Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 57 of 160
Found at i:12056596 original size:13 final size:13
Alignment explanation
Indices: 12056578--12056602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12056568 TGGTTTTGTT
12056578 AAAAAAAATGAGG
1 AAAAAAAATGAGG
12056591 AAAAAAAATGAG
1 AAAAAAAATGAG
12056603 ATTGATTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (13 bp):
AAAAAAAATGAGG
Found at i:12058065 original size:6 final size:6
Alignment explanation
Indices: 12058054--12058114 Score: 52
Period size: 6 Copynumber: 9.5 Consensus size: 6
12058044 TTGGCGCAGG
* *
12058054 TTTGAT TTTGATT TTTTAT TTT-ATT TTTTATT TTTGAT TTTGTATT TTTGAT
1 TTTGAT TTTGA-T TTTGAT TTTGA-T TTTGA-T TTTGAT TTTG-A-T TTTGAT
12058106 TTTGAT TTT
1 TTTGAT TTT
12058115 TTTGTTACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
5 1 0.02
6 28 0.58
7 14 0.29
8 5 0.10
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (6 bp):
TTTGAT
Found at i:12058077 original size:5 final size:5
Alignment explanation
Indices: 12058067--12058153 Score: 56
Period size: 5 Copynumber: 17.4 Consensus size: 5
12058057 GATTTTGATT
* * * * *
12058067 TTTTA TTTTA TTTT- TTATT- TTTGA TTTTG TATT- TTTGA TTTTGA TTTTT
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA
*
12058116 TTGTTA CTTTA TTTTA TTTTA TTTT- TTGTTA TTTTA TT
1 TT-TTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TT
12058154 AATTGTGATT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
4 7 0.11
5 47 0.73
6 10 0.16
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:12058088 original size:20 final size:20
Alignment explanation
Indices: 12058065--12058153 Score: 60
Period size: 21 Copynumber: 4.5 Consensus size: 20
12058055 TTGATTTTGA
12058065 TTTTTTATTTTATTTTTTAT
1 TTTTTTATTTTATTTTTTAT
* *
12058085 TTTTGATT-TTGTATTTTTGA-
1 TTTT--TTATTTTATTTTTTAT
* *
12058105 -TTTTGATTTT-TTTGTTACT
1 TTTTTTATTTTATTTTTTA-T
*
12058124 TTATTTTATTTTATTTTTTGT
1 TT-TTTTATTTTATTTTTTAT
*
12058145 TATTTTATT
1 TTTTTTATT
12058154 AATTGTGATT
Statistics
Matches: 51, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
17 6 0.12
18 3 0.06
19 3 0.06
20 12 0.24
21 20 0.39
22 7 0.14
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTTTATTTTATTTTTTAT
Found at i:12058109 original size:14 final size:14
Alignment explanation
Indices: 12058059--12058115 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
12058049 GCAGGTTTGA
*
12058059 TTTTGATTTTTTA-
1 TTTTGATTTTGTAT
*
12058072 TTTT-ATTTTTTAT
1 TTTTGATTTTGTAT
12058085 TTTTGATTTTGTAT
1 TTTTGATTTTGTAT
12058099 TTTTGATTTTG-AT
1 TTTTGATTTTGTAT
12058112 TTTT
1 TTTT
12058116 TTGTTACTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
12 8 0.20
13 14 0.34
14 19 0.46
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (14 bp):
TTTTGATTTTGTAT
Found at i:12058116 original size:14 final size:14
Alignment explanation
Indices: 12058059--12058108 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
12058049 GCAGGTTTGA
12058059 TTTTGATTTTTTA-
1 TTTTGATTTTTTAT
12058072 TTTT-ATTTTTTAT
1 TTTTGATTTTTTAT
*
12058085 TTTTGATTTTGTAT
1 TTTTGATTTTTTAT
12058099 TTTTGATTTT
1 TTTTGATTTT
12058109 GATTTTTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 8 0.24
13 8 0.24
14 18 0.53
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (14 bp):
TTTTGATTTTTTAT
Found at i:12058293 original size:14 final size:13
Alignment explanation
Indices: 12058246--12058302 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
12058236 TTTCTATGTT
12058246 ATTTATTTGCATG
1 ATTTATTTGCATG
12058259 ATTTA-TT--ATG
1 ATTTATTTGCATG
*
12058269 ATACT-TTTGCATG
1 AT-TTATTTGCATG
12058282 AATTTATTTGCATG
1 -ATTTATTTGCATG
12058296 ATTTATT
1 ATTTATT
12058303 ACTACATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
10 5 0.14
11 3 0.08
12 2 0.06
13 16 0.44
14 10 0.28
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.54
Consensus pattern (13 bp):
ATTTATTTGCATG
Found at i:12058365 original size:23 final size:23
Alignment explanation
Indices: 12058288--12058369 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
12058278 CATGAATTTA
*
12058288 TTTGCATGATTTATTACTACATT
1 TTTGCATGATTTATTACTATATT
** *
12058311 TTTGTGTGAATTTTTTA-TGATATTT
1 TTTGCATG-ATTTATTACT-ATA-TT
*
12058336 ATTTGCATGATTAATTACTATATT
1 -TTTGCATGATTTATTACTATATT
12058360 TTTGCATGAT
1 TTTGCATGAT
12058370 GTTTTTGCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
23 17 0.37
24 11 0.24
25 11 0.24
26 7 0.15
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (23 bp):
TTTGCATGATTTATTACTATATT
Found at i:12058410 original size:86 final size:85
Alignment explanation
Indices: 12058227--12058412 Score: 193
Period size: 86 Copynumber: 2.2 Consensus size: 85
12058217 TATAATTTTA
* * *
12058227 TTTGCATG-TTTTCTATGTTATTTATTTGCATGATTTATTATGATACTTTTGCATGAATTTATTT
1 TTTGCATGATTTTTTATGATATTTATTTGCATGATTAATTATGATACTTTTGCATGAATTTATTT
* *
12058291 GCATGATTTATTACTACATT
66 GCATAATTTATTACTACATG
** *
12058311 TTTGTGTGAATTTTTTATGATATTTATTTGCATGATTAATTACT-ATATTTTTGCATG-ATGTT-
1 TTTGCATG-ATTTTTTATGATATTTATTTGCATGATTAATTA-TGATACTTTTGCATGAAT-TTA
* *
12058373 TTTGCATTAATTT-TTATTTTGCATG
63 TTTGCA-TAATTTATTA--CTACATG
12058398 TTTGCATGATTTTTT
1 TTTGCATGATTTTTT
12058413 TTAATAGAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
84 6 0.07
85 11 0.13
86 55 0.66
87 11 0.13
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.57
Consensus pattern (85 bp):
TTTGCATGATTTTTTATGATATTTATTTGCATGATTAATTATGATACTTTTGCATGAATTTATTT
GCATAATTTATTACTACATG
