Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 63 of 100
Found at i:11504893 original size:15 final size:16
Alignment explanation
Indices: 11504866--11504895 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11504856 ACTCTTCAGT
11504866 AATAAATATACAAATA
1 AATAAATATACAAATA
11504882 AATAAA-ATACAAAT
1 AATAAATATACAAAT
11504896 TTTGTACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAATATACAAATA
Found at i:11507125 original size:23 final size:23
Alignment explanation
Indices: 11507099--11507159 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 23
11507089 TAGTTCGTGC
11507099 ACATTAAACAAACATGTTCATAA
1 ACATTAAACAAACATGTTCATAA
* *
11507122 ACATATATAAACGAACATGTTCATGA
1 AC--AT-TAAACAAACATGTTCATAA
*
11507148 ACAATAAACAAA
1 ACATTAAACAAA
11507160 TCAGAACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 9 0.29
24 1 0.03
25 2 0.06
26 19 0.61
ACGTcount: A:0.54, C:0.16, G:0.07, T:0.23
Consensus pattern (23 bp):
ACATTAAACAAACATGTTCATAA
Found at i:11511620 original size:16 final size:16
Alignment explanation
Indices: 11511576--11511613 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11511566 GTGATTTTGG
*
11511576 ATTTAAATTATTAT-AA
1 ATTTGAATTATT-TCAA
11511592 ATTTGAATTATTTCAA
1 ATTTGAATTATTTCAA
11511608 ATTTGA
1 ATTTGA
11511614 TTCATTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (16 bp):
ATTTGAATTATTTCAA
Found at i:11513210 original size:1 final size:1
Alignment explanation
Indices: 11513204--11513242 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
11513194 TTATCCCTTG
* *
11513204 TTTTTTTTTTTTGTTTGTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11513243 GAGTTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.05, T:0.95
Consensus pattern (1 bp):
T
Found at i:11513223 original size:17 final size:16
Alignment explanation
Indices: 11513201--11513242 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
11513191 GCATTATCCC
11513201 TTGTTTTTTTTTTTTGT
1 TTGTTTTTTTTTTTT-T
11513218 TTGTTTTTTTTTTTTT
1 TTGTTTTTTTTTTTTT
11513234 TT-TTTTTTT
1 TTGTTTTTTT
11513243 GAGTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.28
16 3 0.12
17 15 0.60
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (16 bp):
TTGTTTTTTTTTTTTT
Found at i:11513249 original size:23 final size:23
Alignment explanation
Indices: 11513204--11513249 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11513194 TTATCCCTTG
**
11513204 TTTTTTTTTTTTGTTTGTTTTTT
1 TTTTTTTTTTTTGTTTGAGTTTT
*
11513227 TTTTTTTTTTTTTTTTGAGTTTT
1 TTTTTTTTTTTTGTTTGAGTTTT
11513250 CTTCTGTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (23 bp):
TTTTTTTTTTTTGTTTGAGTTTT
Found at i:11515164 original size:18 final size:17
Alignment explanation
Indices: 11515131--11515167 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
11515121 ATTTTATTTT
11515131 ATTTTATTTATAATATC
1 ATTTTATTTATAATATC
*
11515148 ATTTTATCTTATCATATC
1 ATTTTAT-TTATAATATC
11515166 AT
1 AT
11515168 AATTTTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTTATAATATC
Found at i:11515592 original size:29 final size:28
Alignment explanation
Indices: 11515530--11515595 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
11515520 TAAATTTATC
11515530 AAATTATTTAAAAAATAAATAAAAATAA
1 AAATTATTTAAAAAATAAATAAAAATAA
* *
11515558 AAATTATTTGAATAAATTAAATAATAA-AA
1 AAATTATTT-AA-AAAATAAATAAAAATAA
*
11515587 TAATTATTT
1 AAATTATTT
11515596 CGATAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 9 0.27
29 12 0.36
30 12 0.36
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
AAATTATTTAAAAAATAAATAAAAATAA
Found at i:11515604 original size:32 final size:25
Alignment explanation
Indices: 11515543--11515607 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 25
11515533 TTATTTAAAA
11515543 AATAAATAAAAATAAAAATTATTTG
1 AATAAATAAAAATAAAAATTATTTG
11515568 AATAAATTAAATAATAAAATAATTATTTCG
1 AATAAA-TAAA-AAT-AAA-AATTATTT-G
11515598 -AT-AATAAAAA
1 AATAAATAAAAA
11515608 AATGTTGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 6 0.17
26 6 0.17
27 7 0.20
28 5 0.14
29 10 0.29
30 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (25 bp):
AATAAATAAAAATAAAAATTATTTG
Found at i:11516460 original size:11 final size:12
Alignment explanation
Indices: 11516420--11516460 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
11516410 AAGTTTATTT
11516420 AAATATATTAAA
1 AAATATATTAAA
*
11516432 AATTATATTAAA
1 AAATATATTAAA
11516444 ATAATATA-TAAA
1 A-AATATATTAAA
11516456 AAATA
1 AAATA
11516461 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 4 0.15
12 17 0.65
13 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATATATTAAA
Found at i:11520352 original size:25 final size:25
Alignment explanation
Indices: 11520318--11520398 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
11520308 TTTTCTTAAA
*
11520318 AAAAAAAAGCAAACATAAAAAAGAG
1 AAAAAAAAGCAAAAATAAAAAAGAG
* *
11520343 AAAAAAAAGCAAAAATGAAAAAGAC
1 AAAAAAAAGCAAAAATAAAAAAGAG
11520368 AAACATAAAA--AAAGAA-AAAAAA-AG
1 AAA-A-AAAAGCAAA-AATAAAAAAGAG
11520392 AAAAAAA
1 AAAAAAA
11520399 GGAGATGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.06
23 1 0.02
24 4 0.08
25 33 0.69
26 3 0.06
27 4 0.08
ACGTcount: A:0.80, C:0.06, G:0.10, T:0.04
Consensus pattern (25 bp):
AAAAAAAAGCAAAAATAAAAAAGAG
Found at i:11520390 original size:40 final size:39
Alignment explanation
Indices: 11520321--11520397 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 39
11520311 TCTTAAAAAA
*
11520321 AAAAAGCAAACATAAAAAAGAGAAAAAAAAGCAAAAATG
1 AAAAAGCAAACATAAAAAAGAGAAAAAAAAGAAAAAATG
11520360 AAAAAGACAAACATAAAAAA-AGAAAAAAAAAGAAAAAA
1 AAAAAG-CAAACATAAAAAAGAG-AAAAAAAAGAAAAAA
11520398 AGGAGATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
39 8 0.23
40 27 0.77
ACGTcount: A:0.79, C:0.06, G:0.10, T:0.04
Consensus pattern (39 bp):
AAAAAGCAAACATAAAAAAGAGAAAAAAAAGAAAAAATG
Found at i:11520972 original size:15 final size:14
Alignment explanation
Indices: 11520954--11521041 Score: 64
Period size: 12 Copynumber: 6.6 Consensus size: 14
11520944 TATTTTTGTA
11520954 ATTATTATAGTATAT
1 ATTATTATA-TATAT
*
11520969 ATTATAATATA-AT
1 ATTATTATATATAT
** *
11520982 ATTATGGTATA-CT
1 ATTATTATATATAT
11520995 ATTATTA-ATATCATT
1 ATTATTATATAT-A-T
11521010 ATTATTAT-TAT-T
1 ATTATTATATATAT
11521022 ATTATTAT-TAT-T
1 ATTATTATATATAT
11521034 ATTATTAT
1 ATTATTAT
11521042 TTTTCATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
12 24 0.39
13 17 0.27
14 2 0.03
15 19 0.31
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTATTATATATAT
Found at i:11520984 original size:25 final size:28
Alignment explanation
Indices: 11520956--11521014 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 28
11520946 TTTTTGTAAT
11520956 TATTATAGTATA-TATTA-TAATAT-AA
1 TATTATAGTATACTATTATTAATATCAA
* *
11520981 TATTATGGTATACTATTATTAATATCAT
1 TATTATAGTATACTATTATTAATATCAA
11521009 TATTAT
1 TATTAT
11521015 TATTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.38
26 5 0.17
27 6 0.21
28 7 0.24
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (28 bp):
TATTATAGTATACTATTATTAATATCAA
Found at i:11521013 original size:3 final size:3
Alignment explanation
Indices: 11520994--11521042 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
11520984 TATGGTATAC
* *
11520994 TAT TAT TAA TAT CAT 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 TAT
11521042 T
1 T
11521043 TTTCATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11522089 original size:19 final size:19
Alignment explanation
Indices: 11522065--11522104 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
11522055 ATAATTTTAT
11522065 AAAAAAATCTTTTCAAATA
1 AAAAAAATCTTTTCAAATA
*
11522084 AAAAAAATTTTTTCAAATA
1 AAAAAAATCTTTTCAAATA
11522103 AA
1 AA
11522105 GTTTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAAATCTTTTCAAATA
Found at i:11523376 original size:24 final size:25
Alignment explanation
Indices: 11523349--11523400 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
11523339 TTTTATTCTA
*
11523349 TGTAATGTATATT-GGTGTATTTAC
1 TGTAATGGATATTAGGTGTATTTAC
* * *
11523373 TGTATTGGATATTAGTTGTTTTTAC
1 TGTAATGGATATTAGGTGTATTTAC
11523398 TGT
1 TGT
11523401 GTAGGATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.54
Consensus pattern (25 bp):
TGTAATGGATATTAGGTGTATTTAC
Found at i:11525820 original size:31 final size:31
Alignment explanation
Indices: 11525767--11525826 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
11525757 TGTGTGAGTC
** * *
11525767 TGATTATTTGGTTAAGTTATAGTTTATTAGT
1 TGATTATTCAGTTAAGTAATAGTTAATTAGT
*
11525798 TGATTATTCAGTTATGTAATAGTTAATTA
1 TGATTATTCAGTTAAGTAATAGTTAATTA
11525827 TATGAATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (31 bp):
TGATTATTCAGTTAAGTAATAGTTAATTAGT
Found at i:11529920 original size:2 final size:2
Alignment explanation
Indices: 11529915--11529940 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11529905 GATATATACG
11529915 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
11529941 ATGTAGGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11530308 original size:21 final size:21
