11377197 TTTAGTGTTTTGAAA-TTTAAGGTTTTAAAATTTTAGGA
1 TTTAGGGTTTTGAAATTTTAAGGTTTT-AAATTTTAGGG
11377235 TTTCAAGGGTTTTG
1 TTT--AGGGTTTTG
11377249 GGGTTTCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
37 10 0.23
38 25 0.58
40 8 0.19
ACGTcount: A:0.23, C:0.01, G:0.26, T:0.50
Consensus pattern (38 bp):
TTTAGGGTTTTGAAATTTTAAGGTTTTAAATTTTAGGG
Found at i:11377268 original size:16 final size:16
Alignment explanation
Indices: 11377212--11377285 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
11377202 TGTTTTGAAA
* *
11377212 TTTAAGGTTTTAAAAT
1 TTTAGGGTTTCAAAAT
* **
11377228 TTTAGGATTTCAAGGGT
1 TTTAGGGTTTCAA-AAT
*
11377245 TTTGGGGTTTCAAAAT
1 TTTAGGGTTTCAAAAT
* *
11377261 TTTAGGGTCTC-AAGT
1 TTTAGGGTTTCAAAAT
11377276 TTTAGGGTTT
1 TTTAGGGTTT
11377286 AGGGTTTTAG
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
15 12 0.27
16 20 0.45
17 12 0.27
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (16 bp):
TTTAGGGTTTCAAAAT
Found at i:11377284 original size:101 final size:102
Alignment explanation
Indices: 11377143--11377363 Score: 259
Period size: 101 Copynumber: 2.2 Consensus size: 102
11377133 AGATTTTGGA
* * * * * *
11377143 TTTTAGGGTTTTAAAA-TTTAGGGTTTTGAAATTTTAGGGTTTTGAGTTTTAGGGTTTAGT-GTT
1 TTTTGGGGTTTCAAAATTTTAGGGTTCTCAAATTTTAGGGTTTAGAGTTTTAGAGTTTA-TAGTT
* * * *
11377206 TTGAAATTTAAGGTTTTAAAATTTTAGGATTTCAAGGG
65 TTAAAATTTAAGGTTATAAAAGTTTAGGATTTCAAAGG
* * *
11377244 TTTTGGGGTTTCAAAATTTTAGGG-TCTCAAGTTTTAGGGTTTAGGGTTTTAGATTTTATAGTTT
1 TTTTGGGGTTTCAAAATTTTAGGGTTCTCAAATTTTAGGGTTTAGAGTTTTAGAGTTTATAGTTT
** *
11377308 TAAAATTTTGGGTTATAAAAGTTTAGGGTTTCAAAGG
66 TAAAATTTAAGGTTATAAAAGTTTAGGATTTCAAAGG
*
11377345 TTTTGGAGTTTCAAAATTT
1 TTTTGGGGTTTCAAAATTT
11377364 GGAATTTTAA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
100 1 0.01
101 93 0.92
102 7 0.07
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.48
Consensus pattern (102 bp):
TTTTGGGGTTTCAAAATTTTAGGGTTCTCAAATTTTAGGGTTTAGAGTTTTAGAGTTTATAGTTT
TAAAATTTAAGGTTATAAAAGTTTAGGATTTCAAAGG
Found at i:11377746 original size:3 final size:3
Alignment explanation
Indices: 11377738--11377772 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11377728 TTAAAATTTA
*
11377738 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11377773 CTCTAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11379493 original size:25 final size:25
Alignment explanation
Indices: 11379465--11379512 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
11379455 GAAAGTTATT
*
11379465 ACAAGAAAAAGATGATGTGGAATGA
1 ACAAGAAAAAGATCATGTGGAATGA
*
11379490 ACAAGAAAATGATCATGTGGAAT
1 ACAAGAAAAAGATCATGTGGAAT
11379513 AAATTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (25 bp):
ACAAGAAAAAGATCATGTGGAATGA
Found at i:11383168 original size:21 final size:21
Alignment explanation
Indices: 11383143--11383191 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11383133 AAATCTCTTT
* *
11383143 TTTTTTTCATTTTTTTTTA-CC
1 TTTTTTTC-TTTTTATTTAGAC
11383164 TTTTTCTTCTTTTTATTTAGAC
1 TTTTT-TTCTTTTTATTTAGAC
11383186 TTTTTT
1 TTTTTT
11383192 GTTGTCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTTCTTTTTATTTAGAC
Found at i:11383880 original size:30 final size:30
Alignment explanation
Indices: 11383837--11383894 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11383827 AAAGTGTGTG
*
11383837 AAACAATATATTAATAAAAAT-AAAATAAAT
1 AAACAATAAATTAA-AAAAATCAAAATAAAT
*
11383867 AAACCATAAATTAAAAAAATCAAAATAA
1 AAACAATAAATTAAAAAAATCAAAATAA
11383895 GGTAATAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (30 bp):
AAACAATAAATTAAAAAAATCAAAATAAAT
Found at i:11385175 original size:18 final size:18
Alignment explanation
Indices: 11385152--11385186 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11385142 GTTGCGAGTC
* *
11385152 AAATTTAGGGTTTTGGTT
1 AAATTTAAGGTCTTGGTT
11385170 AAATTTAAGGTCTTGGT
1 AAATTTAAGGTCTTGGT
11385187 GAATTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.46
Consensus pattern (18 bp):
AAATTTAAGGTCTTGGTT
Found at i:11385238 original size:8 final size:8
Alignment explanation
Indices: 11385225--11385337 Score: 66
Period size: 8 Copynumber: 15.1 Consensus size: 8
11385215 AAGGTTTCGA
11385225 GATTTTAG
1 GATTTTAG
*
11385233 GATTTTGG
1 GATTTTAG
11385241 GA-TTTAG
1 GATTTTAG
*
11385248 GATTTT-T
1 GATTTTAG
11385255 G-TTTTAG
1 GATTTTAG
*
11385262 GATTTTGAT
1 GATTTT-AG
11385271 G-TTTTAAG
1 GATTTT-AG
*
11385279 G--TTTAT
1 GATTTTAG
11385285 GATTTTAG
1 GATTTTAG
*
11385293 GGTTTT-G
1 GATTTTAG
*
11385300 GGTTTTAG
1 GATTTTAG
11385308 GATTTT--
1 GATTTTAG
*
11385314 GATTTTGG
1 GATTTTAG
11385322 GATTTT-G
1 GATTTTAG
*
11385329 AATTTTAG
1 GATTTTAG
11385337 G
1 G
11385338 GTTTAAAAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
6 12 0.15
7 24 0.29
8 44 0.54
9 2 0.02
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (8 bp):
GATTTTAG
Found at i:11385248 original size:15 final size:15
Alignment explanation
Indices: 11385228--11385268 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
11385218 GTTTCGAGAT
11385228 TTTAGGATTTTGGGA
1 TTTAGGATTTTGGGA
* *
11385243 TTTAGGATTTT-TGT
1 TTTAGGATTTTGGGA
11385257 TTTAGGATTTTG
1 TTTAGGATTTTG