Found at i:12058598 original size:13 final size:13
Alignment explanation
Indices: 12058545--12058599 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
12058535 CCTTGAGTTA
12058545 TTATTTGCATGAT
1 TTATTTGCATGAT
12058558 TTA-TT--ATTGAT
1 TTATTTGCA-TGAT
*
12058569 AT-TTTGCATGAAT
1 TTATTTGCATG-AT
12058582 TTATTTGCATGAT
1 TTATTTGCATGAT
12058595 TTATT
1 TTATT
12058600 ACTACATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
10 1 0.03
11 7 0.21
12 4 0.12
13 14 0.41
14 8 0.24
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.56
Consensus pattern (13 bp):
TTATTTGCATGAT
Found at i:12058611 original size:23 final size:23
Alignment explanation
Indices: 12058585--12058709 Score: 107
Period size: 23 Copynumber: 5.4 Consensus size: 23
12058575 CATGAATTTA
*
12058585 TTTGCATGATTTATTACTACATT
1 TTTGCATGATTTATTACTATATT
** *
12058608 TTTGTGTGAATTTTTTA-TGATATTT
1 TTTGCATG-ATTTATTACT-ATA-TT
*
12058633 ATTTGCATGATTAATTACTATATT
1 -TTTGCATGATTTATTACTATATT
*
12058657 TTTGCATGAATTT-TTA-T-T-TA
1 TTTGCATG-ATTTATTACTATATT
*
12058677 TTTGCATGATTAATTACTATATT
1 TTTGCATGATTTATTACTATATT
12058700 TTTGCATGAT
1 TTTGCATGAT
12058710 GTTTTTGCAT
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
19 3 0.04
20 12 0.15
21 2 0.03
22 2 0.03
23 29 0.36
24 14 0.17
25 11 0.14
26 7 0.09
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.55
Consensus pattern (23 bp):
TTTGCATGATTTATTACTATATT
Found at i:12058611 original size:37 final size:37
Alignment explanation
Indices: 12058545--12058620 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
12058535 CCTTGAGTTA
**
12058545 TTATTTGCATGATTTATTATTGATATTTTGCATGAAT
1 TTATTTGCATGATTTATTATACATATTTTGCATGAAT
**
12058582 TTATTTGCATGATTTATTACTACAT-TTTTGTGTGAAT
1 TTATTTGCATGATTTATTA-TACATATTTTGCATGAAT
12058619 TT
1 TT
12058621 TTTATGATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 31 0.91
38 3 0.09
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.55
Consensus pattern (37 bp):
TTATTTGCATGATTTATTATACATATTTTGCATGAAT
Found at i:12058634 original size:49 final size:46
Alignment explanation
Indices: 12058576--12058708 Score: 175
Period size: 43 Copynumber: 2.9 Consensus size: 46
12058566 GATATTTTGC
* * **
12058576 ATGA-ATTTATTTGCATGATTTATTACTACATTTTTGTGTGAATTTTTT
1 ATGATATTTATTTGCATGATTAATTACTATATTTTTGCATGAA---TTT
12058624 ATGATATTTATTTGCATGATTAATTACTATATTTTTGCATGAATTT
1 ATGATATTTATTTGCATGATTAATTACTATATTTTTGCATGAATTT
12058670 -T--TATTTATTTGCATGATTAATTACTATATTTTTGCATGA
1 ATGATATTTATTTGCATGATTAATTACTATATTTTTGCATGA
12058709 TGTTTTTGCA
Statistics
Matches: 80, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
43 38 0.47
45 1 0.01
46 3 0.04
48 4 0.05
49 34 0.43
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (46 bp):
ATGATATTTATTTGCATGATTAATTACTATATTTTTGCATGAATTT
Found at i:12058726 original size:12 final size:13
Alignment explanation
Indices: 12058695--12058727 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12058685 ATTAATTACT
12058695 ATATTTTTGCATG
1 ATATTTTTGCATG
*
12058708 ATGTTTTTGCATG
1 ATATTTTTGCATG
12058721 A-ATTTTT
1 ATATTTTT
12058728 ATTTTGCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (13 bp):
ATATTTTTGCATG
Found at i:12062301 original size:10 final size:10
Alignment explanation
Indices: 12062287--12062337 Score: 59
Period size: 10 Copynumber: 4.9 Consensus size: 10
12062277 ATATTAAATT
12062287 TTTTTGAAAAA
1 TTTTT-AAAAA
12062298 TTTTT-AAAA
1 TTTTTAAAAA
12062307 TTTTTAAAGAAA
1 TTTTT-AA-AAA
*
12062319 TTTTTAAAAC
1 TTTTTAAAAA
12062329 TTTTTAAAA
1 TTTTTAAAA
12062338 TTTCAAAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
9 9 0.25
10 11 0.31
11 8 0.22
12 8 0.22
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (10 bp):
TTTTTAAAAA
Found at i:12062308 original size:9 final size:9
Alignment explanation
Indices: 12062294--12062340 Score: 58
Period size: 9 Copynumber: 4.8 Consensus size: 9
12062284 ATTTTTTTGA
12062294 AAAATTTTT
1 AAAATTTTT
12062303 AAAATTTTT
1 AAAATTTTT
12062312 AAAGAAATTTTT
1 --A-AAATTTTT
12062324 AAAACTTTTT
1 AAAA-TTTTT
12062334 AAAATTT
1 AAAATTT
12062341 CAAAAGTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 15 0.44
10 10 0.29
11 1 0.03
12 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (9 bp):
AAAATTTTT
Found at i:12062308 original size:22 final size:22
Alignment explanation
Indices: 12062280--12062336 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
12062270 TTAATACATA
* *
12062280 TTAAATTTTTTTGAA-AAATTT
1 TTAAAATTTTTTAAAGAAATTT
12062301 TTAAAA-TTTTTAAAGAAATTT
1 TTAAAATTTTTTAAAGAAATTT
*
12062322 TTAAAACTTTTTAAA
1 TTAAAATTTTTTAAA
12062337 ATTTCAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 7 0.22
21 17 0.53
22 8 0.25
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (22 bp):
TTAAAATTTTTTAAAGAAATTT
Found at i:12062473 original size:19 final size:17
Alignment explanation
Indices: 12062450--12062495 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 17
12062440 TAAAAGTACC
12062450 TTAAAAAATTTTTAAATT
1 TTAAAAAATTTTT-AATT
12062468 TCTAAAAAATTTTTAATT
1 T-TAAAAAATTTTTAATT
*
12062486 TTAACAAATT
1 TTAAAAAATT
12062496 AAGAAAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.31
18 6 0.23
19 12 0.46
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAAAATTTTTAATT
Found at i:12062480 original size:18 final size:17
Alignment explanation
Indices: 12062450--12062495 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
12062440 TAAAAGTACC
12062450 TTAAAAAATTTTTAAATT
1 TTAAAAAA-TTTTAAATT
*
12062468 TCTAAAAAATTTTTAATT