Alignment explanation
Indices: 11530270--11530321 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
11530260 TCGGAAATTA
11530270 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTT-AAAT
11530292 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
11530312 ATAAATATAT
1 ATAAA-ATAT
11530322 AAATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.31
21 9 0.31
22 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:11530317 original size:19 final size:21
Alignment explanation
Indices: 11530269--11530319 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
11530259 ATCGGAAATT
11530269 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
11530289 AATATAAAATATTA-TTTTT-A
1 AATAT-AAATATTATTTTTTAA
11530309 AATATAAATAT
1 AATATAAATAT
11530320 ATAAATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 10 0.34
21 5 0.17
22 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:11533529 original size:18 final size:18
Alignment explanation
Indices: 11533502--11533559 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 18
11533492 CCTTAAAAGA
*
11533502 AAAATTTTTTAAAATTCT
1 AAAATATTTTAAAATTCT
11533520 AAAATATTTTTGAAAATTCT
1 AAAATA-TTTT-AAAATTCT
*
11533540 AAAAAATTTTAAAATTCT
1 AAAATATTTTAAAATTCT
11533558 AA
1 AA
11533560 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.42
19 8 0.22
20 13 0.36
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (18 bp):
AAAATATTTTAAAATTCT
Found at i:11533547 original size:10 final size:10
Alignment explanation
Indices: 11533512--11533940 Score: 94
Period size: 10 Copynumber: 43.6 Consensus size: 10
11533502 AAAATTTTTT
11533512 AAAATTCTAA
1 AAAATTCTAA
* * **
11533522 AATATTTTTG
1 AAAATTCTAA
11533532 AAAATTCTAA
1 AAAATTCTAA
*
11533542 AAAATT-T-T
1 AAAATTCTAA
11533550 AAAATTCT-A
1 AAAATTCTAA
*** *
11533559 ATTTTTTTAA
1 AAAATTCTAA
*
11533569 AAAATTATAA
1 AAAATTCTAA
*
11533579 AAAATT-AAA
1 AAAATTCTAA
11533588 AAAATT-TAAA
1 AAAATTCT-AA
*
11533598 AAAACTCTAA
1 AAAATTCTAA
11533608 AAAATTCTAA
1 AAAATTCTAA
** * *
11533618 AATTTTTTCA
1 AAAATTCTAA
11533628 AAAA-TCTAA
1 AAAATTCTAA
11533637 AAAA-T-TACA
1 AAAATTCTA-A
*
11533646 AAAGTTCTAA
1 AAAATTCTAA
11533656 AATAA-T-TAA
1 AA-AATTCTAA
* *
11533665 AAAATTTTAG
1 AAAATTCTAA
* **
11533675 AAAGTTAAAA
1 AAAATTCTAA
*
11533685 AAAATTCAAAA
1 AAAATTC-TAA
11533696 CAAAATTCT-A
1 -AAAATTCTAA
11533706 AAAATTCT-A
1 AAAATTCTAA
* **
11533715 AAAATGTTTTT
1 AAAAT-TCTAA
11533726 AAAATTCTAAA
1 AAAATTCT-AA
*
11533737 AAAATT-TTA
1 AAAATTCTAA
11533746 AAAA---TAA
1 AAAATTCTAA
* * *
11533753 AACA-CCCAA
1 AAAATTCTAA
*
11533762 AAAATTCTTA
1 AAAATTCTAA
* * *
11533772 GAAATTTTCA
1 AAAATTCTAA
11533782 AAAATTCTAA
1 AAAATTCTAA
*
11533792 AATAATTTTAA
1 AA-AATTCTAA
* * *
11533803 TAAATTTTTA
1 AAAATTCTAA
*
11533813 GAAA-T-TAA
1 AAAATTCTAA
* *
11533821 AAAAAT-AAA
1 AAAATTCTAA
*
11533830 AAAATTATAA
1 AAAATTCTAA
* *
11533840 AAAATTTTTA
1 AAAATTCTAA
11533850 AAAA---TAA
1 AAAATTCTAA
11533857 AAAATTTCTAA
1 AAAA-TTCTAA
* *
11533868 AAACTTTTAA
1 AAAATTCTAA
**
11533878 TGAATTCTAAA
1 AAAATTCT-AA
*
11533889 AAAATTAAATTAA
1 AAAATT---CTAA
11533902 AACAATTCTAA
1 AA-AATTCTAA
* *
11533913 AAGATTTTAAA
1 AAAATTCT-AA
11533924 AAAATTCTAA
1 AAAATTCTAA
11533934 AAGAATT
1 AA-AATT
11533941 AATGCAACTT
Statistics
Matches: 302, Mismatches: 85, Indels: 63
0.67 0.19 0.14
Matches are distributed among these distances:
7 11 0.04
8 15 0.05
9 65 0.22
10 140 0.46
11 55 0.18
12 7 0.02
13 4 0.01
14 5 0.02
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:11533571 original size:18 final size:18
Alignment explanation
Indices: 11533503--11533570 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
11533493 CTTAAAAGAA
11533503 AAAT-TTTTTAAAATTCT
1 AAATATTTTTAAAATTCT
11533520 AAAATATTTTTGAAAATTCT
1 -AAATATTTTT-AAAATTCT
* *
11533540 AAAAAATTTTAAAATTCT
1 AAATATTTTTAAAATTCT
*
11533558 -AATTTTTTTAAAA
1 AAATATTTTTAAAA
11533571 AATTATAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.23
18 12 0.28
19 13 0.30
20 8 0.19
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (18 bp):
AAATATTTTTAAAATTCT
Found at i:11533582 original size:37 final size:37
Alignment explanation
Indices: 11533508--11533584 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
11533498 AAGAAAAATT
* *
11533508 TTTTAAAATTCTAAAATATTTTTGAAAATTCTAAAAAA
1 TTTTAAAATTCT-AAATATTTTTAAAAATTATAAAAAA
*
11533546 TTTTAAAATTCT-AATTTTTTTAAAAAATTATAAAAAA
1 TTTTAAAATTCTAAATATTTTT-AAAAATTATAAAAAA
11533583 TT
1 TT
11533585 AAAAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 8 0.23
37 15 0.43
38 12 0.34
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
TTTTAAAATTCTAAATATTTTTAAAAATTATAAAAAA
Found at i:11533583 original size:29 final size:28
Alignment explanation
Indices: 11533550--11533642 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
11533540 AAAAAATTTT
* *
11533550 AAAATTCTAATTTTTTTAAAAAATTATAA
1 AAAATTCTAAATTTTTTAAAAAA-TCTAA
** ** *
11533579 AAAATTAAAAAAATTTAAAAAAACTCTAA
1 AAAATTCTAAATTTTTTAAAAAA-TCTAA
*
11533608 AAAATTCTAAAATTTTTTCAAAAATCTAA
1 AAAATTCT-AAATTTTTTAAAAAATCTAA
11533637 AAAATT
1 AAAATT
11533643 ACAAAAGTTC
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 38 0.78
30 11 0.22
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (28 bp):
AAAATTCTAAATTTTTTAAAAAATCTAA
Found at i:11533601 original size:19 final size:19
Alignment explanation
Indices: 11533567--11533687 Score: 61
Period size: 19 Copynumber: 6.3 Consensus size: 19
11533557 TAATTTTTTT
11533567 AAAAAA-TTATAAAAAATTA
1 AAAAAATTTA-AAAAAATTA
11533586 AAAAAATTTAAAAAAACTCT-
1 AAAAAATTTAAAAAAA-T-TA
*** *
11533606 AAAAAATTCTAAAATTTTTT
1 AAAAAATT-TAAAAAAATTA
* *
11533626 CAAAAATCT-AAAAAATTA
1 AAAAAATTTAAAAAAATTA
* * *
11533644 CAAAAGTTCTAAAATAATT-
1 AAAAAATT-TAAAAAAATTA
* * *
11533663 AAAAAATTTTAGAAAGTTA
1 AAAAAATTTAAAAAAATTA
11533682 AAAAAA
1 AAAAAA
11533688 ATTCAAAACA
Statistics
Matches: 76, Mismatches: 18, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
18 17 0.22
19 27 0.36
20 26 0.34
21 6 0.08
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAATTTAAAAAAATTA
Found at i:11533744 original size:20 final size:20
Alignment explanation
Indices: 11533501--11533750 Score: 108
Period size: 20 Copynumber: 12.8 Consensus size: 20
11533491 TCCTTAAAAG
* *
11533501 AAAAATTTTTTAAAATTCTA
1 AAAAAATTTTAAAAATTCTA
* * *
11533521 AAATATTTTTGAAAATTCT-
1 AAAAAATTTTAAAAATTCTA
11533540 AAAAAATTTT-AAAATTCT-
1 AAAAAATTTTAAAAATTCTA
*** *
11533558 -AATTTTTTTAAAAAAT-TA
1 AAAAAATTTTAAAAATTCTA
**
11533576 TAAAAAATTAAAAAAATT-TA
1 -AAAAAATTTTAAAAATTCTA
* *
11533596 AAAAAACTCTAAAAAATTCT-
1 AAAAAA-TTTTAAAAATTCTA
**
11533616 AAAATTTTTTCAAAAA-TCT-
1 AAAAAATTTT-AAAAATTCTA
** *
11533635 AAAAAATTACAAAAGTTCTA
1 AAAAAATTTTAAAAATTCTA
* * *
11533655 AAATAA-TTAAAAAATT-TT
1 AAAAAATTTTAAAAATTCTA
* * ** *
11533673 AGAAAGTTAAAAAAAATTCAA
1 AAAAAATT-TTAAAAATTCTA
*
11533694 AACAAAATTCTAAAAATTCTA
1 AA-AAAATTTTAAAAATTCTA
** *
11533715 AAAATGTTTTTAAAATTCTA
1 AAAAAATTTTAAAAATTCTA
11533735 AAAAAATTTTAAAAAT
1 AAAAAATTTTAAAAAT
11533751 AAAACACCCA
Statistics
Matches: 169, Mismatches: 48, Indels: 26
0.70 0.20 0.11
Matches are distributed among these distances:
17 7 0.04
18 21 0.12
19 36 0.21
20 87 0.51
21 13 0.08
22 5 0.03
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAAATTTTAAAAATTCTA
Found at i:11533845 original size:37 final size:36
Alignment explanation
Indices: 11533789--11533860 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 36
11533779 TCAAAAATTC
* * * *
11533789 TAAAATAATTTTAATAAATTTTTAGAAATTAAAAAAA
1 TAAAAAAATTATAAAAAATTTTTA-AAAATAAAAAAA
11533826 TAAAAAAATTATAAAAAATTTTTAAAAATAAAAAA
1 TAAAAAAATTATAAAAAATTTTTAAAAATAAAAAA
11533861 TTTCTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 10 0.32
37 21 0.68
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (36 bp):
TAAAAAAATTATAAAAAATTTTTAAAAATAAAAAAA
Found at i:11533858 original size:16 final size:17
Alignment explanation
Indices: 11533836--11533870 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11533826 TAAAAAAATT
*
11533836 ATAAAAAATTTTTAAAA
1 ATAAAAAATTTCTAAAA
11533853 ATAAAAAATTTCTAAAA
1 ATAAAAAATTTCTAAAA
11533870 A
1 A
11533871 CTTTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAAATTTCTAAAA
Found at i:11533868 original size:28 final size:28
Alignment explanation
Indices: 11533821--11533875 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
11533811 TAGAAATTAA
11533821 AAAAATAAAAAAATTATAAAAAATTTTT
1 AAAAATAAAAAAATTATAAAAAATTTTT
* * *
11533849 AAAAATAAAAAATTTCTAAAAACTTTT
1 AAAAATAAAAAAATTATAAAAAATTTT
11533876 AATGAATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAAATAAAAAAATTATAAAAAATTTTT
Found at i:11533870 original size:37 final size:37
Alignment explanation
Indices: 11533781--11533870 Score: 92
Period size: 37 Copynumber: 2.4 Consensus size: 37
11533771 AGAAATTTTC
* * *
11533781 AAAAATTCTAAAATAATTTTAATAAATTTTTAGAAATTA
1 AAAAATTCT-AAA-AATTATAAAAAATTTTTAGAAAATA
* **
11533820 AAAAAATAAAAAAATTATAAAAAATTTTTA-AAAATA
1 AAAAATTCTAAAAATTATAAAAAATTTTTAGAAAATA
11533856 AAAAATTTCTAAAAA