11385269 ATGTTTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (15 bp):
TTTAGGATTTTGGGA
Found at i:11385289 original size:60 final size:59
Alignment explanation
Indices: 11385225--11385342 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 59
11385215 AAGGTTTCGA
*
11385225 GATTTTAGGATTTTGGGATTTAGGATTTTTG-TTTTAGGATTTTGATGTTTTAAGGTTTAT
1 GATTTTAGGATTTTGGGATTTAGGA-TTTTGATTTTAGGATTTTGA-ATTTTAAGGTTTAT
* * * *
11385285 GATTTTAGGGTTTTGGGTTTTAGGATTTTGATTTTGGGATTTTGAATTTTAGGGTTTA
1 GATTTTAGGATTTTGGGATTTAGGATTTTGATTTTAGGATTTTGAATTTTAAGGTTTA
11385343 AAAATTTAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
59 16 0.31
60 36 0.69
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (59 bp):
GATTTTAGGATTTTGGGATTTAGGATTTTGATTTTAGGATTTTGAATTTTAAGGTTTAT
Found at i:11385296 original size:15 final size:14
Alignment explanation
Indices: 11385251--11385341 Score: 78
Period size: 15 Copynumber: 6.2 Consensus size: 14
11385241 GATTTAGGAT
*
11385251 TTTTG-TTTTAGGA
1 TTTTGATTTTAGGG
*
11385264 TTTTGATGTTTTAAGG
1 TTTTGA--TTTTAGGG
11385280 TTTATGATTTTAGGG
1 TTT-TGATTTTAGGG
* *
11385295 TTTTGGGTTTTAGGA
1 TTTT-GATTTTAGGG
11385310 TTTTGATTTT-GGG
1 TTTTGATTTTAGGG
11385323 ATTTTGAATTTTAGGG
1 -TTTTG-ATTTTAGGG
11385339 TTT
1 TTT
11385342 AAAAATTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
13 7 0.11
14 11 0.17
15 30 0.48
16 12 0.19
17 3 0.05
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.57
Consensus pattern (14 bp):
TTTTGATTTTAGGG
Found at i:11385328 original size:14 final size:14
Alignment explanation
Indices: 11385284--11385334 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
11385274 TTAAGGTTTA
11385284 TGATTTTAGGG-TTT
1 TGATTTT-GGGATTT
* *
11385298 TGGGTTTTAGGATTT
1 T-GATTTTGGGATTT
11385313 TGATTTTGGGATTT
1 TGATTTTGGGATTT
11385327 TGAATTTT
1 TG-ATTTT
11385335 AGGGTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (14 bp):
TGATTTTGGGATTT
Found at i:11385333 original size:21 final size:21
Alignment explanation
Indices: 11385295--11385334 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11385285 GATTTTAGGG
*
11385295 TTTTGGGTTTTAGGATTTTGA
1 TTTTGGGTTTTAGAATTTTGA
11385316 TTTTGGGATTTT-GAATTTT
1 TTTTGGG-TTTTAGAATTTT
11385335 AGGGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.15, C:0.00, G:0.25, T:0.60
Consensus pattern (21 bp):
TTTTGGGTTTTAGAATTTTGA
Found at i:11385366 original size:16 final size:16
Alignment explanation
Indices: 11385324--11385565 Score: 85
Period size: 15 Copynumber: 15.2 Consensus size: 16
11385314 GATTTTGGGA
11385324 TTTTG-AATTTT-AGG
1 TTTTGAAATTTTAAGG
* * *
11385338 GTTTAAAAATTTAAGG
1 TTTTGAAATTTTAAGG
11385354 TTTTGAAATTTT-AGG
1 TTTTGAAATTTTAAGG
*** * *
11385369 ATTTTGAGGGTTTATGA
1 -TTTTGAAATTTTAAGG
* *
11385386 TTTT-AAGGTTTTAA-A
1 TTTTGAA-ATTTTAAGG
*
11385401 TTTT-AAAGTTTAAGG
1 TTTTGAAATTTTAAGG
* *
11385416 TTTTG-GATTTTAGGG
1 TTTTGAAATTTTAAGG
*
11385431 TTTT-AAAATTTAAGG
1 TTTTGAAATTTTAAGG
* *
11385446 TTTTAAAATTTTAGGG
1 TTTTGAAATTTTAAGG
** *
11385462 TTTTGAGGGTTTTAATG
1 TTTTGA-AATTTTAAGG
**
11385479 TTTCAAAATTTTAAGG
1 TTTTGAAATTTTAAGG
*
11385495 TTTT-AAGTTTTATGGTTTAGGG
1 TTTTGAA-----AT--TTTAAGG
*
11385517 TTTTG-GATTTT-AGAG
1 TTTTGAAATTTTAAG-G
*
11385532 TTTTGAAA-TTTAGGG
1 TTTTGAAATTTTAAGG
11385547 TTTTGAAATTTTAAGG
1 TTTTGAAATTTTAAGG
11385563 TTT
1 TTT
11385566 CGAGGGTTTT
Statistics
Matches: 164, Mismatches: 42, Indels: 42
0.66 0.17 0.17
Matches are distributed among these distances:
14 9 0.05
15 65 0.40
16 65 0.40
17 13 0.08
20 2 0.01
22 10 0.06
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.50
Consensus pattern (16 bp):
TTTTGAAATTTTAAGG
Found at i:11385366 original size:60 final size:60
Alignment explanation
Indices: 11385243--11385434 Score: 156
Period size: 60 Copynumber: 3.2 Consensus size: 60
11385233 GATTTTGGGA
* ** * * **
11385243 TTTAGGATTTTTG-TTTTAGGATTTTGATGTTTTAAGGTTTATGATTTTAGGGTTTTGGGT
1 TTTAGGA-TTTTGATTTTAGGATTTTGATATTTTAAGGTTTAAAAATTTAAGGTTTTGAAT
* *
11385303 TTTAGGATTTTGATTTTGGGATTTTGA-ATTTTAGGGTTTAAAAATTTAAGGTTTTGAAAT
1 TTTAGGATTTTGATTTTAGGATTTTGATATTTTAAGGTTTAAAAATTTAAGGTTTTG-AAT
* * * ** * * * *
11385363 TTTAGGATTTTGAGGGTTTATGATTTTAAGGTTTTAA-ATTTTAAAGTTTAAGGTTTTGGAT
1 TTTAGGATTTTGA--TTTTAGGATTTTGATATTTTAAGGTTTAAAAATTTAAGGTTTTGAAT
*
11385424 TTTAGGGTTTT
1 TTTAGGATTTT
11385435 AAAATTTAAG
Statistics
Matches: 107, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
59 28 0.26
60 34 0.32
61 12 0.11
62 28 0.26
63 5 0.05
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.53
Consensus pattern (60 bp):
TTTAGGATTTTGATTTTAGGATTTTGATATTTTAAGGTTTAAAAATTTAAGGTTTTGAAT
Found at i:11385506 original size:7 final size:8
Alignment explanation
Indices: 11385347--11385512 Score: 69
Period size: 8 Copynumber: 21.2 Consensus size: 8
11385337 GGTTTAAAAA
11385347 TTTAAGGT
1 TTTAAGGT
*
11385355 TTTGAA-AT
1 TTT-AAGGT
11385363 TTT-AGGAT
1 TTTAAGG-T
* *
11385371 TTTGAGGG
1 TTTAAGGT
* *
11385379 TTTATGAT
1 TTTAAGGT
11385387 TTTAAGGT
1 TTTAAGGT
*
11385395 TTTAA-AT
1 TTTAAGGT
*
11385402 TTTAAAG-
1 TTTAAGGT
11385409 TTTAAGGT
1 TTTAAGGT
11385417 TTT--GGAT
1 TTTAAGG-T
*
11385424 TTTAGGGT