1 T-TAAAAAATTTTAAATT
*
12062486 TTAACAAATT
1 TTAAAAAATT
12062496 AAGAAAATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAAAATTTTAAATT
Found at i:12062577 original size:10 final size:10
Alignment explanation
Indices: 12062546--12062632 Score: 97
Period size: 10 Copynumber: 8.7 Consensus size: 10
12062536 GCTAAAATGT
12062546 TTTTAAAAAA
1 TTTTAAAAAA
* *
12062556 TTCT-AAATA
1 TTTTAAAAAA
*
12062565 TTTTACAAAA
1 TTTTAAAAAA
12062575 -TTTAAAACAA
1 TTTTAAAA-AA
*
12062585 TTTTAAAACA
1 TTTTAAAAAA
12062595 TTTTAAAAAA
1 TTTTAAAAAA
*
12062605 TTCTAAAAATA
1 TTTTAAAAA-A
12062616 TTTTAAAAAA
1 TTTTAAAAAA
12062626 TTTTAAA
1 TTTTAAA
12062633 TTTATAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
9 13 0.21
10 34 0.54
11 16 0.25
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:12062601 original size:21 final size:20
Alignment explanation
Indices: 12062546--12062632 Score: 81
Period size: 21 Copynumber: 4.3 Consensus size: 20
12062536 GCTAAAATGT
* * *
12062546 TTTTAAAAAATTCT-AAATA
1 TTTTAAAACATTTTAAAAAA
12062565 TTTTACAAA-A-TTTAAAACAA
1 TTTTA-AAACATTTTAAAA-AA
12062585 TTTTAAAACATTTTAAAAAA
1 TTTTAAAACATTTTAAAAAA
* *
12062605 TTCTAAAAATATTTTAAAAAA
1 TT-TTAAAACATTTTAAAAAA
12062626 TTTTAAA
1 TTTTAAA
12062633 TTTATAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 12 0.21
20 18 0.32
21 25 0.44
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTTAAAACATTTTAAAAAA
Found at i:12062643 original size:10 final size:9
Alignment explanation
Indices: 12062546--12062646 Score: 71
Period size: 10 Copynumber: 10.4 Consensus size: 9
12062536 GCTAAAATGT
12062546 TTTTAAAAAA
1 TTTT-AAAAA
* *
12062556 TTCTAAATA
1 TTTTAAAAA
12062565 TTTTACAAAA
1 TTTTA-AAAA
*
12062575 TTTAAAACAA
1 TTTTAAA-AA
12062585 TTTTAAAACA
1 TTTTAAAA-A
12062595 TTTTAAAAAA
1 TTTT-AAAAA
*
12062605 TTCTAAAAATA
1 TT-TTAAAA-A
12062616 TTTTAAAAAA
1 TTTT-AAAAA
12062626 TTTT--AAA
1 TTTTAAAAA
12062633 TTTATAAAAA
1 TTT-TAAAAA
12062643 TTTT
1 TTTT
12062647 TTAATTTCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 21
0.72 0.08 0.21
Matches are distributed among these distances:
7 6 0.08
8 1 0.01
9 12 0.16
10 42 0.58
11 12 0.16
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:12062658 original size:17 final size:17
Alignment explanation
Indices: 12062615--12062667 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
12062605 TTCTAAAAAT
12062615 ATTTTAAAAAATTTTAA
1 ATTTTAAAAAATTTTAA
* *
12062632 ATTTATAAAAATTTTTTA
1 ATTT-TAAAAAATTTTAA
* *
12062650 ATTTCAAAAAATTATAA
1 ATTTTAAAAAATTTTAA
12062667 A
1 A
12062668 AAAAATGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTTAAAAAATTTTAA
Found at i:12062723 original size:20 final size:19
Alignment explanation
Indices: 12062700--12062809 Score: 64
Period size: 20 Copynumber: 5.8 Consensus size: 19
12062690 AAATCTTCCA
*
12062700 AAAAAATTTTAAAATTTCT
1 AAAAAATTTTAAAAATTCT
** *
12062719 CAAAATTTTTTAAAAATTGT
1 -AAAAAATTTTAAAAATTCT
**
12062739 AAAAAATTCAAAACAATTCT
1 AAAAAATTTTAAA-AATTCT
* * * *
12062759 AAACACTTCTAAAAA-T-G
1 AAAAAATTTTAAAAATTCT
* * *
12062776 AAAAAAATTT-AAATTTAT
1 AAAAAATTTTAAAAATTCT
12062794 AAAAAATTTTAAAAAT
1 AAAAAATTTTAAAAAT
12062810 CAAATATTTT
Statistics
Matches: 65, Mismatches: 21, Indels: 9
0.68 0.22 0.09
Matches are distributed among these distances:
16 3 0.05
17 7 0.11
18 10 0.15
19 15 0.23
20 30 0.46
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAAATTTTAAAAATTCT
Found at i:12063059 original size:10 final size:9
Alignment explanation
Indices: 12063040--12063103 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
12063030 TGACATTGTT
12063040 AAAAATTAA
1 AAAAATTAA
12063049 AAAAATCT-A
1 AAAAAT-TAA
12063058 AAAAATT--
1 AAAAATTAA
12063065 AAAAATT-A
1 AAAAATTAA
** *
12063073 AAATTTTCAT
1 AAAAATT-AA
12063083 AAAAATTAA
1 AAAAATTAA
12063092 AAAAATTAA
1 AAAAATTAA
12063101 AAA
1 AAA
12063104 TAGAAAAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
7 7 0.16
8 6 0.13
9 26 0.58
10 6 0.13
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAAATTAA
Found at i:12063119 original size:43 final size:43
Alignment explanation
Indices: 12063039--12063120 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
12063029 GTGACATTGT
* **
12063039 TAAAAATTAAAAAAATCTAAAAAATTAAAAATTAAAATTTTCA
1 TAAAAATTAAAAAAATCTAAAAAATGAAAAAAGAAAATTTTCA
12063082 TAAAAATTAAAAAAAT-T-AAAAATAGAAAAAGAGAAAATT
1 TAAAAATTAAAAAAATCTAAAAAAT-GAAAAA-AGAAAATT
12063121 GAAATTGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 6 0.18
42 6 0.18
43 22 0.65
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (43 bp):
TAAAAATTAAAAAAATCTAAAAAATGAAAAAAGAAAATTTTCA
Found at i:12063188 original size:29 final size:29
Alignment explanation
Indices: 12063134--12063201 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 29
12063124 ATTGAATATT
12063134 TAAAAA-TTTAAAAAAATTAGA-GTTTTA
1 TAAAAATTTTAAAAAAATTAGATGTTTTA
* * *
12063161 TAAAAATTTTAAAAATTATTATATTTTTTA
1 TAAAAATTTTAAAAA-AATTAGATGTTTTA
*
12063191 AAAAAATTTTA
1 TAAAAATTTTA
12063202 TTTGTGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.18
28 8 0.24
29 5 0.15
30 15 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (29 bp):
TAAAAATTTTAAAAAAATTAGATGTTTTA
Found at i:12063193 original size:27 final size:27
Alignment explanation
Indices: 12063132--12063194 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
12063122 AAATTGAATA
12063132 TTTAAAAATTTAAAAAAATTAGAGTTT
1 TTTAAAAATTTAAAAAAATTAGAGTTT
* * *
12063159 TATAAAAATTTTAAAAATTATTATA-TTT