1 AAAAA-TTCTAAAAA
11533871 CTTTTAATGA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
36 10 0.24
37 22 0.54
38 3 0.07
39 6 0.15
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (37 bp):
AAAAATTCTAAAAATTATAAAAAATTTTTAGAAAATA
Found at i:11533924 original size:21 final size:21
Alignment explanation
Indices: 11533898--11533937 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11533888 AAAAATTAAA
*
11533898 TTAAAACAATTCTAAAAGATT
1 TTAAAAAAATTCTAAAAGATT
11533919 TTAAAAAAATTCTAAAAGA
1 TTAAAAAAATTCTAAAAGA
11533938 ATTAATGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
TTAAAAAAATTCTAAAAGATT
Found at i:11534128 original size:20 final size:21
Alignment explanation
Indices: 11534105--11534164 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
11534095 AATCAAAAGT
11534105 GTTTTTGAAAAAA-TAT-AAAA
1 GTTTTT-AAAAAATTATAAAAA
11534125 GTTTTTAAAAAATTATAAAAA
1 GTTTTTAAAAAATTATAAAAA
* *
11534146 G-TTTTAAAAGATTCTAAAA
1 GTTTTTAAAAAATTATAAAA
11534165 TTTTTGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.17
20 25 0.69
21 5 0.14
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (21 bp):
GTTTTTAAAAAATTATAAAAA
Found at i:11534130 original size:21 final size:20
Alignment explanation
Indices: 11534090--11534150 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
11534080 ATAGTTAAAA
*
11534090 TAAAAAAT-CAAAAGTGTTTT
1 TAAAAAATATAAAAGT-TTTT
11534110 TGAAAAAATATAAAAG-TTTT
1 T-AAAAAATATAAAAGTTTTT
11534130 TAAAAAATTATAAAAAGTTTT
1 TAAAAAA-TAT-AAAAGTTTT
11534151 AAAAGATTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 6 0.17
20 9 0.26
21 12 0.34
22 8 0.23
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (20 bp):
TAAAAAATATAAAAGTTTTT
Found at i:11534539 original size:10 final size:9
Alignment explanation
Indices: 11534510--11534754 Score: 82
Period size: 10 Copynumber: 25.1 Consensus size: 9
11534500 AATTTTTTAA
11534510 TAAAATTTT
1 TAAAATTTT
*
11534519 AAAATATTTTT
1 TAAA-A-TTTT
11534530 TAGAAA-TTT
1 TA-AAATTTT
*
11534539 TAAAAATTT
1 TAAAATTTT
*
11534548 TAGAATTTT
1 TAAAATTTT
**
11534557 ATGGAATTGTT
1 -TAAAATT-TT
* *
11534568 TTAATTTTT
1 TAAAATTTT
11534577 TAAAATCTTT
1 TAAAAT-TTT
11534587 TAAAATCTTT
1 TAAAAT-TTT
11534597 TAAAATTTT
1 TAAAATTTT
*
11534606 GAAATAATTTT
1 -TAA-AATTTT
**
11534617 TAAAATTAAA
1 TAAAATT-TT
*
11534627 AAAAATTTTT
1 TAAAA-TTTT
11534637 TACAAGA-TTT
1 TA-AA-ATTTT
*
11534647 AAAAATTATT
1 TAAAATT-TT
*
11534657 TAGAATTTT
1 TAAAATTTT
11534666 TAAAATTTTT
1 TAAAA-TTTT
*
11534676 TAGAATTGTTT
1 TA-AAAT-TTT
**
11534687 TGAATTTTTT
1 T-AAAATTTT
*
11534697 TGAAATTTT
1 TAAAATTTT
11534706 CTAAAATTTTT
1 -TAAAA-TTTT
* ***
11534717 TGAGGCTTT
1 TAAAATTTT
11534726 TAAAATTGTT
1 TAAAATT-TT
11534736 TAGAAA-TTT
1 TA-AAATTTT
11534745 TAAAATTTT
1 TAAAATTTT
11534754 T
1 T
11534755 TTGATTTTTT
Statistics
Matches: 176, Mismatches: 36, Indels: 48
0.68 0.14 0.18
Matches are distributed among these distances:
8 7 0.04
9 59 0.34
10 72 0.41
11 34 0.19
12 4 0.02
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (9 bp):
TAAAATTTT
Found at i:11534742 original size:40 final size:41
Alignment explanation
Indices: 11534628--11534755 Score: 117
Period size: 39 Copynumber: 3.2 Consensus size: 41
11534618 AAAATTAAAA
* * *
11534628 AAAATTTTTTACAA-GATTTAAAAATTATTTAG-AATTTTT
1 AAAATTTTTTAGAATGGTTTTAAAATTATTTAGAAATTTTT
* * * *
11534667 AAAATTTTTTAGAATTGTTTT-GAATTTTTTTGAAATTTTCT
1 AAAATTTTTTAGAATGGTTTTAAAATTATTTAGAAATTTT-T
*
11534708 AAAATTTTTT-G-A-GGCTTTTAAAATTGTTTAGAAA-TTTT
1 AAAATTTTTTAGAATGG-TTTTAAAATTATTTAGAAATTTTT
11534746 AAAATTTTTT
1 AAAATTTTTT
11534756 TGATTTTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
38 12 0.16
39 29 0.40
40 21 0.29
41 11 0.15
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (41 bp):
AAAATTTTTTAGAATGGTTTTAAAATTATTTAGAAATTTTT
Found at i:11534755 original size:10 final size:10
Alignment explanation
Indices: 11534570--11534902 Score: 120
Period size: 10 Copynumber: 33.8 Consensus size: 10
11534560 GAATTGTTTT
11534570 AATTTTTTAA
1 AATTTTTTAA
*
11534580 AATCTTTTAA
1 AATTTTTTAA
*
11534590 AATCTTTTAA
1 AATTTTTTAA
*
11534600 AA-TTTTGAA
1 AATTTTTTAA
*
11534609 ATAATTTTTAA
1 A-ATTTTTTAA
****
11534620 AATTAAAAAA
1 AATTTTTTAA
*
11534630 AATTTTTTAC
1 AATTTTTTAA
** *
11534640 AAGATTTAAA
1 AATTTTTTAA
* *
11534650 AATTATTTAG
1 AATTTTTTAA
11534660 AA-TTTTTAA
1 AATTTTTTAA
*
11534669 AATTTTTTAG
1 AATTTTTTAA
*
11534679 AATTGTTTTGA
1 AATT-TTTTAA
* *
11534690 ATTTTTTTGA
1 AATTTTTTAA
*
11534700 AATTTTCTAA
1 AATTTTTTAA
*
11534710 AATTTTTT-G
1 AATTTTTTAA
***
11534719 AGGCTTTTAA
1 AATTTTTTAA
*
11534729 AATTGTTTAGA
1 AATTTTTTA-A
11534740 AA--TTTTAA
1 AATTTTTTAA
*
11534748 AATTTTTT-T
1 AATTTTTTAA
*
11534757 GATTTTTTAGA
1 AATTTTTTA-A
**
11534768 AAGTTTTGAAA
1 AA-TTTTTTAA
*
11534779 AAGTTTTTTAG
1 AA-TTTTTTAA
11534790 AA----TTAA
1 AATTTTTTAA
***
11534796 AAAAATTTAA
1 AATTTTTTAA
* *
11534806 TATTTTATAA
1 AATTTTTTAA
*
11534816 GAATTTTTT-T
1 -AATTTTTTAA
11534826 AA--TTTT--
1 AATTTTTTAA
11534832 AATTTTTTAAA
1 AATTTTTT-AA
* * *
11534843 AAATTTCTAC
1 AATTTTTTAA
11534853 AATTTTTTAAA
1 AATTTTTT-AA
11534864 GAATTTTTTAA
1 -AATTTTTTAA
*
11534875 AATTTTATAA
1 AATTTTTTAA
11534885 AATTTTTTAA
1 AATTTTTTAA
11534895 AATTTTTT
1 AATTTTTT
11534903 TCTTATGCTA
Statistics
Matches: 231, Mismatches: 69, Indels: 46
0.67 0.20 0.13
Matches are distributed among these distances:
6 7 0.03
7 4 0.02
8 7 0.03
9 31 0.13
10 125 0.54
11 44 0.19
12 13 0.06
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:11537600 original size:14 final size:14
Alignment explanation
Indices: 11537583--11537612 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11537573 AAATATAATA
11537583 ATTATTTATAAATT
1 ATTATTTATAAATT
*
11537597 ATTATTTATATATT
1 ATTATTTATAAATT
11537611 AT
1 AT
11537613 CTCCATTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTATTTATAAATT
Found at i:11541212 original size:30 final size:29
Alignment explanation
Indices: 11541178--11541235 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
11541168 CGATTAAATA
*
11541178 AAAATTAAAATCAATATA-ATGATAAAATTC
1 AAAATAAAAATCAATA-ACATG-TAAAATTC
11541208 AAAATAAAAATCAATAACATGTAAAATT
1 AAAATAAAAATCAATAACATGTAAAATT
11541236 TAATTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAATAAAAATCAATAACATGTAAAATTC
Found at i:11543449 original size:7 final size:7
Alignment explanation
Indices: 11543437--11543518 Score: 51
Period size: 7 Copynumber: 11.3 Consensus size: 7
11543427 TTAGTAAAAT
11543437 AAAATAA
1 AAAATAA
11543444 AAAATAA
1 AAAATAA
* **
11543451 AATATTG
1 AAAATAA
*
11543458 AAAA-CA
1 AAAATAA
11543464 AAAATAA
1 AAAATAA
11543471 AATAATAA
1 AA-AATAA
11543479 AAAACTTAA
1 AAAA--TAA
*
11543488 AATATAA
1 AAAATAA
*
11543495 AATGAAAAA
1 AA--AATAA
11543504 AAAAT-A
1 AAAATAA
11543510 AAAATAA
1 AAAATAA
11543517 AA
1 AA
11543519 TGAAAAAAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
6 10 0.18
7 29 0.51
8 7 0.12
9 11 0.19
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (7 bp):
AAAATAA
Found at i:11543502 original size:22 final size:22
Alignment explanation
Indices: 11543432--11543526 Score: 70
Period size: 21 Copynumber: 4.3 Consensus size: 22
11543422 AAAAATTAGT
*
11543432 AAAATAAAATAAAAAATAAAAT-
1 AAAA-AAAATAAAATATAAAATG
*** * *
11543454 ATTGAAAACAAAA-ATAAAATA
1 AAAAAAAATAAAATATAAAATG
*
11543475 ATAAAAAACTTAAAATATAAAATG
1 A-AAAAAA-ATAAAATATAAAATG
11543499 AAAAAAAAATAAAA-ATAAAATG
1 -AAAAAAAATAAAATATAAAATG
11543521 AAAAAA
1 AAAAAA
11543527 GAAAAACCTG
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
20 7 0.12
21 15 0.26
22 12 0.21
23 9 0.16
24 13 0.23
25 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (22 bp):
AAAAAAAATAAAATATAAAATG
Found at i:11543504 original size:24 final size:22
Alignment explanation
Indices: 11543458--11543526 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 22
11543448 TAAAATATTG
*
11543458 AAAACAAAAATAAAAT-AATAAA
1 AAAATAAAAATAAAATGAA-AAA
*
11543480 AAACTTAAAATATAAAATGAAAAA
1 AAA-ATAAAA-ATAAAATGAAAAA
11543504 AAAATAAAAATAAAATGAAAAA
1 AAAATAAAAATAAAATGAAAAA
11543526 A
1 A
11543527 GAAAAACCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 17 0.41
23 9 0.22
24 13 0.32
25 2 0.05
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (22 bp):
AAAATAAAAATAAAATGAAAAA
Found at i:11543518 original size:16 final size:18
Alignment explanation
Indices: 11543420--11543518 Score: 60
Period size: 20 Copynumber: 5.2 Consensus size: 18
11543410 ATTGCTCAAT
* *
11543420 AAAAAAATTAGTAAAATAA
1 AAAAAAAATA-TAAAATGA
11543439 AATAAAAAATA-AAATATTGA
1 AA-AAAAAATATAAA-A-TGA
* *
11543459 AAACAAAAATAAAATAATAA
1 AAA-AAAAATATAA-AATGA
11543479 AAAACTTAAAATATAAAATGA
1 AAAA---AAAATATAAAATGA
11543500 AAAAAAAATA-AAAAT-A
1 AAAAAAAATATAAAATGA
11543516 AAA
1 AAA
11543519 TGAAAAAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.06
17 5 0.08
18 9 0.14
19 5 0.08
20 23 0.35
21 11 0.17
22 9 0.14
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (18 bp):
AAAAAAAATATAAAATGA
Found at i:11543525 original size:7 final size:6
Alignment explanation