1 TTTAAGGT
**
11385432 TTTAA-AA
1 TTTAAGGT
11385439 TTTAAGGT
1 TTTAAGGT
**
11385447 TTTAAAAT
1 TTTAAGGT
*
11385455 TTTAGGGT
1 TTTAAGGT
*
11385463 TTTGAGGGT
1 TTT-AAGGT
*
11385472 TTTAATGT
1 TTTAAGGT
* **
11385480 TTCAAAAT
1 TTTAAGGT
11385488 TTTAAGGT
1 TTTAAGGT
11385496 TTTAA-GT
1 TTTAAGGT
*
11385503 TTTATGGT
1 TTTAAGGT
11385511 TT
1 TT
11385513 AGGGTTTTGG
Statistics
Matches: 115, Mismatches: 31, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
6 3 0.03
7 27 0.23
8 70 0.61
9 15 0.13
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.51
Consensus pattern (8 bp):
TTTAAGGT
Found at i:11385519 original size:101 final size:101
Alignment explanation
Indices: 11385385--11385575 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 101
11385375 AGGGTTTATG
*
11385385 ATTTTAAGGTTTTAAATTTTAAAGTTTAAGGTTTTGGATTTTAGGGTTTTAAAATTTAAGGTTTT
1 ATTTTAAGGTTTTAAATTTTAAAGTTTAAGGTTTTGGATTTTAGAGTTTTAAAATTTAAGGTTTT
* *
11385450 AAAATTTTAGGGTTTTGAGGGTTTTAATGTTTCAAA
66 AAAATTTTAAGGTTTCGAGGGTTTTAATGTTTCAAA
* ** * * *
11385486 ATTTTAAGGTTTTAAGTTTTATGGTTTAGGGTTTTGGATTTTAGAGTTTTGAAATTTAGGGTTTT
1 ATTTTAAGGTTTTAAATTTTAAAGTTTAAGGTTTTGGATTTTAGAGTTTTAAAATTTAAGGTTTT
*
11385551 GAAATTTTAAGGTTTCGAGGGTTTT
66 AAAATTTTAAGGTTTCGAGGGTTTT
11385576 GGGGTTTTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 80 1.00
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (101 bp):
ATTTTAAGGTTTTAAATTTTAAAGTTTAAGGTTTTGGATTTTAGAGTTTTAAAATTTAAGGTTTT
AAAATTTTAAGGTTTCGAGGGTTTTAATGTTTCAAA
Found at i:11385798 original size:9 final size:8
Alignment explanation
Indices: 11385789--11385844 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 8
11385779 ATTGTTGTTA
11385789 TTATTATT
1 TTATTATT
11385797 ATTATTATCT
1 -TTATTAT-T
11385807 TTAGTTATT
1 TTA-TTATT
11385816 TT-TTATT
1 TTATTATT
*
11385823 ATATTATT
1 TTATTATT
*
11385831 TTATAAGTT
1 TTATTA-TT
11385840 TTATT
1 TTATT
11385845 TTAATTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 6 0.15
8 9 0.23
9 19 0.49
10 5 0.13
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.68
Consensus pattern (8 bp):
TTATTATT
Found at i:11385841 original size:23 final size:26
Alignment explanation
Indices: 11385792--11385841 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 26
11385782 GTTGTTATTA
* *
11385792 TTATTATTATTATCTTTAGTTATTTT
1 TTATTATTATTATCTTTAGTAAGTTT
11385818 TTATTA-TATTAT-TTTA-TAAGTTT
1 TTATTATTATTATCTTTAGTAAGTTT
11385841 T
1 T
11385842 ATTTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 6 0.27
24 4 0.18
25 6 0.27
26 6 0.27
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (26 bp):
TTATTATTATTATCTTTAGTAAGTTT
Found at i:11385974 original size:3 final size:3
Alignment explanation
Indices: 11385966--11385992 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11385956 AACATGCATA
11385966 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
11385993 TCAAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11386412 original size:11 final size:11
Alignment explanation
Indices: 11386385--11386417 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11386375 GCTGTGTCGA
11386385 TCACCAAAAAT
1 TCACCAAAAAT
*
11386396 GC-CCAAAAAT
1 TCACCAAAAAT
11386406 TCACCAAAAAT
1 TCACCAAAAAT
11386417 T
1 T
11386418 TCTCTCGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.18
Consensus pattern (11 bp):
TCACCAAAAAT
Found at i:11388577 original size:20 final size:21
Alignment explanation
Indices: 11388540--11388578 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11388530 CCATTATAAC
11388540 TATATTAATATATATTTTTAT
1 TATATTAATATATATTTTTAT
* *
11388561 TATA-TAATTTATCTTTTT
1 TATATTAATATATATTTTT
11388579 TGTCATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATTAATATATATTTTTAT
Found at i:11401718 original size:32 final size:32
Alignment explanation
Indices: 11401674--11401752 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
11401664 ATTCATACAT
*
11401674 ATATATAAATTAAATATAAAAATAT-ATATTTTA
1 ATAT-TAAATTAAATATAAAAATATAATA-TATA
* * *
11401707 ATATTAAATTAAATTTAAATATTTAATATATA
1 ATATTAAATTAAATATAAAAATATAATATATA
*
11401739 AAATTAAATTAAAT
1 ATATTAAATTAAAT
11401753 TTGAAACGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
32 33 0.82
33 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
ATATTAAATTAAATATAAAAATATAATATATA
Found at i:11401737 original size:27 final size:25
Alignment explanation
Indices: 11401699--11401752 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
11401689 ATAAAAATAT
* *
11401699 ATATTTTAATATTAAATTAAATTTAA
1 ATATTTAAATATAAAATTAAA-TTAA
11401725 ATATTTAATATATAAAATTAAATTAA
1 ATATTTAA-ATATAAAATTAAATTAA
11401751 AT
1 AT
11401753 TTGAAACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATTTAAATATAAAATTAAATTAA
Found at i:11401745 original size:21 final size:20
Alignment explanation
Indices: 11401672--11401747 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
11401662 AAATTCATAC
*
11401672 ATATATATAAATTAAATATAA
1 ATATATA-AAATTAAATATTA
* * * *
11401693 AAATATATATTTTAATATTA
1 ATATATAAAATTAAATATTA
*
11401713 A-AT-TAAATTTAAATATTTA
1 ATATATAAAATTAAATA-TTA
11401732 ATATATAAAATTAAAT
1 ATATATAAAATTAAAT