1 TTTAAAAA-TTTAAAAA-AATTAGAGTTT
12063187 TTTAAAAA
1 TTTAAAAA
12063195 AATTTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 18 0.60
29 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
TTTAAAAATTTAAAAAAATTAGAGTTT
Found at i:12063203 original size:18 final size:19
Alignment explanation
Indices: 12063167--12063204 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12063157 TTTATAAAAA
*
12063167 TTTTAAAAATTATTATATT
1 TTTTAAAAATAATTATATT
*
12063186 TTTTAAAAA-AATTTTATT
1 TTTTAAAAATAATTATATT
12063204 T
1 T
12063205 GTGATTGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAAAAATAATTATATT
Found at i:12063408 original size:30 final size:29
Alignment explanation
Indices: 12063339--12063409 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
12063329 TGTGTGAAAA
* * *
12063339 TTTTCAAGTTTCCCTAATTTTTTTTGAAT
1 TTTTCAAATTTCCCTAATTTTTGTTAAAT
*
12063368 TGTTTTAAATTT-CCTAGATTTTTGTTAAAGT
1 T-TTTCAAATTTCCCTA-ATTTTTGTTAAA-T
12063399 TTTTCAAATTT
1 TTTTCAAATTT
12063410 TTTTAAAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
29 5 0.15
30 27 0.79
31 2 0.06
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (29 bp):
TTTTCAAATTTCCCTAATTTTTGTTAAAT
Found at i:12063411 original size:21 final size:20
Alignment explanation
Indices: 12063385--12063430 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
12063375 AATTTCCTAG
12063385 ATTTTTGTT-AAAGTTTTTCAA
1 ATTTTT-TTAAAAG-TTTTCAA
*
12063406 ATTTTTTTAAAAGTTTTGAA
1 ATTTTTTTAAAAGTTTTCAA
12063426 ATTTT
1 ATTTT
12063431 GAAATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (20 bp):
ATTTTTTTAAAAGTTTTCAA
Found at i:12063496 original size:20 final size:21
Alignment explanation
Indices: 12063473--12063512 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12063463 CTTTTCAAGG
*
12063473 TTTTTTAG-ATTTTTTAAAAA
1 TTTTGTAGAATTTTTTAAAAA
12063493 TTTTGTAGAATTTTTTAAAA
1 TTTTGTAGAATTTTTTAAAA
12063513 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTGTAGAATTTTTTAAAAA
Found at i:12063761 original size:31 final size:31
Alignment explanation
Indices: 12063699--12063761 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
12063689 TTTATTTGAA
*
12063699 TTTTATAAAAAATTTAAAGTATTTTAGATTTT
1 TTTTATAAAAAATTGAAAG-ATTTTAGATTTT
*
12063731 TTTTA-AAAAAATTGAAA-ATTGTTAGAATTT
1 TTTTATAAAAAATTGAAAGATT-TTAGATTTT
12063761 T
1 T
12063762 CGGAAGTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 9 0.32
31 11 0.39
32 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (31 bp):
TTTTATAAAAAATTGAAAGATTTTAGATTTT
Found at i:12067712 original size:3 final size:3
Alignment explanation
Indices: 12067699--12067743 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
12067689 AATTGTTTTT
* * * *
12067699 TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA CAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12067744 AAGGAAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:12073077 original size:41 final size:41
Alignment explanation
Indices: 12073032--12073109 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
12073022 TGTATTTGCT
* *
12073032 TCTACATCATTAGAAAGATATTTGCATTTGCATCATTTGTA
1 TCTACATCATGAGAAAGACATTTGCATTTGCATCATTTGTA
* *
12073073 TCTACATCATGAGAAAGGCATTTGCATTTGTATCATT
1 TCTACATCATGAGAAAGACATTTGCATTTGCATCATT
12073110 GCATTTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (41 bp):
TCTACATCATGAGAAAGACATTTGCATTTGCATCATTTGTA
Found at i:12073113 original size:14 final size:14
Alignment explanation
Indices: 12073094--12073122 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12073084 AGAAAGGCAT
12073094 TTGCATTTGTATCA
1 TTGCATTTGTATCA
12073108 TTGCATTTGTATCA
1 TTGCATTTGTATCA
12073122 T
1 T
12073123 AGAAAAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (14 bp):
TTGCATTTGTATCA
Found at i:12073136 original size:40 final size:41
Alignment explanation
Indices: 12073025--12073136 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 41
12073015 TTGCATTTGT
* *
12073025 ATTTGCTTCTACATCATTAG-AAAGATATTTGCATTTGCATC
1 ATTTGCATCTACATCA-TAGAAAAGGTATTTGCATTTGCATC
* * *
12073066 ATTTGTATCTACATCAT-GAGAAAGGCATTTGCATTTGTATC
1 ATTTGCATCTACATCATAGA-AAAGGTATTTGCATTTGCATC
* **
12073107 A-TTGCATTTGTATCATAGAAAAGGTATTTG
1 ATTTGCATCTACATCATAGAAAAGGTATTTG
12073137 TAGGTGCATT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
39 1 0.02
40 22 0.38
41 35 0.60
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (41 bp):
ATTTGCATCTACATCATAGAAAAGGTATTTGCATTTGCATC
Found at i:12073769 original size:33 final size:33
Alignment explanation
Indices: 12073727--12073852 Score: 91
Period size: 32 Copynumber: 3.9 Consensus size: 33
12073717 TTAAGCCCAA
* * *
12073727 TTTAACTAGCACTCATATGAGA-TTTAAGCTTTG
1 TTTAGCTAGCACTAAT-TGAGATTTTAAGCTTAG
* ** *
12073760 TTTAGCTAGCA-TAATTAAGATTTTAAGCCCAA
1 TTTAGCTAGCACTAATTGAGATTTTAAGCTTAG
* ** *
12073792 TTTAG-TAACACCCATATGATA-TTTAAGCTTAG
1 TTTAGCTAGCACTAAT-TGAGATTTTAAGCTTAG
*
12073824 TTTAGCTGGCAC-AATTGAGATTTTAAGCT
1 TTTAGCTAGCACTAATTGAGATTTTAAGCT
12073853 CAAATTAGCT
Statistics
Matches: 69, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
31 12 0.17
32 40 0.58
33 17 0.25
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (33 bp):
TTTAGCTAGCACTAATTGAGATTTTAAGCTTAG
Found at i:12073818 original size:64 final size:64
Alignment explanation
Indices: 12073717--12073868 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 64
12073707 CAAGTCAAGA
* * * * *
12073717 TTAAGCCCAATTTAACTAGCACTCATATGAGATTTAAGCTTTGTTTAGCTAGCATAATTAAGATT
1 TTAAGCCCAATTT-AGTAACACCCATATGAGATTTAAGCTTAGTTTAGCTAGCACAATTAAGATT