Indices: 11543432--11543518 Score: 56
Period size: 6 Copynumber: 14.5 Consensus size: 6
11543422 AAAAATTAGT
* * *
11543432 AAAAT- AAAATAA AAAATA AAATATTG AAAACA AAAAT- AAAATA ATAA-A
1 AAAATA AAAAT-A AAAATA AAA-A-TA AAAATA AAAATA AAAATA AAAATA
* * *
11543480 AAACTT AAAATA TAAAATG AAAA-A AAAATA AAAATA AAA
1 AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA AAA
11543519 TGAAAAAAGA
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
5 17 0.27
6 29 0.47
7 12 0.19
8 4 0.06
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:11544319 original size:3 final size:3
Alignment explanation
Indices: 11544313--11544502 Score: 225
Period size: 3 Copynumber: 65.3 Consensus size: 3
11544303 AAAAAGAAAG
11544313 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
11544361 ATA ATA ATA ACA ACA ATA ACA ACA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * *
11544408 GCA ATA ATA AT- ATA ATA GTA AT- ATA ATA ATA AT- ACA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
11544452 AT- ATA ATA AT- ATA CT- ATA CCATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA
11544496 ATA ATA A
1 ATA ATA A
11544503 AATCAACACT
Statistics
Matches: 163, Mismatches: 14, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
2 14 0.09
3 146 0.90
5 3 0.02
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11556073 original size:17 final size:17
Alignment explanation
Indices: 11556051--11556088 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
11556041 TAAATTGCTT
11556051 AATAAAA-AAATCAATAA
1 AATAAAATAAAT-AATAA
11556068 AATAAAATAAATAATAA
1 AATAAAATAAATAATAA
11556085 AATA
1 AATA
11556089 CTGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAATAAATAATAA
Found at i:11556087 original size:26 final size:26
Alignment explanation
Indices: 11556051--11556100 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11556041 TAAATTGCTT
11556051 AATAAAAAAATCAAT-AAAATAAAATA
1 AATAAAAAAAT-AATGAAAATAAAATA
* *
11556077 AATAATAAAATACTGAAAATAAAA
1 AATAAAAAAATAATGAAAATAAAA
11556101 ACAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (26 bp):
AATAAAAAAATAATGAAAATAAAATA
Found at i:11556101 original size:41 final size:40
Alignment explanation
Indices: 11556032--11556113 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 40
11556022 CAAAATATTT
* * *
11556032 AATAAATAATAAATTGCTTAATAAAAAAATCAATAA-AATAA
1 AATAAATAATAAAATACTGAATAAAAAAA-CAA-AATAATAA
11556073 AATAAATAATAAAATACTGAA-AATAAAAACAAAATAATAA
1 AATAAATAATAAAATACTGAATAA-AAAAACAAAATAATAA
11556113 A
1 A
11556114 TAACTTAAAN
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
39 2 0.06
40 11 0.31
41 23 0.64
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (40 bp):
AATAAATAATAAAATACTGAATAAAAAAACAAAATAATAA
Found at i:11562223 original size:2 final size:2
Alignment explanation
Indices: 11562216--11562242 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11562206 CTTTATTATG
11562216 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11562243 ATGTAGGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11562612 original size:21 final size:21
Alignment explanation
Indices: 11562574--11562625 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
11562564 TCGAAAATTA
11562574 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTT-AAAT
11562596 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
11562616 ATAAATATAT
1 ATAAA-ATAT
11562626 ATAAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.31
21 9 0.31
22 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:11562621 original size:19 final size:21
Alignment explanation
Indices: 11562573--11562623 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
11562563 ATCGAAAATT
11562573 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
11562593 AATATAAAATATTA-TTTTT-A
1 AATAT-AAATATTATTTTTTAA
11562613 AATATAAATAT
1 AATATAAATAT
11562624 ATATAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 10 0.34
21 5 0.17
22 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:11565821 original size:10 final size:10
Alignment explanation
Indices: 11565808--11566236 Score: 107
Period size: 10 Copynumber: 43.8 Consensus size: 10
11565798 AAAAATTAAA
11565808 AAAAAATTTT
1 AAAAAATTTT
*
11565818 AAAATATTTT
1 AAAAAATTTT
** *
11565828 TGAAAATTCT
1 AAAAAATTTT
11565838 AAAAAATTTT
1 AAAAAATTTT
11565848 --AAAATTTT
1 AAAAAATTTT
**
11565856 --AATTTTTT
1 AAAAAATTTT
**
11565864 TTAAAATTTAT
1 AAAAAATTT-T
*
11565875 AAAAAATTTA
1 AAAAAATTTT
* *
11565885 AAAAAACTCT
1 AAAAAATTTT
*
11565895 AAAAAATTCT
1 AAAAAATTTT
**
11565905 AAAATTTTTT
1 AAAAAATTTT
* *
11565915 CAAAAA-TCT
1 AAAAAATTTT
11565924 AAAAAA--TT
1 AAAAAATTTT
* *
11565932 ACAAAAGTTCT
1 A-AAAAATTTT
11565943 AAAATAA--TT
1 AAAA-AATTTT
11565952 AAAAAATTTT
1 AAAAAATTTT
* * *
11565962 -AGAAAGTTA
1 AAAAAATTTT
**
11565971 AAAAAATTCAA
1 AAAAAATT-TT
*
11565982 AACAAAATTCT
1 AA-AAAATTTT
11565993 -AAAAATGTTT
1 AAAAAAT-TTT
* *
11566003 -TAAAATTCT
1 AAAAAATTTT
*
11566012 AAAAAATTAT
1 AAAAAATTTT
11566022 -AAAAA---T
1 AAAAAATTTT
* **
11566028 AAAACA-CCT
1 AAAAAATTTT
*
11566037 AAAAAATTCT
1 AAAAAATTTT
**
11566047 -AAATTTTTT
1 AAAAAATTTT
11566056 AAAAAATTCTT
1 AAAAAATT-TT
*
11566067 -AGAAATTTT
1 AAAAAATTTT
* *
11566076 CAAAAATTCT
1 AAAAAATTTT
11566086 AAAATAATTTT
1 AAAA-AATTTT
*
11566097 AATAAATTTT
1 AAAAAATTTT
* *
11566107 TAGAAA--TT
1 AAAAAATTTT
* *
11566115 AAAAAA-ATA
1 AAAAAATTTT
*
11566124 AAAAAATTAT
1 AAAAAATTTT
11566134 AAAAAATTTT
1 AAAAAATTTT
*
11566144 TAAAAA---T
1 AAAAAATTTT
11566151 AAAAAATTTCT
1 AAAAAATTT-T
11566162 AAAAAATTTT
1 AAAAAATTTT
* *
11566172 AATAAATTCT
1 AAAAAATTTT
11566182 AAAAAATTTAAATT
1 AAAAAA-TT---TT
*
11566196 AAAACAATTCT
1 AAAA-AATTTT
*
11566207 AAAATATTTT
1 AAAAAATTTT
*
11566217 AAAAAAATTCT
1 -AAAAAATTTT
11566228 AAAAGAATT
1 AAAA-AATT
11566237 AATGCAACTT
Statistics
Matches: 305, Mismatches: 79, Indels: 69
0.67 0.17 0.15
Matches are distributed among these distances:
6 1 0.00
7 10 0.03
8 24 0.08
9 55 0.18
10 147 0.48
11 53 0.17
12 6 0.02
14 7 0.02
15 2 0.01
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:11565878 original size:37 final size:37
Alignment explanation
Indices: 11565809--11565888 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
11565799 AAAATTAAAA
*
11565809 AAAAATTTTAAAATATTTTTGAAAATTCTAAAAAATTT
1 AAAAATTTT-AAATATTTTTGAAAATTATAAAAAATTT
* * *
11565847 TAAAATTTT-AATTTTTTTTAAAATTTATAAAAAATTT
1 AAAAATTTTAAATATTTTTGAAAA-TTATAAAAAATTT
11565884 AAAAA
1 AAAAA
11565889 AACTCTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 12 0.33
37 16 0.44
38 8 0.22
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (37 bp):
AAAAATTTTAAATATTTTTGAAAATTATAAAAAATTT
Found at i:11565957 original size:20 final size:19
Alignment explanation
Indices: 11565921--11565975 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
11565911 TTTTCAAAAA
*
11565921 TCTAAAAAATTACAAAAGT
1 TCTAAAAAATTAAAAAAGT
11565940 TCTAAAATAATTAAAAAA-T
1 TCTAAAA-AATTAAAAAAGT
* * *
11565959 TTTAGAAAGTTAAAAAA
1 TCTAAAAAATTAAAAAA
11565976 ATTCAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 9 0.29
19 13 0.42
20 9 0.29
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (19 bp):
TCTAAAAAATTAAAAAAGT
Found at i:11566154 original size:16 final size:17
Alignment explanation
Indices: 11566132--11566166 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11566122 TAAAAAAATT
*
11566132 ATAAAAAATTTTTAAAA
1 ATAAAAAATTTCTAAAA
11566149 ATAAAAAATTTCTAAAA
1 ATAAAAAATTTCTAAAA
11566166 A
1 A
11566167 ATTTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAAATTTCTAAAA
Found at i:11566164 original size:11 final size:11
Alignment explanation
Indices: 11566150--11566236 Score: 65
Period size: 11 Copynumber: 7.8 Consensus size: 11
11566140 TTTTTAAAAA
11566150 TAAAAAATTTC
1 TAAAAAATTTC
11566161 TAAAAAATTT-
1 TAAAAAATTTC
*
11566171 TAATAAA-TTC
1 TAAAAAATTTC
*
11566181 TAAAAAATTTAAAT
1 TAAAAAATTT---C
11566195 TAAAACAA-TTC
1 TAAAA-AATTTC
*
11566206 TAAAATATTT-
1 TAAAAAATTTC
*
11566216 TAAAAAAATTC
1 TAAAAAATTTC
11566227 TAAAAGAATT
1 TAAAA-AATT
11566237 AATGCAACTT
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
9 2 0.03
10 21 0.36
11 24 0.41
12 3 0.05
14 7 0.12
15 2 0.03
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (11 bp):
TAAAAAATTTC
Found at i:11566166 original size:37 final size:37
Alignment explanation
Indices: 11566036--11566166 Score: 102
Period size: 37 Copynumber: 3.4 Consensus size: 37
11566026 ATAAAACACC
** * * *
11566036 TAAAAAATTCTAAATTTTTTAAAAAATTCTTAGAAATTT
1 TAAAAAATTCTAAAAATTATAAAAAATTTTTAGAAA--A
* * * *
11566075 TCAAAAATTCTAAAATAATTTTAATAAATTTTTAGAAAT
1 TAAAAAATTCT-AAA-AATTATAAAAAATTTTTAGAAAA
* **
11566114 TAAAAAAATAAAAAAATTATAAAAAATTTTTA-AAAA
1 TAAAAAATTCTAAAAATTATAAAAAATTTTTAGAAAA
11566150 TAAAAAATTTCTAAAAA
1 TAAAAAA-TTCTAAAAA
11566167 ATTTTAATAA
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
36 10 0.14
37 22 0.30
38 3 0.04
39 18 0.24
40 3 0.04
41 18 0.24
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (37 bp):
TAAAAAATTCTAAAAATTATAAAAAATTTTTAGAAAA