11401748 TAAATTTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 10 0.23
19 6 0.14
20 12 0.27
21 16 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATATAAAATTAAATATTA
Found at i:11402269 original size:18 final size:19
Alignment explanation
Indices: 11402246--11402281 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11402236 ATACAAGCCT
*
11402246 TTAAAAAT-GTATTTTATA
1 TTAAAAATAATATTTTATA
11402264 TTAAAAATAATATTTTAT
1 TTAAAAATAATATTTTAT
11402282 TAATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAAAAATAATATTTTATA
Found at i:11402390 original size:27 final size:25
Alignment explanation
Indices: 11402345--11402398 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
11402335 TATAAAATAT
* *
11402345 ATATTTTAATATTAAATTAAATTTAA
1 ATATTTAAATATAAAATTAAA-TTAA
11402371 ATATTTAACATATAAAATTAAATTAA
1 ATATTTAA-ATATAAAATTAAATTAA
11402397 AT
1 AT
11402399 TTAAAACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTTAAATATAAAATTAAATTAA
Found at i:11402645 original size:27 final size:29
Alignment explanation
Indices: 11402627--11402688 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
11402617 ATTAATTGAT
11402627 AAATTTAT-A-ATTTAAATATTATATTAA
1 AAATTTATAATATTTAAATATTATATTAA
* * *
11402654 AAATTTTTAATATTTAAATATAAAATTAA
1 AAATTTATAATATTTAAATATTATATTAA
*
11402683 ATATTT
1 AAATTT
11402689 TATTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 1 0.03
29 21 0.72
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATTTATAATATTTAAATATTATATTAA
Found at i:11403055 original size:18 final size:18
Alignment explanation
Indices: 11403013--11403061 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
11403003 TTTTAAAAAA
11403013 TTTTAATTATAA-ATTTAT
1 TTTTAA-TATAATATTTAT
*
11403031 TAATTAATATAATATTTAT
1 T-TTTAATATAATATTTAT
*
11403050 TTTTAAAATAAT
1 TTTTAATATAAT
11403062 TAATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAATATAATATTTAT
Found at i:11403106 original size:22 final size:20
Alignment explanation
Indices: 11403067--11403113 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
11403057 ATAATTAATT
11403067 TTAA-ATAATAACACATTATA
1 TTAATATAATAACACATTA-A
* *
11403087 TATAATATAATAATATATTAA
1 T-TAATATAATAACACATTAA
11403108 TTAATA
1 TTAATA
11403114 AATTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 12 0.52
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATATAATAACACATTAA
Found at i:11403387 original size:28 final size:28
Alignment explanation
Indices: 11403369--11403436 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
11403359 TTTATAATTC
11403369 AAATTTATTTAATATTTATTTTACAGTA
1 AAATTTATTTAATATTTATTTTACAGTA
*
11403397 AAATTTTTTTAATATTT-TTATTA-A--A
1 AAATTTATTTAATATTTATT-TTACAGTA
11403422 AATATTTATTTAATA
1 AA-ATTTATTTAATA
11403437 AATATATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 3 0.08
26 11 0.31
27 3 0.08
28 19 0.53
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (28 bp):
AAATTTATTTAATATTTATTTTACAGTA
Found at i:11403474 original size:10 final size:11
Alignment explanation
Indices: 11403413--11403468 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
11403403 TTTTAATATT
11403413 TTTATTAAAAATA
1 TTTATT-AAAA-A
11403426 TTTATTTAATAAA
1 TTTA-TTAA-AAA
* *
11403439 TATA-TCAAAA
1 TTTATTAAAAA
11403449 TTTATTAAAAA
1 TTTATTAAAAA
11403460 TTTATTAAA
1 TTTATTAAA
11403469 TTTTATACGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 6 0.17
11 16 0.44
13 10 0.28
14 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
TTTATTAAAAA
Found at i:11408132 original size:17 final size:16
Alignment explanation
Indices: 11408096--11408143 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
11408086 GAGCCCCAGA
* **
11408096 TTTCCTTGTCATTTTA
1 TTTCCTTTTCATTTCG
11408112 TTTCCTTTTCAATTTCG
1 TTTCCTTTTC-ATTTCG
*
11408129 TTTCTTTTTCATTTC
1 TTTCCTTTTCATTTC
11408144 CATATTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.10, C:0.21, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTCCTTTTCATTTCG
Found at i:11410111 original size:16 final size:15
Alignment explanation
Indices: 11410092--11410121 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11410082 TAATAATTCT
11410092 TTTATTTATATAATAA
1 TTTATTTA-ATAATAA
11410108 TTTATTTAATAATA
1 TTTATTTAATAATA
11410122 TTGTTACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATTTAATAATAA
Found at i:11411145 original size:14 final size:14
Alignment explanation
Indices: 11411126--11411159 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
11411116 GTATTTAAAT
11411126 ATTTAT-AATATTTA
1 ATTTATGAAT-TTTA
11411140 ATTTATGAATTTTA
1 ATTTATGAATTTTA
11411154 ATTTAT
1 ATTTAT
11411160 TTTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTTATGAATTTTA
Found at i:11411170 original size:20 final size:19
Alignment explanation
Indices: 11411150--11411192 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
11411140 ATTTATGAAT
11411150 TTTAATTTATTTTTATTAA
1 TTTAATTTATTTTTATTAA
*
11411169 TTTAA-ATATTTTT-TTAA
1 TTTAATTTATTTTTATTAA
11411186 TTTAATT
1 TTTAATT
11411193 ATAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 7 0.33
19 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTAATTTATTTTTATTAA
Found at i:11411887 original size:38 final size:38
Alignment explanation
Indices: 11411789--11411878 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
11411779 TAAAATCATA
* * * *
11411789 AATTTTTTCTGTTATCATTTTTAAATTTATTACATAAT
1 AATTTTTTTTATTATCCTTTTTAAATTTATCACATAAT
* *
11411827 AATTTTTTTTATTATCCTTTTTAAATTTGTCCCATAAT
1 AATTTTTTTTATTATCCTTTTTAAATTTATCACATAAT
11411865 AGATTTATTTTTAT
1 A-ATTT-TTTTTAT
11411879 CTCTTTTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
38 33 0.75
39 4 0.09
40 7 0.16
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (38 bp):
AATTTTTTTTATTATCCTTTTTAAATTTATCACATAAT
Found at i:11412086 original size:31 final size:31
Alignment explanation
Indices: 11412048--11412106 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
11412038 TGATAAGGGT
*
11412048 TTGTTAAAATAATGTTATTTTTTATTTAGGC
1 TTGTTAAAATAATGTTATTTTATATTTAGGC
11412079 TTGTTAAAATAATGTTATTTTATATTTA
1 TTGTTAAAATAATGTTATTTTATATTTA
11412107 ATAAATATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (31 bp):
TTGTTAAAATAATGTTATTTTATATTTAGGC
Found at i:11412247 original size:33 final size:33
Alignment explanation
Indices: 11412200--11412311 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
11412190 TCTATTACTT
* *
11412200 TTTTTAAATATATTTTAATACATTTTGTTGCTC
1 TTTTCAAATTTATTTTAATACATTTTGTTGCTC
* *
11412233 TTTTCAAATCTATTTTAACACA---TGTTG-TC
1 TTTTCAAATTTATTTTAATACATTTTGTTGCTC
* * * * * *
11412262 ATTTTTAAATTTGTCTTAATACCTTTTGTTACCC
1 -TTTTCAAATTTATTTTAATACATTTTGTTGCTC
11412296 TTTTCAAATTTATTTT
1 TTTTCAAATTTATTTT
11412312 GTTACCTTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
29 2 0.03
30 21 0.35
33 36 0.60
34 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (33 bp):
TTTTCAAATTTATTTTAATACATTTTGTTGCTC
Found at i:11412315 original size:23 final size:23
Alignment explanation
Indices: 11412285--11412329 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
11412275 TCTTAATACC
11412285 TTTTGTTACCCTTTTCAAATTTA
1 TTTTGTTACCCTTTTCAAATTTA
* *
11412308 TTTTGTTACCTTTTTTAAATTT
1 TTTTGTTACCCTTTTCAAATTT
11412330 GTCATGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTGTTACCCTTTTCAAATTTA
Found at i:11420791 original size:15 final size:16
Alignment explanation
Indices: 11420757--11420794 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11420747 TTATACAATC
11420757 ATTTAAAAAAAATAAT
1 ATTTAAAAAAAATAAT
* *
11420773 ATTTAATAAAATTAA-
1 ATTTAAAAAAAATAAT
11420788 ATTTAAA
1 ATTTAAA
11420795 TTTTAATACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTTAAAAAAAATAAT
Found at i:11420997 original size:3 final size:3
Alignment explanation
Indices: 11420989--11421021 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11420979 CCTAAACATG
11420989 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11421022 ATGAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11423554 original size:20 final size:20
Alignment explanation
Indices: 11423531--11423573 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11423521 TTTATAAAAA
11423531 TTTAAAATTTTGTAAAACAT
1 TTTAAAATTTTGTAAAACAT
11423551 TTTAAAATTTTGTAAAACAT
1 TTTAAAATTTTGTAAAACAT
11423571 TTT
1 TTT
11423574 TACTTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTAAAATTTTGTAAAACAT
Found at i:11425351 original size:84 final size:84
Alignment explanation
Indices: 11425210--11425376 Score: 316
Period size: 84 Copynumber: 2.0 Consensus size: 84
11425200 AATCCTAGGC
*
11425210 GGAAGTAGTAGTCTTCTGGCATTTTATGTACTTACTCCTGATTGGATATTCAATGTTCTTTATTG
1 GGAAGTAGTAGTCTTCTGGCATTTTATATACTTACTCCTGATTGGATATTCAATGTTCTTTATTG
11425275 ATATCCCTATACTGATGTG
66 ATATCCCTATACTGATGTG
11425294 GGAAGTAGTAGTCTTCTGGCATTTTATATACTTACTCCTGATTGGATATTCAATGTTCTTTATTG
1 GGAAGTAGTAGTCTTCTGGCATTTTATATACTTACTCCTGATTGGATATTCAATGTTCTTTATTG
*
11425359 ATATCCCTATGCTGATGT
66 ATATCCCTATACTGATGT
11425377 CATTTTTCTG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.43
Consensus pattern (84 bp):
GGAAGTAGTAGTCTTCTGGCATTTTATATACTTACTCCTGATTGGATATTCAATGTTCTTTATTG
ATATCCCTATACTGATGTG
Found at i:11442180 original size:21 final size:22
Alignment explanation
Indices: 11442151--11442198 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
11442141 AACTGTAGGT
11442151 AAAATGTTG-GATTCTGATGAAG
1 AAAATGTTGAGATT-TGATGAAG
*
11442173 AAAA-GTTGAGATTTGTTGAAG
1 AAAATGTTGAGATTTGATGAAG
*
11442194 GAAAT
1 AAAAT
11442199 CTTGCTGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.27, T:0.31
Consensus pattern (22 bp):
AAAATGTTGAGATTTGATGAAG
Found at i:11453939 original size:34 final size:34
Alignment explanation
Indices: 11453901--11453990 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 34
11453891 AATTTAATTG
11453901 AAATTAAATTTTATTAATTTGATTATTA-A-ATTTT
1 AAATTAAATTTTATT-ATTT-ATTATTATATATTTT
*
11453935 AAATTTAATTTT-TTATTTATTATTATATTATTTT
1 AAATTAAATTTTATTATTTATTATTATA-TATTTT
11453969 -AATATAAATTTTAATATATTTA
1 AAAT-TAAATTTT-AT-TATTTA
11453991 AATAAATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
31 7 0.15
32 5 0.11
33 5 0.11
34 23 0.49
36 1 0.02
37 6 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (34 bp):
AAATTAAATTTTATTATTTATTATTATATATTTT