* * *
12073782 TTAAGCCCAATTTAGTAACACCCATATGATATTTAAGCTTAGTTTAGCTGGCACAATTGAGATT
1 TTAAGCCCAATTTAGTAACACCCATATGAGATTTAAGCTTAGTTTAGCTAGCACAATTAAGATT
* *
12073846 TTAAGCTCAAATTAGCTAACACC
1 TTAAGCCCAATTTAG-TAACACC
12073869 TAAGCCAAGC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
64 56 0.74
65 20 0.26
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (64 bp):
TTAAGCCCAATTTAGTAACACCCATATGAGATTTAAGCTTAGTTTAGCTAGCACAATTAAGATT
Found at i:12074178 original size:40 final size:41
Alignment explanation
Indices: 12074134--12074220 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 41
12074124 AGTTCTTCAA
* *
12074134 GCAAAATCTTAAATTATTGAATGATTTC-CAAGATCTCCAG
1 GCAAAATCTTAAATTATTAAATGATTTCACAAGACCTCCAG
* * * *
12074174 GCAAAGTTTTAGATTTTTAAATGATTTCACAAGACCTCCAG
1 GCAAAATCTTAAATTATTAAATGATTTCACAAGACCTCCAG
*
12074215 GTAAAA
1 GCAAAA
12074221 ATTTGAAACA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 23 0.61
41 15 0.39
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (41 bp):
GCAAAATCTTAAATTATTAAATGATTTCACAAGACCTCCAG
Found at i:12074558 original size:103 final size:103
Alignment explanation
Indices: 12074368--12074620 Score: 310
Period size: 103 Copynumber: 2.4 Consensus size: 103
12074358 GGCAGAATGC
* * * * * * *
12074368 TTTAAATTTTTAAAGTTTTAAGGCATCTTATTAAAGGAGTTTTCATACATGTTGAGATTTATACA
1 TTTAAA-TTTTAAAGTTTAAATGCCTCTCATTAAAGGAGCTTTCATACACGTGGAGATTTATACA
* *
12074433 ACCTCTGAGCATAATCTTTAAGACCTTCAGGCAAAATAG
65 ACCTCTGAGCATAATCTCTAAGACCTTCAGGCAAAACAG
* * *
12074472 TTTAAATTTCAAAGTTTCAATGCCTCTCATTAAAGAAGCTTTCATACACGTGGAGATTTATA-AG
1 TTTAAATTTTAAAGTTTAAATGCCTCTCATTAAAGGAGCTTTCATACACGTGGAGATTTATACA-
* * * *
12074536 ACTTCTGGGCATAATCTCTAAGACCTTCAGGTAGAACAG
65 ACCTCTGAGCATAATCTCTAAGACCTTCAGGCAAAACAG
* * *
12074575 TTTAAATTTTAAAGTTTAAATACCTCTGATTATAGGAGCTTTCATA
1 TTTAAATTTTAAAGTTTAAATGCCTCTCATTAAAGGAGCTTTCATA
12074621 TATGTCAAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
102 1 0.01
103 120 0.94
104 6 0.05
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (103 bp):
TTTAAATTTTAAAGTTTAAATGCCTCTCATTAAAGGAGCTTTCATACACGTGGAGATTTATACAA
CCTCTGAGCATAATCTCTAAGACCTTCAGGCAAAACAG
Found at i:12074639 original size:103 final size:103
Alignment explanation
Indices: 12074436--12074649 Score: 259
Period size: 103 Copynumber: 2.1 Consensus size: 103
12074426 TTATACAACC
* * * *
12074436 TCTGAGCATAATCTTTAAGACCTTCAGGCAAAATAGTTTAAATTTCAAAGTTTCAATGCCTCTCA
1 TCTGAGCATAATCTCTAAGACCTTCAGGCAAAACAGTTTAAATTTCAAAGTTTAAATACCTCTCA
** *
12074501 TTAAAGAAGCTTTCATACACGTGGAGATTTATAAGACT
66 TTAAAGAAGCTTTCATACACGTCAAAATTTATAAGACT
* * * * *
12074539 TCTGGGCATAATCTCTAAGACCTTCAGGTAGAACAGTTTAAATTTTAAAGTTTAAATACCTCTGA
1 TCTGAGCATAATCTCTAAGACCTTCAGGCAAAACAGTTTAAATTTCAAAGTTTAAATACCTCTCA
* * * * *
12074604 TTATAGGAGCTTTCATATATGTCAAAATTTGTAAGA-T
66 TTAAAGAAGCTTTCATACACGTCAAAATTTATAAGACT
12074641 CTCTGAGCA
1 -TCTGAGCA
12074650 AAATAGTTTA
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
102 1 0.01
103 91 0.99
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (103 bp):
TCTGAGCATAATCTCTAAGACCTTCAGGCAAAACAGTTTAAATTTCAAAGTTTAAATACCTCTCA
TTAAAGAAGCTTTCATACACGTCAAAATTTATAAGACT
Found at i:12074696 original size:82 final size:81
Alignment explanation
Indices: 12074573--12074724 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 81
12074563 CAGGTAGAAC
* * * * *
12074573 AGTTTAAATTTTAAAGTTTAAATACCTCTGATTATAGGAGCTTTCATATATGTCAAAATTTGTAA
1 AGTTTAAATTTAAAAGTTTAAATACCTCTGATTAGAAGAGCTTTCATACATATCAAAATTTGTAA
12074638 GATCTCTGAGCAAAAT
66 GATCTCTGAGCAAAAT
* * * * * *
12074654 AGTTTAAATTTCAAAAGTTTCAATGCCTTTGATTAGAAGAGCTTTCGTACATATTAAGATTTGTA
1 AGTTTAAATTT-AAAAGTTTAAATACCTCTGATTAGAAGAGCTTTCATACATATCAAAATTTGTA
12074719 AGATCT
65 AGATCT
12074725 TCGGGGATAA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
81 11 0.19
82 48 0.81
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (81 bp):
AGTTTAAATTTAAAAGTTTAAATACCTCTGATTAGAAGAGCTTTCATACATATCAAAATTTGTAA
GATCTCTGAGCAAAAT
Found at i:12074774 original size:185 final size:184
Alignment explanation
Indices: 12074463--12074805 Score: 449
Period size: 185 Copynumber: 1.9 Consensus size: 184
12074453 AGACCTTCAG
* *
12074463 GCAAAATAGTTTAAATTTCAAAGTTTCAATGCCTCTCATTAAAGAAGCTTTCATACACGTGGAGA
1 GCAAAATAGTTTAAATTTCAAAGTTTCAATGCCTCTCATTAAAGAAGCTTTCATACACATGAAGA
* * * *
12074528 TTTATAAGACTTCTGGGCATAATCTCTAAGACCTTCAGGTAGAACAGTTTAAATTTTAAAGTTTA
66 TTTATAAGACTTCTGGGCATAATCTCTAAAACCTTCAGGCAAAACAATTTAAATTTTAAAGTTTA
*
12074593 AATACCTCTGATTATAGGAGCTTTCATATATGTCAAAATTTGTAAGATCTCTGA
131 AATACCTCTGATTAGAGGAGCTTTCATATATGTCAAAATTTGTAAGATCTCTGA
* * * * *
12074647 GCAAAATAGTTTAAATTTCAAAAGTTTCAATGCCTTTGATTAGAAG-AGCTTTCGTACATATTAA
1 GCAAAATAGTTTAAATTTC-AAAGTTTCAATGCCTCTCATTA-AAGAAGCTTTCATACACATGAA
* * *
12074711 GATTTGTAAGATCTTC-GGGGATAATTTCTAAAACCTTC-GAGCAAAACAATTTAAATTTTAAAG
64 GATTTATAAGA-CTTCTGGGCATAATCTCTAAAACCTTCAG-GCAAAACAATTTAAATTTTAAAG
* * * * *
12074774 TTTCAATGCTTCTGATTAGATGAGTTTTCATA
127 TTTAAATACCTCTGATTAGAGGAGCTTTCATA
12074806 GTTTTGAGGT
Statistics
Matches: 135, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
184 20 0.15
185 108 0.80
186 7 0.05
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (184 bp):
GCAAAATAGTTTAAATTTCAAAGTTTCAATGCCTCTCATTAAAGAAGCTTTCATACACATGAAGA
TTTATAAGACTTCTGGGCATAATCTCTAAAACCTTCAGGCAAAACAATTTAAATTTTAAAGTTTA
AATACCTCTGATTAGAGGAGCTTTCATATATGTCAAAATTTGTAAGATCTCTGA
Found at i:12075077 original size:23 final size:24