Found at i:11566178 original size:28 final size:28
Alignment explanation
Indices: 11566117--11566171 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
11566107 TAGAAATTAA
11566117 AAAAATAAAAAAATTATAAAAAATTTTT
1 AAAAATAAAAAAATTATAAAAAATTTTT
* *
11566145 AAAAATAAAAAATTTCTAAAAAATTTT
1 AAAAATAAAAAAATTATAAAAAATTTT
11566172 AATAAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAAATAAAAAAATTATAAAAAATTTTT
Found at i:11566185 original size:37 final size:37
Alignment explanation
Indices: 11566077--11566188 Score: 127
Period size: 38 Copynumber: 3.0 Consensus size: 37
11566067 AGAAATTTTC
*
11566077 AAAAATTCTAAAATAATTTTAATAAATTTTTAGAAATTA
1 AAAAATTCTAAAA-AATTTTAATAAATTTTTA-AAAATA
* * * *
11566116 AAAAAAT-AAAAAAATTATAAAAAATTTTTAAAAATA
1 AAAAATTCTAAAAAATTTTAATAAATTTTTAAAAATA
* *
11566152 AAAAATTTCTAAAAAATTTTAATAAATTCTAAAAAAT
1 AAAAA-TTCTAAAAAATTTTAATAAATTTTTAAAAAT
11566189 TTAAATTAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
36 10 0.17
37 17 0.28
38 27 0.45
39 6 0.10
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.35
Consensus pattern (37 bp):
AAAAATTCTAAAAAATTTTAATAAATTTTTAAAAATA
Found at i:11566218 original size:21 final size:20
Alignment explanation
Indices: 11565808--11566236 Score: 148
Period size: 20 Copynumber: 21.9 Consensus size: 20
11565798 AAAAATTAAA
* *
11565808 AAAAAATTTTAAAATATTTT
1 AAAAAATTCTAAAAAATTTT
**
11565828 TGAAAATTCTAAAAAATTTT
1 AAAAAATTCTAAAAAATTTT
* ***
11565848 --AAAATT-TTAATTTTTTT
1 AAAAAATTCTAAAAAATTTT
* * * *
11565865 TAAAATTTATAAAAAATTTA
1 AAAAAATTCTAAAAAATTTT
* *
11565885 AAAAAACTCTAAAAAATTCT
1 AAAAAATTCTAAAAAATTTT
** * * *
11565905 AAAATTTTTTCAAAAA-TCT
1 AAAAAATTCTAAAAAATTTT
* *
11565924 AAAAAA-T-TACAAAAGTTCT
1 AAAAAATTCTA-AAAAATTTT
11565943 AAAATAA-T-TAAAAAATTTT
1 AAAA-AATTCTAAAAAATTTT
* * * **
11565962 AGAAAGTT-AAAAAAATTCAA
1 AAAAAATTCTAAAAAATT-TT
11565982 AACAAAATTCT-AAAAATGTTT
1 AA-AAAATTCTAAAAAAT-TTT
* *
11566003 -TAAAATTCTAAAAAATTAT
1 AAAAAATTCTAAAAAATTTT
* **
11566022 -AAAAA---TAAAACA-CCT
1 AAAAAATTCTAAAAAATTTT
**
11566037 AAAAAATTCT-AAATTTTTT
1 AAAAAATTCTAAAAAATTTT
* *
11566056 AAAAAATTCTTAGAAATTTT
1 AAAAAATTCTAAAAAATTTT
*
11566076 CAAAAATTCTAAAATAATTTT
1 AAAAAATTCTAAAA-AATTTT
* * * *
11566097 AATAAATTTTTAGAAA--TT
1 AAAAAATTCTAAAAAATTTT
* * *
11566115 AAAAAAAT-AAAAAAATTAT
1 AAAAAATTCTAAAAAATTTT
* *
11566134 AAAAAATTTTTAAAAA---T
1 AAAAAATTCTAAAAAATTTT
11566151 AAAAAATTTCTAAAAAATTTT
1 AAAAAA-TTCTAAAAAATTTT
*
11566172 AATAAATTCTAAAAAATTTAAATT
1 AAAAAATTCTAAAAAA-TT---TT
*
11566196 AAAACAATTCTAAAATATTTT
1 AAAA-AATTCTAAAAAATTTT
11566217 AAAAAAATTCTAAAAGAATT
1 -AAAAAATTCTAAAA-AATT
11566237 AATGCAACTT
Statistics
Matches: 299, Mismatches: 77, Indels: 64
0.68 0.17 0.15
Matches are distributed among these distances:
15 1 0.00
16 11 0.04
17 19 0.06
18 31 0.10
19 72 0.24
20 93 0.31
21 46 0.15
22 8 0.03
24 7 0.02
25 11 0.04
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAAATTCTAAAAAATTTT
Found at i:11566414 original size:22 final size:21
Alignment explanation
Indices: 11566387--11566442 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
11566377 AGTTAAAATC
11566387 AAAAATCA-AAAAGTGTTTTTGA
1 AAAAAT-ATAAAAGTGTTTTT-A
11566409 AAAAATATAAAA--GTTTTTA
1 AAAAATATAAAAGTGTTTTTA
11566428 AAAAATTATAAAAGT
1 AAAAA-TATAAAAGT
11566443 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 6 0.20
20 13 0.43
21 1 0.03
22 10 0.33
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAAATATAAAAGTGTTTTTA
Found at i:11566424 original size:20 final size:20
Alignment explanation
Indices: 11566401--11566464 Score: 89
Period size: 19 Copynumber: 3.3 Consensus size: 20
11566391 ATCAAAAAGT
11566401 GTTTTTGAAAAAA-TATAAAA
1 GTTTTT-AAAAAATTATAAAA
11566421 GTTTTTAAAAAATTATAAAA
1 GTTTTTAAAAAATTATAAAA
*
11566441 G-TTTTAAAAAATTCTAAAA
1 GTTTTTAAAAAATTATAAAA
11566460 -TTTTT
1 GTTTTT
11566465 TGTATTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 27 0.66
20 14 0.34
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (20 bp):
GTTTTTAAAAAATTATAAAA
Found at i:11566823 original size:21 final size:21
Alignment explanation
Indices: 11566798--11566844 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
11566788 TTTTTTTAAT
11566798 TTTTTAATA-AAATTTTAAAATA
1 TTTTTAATAGAAA-TTTAAAA-A
11566820 TTTTT--TAGAAATTTAAAAA
1 TTTTTAATAGAAATTTAAAAA
11566839 TTTTTA
1 TTTTTA
11566845 GAATTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 3 0.13
22 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTTAATAGAAATTTAAAAA
Found at i:11566844 original size:18 final size:20
Alignment explanation
Indices: 11566811--11566852 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
11566801 TTAATAAAAT
11566811 TTTAAAATATTTTTTAGAAA
1 TTTAAAATATTTTTTAGAAA
*
11566831 TTTAAAA-A-TTTTTAGAAT
1 TTTAAAATATTTTTTAGAAA
11566849 TTTA
1 TTTA
11566853 TGGAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTAAAATATTTTTTAGAAA
Found at i:11566976 original size:10 final size:10
Alignment explanation
Indices: 11566944--11567087 Score: 66
Period size: 10 Copynumber: 14.4 Consensus size: 10
11566934 AAGATTTAAA
*
11566944 AATTATTTAG
1 AATTTTTTAG
*
11566954 AA-TTTTTAA
1 AATTTTTTAG
11566963 AATTTTTTAG
1 AATTTTTTAG
11566973 AATTGTTTT-G
1 AATT-TTTTAG
*
11566983 AATTTTTTTG
1 AATTTTTTAG
* *
11566993 AAATTTTCTAA
1 -AATTTTTTAG
11567004 AATTTTTT-G
1 AATTTTTTAG
*** *
11567013 AGGCTTTTAA
1 AATTTTTTAG
*
11567023 AATTGTTTAG
1 AATTTTTTAG
* *
11567033 AA-ATTTTAA
1 AATTTTTTAG
11567042 AAGTTTTTT-G
1 AA-TTTTTTAG
11567052 -ATTTTTTAG
1 AATTTTTTAG
* *
11567061 AAAGTTTTTAAA
1 -AA-TTTTTTAG
11567073 AAGTTTTTTAG
1 AA-TTTTTTAG
11567084 AATT
1 AATT
11567088 AAAAAAAATT
Statistics
Matches: 97, Mismatches: 26, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
8 6 0.06
9 24 0.25
10 34 0.35
11 27 0.28
12 6 0.06
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.54
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:11567009 original size:20 final size:19
Alignment explanation
Indices: 11566836--11567052 Score: 118
Period size: 19 Copynumber: 11.1 Consensus size: 19
11566826 AGAAATTTAA
* *
11566836 AAATTTTTAGAATTTTATG
1 AAATTTTTAAAATTTTTTG
* * *
11566855 GAATTGTTT-TAATTTTTTA
1 AAATT-TTTAAAATTTTTTG
* *
11566874 AAATATTTTAAAATCTTTTA
1 AAAT-TTTTAAAATTTTTTG
* *
11566894 AAATTTTGAAATAATTTTT-
1 AAATTTTTAAA-ATTTTTTG
* *
11566913 AAAATTTTAAAATTTTTTT
1 AAATTTTTAAAATTTTTTG
* * *
11566932 ACAAGATTTAAAAATTATTT-
1 A-AA-TTTTTAAAATTTTTTG
11566952 AGAATTTTTAAAATTTTTTAG
1 A-AATTTTTAAAATTTTTT-G
* * *
11566973 AATTGTTTTGAATTTTTTTG
1 AAAT-TTTTAAAATTTTTTG
11566993 AAATTTTCTAAAATTTTTTG
1 AAATTTT-TAAAATTTTTTG
*** *
11567013 AGGCTTTTAAAATTGTTTAG
1 AAATTTTTAAAATT-TTTTG
11567033 AAA-TTTTAAAAGTTTTTTG
1 AAATTTTTAAAA-TTTTTTG
11567052 A
1 A
11567053 TTTTTTAGAA
Statistics
Matches: 153, Mismatches: 32, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
18 6 0.04
19 68 0.44
20 53 0.35
21 26 0.17
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (19 bp):
AAATTTTTAAAATTTTTTG
Found at i:11567036 original size:40 final size:39
Alignment explanation
Indices: 11566942--11567053 Score: 106
Period size: 39 Copynumber: 2.8 Consensus size: 39
11566932 ACAAGATTTA
*
11566942 AAAATTATTTAG-AATTTTTAAAATTTTTTAGAATTGTTTT
1 AAAATTATTTAGAAATTTTTAAAATTTTTT-G-ATGGTTTT
* * *
11566982 -GAATTTTTTTGAAATTTTCTAAAATTTTTTGA-GGCTTTT
1 AAAATTATTTAGAAATTTT-TAAAATTTTTTGATGG-TTTT
*
11567021 AAAATTGTTTAGAAA-TTTTAAAAGTTTTTTGAT
1 AAAATTATTTAGAAATTTTTAAAA-TTTTTTGAT
11567054 TTTTTAGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
38 6 0.10
39 24 0.41
40 18 0.31
41 11 0.19
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.54
Consensus pattern (39 bp):
AAAATTATTTAGAAATTTTTAAAATTTTTTGATGGTTTT
Found at i:11567183 original size:19 final size:19
Alignment explanation
Indices: 11566865--11567073 Score: 129
Period size: 19 Copynumber: 10.6 Consensus size: 19
11566855 GAATTGTTTT
11566865 AATTTTTTAAAATATTTTAA
1 AATTTTTTAAAAT-TTTTAA
* *
11566885 AATCTTTTAAAATTTTGAA
1 AATTTTTTAAAATTTTTAA
*
11566904 ATAATTTTTAAAA-TTTTAA
1 A-ATTTTTTAAAATTTTTAA
*
11566923 AATTTTTTTACAAGA-TTTAAA
1 AA-TTTTTTA-AA-ATTTTTAA
* *
11566944 AATTATTTAGAATTTTTAA
1 AATTTTTTAAAATTTTTAA
* *
11566963 AATTTTTTAGAATTGTTTTGA
1 AATTTTTTA-AAAT-TTTTAA
* *
11566984 ATTTTTTTGAAATTTTCTAA
1 AATTTTTTAAAATTTT-TAA
* ***
11567004 AATTTTTTGAGGCTTTTAA
1 AATTTTTTAAAATTTTTAA
*
11567023 AATTGTTTAGAAA-TTTTAA
1 AATTTTTTA-AAATTTTTAA
* *
11567042 AAGTTTTTT-GATTTTTTAGA
1 AA-TTTTTTAAAATTTTTA-A
*
11567062 AAGTTTTTAAAA
1 AATTTTTTAAAA
11567074 AGTTTTTTAG
Statistics
Matches: 144, Mismatches: 32, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
18 3 0.02
19 63 0.44
20 58 0.40
21 20 0.14
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (19 bp):
AATTTTTTAAAATTTTTAA
Found at i:11567183 original size:20 final size:20
Alignment explanation
Indices: 11566865--11567185 Score: 89
Period size: 20 Copynumber: 15.9 Consensus size: 20
11566855 GAATTGTTTT
11566865 AATTTTTT-AAAATATTTTAA
1 AATTTTTTAAAAAT-TTTTAA
* *
11566885 AATCTTTT-AAAATTTTGAA
1 AATTTTTTAAAAATTTTTAA
*