Found at i:11454067 original size:50 final size:54
Alignment explanation
Indices: 11453956--11454071 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 54
11453946 TTTATTTATT
* * ** *
11453956 ATTATATTATTTTAATATAAATTTTAATATATTTAAATAAATTTACATAAAATA
1 ATTATTTTATTTTAATAAAAATTTTAATATATTTAAATAAAAATAAATAAAATA
11454010 ATTATTTTATTTT-ATAAAAATTTTAA-AT-TTT-AATAAAAATAAAT-AAATA
1 ATTATTTTATTTTAATAAAAATTTTAATATATTTAAATAAAAATAAATAAAATA
11454059 ATTCATTTTATTT
1 ATT-ATTTTATTT
11454072 CATTTTTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
49 8 0.14
50 19 0.34
51 3 0.05
52 2 0.04
53 12 0.21
54 12 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (54 bp):
ATTATTTTATTTTAATAAAAATTTTAATATATTTAAATAAAAATAAATAAAATA
Found at i:11454507 original size:16 final size:18
Alignment explanation
Indices: 11454486--11454528 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
11454476 AATTTATTGA
11454486 TTTTTAATTTTTA-AT-T
1 TTTTTAATTTTTATATAT
11454502 TTTTTAATTTTTATATAT
1 TTTTTAATTTTTATATAT
11454520 TATTTTAAT
1 T-TTTTAAT
11454529 ATAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.54
17 2 0.08
18 2 0.08
19 7 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTAATTTTTATATAT
Found at i:11454530 original size:13 final size:13
Alignment explanation
Indices: 11454508--11454546 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
11454498 AATTTTTTTA
*
11454508 ATTTTTATATATT
1 ATTTTAATATATT
**
11454521 ATTTTAATATAAA
1 ATTTTAATATATT
11454534 ATTTTAATATATT
1 ATTTTAATATATT
11454547 TAAGTAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:11454622 original size:18 final size:19
Alignment explanation
Indices: 11454586--11454624 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
11454576 TTTATTTTAA
11454586 AAAATTTTAAAATATATAT
1 AAAATTTTAAAATATATAT
11454605 AAAATTTTAAAA-ATATAT
1 AAAATTTTAAAATATATAT
11454623 AA
1 AA
11454625 TTTGATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTTTAAAATATATAT
Found at i:11457796 original size:39 final size:39
Alignment explanation
Indices: 11457682--11457797 Score: 91
Period size: 39 Copynumber: 3.0 Consensus size: 39
11457672 ATTTATTAAC
*
11457682 TTATCTAAAAATATTAAATTTAAATAATCTATTAAATAA
1 TTATCTAAAAATATTAAATTTAAATAATTTATTAAATAA
* * * *
11457721 TT-T-T-TAACTTTTGATATATTT---TGATTTGAATCTAAATAA
1 TTATCTAAAAATATT-A-A-ATTTAAATAATTT--AT-TAAATAA
11457760 TTATCTAAAAATATTAAATTTAAATAATTTATTAAATA
1 TTATCTAAAAATATTAAATTTAAATAATTTATTAAATA
11457798 GAATTATTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 24
0.63 0.10 0.27
Matches are distributed among these distances:
36 9 0.16
37 2 0.04
38 4 0.07
39 25 0.45
40 4 0.07
41 2 0.04
42 10 0.18
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (39 bp):
TTATCTAAAAATATTAAATTTAAATAATTTATTAAATAA
Found at i:11463469 original size:27 final size:26
Alignment explanation
Indices: 11463431--11463482 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
11463421 CGATTTAGAT
* * *
11463431 TTTTTATTAAAATTTTTATTAATTTA
1 TTTTTAATAAAAATTTTATGAATTTA
11463457 TTTTTAATAAAAATTTTATGAATTTA
1 TTTTTAATAAAAATTTTATGAATTTA
11463483 ACTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTTAATAAAAATTTTATGAATTTA
Found at i:11464659 original size:19 final size:19
Alignment explanation
Indices: 11464622--11464658 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11464612 TTTTTTTATA
*
11464622 AAATATAAGTATATATTTT
1 AAATAAAAGTATATATTTT
11464641 AAATAAAAGTATAT-TTTT
1 AAATAAAAGTATATATTTT
11464659 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
AAATAAAAGTATATATTTT
Found at i:11465695 original size:15 final size:16
Alignment explanation
Indices: 11465675--11465710 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
11465665 TTCTTAAACT
11465675 AAAAAAATATTTTAA-
1 AAAAAAATATTTTAAG
*
11465690 AAAAAATTATTTTAAG
1 AAAAAAATATTTTAAG
11465706 AAAAA
1 AAAAA
11465711 GTTGAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAAAAATATTTTAAG
Found at i:11465831 original size:57 final size:54
Alignment explanation
Indices: 11465691--11465853 Score: 152
Period size: 57 Copynumber: 3.0 Consensus size: 54
11465681 ATATTTTAAA
* * * *
11465691 AAAAATTATTTTAAGAAAAAGTTGAAATATC-AATTTTTTT-AAAATAAATTTTT
1 AAAAA-TATTTTAAGGAAAAGTTAAAATATCAAATTTTTTTAAAAAAAAATTTTC
* *
11465744 AAAAATATTTTAAGGAAAAATTAAAGTATCAAATTTTTTTAAAACAAAAATAATTTC
1 AAAAATATTTTAAGGAAAAGTTAAAATATCAAATTTTTTTAAAA-AAAAAT--TTTC
* * * **
11465801 AAAAA-ATTTTGAGTAAAGAGTTAAAATATCAATCTTTTTTTAAAGGAAAATTT
1 AAAAATATTTTAAGGAAA-AGTTAAAATATCAA-ATTTTTTTAAAAAAAAATTT
11465854 GAAAAAATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
52 21 0.23
53 14 0.16
54 3 0.03
55 7 0.08
56 10 0.11
57 25 0.28
58 10 0.11
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (54 bp):
AAAAATATTTTAAGGAAAAGTTAAAATATCAAATTTTTTTAAAAAAAAATTTTC
Found at i:11466427 original size:15 final size:16
Alignment explanation
Indices: 11466407--11466439 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11466397 GATTAAGGGG
*
11466407 TTAACTTT-CTTTAAT
1 TTAACTTTGCATTAAT
11466422 TTAACTTTGCATTAAT
1 TTAACTTTGCATTAAT
11466438 TT
1 TT
11466440 GACTCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (16 bp):