Alignment explanation
Indices: 12075024--12075077 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
12075014 AAAAAAGGGA
12075024 AAGAAAAGAAAAGAAAAAAACAAC
1 AAGAAAAGAAAAGAAAAAAACAAC
* * * *
12075048 AACAAAA-ATAAGAAAAAAAGAAG
1 AAGAAAAGAAAAGAAAAAAACAAC
12075071 AAGAAAA
1 AAGAAAA
12075078 CAAAGTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.80, C:0.06, G:0.13, T:0.02
Consensus pattern (24 bp):
AAGAAAAGAAAAGAAAAAAACAAC
Found at i:12076953 original size:12 final size:11
Alignment explanation
Indices: 12076911--12076944 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
12076901 AGAAGGGAAG
12076911 AAGAAAGAAAAA
1 AAGAAA-AAAAA
*
12076923 AGGAAAAAAAA
1 AAGAAAAAAAA
12076934 AAGAAAAAAAA
1 AAGAAAAAAAA
12076945 TAAAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:12076953 original size:19 final size:19
Alignment explanation
Indices: 12076908--12076953 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
12076898 AATAGAAGGG
12076908 AAGAAGAAAGAAAAAAGGAAA
1 AAGAA-AAAGAAAAAA-GAAA
12076929 AA-AAAAAGAAAAAA-AATA
1 AAGAAAAAGAAAAAAGAA-A
12076947 AAGAAAA
1 AAGAAAA
12076954 GAAGCTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.09
18 3 0.13
19 14 0.61
20 2 0.09
21 2 0.09
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (19 bp):
AAGAAAAAGAAAAAAGAAA
Found at i:12077393 original size:17 final size:18
Alignment explanation
Indices: 12077359--12077398 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
12077349 ATTTTTTGTA
*
12077359 ATTTTTTATTTTTAGTTT
1 ATTTTTTATATTTAGTTT
*
12077377 ATTTTTTA-ATTTGGTTT
1 ATTTTTTATATTTAGTTT
12077394 ATTTT
1 ATTTT
12077399 ATTTCTACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (18 bp):
ATTTTTTATATTTAGTTT
Found at i:12077531 original size:20 final size:21
Alignment explanation
Indices: 12077493--12077531 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12077483 TTGTAGACAC
12077493 CCAATTGGGTCCAGGCCCAGA
1 CCAATTGGGTCCAGGCCCAGA
*
12077514 CCAATTGGG-CCTGGCCCA
1 CCAATTGGGTCCAGGCCCA
12077532 AATGGGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.15
Consensus pattern (21 bp):
CCAATTGGGTCCAGGCCCAGA
Found at i:12077590 original size:20 final size:20
Alignment explanation
Indices: 12077552--12077590 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12077542 CCCAATCCAA
*
12077552 TTTTTATCTTATGTTTTTTT
1 TTTTTATCTTATGTATTTTT
* *
12077572 TTTTTTTCTTTTGTATTTT
1 TTTTTATCTTATGTATTTT
12077591 ATGTATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.05, G:0.05, T:0.82
Consensus pattern (20 bp):
TTTTTATCTTATGTATTTTT
Found at i:12077629 original size:16 final size:16
Alignment explanation
Indices: 12077585--12077629 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
12077575 TTTTCTTTTG
12077585 TATT-TTATGTATT-T
1 TATTATTATGTATTAT
12077599 TATTATTTAT-TATTAT
1 TATTA-TTATGTATTAT
12077615 TATTATTATGTATTA
1 TATTATTATGTATTA
12077630 ATATATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.30
16 15 0.56
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTATTATGTATTAT
Found at i:12077652 original size:4 final size:4
Alignment explanation
Indices: 12077643--12077784 Score: 67
Period size: 4 Copynumber: 33.8 Consensus size: 4
12077633 TATGTATATC
* * *
12077643 TTTA TTTA TTTA TTTA TTTA TTTA TTTT TTTC TGTTA -ATA TTTA TATGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA T-T-TA
* * * *
12077693 TTTTA TTTA TATA GTTA TATA TTTA -TTA TTATA TTATAA TTTA TTGA
1 -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA
* * *
12077740 -TTA -TTA TTTT TTTC TTGTA TTTTT TTTA TTTA TCTTA TTGTA TTT
1 TTTA TTTA TTTA TTTA TT-TA -TTTA TTTA TTTA T-TTA TT-TA TTT
12077785 TTAATTATCT
Statistics
Matches: 107, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
3 10 0.09
4 66 0.62
5 22 0.21
6 8 0.07
7 1 0.01
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:12078364 original size:20 final size:20
Alignment explanation
Indices: 12078339--12078378 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
12078329 TCCGACGAAC
12078339 TTTCGATGAAATTTTCCAGA
1 TTTCGATGAAATTTTCCAGA
*
12078359 TTTCGATGACATTTTCCAGA
1 TTTCGATGAAATTTTCCAGA
12078379 ATCTGGCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (20 bp):
TTTCGATGAAATTTTCCAGA
Found at i:12078730 original size:9 final size:8
Alignment explanation
Indices: 12078719--12078750 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
12078709 AGGTTTTTTT
12078719 TTTTTTAA
1 TTTTTTAA
12078727 TTTTTTAA
1 TTTTTTAA
12078735 TTTTTTAA
1 TTTTTTAA
12078743 TTTATTTA
1 TTT-TTTA
12078751 TTTATTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.83
9 4 0.17
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTAA
Found at i:12078863 original size:22 final size:22
Alignment explanation
Indices: 12078825--12078866 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12078815 TCTTTATTTT
12078825 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
*
12078847 TTTTAT-TTTGTTCTATTTTC
1 TTTTATCTTTATT-TATTTTC
12078867 TTTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Found at i:12078941 original size:58 final size:58
Alignment explanation
Indices: 12078870--12079518 Score: 770
Period size: 58 Copynumber: 10.9 Consensus size: 58
12078860 TATTTTCTTT
* *
12078870 AAAT-AATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
** *
12078927 AAATAAATTTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
12078985 AAATCAAAGTTTCAAAAAAAATATTTTTCAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAT-AAATTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