11566904 ATAATTTTT-AAAA-TTTTAA
1 A-ATTTTTTAAAAATTTTTAA
* *
11566923 AATTTTTTTACAAGA-TTTAAA
1 AA-TTTTTTA-AAAATTTTTAA
* *
11566944 AATTATTT-AGAATTTTTAA
1 AATTTTTTAAAAATTTTTAA
* **
11566963 AATTTTTT-AGAATTGTTTTG
1 AATTTTTTAAAAATT-TTTAA
**
11566983 AATTTTTTTGAAATTTTCTAA
1 AATTTTTTAAAAATTTT-TAA
* ***
11567004 AATTTTTT-GAGGCTTTTAA
1 AATTTTTTAAAAATTTTTAA
* *
11567023 AATTGTTTAGAAA-TTTTAA
1 AATTTTTTAAAAATTTTTAA
* *
11567042 AAGTTTTTT--GATTTTTTAGA
1 AA-TTTTTTAAAAATTTTTA-A
* *
11567062 AAGTTTTTAAAAAGTTTTTTAG
1 AATTTTTTAAAAA--TTTTTAA
***
11567084 AA----TTAAAAAAAATTAA
1 AATTTTTTAAAAATTTTTAA
* * *
11567100 TATTTTATAAGAATTTTTTTAA
1 AATTTTTTAA-AA-ATTTTTAA
* *
11567122 TTTTAATTTTTTAAAAAATTTCTAC
1 ----AATTTTTT-AAAAATTTTTAA
11567147 AA-TTTTTAAAGAATTTTTAA
1 AATTTTTTAAA-AATTTTTAA
*
11567167 AATTTTTTAAAATTTTTTA
1 AATTTTTTAAAAATTTTTA
11567186 GAGTTTTTTT
Statistics
Matches: 222, Mismatches: 50, Indels: 58
0.67 0.15 0.18
Matches are distributed among these distances:
16 4 0.02
18 11 0.05
19 66 0.30
20 78 0.35
21 36 0.16
22 6 0.03
23 6 0.03
25 5 0.02
26 8 0.04
27 2 0.01
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (20 bp):
AATTTTTTAAAAATTTTTAA
Found at i:11567194 original size:10 final size:10
Alignment explanation
Indices: 11567126--11567185 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
11567116 TTTTAATTTT
11567126 AATTTTTTAAA
1 AATTTTTT-AA
* * *
11567137 AAATTTCTAC
1 AATTTTTTAA
11567147 AA-TTTTTAA
1 AATTTTTTAA
*
11567156 AGAATTTTTAA
1 A-ATTTTTTAA
11567167 AATTTTTTAA
1 AATTTTTTAA
11567177 AATTTTTTA
1 AATTTTTTA
11567186 GAGTTTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
9 6 0.15
10 21 0.51
11 14 0.34
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:11569893 original size:14 final size:14
Alignment explanation
Indices: 11569876--11569905 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11569866 AAATATAATA
11569876 ATTATTTATAAATT
1 ATTATTTATAAATT
*
11569890 ATTATTTATATATT
1 ATTATTTATAAATT
11569904 AT
1 AT
11569906 CTCCATTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTATTTATAAATT
Found at i:11573499 original size:30 final size:29
Alignment explanation
Indices: 11573465--11573522 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
11573455 CGATTAAATA
*
11573465 AAAATTAAAATCAATATA-ATGATAAAATTC
1 AAAATAAAAATCAATA-ACATG-TAAAATTC
11573495 AAAATAAAAATCAATAACATGTAAAATT
1 AAAATAAAAATCAATAACATGTAAAATT
11573523 TAATTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAATAAAAATCAATAACATGTAAAATTC
Found at i:11575736 original size:28 final size:27
Alignment explanation
Indices: 11575705--11575799 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 27
11575695 TAAATTGCTC
11575705 AATAAAAAATTAGTAAAATAAAATAAAA
1 AATAAAAAATTAG-AAAATAAAATAAAA
* *
11575733 AATAAAATATT-GAAAAAAAAAATAAAA
1 AATAAAAAATTAG-AAAATAAAATAAAA
*
11575760 TAATAAAAACTTA-AAATATAAAATGAAAA
1 -AATAAAAAATTAGAAA-ATAAAAT-AAAA
*
11575789 AAAATAAAAAT
1 AATA-AAAAAT
11575800 AAAATGAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
27 17 0.31
28 28 0.52
29 9 0.17
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (27 bp):
AATAAAAAATTAGAAAATAAAATAAAA
Found at i:11575767 original size:15 final size:14
Alignment explanation
Indices: 11575724--11575803 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
11575714 TTAGTAAAAT
11575724 AAAATAAAAAATAA
1 AAAATAAAAAATAA
* **
11575738 AATATTGAAAA-AA
1 AAAATAAAAAATAA
11575751 AAAATAAAATAATAA
1 AAAATAAAA-AATAA
* *
11575766 AAACTTAAAATATAA
1 AAA-ATAAAAAATAA
11575781 AATGAA-AAAAAAT-A
1 AA--AATAAAAAATAA
11575795 AAAATAAAA
1 AAAATAAAA
11575804 TGAAAAAAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
12 2 0.04
13 12 0.24
14 13 0.26
15 17 0.34
16 5 0.10
17 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAATAAAAAATAA
Found at i:11575777 original size:21 final size:22
Alignment explanation
Indices: 11575749--11575811 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
11575739 ATATTGAAAA
*
11575749 AAAAAATAAAAT-AATAAAAACTT
1 AAAAAATAAAATGAA-AAAAA-AT
*
11575772 AAAATATAAAATGAAAAAAAAT
1 AAAAAATAAAATGAAAAAAAAT
11575794 -AAAAATAAAATGAAAAAA
1 AAAAAATAAAATGAAAAAA
11575812 GAAAAACCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 17 0.47
22 1 0.03
23 16 0.44
24 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (22 bp):
AAAAAATAAAATGAAAAAAAAT
Found at i:11575801 original size:36 final size:33
Alignment explanation
Indices: 11575719--11575803 Score: 91
Period size: 36 Copynumber: 2.5 Consensus size: 33
11575709 AAAAATTAGT
**
11575719 AAAAT-AAAATAAAAAATAAAATATTGAAAAAA
1 AAAATAAAAATAAAAAATAAAATATAAAAAAAA
*
11575751 AAAATAAAATAATAAAAACTTAAAATATAAAATGAAAA
1 AAAAT-AAA-AATAAAAA-ATAAAATATAAAA--AAAA
11575789 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
11575804 TGAAAAAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
32 5 0.11
34 2 0.05
35 8 0.18
36 17 0.39
37 3 0.07
38 9 0.20
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.19
Consensus pattern (33 bp):
AAAATAAAAATAAAAAATAAAATATAAAAAAAA
Found at i:11575810 original size:7 final size:6
Alignment explanation
Indices: 11575719--11575803 Score: 52
Period size: 7 Copynumber: 13.5 Consensus size: 6
11575709 AAAAATTAGT
11575719 AAAAT- AAAATAA AAAATA AAATATTGA AAAA-A AAAATAA AATAATA
1 AAAATA AAAAT-A AAAATA AAA-A-T-A AAAATA AAAAT-A AA-AATA
* *
11575765 AAAACTT AAAATA TAAAAT- GAAA-A AAAATA AAAATA AAA
1 AAAA-TA AAAATA -AAAATA AAAATA AAAATA AAAATA AAA
11575804 TGAAAAAAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 23
0.70 0.04 0.25
Matches are distributed among these distances:
5 16 0.25
6 17 0.27
7 22 0.34
8 5 0.08
9 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:11576324 original size:23 final size:23
Alignment explanation
Indices: 11576298--11576351 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
11576288 TATTCAAACC
*
11576298 AAAAATCAACTTGCCTTTCCTCT
1 AAAAATCAACATGCCTTTCCTCT
**
11576321 AAAAATTTCCTCATGCCTTTCCTCT
1 AAAAA--TCAACATGCCTTTCCTCT
11576346 AAAAAT
1 AAAAAT
11576352 TCCCTAATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 6 0.23
25 20 0.77
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAAATCAACATGCCTTTCCTCT
Found at i:11576339 original size:25 final size:25
Alignment explanation
Indices: 11576309--11576366 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
11576299 AAAATCAACT
* *
11576309 TGCCTTTCCTCTAAAAATTTCCTCA
1 TGCCTTTCCTCTAAAAATTCCCTAA
11576334 TGCCTTTCCTCTAAAAATTCCCTAA
1 TGCCTTTCCTCTAAAAATTCCCTAA
11576359 TGCCTTTC
1 TGCCTTTC
11576367 TTTGCAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.22, C:0.33, G:0.05, T:0.40
Consensus pattern (25 bp):
TGCCTTTCCTCTAAAAATTCCCTAA
Found at i:11576628 original size:3 final size:3
Alignment explanation
Indices: 11576622--11576685 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
11576612 AAAAAGAAAG
11576622 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11576670 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
11576686 AATCAACACT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11588569 original size:17 final size:17
Alignment explanation
Indices: 11588547--11588584 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
11588537 TAAATTGCTT
11588547 AATAAAA-AAATCAATAA
1 AATAAAATAAAT-AATAA
11588564 AATAAAATAAATAATAA
1 AATAAAATAAATAATAA
11588581 AATA
1 AATA
11588585 CTGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAATAAATAATAA
Found at i:11588583 original size:26 final size:26
Alignment explanation
Indices: 11588547--11588667 Score: 76
Period size: 26 Copynumber: 4.7 Consensus size: 26
11588537 TAAATTGCTT
11588547 AATAAAAAAATCAAT-AAAATAAAATA
1 AATAAAAAAAT-AATGAAAATAAAATA
* *
11588573 AATAATAAAATACTGAAAATAAAA-A
1 AATAAAAAAATAATGAAAATAAAATA
* *
11588598 CAA-AATAATAAATAACTTAAAAT-ATA-A
1 -AATAA-AA-AAATAA-TGAAAATAAAATA
* * *
11588625 AATGATAAAA-AATCAAAATAAAA-A
1 AATAAAAAAATAATGAAAATAAAATA
*
11588649 AATAAAAAAAAAATGAAAA
1 AATAAAAAAATAATGAAAA
11588668 AAGGAAAACC
Statistics
Matches: 74, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
23 6 0.08
24 13 0.18
25 15 0.20
26 25 0.34
27 9 0.12
28 6 0.08
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.19
Consensus pattern (26 bp):
AATAAAAAAATAATGAAAATAAAATA
Found at i:11588597 original size:41 final size:40
Alignment explanation
Indices: 11588528--11588609 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 40
11588518 CAAAATATTT
* * *
11588528 AATAAATAATAAATTGCTTAATAAAAAAATCAATAA-AATAA
1 AATAAATAATAAAATACTGAATAAAAAAA-CAA-AATAATAA
11588569 AATAAATAATAAAATACTGAA-AATAAAAACAAAATAATAA
1 AATAAATAATAAAATACTGAATAA-AAAAACAAAATAATAA
11588609 A
1 A
11588610 TAACTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
39 2 0.06
40 11 0.31
41 23 0.64
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (40 bp):
AATAAATAATAAAATACTGAATAAAAAAACAAAATAATAA
Found at i:11588604 original size:28 final size:29
Alignment explanation
Indices: 11588572--11588626 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
11588562 AAAATAAAAT
11588572 AAATAATAAA-ATACTGAAAATA-AAAACA