TTAACTTTGCATTAAT
Found at i:11469851 original size:12 final size:11
Alignment explanation
Indices: 11469836--11469895 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
11469826 AAAGGAGAGG
11469836 GGAACAGAGGGA
1 GGAA-AGAGGGA
*
11469848 GGAAGGAGTGGA
1 GGAAAGAG-GGA
*
11469860 GGAAAGAACGGA
1 GGAAAG-AGGGA
11469872 GGAAAGAGCGGA
1 GGAAAGAG-GGA
11469884 -G-AAGAGGGA
1 GGAAAGAGGGA
11469893 GGA
1 GGA
11469896 GGAAGAAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
9 3 0.08
10 6 0.15
11 5 0.13
12 24 0.62
13 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.52, T:0.02
Consensus pattern (11 bp):
GGAAAGAGGGA
Found at i:11469851 original size:24 final size:25
Alignment explanation
Indices: 11469819--11469877 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
11469809 AGTGGAATAT
11469819 GGGACGGAAAGGAGAGG-GGAACAG-A
1 GGGA-GGAAAGGAGAGGAGGAA-AGAA
*
11469844 GGGAGG-AAGGAGTGGAGGAAAGAA
1 GGGAGGAAAGGAGAGGAGGAAAGAA
*
11469868 CGGAGGAAAG
1 GGGAGGAAAG
11469878 AGCGGAGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 10 0.34
24 12 0.41
25 7 0.24
ACGTcount: A:0.41, C:0.05, G:0.53, T:0.02
Consensus pattern (25 bp):
GGGAGGAAAGGAGAGGAGGAAAGAA
Found at i:11470026 original size:12 final size:12
Alignment explanation
Indices: 11470011--11470037 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11470001 GGAACGAAGT
11470011 AAGGAGGAAGAG
1 AAGGAGGAAGAG
11470023 AAGGAGGAAGAG
1 AAGGAGGAAGAG
11470035 AAG
1 AAG
11470038 CTAGGGCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (12 bp):
AAGGAGGAAGAG
Found at i:11472987 original size:22 final size:22
Alignment explanation
Indices: 11472959--11473002 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11472949 CATACAATGT
11472959 CACTTATTATACAAGGATATCC
1 CACTTATTATACAAGGATATCC
11472981 CACTTATTATACAAGGATATCC
1 CACTTATTATACAAGGATATCC
11473003 ATCAGATTGT
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:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
CACTTATTATACAAGGATATCC
Found at i:11473413 original size:3 final size:3
Alignment explanation
Indices: 11473400--11473442 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
11473390 AATTGAACCA
11473400 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11473443 CCACCTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11475260 original size:80 final size:81
Alignment explanation
Indices: 11475104--11475269 Score: 307
Period size: 80 Copynumber: 2.1 Consensus size: 81
11475094 ACTATTTTGA
11475104 TACACAAATCAAAAGTTTAAGCACCTAATTAAAATTTTTTTTTAATTTAGATATCACATTAAAAC
1 TACACAAATCAAAAGTTTAAGCACCTAATTAAAATTTTTTTTTAATTTAGATATCACATTAAAAC
*
11475169 AAATACTTTGAGAGAC
66 AAATACCTTGAGAGAC
11475185 TACACAAATCAAAAGTTTAAGCACCTAATT-AAATTTTTTTTTAATTTAGATATCACATTAAAAC
1 TACACAAATCAAAAGTTTAAGCACCTAATTAAAATTTTTTTTTAATTTAGATATCACATTAAAAC
*
11475249 AAATACCTTGAGAGGC
66 AAATACCTTGAGAGAC
11475265 TACAC
1 TACAC
11475270 GGGACATTAT
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
80 53 0.64
81 30 0.36
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (81 bp):
TACACAAATCAAAAGTTTAAGCACCTAATTAAAATTTTTTTTTAATTTAGATATCACATTAAAAC
AAATACCTTGAGAGAC
Found at i:11475357 original size:23 final size:22
Alignment explanation
Indices: 11475313--11475357 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
11475303 TAGAACCAAT
*
11475313 TTAAAACATGATTAAGTGATAA
1 TTAAAACATGATTAAGTAATAA
11475335 TTAAAAGCATGATGTAA-TAATAA
1 TTAAAA-CATGAT-TAAGTAATAA
11475358 AATATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 11 0.55
24 3 0.15
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.31
Consensus pattern (22 bp):
TTAAAACATGATTAAGTAATAA
Found at i:11475533 original size:2 final size:2
Alignment explanation
Indices: 11475526--11475556 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11475516 TAGACAATAG
11475526 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11475557 GAATTGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11479540 original size:15 final size:16
Alignment explanation
Indices: 11479515--11479547 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11479505 TAATTAAATT
*
11479515 TAGTGTTAAAATTTAA
1 TAGTGTTAAAATTAAA
11479531 TAGT-TTAAAATTAAA
1 TAGTGTTAAAATTAAA
11479546 TA
1 TA
11479548 TTAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
TAGTGTTAAAATTAAA
Found at i:11479580 original size:18 final size:17
Alignment explanation
Indices: 11479555--11479588 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11479545 ATATTAAAAT
*
11479555 AAAAATAAAATTAATTG
1 AAAAATAAAAATAATTG
11479572 AAAAGATAAAAATAATT
1 AAAA-ATAAAAATAATT
11479589 TAAATGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AAAAATAAAAATAATTG
Found at i:11481159 original size:13 final size:14
Alignment explanation
Indices: 11481134--11481162 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11481124 ATAATGAATA
11481134 AAAAAATTAATTTT
1 AAAAAATTAATTTT
11481148 AAAAAATT-ATTTT
1 AAAAAATTAATTTT
11481161 AA
1 AA
11481163 CTACATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAAATTAATTTT
Found at i:11486918 original size:15 final size:15
Alignment explanation