12079045 AAATAAATTTTCAAAGAAATATTTTTGGGGAAAAGTTGAAAGTA-CTAATTTTTCTTAA
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCCTTAA
** * **
12079103 AAATAAATTTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTGCTTGG
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* **
12079161 AAATCAAAGTTTTCAAAAAAAAATTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
1 AAAT-AAA-TTTTC--AAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
12079225 AAATCAAAGTTTTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAAT-AAA-TTTTC--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * *
12079287 AAATAAATTTTCAAAAAAATATTTTTTGGGGAAGAGTGGAAAGTATCAATTTTCCTTGA
1 AAATAAATTTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* ** ***
12079346 AAATCAAAATTTCTGAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTCGG
1 AAAT-AAATTTTCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
12079405 AAATCAAAGTTTTCAAAAAAAATATTTTTGAGGAAATA-TTGAAAGTATCAATTTTACTTAA
1 AAAT-AAA-TTTTC-AAAAAAATATTTTTGAGGAAA-AGTTGAAAGTATCAATTTTCCTTAA
* *
12079466 AAATAAA-TTTCCAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCC
1 AAATAAATTTTCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCC
12079519 CTACACAAGA
Statistics
Matches: 517, Mismatches: 55, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
56 2 0.00
57 40 0.08
58 158 0.31
59 92 0.18
60 77 0.15
61 43 0.08
62 46 0.09
64 59 0.11
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (58 bp):
AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:12079019 original size:118 final size:116
Alignment explanation
Indices: 12078877--12079518 Score: 758
Period size: 118 Copynumber: 5.4 Consensus size: 116
12078867 TTTAAATAAT
* *
12078877 TTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
1 TTTCAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAA
**
12078942 AAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAAG
65 AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAAG
12078994 TTTCAAAAAAAATATTTTTCAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
1 TTTC-AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
* * * * *
12079059 AGAAATATTTTTGGGGAAAAGTTGAAAGTA-CTAATTTTTCTTAAAAAT-AAAT
64 AAAAATATTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCCTTAGAAATCAAAG
** * **
12079111 TTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTGCTTGGAAATCAAAGTTTTCA
1 TTTCAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC-
* *
12079176 AAAAAAAATTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAG
62 -AAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAAG
*
12079234 TTTTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 -TTTC--AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
12079299 AAAAAAATATTTTTTGGGGAAGAGTGGAAAGTATCAATTTTCCTT-GAAAATCAAAA
62 AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATCAAAG
** ***
12079355 TTTCTGAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGGAAATCAAAGTTTTCA
1 TTTCAAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC-
* *
12079420 AAAAAAATATTTTTGAGGAAATA-TTGAAAGTATCAATTTTACTTAAAAAT-AAA-
62 AAAAAAATATTTTTGAGGAAA-AGTTGAAAGTATCAATTTTCCTTAGAAATCAAAG
*
12079473 TTTCCAAAAAATATTTTT-GGAAAAAAGTTGAAAGTATCAATTTTCC
1 TTTCAAAAAAATATTTTTAGG--AAAAGTTGAAAGTATCAATTTTCC
12079519 CTACACAAGA
Statistics
Matches: 455, Mismatches: 47, Indels: 45
0.83 0.09 0.08
Matches are distributed among these distances:
116 46 0.10
117 16 0.04
118 184 0.40
119 6 0.01
120 50 0.11
121 50 0.11
122 43 0.09
123 4 0.01
124 9 0.02
125 3 0.01
126 44 0.10
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (116 bp):
TTTCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA
AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAAG
Found at i:12087980 original size:43 final size:43
Alignment explanation
Indices: 12087933--12088018 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
12087923 TATATGCTCT
12087933 ATCATACTACGTGGCTCATAGCAAAACTAGATCCAATTAAGTA
1 ATCATACTACGTGGCTCATAGCAAAACTAGATCCAATTAAGTA
*
12087976 ATCATACTACGTGGTTCATAGCAAAACTAGATCCAATTAAGTA
1 ATCATACTACGTGGCTCATAGCAAAACTAGATCCAATTAAGTA
12088019 TATCTTCGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.27
Consensus pattern (43 bp):
ATCATACTACGTGGCTCATAGCAAAACTAGATCCAATTAAGTA
Found at i:12089990 original size:7 final size:7
Alignment explanation
Indices: 12089973--12090059 Score: 95
Period size: 7 Copynumber: 11.9 Consensus size: 7
12089963 TGTGCTTGAA
12089973 AAAAAAT
1 AAAAAAT
12089980 -AAAAAT
1 AAAAAAT
12089986 AAAAAAT
1 AAAAAAT
*
12089993 AAAAAGAGA
1 AAAAA-A-T
*
12090002 AAAAGAGAA
1 AAAA-A-AT
12090011 AAAAAAT
1 AAAAAAT
12090018 AAAAAAT
1 AAAAAAT
12090025 AAAAAAT
1 AAAAAAT
12090032 AAAAAAT
1 AAAAAAT
12090039 AAAAAAAT
1 -AAAAAAT
12090047 AAAAAAT
1 AAAAAAT
*
12090054 GAAAAA
1 AAAAAA
12090060 GTGATTGAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
6 6 0.08
7 45 0.62
8 9 0.12
9 9 0.12
10 3 0.04
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (7 bp):
AAAAAAT
Found at i:12090044 original size:39 final size:37
Alignment explanation
Indices: 12089970--12090052 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 37
12089960 TACTGTGCTT
*
12089970 GAAAAAAAATAAAAATAAAAAATAAAAAGAGAAAAAGA
1 GAAAAAAAATAAAAATAAAAAATAAAAAGA-AAAAAAA
12090008 GAAAAAAAATAAAAAATAAAAAATAAAAA-ATAAAAAAA
1 GAAAAAAAAT-AAAAATAAAAAATAAAAAGA-AAAAAAA
*
12090046 TAAAAAA
1 GAAAAAA
12090053 TGAAAAAGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 23 0.56
39 18 0.44