1 AAATAATAAATA-ACTGAAAATATAAAACA
*
11588600 AAATAATAAATAACTTAAAATATAAAA
1 AAATAATAAATAACTGAAAATATAAAA
11588627 TGATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (29 bp):
AAATAATAAATAACTGAAAATATAAAACA
Found at i:11589419 original size:3 final size:3
Alignment explanation
Indices: 11589413--11589609 Score: 158
Period size: 3 Copynumber: 67.3 Consensus size: 3
11589403 AAAGAGAAAG
* * * *
11589413 ATA ATA AAA ATA ATA AAA ATA ATAA ATA ACA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* *
11589459 GTA ATA AT- ATA A-A AGCA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
11589502 ATA GTA AT- ATA ATA AT- ATA AT- ATA AT- ATA CTA TATC ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* ** * * * *
11589544 ATA GTA ATA ATA GCA ATA ATA GTA AGA ATA ACA GTA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
11589591 ATA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
11589610 AAATCAACAC
Statistics
Matches: 150, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
2 16 0.11
3 128 0.85
4 6 0.04
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:11589489 original size:26 final size:25
Alignment explanation
Indices: 11589413--11589596 Score: 114
Period size: 26 Copynumber: 7.2 Consensus size: 25
11589403 AAAGAGAAAG
* *
11589413 ATAATAAAAATAATAAAAATAATAAAT
1 ATAAT-AAAATAGTAATAATAAT-AAT
* *
11589440 AACAATAATAATAGTAATAGTAATAAT
1 -ATAATAA-AATAGTAATAATAATAAT
*
11589467 ATAA-AAGCAATAATAATAATAATAAT
1 ATAATAA--AATAGTAATAATAATAAT
11589493 AATAATAAAATAGTAAT-ATAATAAT
1 -ATAATAAAATAGTAATAATAATAAT
* *
11589518 ATAATATAATATACTATATCATAATAAT
1 ATAATA-AA-ATAGTA-ATAATAATAAT
* *
11589546 AGTAAT--AATAGCAATAATAGT-A-
1 A-TAATAAAATAGTAATAATAATAAT
* *
11589568 AGAAT--AACAGTAATAATAATAAT
1 ATAATAAAATAGTAATAATAATAAT
11589591 ATAATA
1 ATAATA
11589597 GTAATAATAA
Statistics
Matches: 125, Mismatches: 19, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
21 15 0.12
22 2 0.02
23 5 0.04
24 12 0.10
25 16 0.13
26 33 0.26
27 11 0.09
28 27 0.22
29 4 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (25 bp):
ATAATAAAATAGTAATAATAATAAT
Found at i:11589514 original size:5 final size:5
Alignment explanation
Indices: 11589476--11589535 Score: 52
Period size: 5 Copynumber: 11.6 Consensus size: 5
11589466 TATAAAAGCA
*
11589476 ATAAT AATAAT AATAAT AATAAT AAAAT AGTAAT AT-A- ATAAT ATAAT
1 ATAAT -ATAAT -ATAAT -ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT
*
11589523 ATAAT ATACT ATA
1 ATAAT ATAAT ATA
11589536 TCATAATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 23 0.48
6 21 0.44
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:11593052 original size:2 final size:2
Alignment explanation
Indices: 11593045--11593069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11593035 AAATAAATTG
11593045 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11593070 AATCTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11593746 original size:15 final size:14
Alignment explanation
Indices: 11593728--11593765 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
11593718 TTTATTTCAT
11593728 TACAAAATATTGTTA
1 TACAAAATATT-TTA
11593743 TACAAAA-ATTTTA
1 TACAAAATATTTTA
*
11593756 TAAAAAATAT
1 TACAAAATAT
11593766 CATGCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 9 0.43
14 5 0.24
15 7 0.33
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (14 bp):
TACAAAATATTTTA
Found at i:11593817 original size:24 final size:25
Alignment explanation
Indices: 11593753--11593838 Score: 90
Period size: 24 Copynumber: 3.5 Consensus size: 25
11593743 TACAAAAATT
11593753 TTATAA-AAAATATCATGC-AATAATA
1 TTATAATAAAA-ATCATGCAAATAA-A
* *
11593778 CTATAATCAAAA-CATGCAAATAAA
1 TTATAATAAAAATCATGCAAATAAA
* *
11593802 TTGT-ATAAAAATCATGCAAATATA
1 TTATAATAAAAATCATGCAAATAAA
11593826 TTATAATAAAAAT
1 TTATAATAAAAAT
11593839 ATACCAGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
23 6 0.12
24 22 0.44
25 19 0.38
26 3 0.06
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (25 bp):
TTATAATAAAAATCATGCAAATAAA
Found at i:11597179 original size:15 final size:15
Alignment explanation
Indices: 11597161--11597204 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11597151 AGCTTTTATC
11597161 TTTTTTTGTTTTTCA
1 TTTTTTTGTTTTTCA
*
11597176 TTTTTTTGTTATTTTA
1 TTTTTTTGTT-TTTCA
* *
11597192 ATTTTTTATTTTT
1 TTTTTTTGTTTTT
11597205 TTACACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTTTTTGTTTTTCA
Found at i:11597522 original size:21 final size:21
Alignment explanation
Indices: 11597495--11597546 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11597485 ATCATTAATT
*
11597495 TTAATTTTATCATTATAA-CA
1 TTAATTTTATCATTATAATAA
*
11597515 TCTAATTTAATCATTATAATAA
1 T-TAATTTTATCATTATAATAA
11597537 TTAATTTTAT
1 TTAATTTTAT
11597547 TTTTATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.89
22 2 0.07
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATTTTATCATTATAATAA
Found at i:11604271 original size:35 final size:36
Alignment explanation
Indices: 11604231--11604298 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
11604221 TTCTTTCAAC
*
11604231 CTATTTT-TTCTTTTGATTGTTTTA-TTTTACTTTTT
1 CTATTTTATT-TTTAGATTGTTTTATTTTTACTTTTT
*
11604266 CTATTTTATTTTTAGATTTTTTTATTTTTACTT
1 CTATTTTATTTTTAGATTGTTTTATTTTTACTT
11604299 ATTATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 19 0.66
36 10 0.34
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (36 bp):
CTATTTTATTTTTAGATTGTTTTATTTTTACTTTTT
Found at i:11605842 original size:12 final size:12
Alignment explanation
Indices: 11605807--11605846 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
11605797 TTTCTTATTT
*
11605807 CATTCATACATT
1 CATTCATACATG
*
11605819 CATGCATACATG
1 CATTCATACATG
*
11605831 CATTCATTCATG
1 CATTCATACATG
11605843 CATT
1 CATT
11605847 ATTTCATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (12 bp):
CATTCATACATG
Found at i:11606348 original size:14 final size:14
Alignment explanation
Indices: 11606329--11606356 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11606319 CAAACATGTA
11606329 TTTGTATATACATT
1 TTTGTATATACATT
11606343 TTTGTATATACATT
1 TTTGTATATACATT
11606357 ATTTCATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTGTATATACATT
Found at i:11607165 original size:3 final size:3
Alignment explanation
Indices: 11607157--11607203 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
11607147 TGAGTTACAA
11607157 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11607204 GAGAAAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11609159 original size:15 final size:15
Alignment explanation
Indices: 11609139--11609168 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11609129 TTGAATAAGA
*
11609139 ATCTTTGAAATTTTG
1 ATCTTTGAAAATTTG
11609154 ATCTTTGAAAATTTG
1 ATCTTTGAAAATTTG
11609169 GATATGAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
ATCTTTGAAAATTTG
Found at i:11609199 original size:40 final size:39
Alignment explanation
Indices: 11609149--11609231 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
11609139 ATCTTTGAAA
* * *
11609149 TTTTGATCTTTGAAAATTTGGATATGAATCTCCAAACTT
1 TTTTGATCTTTCAAAATTTAGATATGAATCTCCAAAATT
* * *
11609188 TTTTGAATCTTTCAAATTTTAGATGTGAATCTCTAAAATT
1 TTTTG-ATCTTTCAAAATTTAGATATGAATCTCCAAAATT
11609228 TTTT
1 TTTT
11609232 AAATGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 5 0.14
40 32 0.86
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (39 bp):
TTTTGATCTTTCAAAATTTAGATATGAATCTCCAAAATT
Found at i:11609216 original size:22 final size:22
Alignment explanation
Indices: 11609191--11609354 Score: 87
Period size: 22 Copynumber: 7.3 Consensus size: 22
11609181 CAAACTTTTT
* *
11609191 TGAATCTTTCAAATTTTAGATG
1 TGAATCTTTAAAATTTTAAATG
*
11609213 TGAATCTCTAAAATTTTTTAAATG
1 TGAATCTTTAAAA--TTTTAAATG
* *
11609237 TAAATCTTTGAAATTTTAAATG
1 TGAATCTTTAAAATTTTAAATG
* ** **
11609259 TGAAACCCTAAAATTTTTTGGATG
1 TGAATCTTTAAAA--TTTTAAATG
* * ***
11609283 AGAATCTTTTAAATTTTGGTTG
1 TGAATCTTTAAAATTTTAAATG
* * * *
11609305 TAAAT-ATTAAAGTTTTTGAATG
1 TGAATCTTTAAA-ATTTTAAATG
* *
11609327 TGAATTTTTAAAATTTTCAATG
1 TGAATCTTTAAAATTTTAAATG
11609349 TGAATC
1 TGAATC
11609355 CCTAAGTTTT
Statistics
Matches: 105, Mismatches: 31, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
21 4 0.04
22 63 0.60
23 5 0.05
24 33 0.31
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (22 bp):
TGAATCTTTAAAATTTTAAATG
Found at i:11609237 original size:24 final size:24
Alignment explanation
Indices: 11609204--11609277 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
11609194 ATCTTTCAAA
*
11609204 TTTTAGATGTGAATCTCTAAAATT
1 TTTTAAATGTGAATCTCTAAAATT
* * *
11609228 TTTTAAATGTAAATCTTTGAAA--
1 TTTTAAATGTGAATCTCTAAAATT
* *
11609250 TTTTAAATGTGAAACCCTAAAATT
1 TTTTAAATGTGAATCTCTAAAATT
11609274 TTTT
1 TTTT
11609278 GGATGAGAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 17 0.44
24 22 0.56
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.46
Consensus pattern (24 bp):
TTTTAAATGTGAATCTCTAAAATT
Found at i:11609260 original size:46 final size:46