Indices: 11486898--11486932 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11486888 TTATTTTATT
*
11486898 AAATGTATTAAATGA
1 AAATGTAATAAATGA
*
11486913 AAATGTAATGAATGA
1 AAATGTAATAAATGA
11486928 AAATG
1 AAATG
11486933 CACGCATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (15 bp):
AAATGTAATAAATGA
Found at i:11490310 original size:3 final size:3
Alignment explanation
Indices: 11490302--11490383 Score: 114
Period size: 3 Copynumber: 27.0 Consensus size: 3
11490292 AATTCTAATC
11490302 TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAGA -AGA -AA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TA-A TAA
*
11490348 TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11490384 AAAATAAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
2 1 0.01
3 69 0.93
4 4 0.05
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:11490867 original size:10 final size:10
Alignment explanation
Indices: 11490831--11490882 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
11490821 TGGGATTCTG
*
11490831 AAAAATTTTC
1 AAAAATTTTA
11490841 AAAAATTTTCCAAA
1 AAAAATTTT----A
11490855 AAAAATTTTA
1 AAAAATTTTA
*
11490865 AAAAATTCTA
1 AAAAATTTTA
11490875 AAAAATTT
1 AAAAATTT
11490883 CCCAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 26 0.74
14 9 0.26
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:11490879 original size:24 final size:24
Alignment explanation
Indices: 11490831--11490879 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11490821 TGGGATTCTG
* * **
11490831 AAAAATTTTCAAAAATTTTCCAAA
1 AAAAATTTTAAAAAATTCTAAAAA
11490855 AAAAATTTTAAAAAATTCTAAAAA
1 AAAAATTTTAAAAAATTCTAAAAA
11490879 A
1 A
11490880 TTTCCCAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAAATTTTAAAAAATTCTAAAAA
Found at i:11491143 original size:5 final size:6
Alignment explanation
Indices: 11491128--11491153 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11491118 TCTTAGTCGA
11491128 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
11491154 TAGATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:11491170 original size:18 final size:17
Alignment explanation
Indices: 11491142--11491232 Score: 75
Period size: 18 Copynumber: 5.4 Consensus size: 17
11491132 ATAAAAATAA
*
11491142 AAATAAAAATAATAGAT
1 AAATAATAATAATAGAT
11491159 AAATAATTAATAGATA-ACT
1 AAATAA-TAATA-ATAGA-T
*
11491178 AAA-AGAAAATAATTAGAT
1 AAATA-ATAATAA-TAGAT
11491196 AAATAATAATAATA-AT
1 AAATAATAATAATAGAT
*
11491212 -AATAATAATAAT-GAA
1 AAATAATAATAATAGAT
11491227 AAATAA
1 AAATAA
11491233 AAAATAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 19
0.73 0.05 0.23
Matches are distributed among these distances:
15 13 0.21
16 7 0.11
17 9 0.15
18 22 0.36
19 10 0.16
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.26
Consensus pattern (17 bp):
AAATAATAATAATAGAT
Found at i:11491205 original size:3 final size:3
Alignment explanation
Indices: 11491131--11491223 Score: 64
Period size: 3 Copynumber: 29.0 Consensus size: 3
11491121 TAGTCGAAAA
* * *
11491131 AAT AAA AAT AAA AAT AAA AAT AAT AGAT AAAT AATT AAT AGAT AACT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AA-T AAT A-AT AA-T
*
11491178 AA- AAG AA- AAT AATT AGAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
11491224 GAAAAATAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
2 4 0.05
3 49 0.66
4 18 0.24
5 3 0.04
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:11492838 original size:18 final size:18
Alignment explanation
Indices: 11492815--11492849 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11492805 AACTTTAGAA
11492815 AAGTTTCTCCTGTACATC
1 AAGTTTCTCCTGTACATC
* *
11492833 AAGTTTTTCTTGTACAT
1 AAGTTTCTCCTGTACAT
11492850 TACTTTATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (18 bp):
AAGTTTCTCCTGTACATC
Found at i:11493296 original size:17 final size:16
Alignment explanation
Indices: 11493271--11493304 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11493261 TTTTCAAATC
11493271 AGCTATAATATTTTTTT
1 AGCTATAAT-TTTTTTT
*
11493288 AGCTGTAATTTTTTTT
1 AGCTATAATTTTTTTT
11493304 A
1 A
11493305 AACTATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (16 bp):
AGCTATAATTTTTTTT
Found at i:11494870 original size:19 final size:21
Alignment explanation
Indices: 11494846--11494887 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
11494836 CCTATTTTCT
11494846 TTCTTTTTT-TTT-TTTCTTC
1 TTCTTTTTTCTTTATTTCTTC
11494865 TTCTTTTTTCTTTCATTTCTTC
1 TTCTTTTTTCTTT-ATTTCTTC
11494887 T
1 T
11494888 AGAATTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 3 0.15
22 8 0.40
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTCTTTTTTCTTTATTTCTTC
Found at i:11494884 original size:16 final size:15
Alignment explanation
Indices: 11494840--11494885 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
11494830 ACGCCACCTA
11494840 TTTTCTTTCTTT-TT
1 TTTTCTTTCTTTCTT
11494854 TTTT-TTTCTTCTTCTT
1 TTTTCTTTC-T-TTCTT
11494870 TTTTCTTTCATTTCTT
1 TTTTCTTTC-TTTCTT
11494886 CTAGAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.15
14 5 0.19
15 2 0.07
16 11 0.41
17 5 0.19
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTCTTTCTT
Done.