Alignment explanation
Indices: 11609192--11609299 Score: 137
Period size: 46 Copynumber: 2.3 Consensus size: 46
11609182 AAACTTTTTT
* * *
11609192 GAATCTTTCAAATTTTAGATGTGAATCTCTAAAATTTTTTAAATGTA
1 GAATCTTTCAAATTTTAAATGTGAAACCCTAAAATTTTTTAAATG-A
* **
11609239 -AATCTTTGAAATTTTAAATGTGAAACCCTAAAATTTTTTGGATGA
1 GAATCTTTCAAATTTTAAATGTGAAACCCTAAAATTTTTTAAATGA
*
11609284 GAATCTTTTAAATTTT
1 GAATCTTTCAAATTTT
11609300 GGTTGTAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.02
46 52 0.98
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (46 bp):
GAATCTTTCAAATTTTAAATGTGAAACCCTAAAATTTTTTAAATGA
Found at i:11609670 original size:16 final size:17
Alignment explanation
Indices: 11609631--11609674 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11609621 TATTTGATTT
*
11609631 CTTGCAAATTTGAAATC
1 CTTGCAAATCTGAAATC
11609648 CTTGCAAATCTGAAAT-
1 CTTGCAAATCTGAAATC
*
11609664 TTTGCAAATCT
1 CTTGCAAATCT
11609675 ATCAATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (17 bp):
CTTGCAAATCTGAAATC
Found at i:11609890 original size:17 final size:16
Alignment explanation
Indices: 11609868--11609906 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
11609858 AAACTTTTGC
11609868 GAATCTGAAGTTCTTAT
1 GAATCTG-AGTTCTTAT
*
11609885 GAATCTGCGTTCTTAT
1 GAATCTGAGTTCTTAT
11609901 GAATCT
1 GAATCT
11609907 AAAATTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (16 bp):
GAATCTGAGTTCTTAT
Found at i:11609947 original size:17 final size:17
Alignment explanation
Indices: 11609925--11609992 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
11609915 AATATTTGAT
11609925 TTCTTGTGAACTTGAAA
1 TTCTTGTGAACTTGAAA
*
11609942 TTCTTGCGGAAC-TGAAA
1 TTCTTG-TGAACTTGAAA
*
11609959 TTCTTATGAA-TATGAAA
1 TTCTTGTGAACT-TGAAA
* *
11609976 TTCTTGAGAATTTGAAA
1 TTCTTGTGAACTTGAAA
11609993 CTTTTTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.07
17 34 0.81
18 5 0.12
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (17 bp):
TTCTTGTGAACTTGAAA
Found at i:11610105 original size:33 final size:33
Alignment explanation
Indices: 11610032--11610106 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
11610022 TAGTATTTCC
*
11610032 TATGAATCTTTCATTCTTGTGAATCTAAAAACT
1 TATGAATCTTTCATGCTTGTGAATCTAAAAACT
** * **
11610065 TGCGAATC-TTCTATGCTTGTGATTCTAAATTCT
1 TATGAATCTTTC-ATGCTTGTGAATCTAAAAACT
11610098 TATGAATCT
1 TATGAATCT
11610107 GGAACCTTTG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (33 bp):
TATGAATCTTTCATGCTTGTGAATCTAAAAACT
Found at i:11610126 original size:17 final size:17
Alignment explanation
Indices: 11610100--11610155 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
11610090 TAAATTCTTA
*
11610100 TGAATCTGGAACCTTTG
1 TGAATATGGAACCTTTG
* *
11610117 CGAATATGGAATCTTTG
1 TGAATATGGAACCTTTG
*
11610134 TGAA-ATTGAAACCTTTG
1 TGAATA-TGGAACCTTTG
11610151 TGAAT
1 TGAAT
11610156 TTTGAACTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.03
17 30 0.97
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (17 bp):
TGAATATGGAACCTTTG
Found at i:11610294 original size:18 final size:19
Alignment explanation
Indices: 11610257--11610294 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11610247 AGAATATTGC
* *
11610257 AACTATGAAATGTTTGTGA
1 AACTATGAAATCTTTATGA
11610276 AACT-TGAAATCTTTATGA
1 AACTATGAAATCTTTATGA
11610294 A
1 A
11610295 TCTAGAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (19 bp):
AACTATGAAATCTTTATGA
Found at i:11610372 original size:17 final size:18
Alignment explanation
Indices: 11610350--11610390 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11610340 TTTGCAAAAC
11610350 TTGAAA-TTCTTGCGAAT-
1 TTGAAACTT-TTGCGAATA
11610367 TTGAAAACTTTTGCGAATA
1 TTG-AAACTTTTGCGAATA
11610386 TTGAA
1 TTGAA
11610391 TCTTAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 13 0.62
19 5 0.24
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (18 bp):
TTGAAACTTTTGCGAATA
Found at i:11611463 original size:6 final size:6
Alignment explanation
Indices: 11611454--11611557 Score: 59
Period size: 6 Copynumber: 16.5 Consensus size: 6
11611444 TTTGATTTGA
* *
11611454 TTTTAT TTTT-T TTTTACT TTTTTT GTTTTAT TTTCA- TTTTAT TTTTAGATT
1 TTTTAT TTTTAT TTTTA-T TTTTAT -TTTTAT TTTTAT TTTTAT TTTT--A-T
* * * * * *
11611505 TTTTAT TTTTACT TATTAT TATTAT TATTAT TTTCAT CTTTAAT TATTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT
11611555 TTT
1 TTT
11611558 ACTCATTACT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 9 0.12
6 42 0.54
7 21 0.27
8 1 0.01
9 5 0.06
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:11611493 original size:25 final size:25
Alignment explanation
Indices: 11611449--11611499 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11611439 TTTGTTTTGA
**
11611449 TTTGATTTTATTTTTTTTTTACTTTT
1 TTTGATTTTATTTTCATTTTA-TTTT
11611475 TTTG-TTTTATTTTCATTTTATTTT
1 TTTGATTTTATTTTCATTTTATTTT
11611499 T
1 T
11611500 AGATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 14 0.61
26 4 0.17
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (25 bp):
TTTGATTTTATTTTCATTTTATTTT
Found at i:11611507 original size:31 final size:30
Alignment explanation
Indices: 11611443--11611513 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
11611433 CTATTTTTTG
* * *
11611443 TTTTGATTTGATTTTATTTTTTTTTTACTTT
1 TTTTG-TTTTATTTTATTTTATTTTTACATT
*
11611474 TTTTGTTTTATTTTCATTTTATTTTTAGATT
1 TTTTGTTTTATTTT-ATTTTATTTTTACATT
*
11611505 TTTTATTTT
1 TTTTGTTTT
11611514 TACTTATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (30 bp):
TTTTGTTTTATTTTATTTTATTTTTACATT
Found at i:11612611 original size:3 final size:3
Alignment explanation
Indices: 11612603--11612652 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
11612593 AAATCAGTTT
11612603 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
11612649 ATA A
1 ATA A
11612653 AAGATTCTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11613347 original size:15 final size:18
Alignment explanation
Indices: 11613315--11613351 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
11613305 TATCATTTAC
11613315 TTTATTAATATTTAAAAT
1 TTTATTAATATTTAAAAT
11613333 TTTA-TAATA-TT-AAAT
1 TTTATTAATATTTAAAAT
11613348 TTTA
1 TTTA
11613352 ATAAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 5 0.26
18 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATTAATATTTAAAAT
Found at i:11614994 original size:3 final size:3
Alignment explanation
Indices: 11614986--11615016 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11614976 GTCGTAAGCT
11614986 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11615017 CAAAATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11621752 original size:10 final size:10
Alignment explanation
Indices: 11621737--11621770 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11621727 TAAAAATTTT
11621737 TTTTTTCTTA
1 TTTTTTCTTA
11621747 TTTTTTCTTA
1 TTTTTTCTTA
* *
11621757 TTCTTTATTA
1 TTTTTTCTTA
11621767 TTTT
1 TTTT
11621771 AAAAGATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTCTTA
Found at i:11622961 original size:26 final size:26
Alignment explanation
Indices: 11622908--11622961 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
11622898 TTCTGTTGTG
* * *
11622908 TTTGGTTTTTTTTTTATATTTTATAT
1 TTTGGTATTTTTTATATATTTTACAT
* *
11622934 TTTGGTATTTTTTATGTATTTTGCAT
1 TTTGGTATTTTTTATATATTTTACAT
11622960 TT
1 TT
11622962 AATAATATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (26 bp):
TTTGGTATTTTTTATATATTTTACAT
Found at i:11623314 original size:49 final size:49
Alignment explanation
Indices: 11623210--11623354 Score: 202
Period size: 49 Copynumber: 3.0 Consensus size: 49
11623200 AAAATATGAA
* *
11623210 AAAAAAGCGCCTCTCAGCAGAGGTTCAATAACTTTAAAAAT-TCATATT
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATCTCATATT
* * * * *
11623258 GAAAAAGCTCCTCTCAGCAGAGGCTCGACAACTTTTAAAATCTCATCTT
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATCTCATATT
* *
11623307 AAAAAAGCTCCTCTCAGCAAAGACTCAATAACTTTAAAAATCTCATAT
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATCTCATAT
11623355 GTTCTCAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
48 35 0.43
49 47 0.57
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (49 bp):
AAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATCTCATATT
Found at i:11630582 original size:22 final size:22
Alignment explanation
Indices: 11630557--11630601 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11630547 GTTGGGATAT
11630557 CCACCGAGAGTAGGAATTGGCA
1 CCACCGAGAGTAGGAATTGGCA
11630579 CCACCGAGAGTAGGAATTGGCA
1 CCACCGAGAGTAGGAATTGGCA
11630601 C
1 C
11630602 TCTAGTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.31, T:0.13
Consensus pattern (22 bp):
CCACCGAGAGTAGGAATTGGCA
Found at i:11635955 original size:18 final size:17
Alignment explanation
Indices: 11635934--11635968 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11635924 TTTTTTGATA
11635934 TTTTGTATTTTGATATTT
1 TTTTGTATTTT-ATATTT
11635952 TTTTGTATTTTATATTT
1 TTTTGTATTTTATATTT
11635969 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTTGTATTTTATATTT
Done.