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (37 bp):
GAAAAAAAATAAAAATAAAAAATAAAAAGAAAAAAAA
Found at i:12090051 original size:46 final size:45
Alignment explanation
Indices: 12089973--12090059 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 45
12089963 TGTGCTTGAA
*
12089973 AAAAAATAAAAATAAAAAATAAAAAGAGAAAAAGA-GAAAAAAAAT
1 AAAAAATAAAAATAAAAAATAAAAAAAGAAAAA-ATGAAAAAAAAT
*
12090018 AAAAAATAAAAAATAAAAAATAAAAAAATAAAAAATGAAAAA
1 AAAAAAT-AAAAATAAAAAATAAAAAAAGAAAAAATGAAAAA
12090060 GTGATTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
45 8 0.21
46 30 0.79
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (45 bp):
AAAAAATAAAAATAAAAAATAAAAAAAGAAAAAATGAAAAAAAAT
Found at i:12090071 original size:1 final size:1
Alignment explanation
Indices: 12089971--12090052 Score: 56
Period size: 1 Copynumber: 82.0 Consensus size: 1
12089961 ACTGTGCTTG
* * * * * * * * * *
12089971 AAAAAAAATAAAAATAAAAAATAAAAAGAGAAAAAGAGAAAAAAAATAAAAAATAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
12090036 AATAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAA
12090053 TGAAAAAGTG
Statistics
Matches: 57, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (1 bp):
A
Found at i:12091316 original size:43 final size:42
Alignment explanation
Indices: 12091080--12091374 Score: 352
Period size: 41 Copynumber: 7.1 Consensus size: 42
12091070 GATTGTCAAC
* * * *
12091080 GAGCAATTTA-CTTCCCAATGTCGTGGTACCTCTGTTTAGAG
1 GAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * * *
12091121 GAGCAATTTA-CTTTCTAAAGTCGTGGTGTCTTTGTTTAGAA
1 GAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
*
12091162 GAGCAATTTATTTTT-CAAAGTCGTGGTGCCTTTGTTTAGAG
1 GAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
12091203 GAGCAATTTATTTTT-CAAAGTTTCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCCAAAG--TCGTGGTGCCTCTGTTTAGAG
* * * *
12091244 GAGCAATTTA-CTTTCCAAAGTTGTGGTGCCTTTGTTTAGAT
1 GAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
12091285 GAGCAATTTATTTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTA-TTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
12091328 GAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAG
12091371 GAGC
1 GAGC
12091375 TTTGGTAAAA
Statistics
Matches: 222, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.01
40 3 0.01
41 139 0.63
42 8 0.04
43 69 0.31
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (42 bp):
GAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:12091399 original size:9 final size:10
Alignment explanation
Indices: 12091387--12091440 Score: 69
Period size: 9 Copynumber: 5.7 Consensus size: 10
12091377 TGGTAAAAAA
12091387 AAAAAAAC-C
1 AAAAAAACAC
*
12091396 AAAAAAATA-
1 AAAAAAACAC
12091405 AAAAAAACAC
1 AAAAAAACAC
12091415 AAAAAAACAC
1 AAAAAAACAC
*
12091425 AAAAAAATA-
1 AAAAAAACAC
12091434 AAAAAAA
1 AAAAAAA
12091441 TGACAATGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
9 22 0.55
10 18 0.45
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.04
Consensus pattern (10 bp):
AAAAAAACAC
Found at i:12091638 original size:9 final size:9
Alignment explanation
Indices: 12091626--12091676 Score: 70
Period size: 9 Copynumber: 5.7 Consensus size: 9
12091616 TTTTTTCTTT
12091626 TGTATTTTA
1 TGTATTTTA
12091635 TGTATTTTA
1 TGTATTTTA
12091644 TGTATTTTA
1 TGTATTTTA
12091653 T-TATTATTA
1 TGTATT-TTA
12091662 T-TATTATTA
1 TGTATT-TTA
12091671 TGTATT
1 TGTATT
12091677 AATATATGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
8 4 0.10
9 32 0.80
10 4 0.10
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (9 bp):
TGTATTTTA
Found at i:12091647 original size:18 final size:19
Alignment explanation
Indices: 12091626--12091687 Score: 76
Period size: 18 Copynumber: 3.3 Consensus size: 19
12091616 TTTTTTCTTT
12091626 TGTATTTTATGTATT-TTA
1 TGTATTTTATGTATTATTA
12091644 TGTATTTTAT-TATTATTA
1 TGTATTTTATGTATTATTA
12091662 T-TATTATTATGTATTAATATA
1 TGTATT-TTATGTATT-AT-TA
12091683 TGTAT
1 TGTAT
12091688 ATCTTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.21
18 18 0.47
19 4 0.11
20 2 0.05
21 3 0.08
22 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (19 bp):
TGTATTTTATGTATTATTA
Found at i:12091661 original size:6 final size:6
Alignment explanation
Indices: 12091628--12091758 Score: 53
Period size: 6 Copynumber: 21.2 Consensus size: 6
12091618 TTTTCTTTTG
12091628 TATT-T TATGTAT T-TTAT GTATT-T TATTAT TATTAT TATTAT TATGTAT
1 TATTAT TAT-TAT TATTAT -TATTAT TATTAT TATTAT TATTAT TAT-TAT
* * * * *
12091676 TAATA- TATGTA- TATCT-T TATTTAT TTTTTT TGTTAA TATT-T ATATGTAT
1 TATTAT TAT-TAT TAT-TAT TA-TTAT TATTAT TATTAT TATTAT -TAT-TAT
12091725 T-TTATT TATATAGT TATCTAT TATTAT TATTAT T
1 TATTA-T TAT-TA-T TAT-TAT TATTAT TATTAT T
12091759 TAATTTATTT
Statistics
Matches: 98, Mismatches: 12, Indels: 31
0.70 0.09 0.22
Matches are distributed among these distances:
5 14 0.14
6 56 0.57
7 19 0.19
8 9 0.09
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (6 bp):
TATTAT
Found at i:12091889 original size:3 final size:3
Alignment explanation
Indices: 12091883--12091915 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
12091873 TTGTTATCTG
12091883 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12091916 TTGTTTTCTT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12092412 original size:20 final size:20
Alignment explanation
Indices: 12092379--12092418 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12092369 TTCGGTGAAT
12092379 TTTCGATGAAATTTTTCAGA
1 TTTCGATGAAATTTTTCAGA
* *
12092399 TTTCGGTGACATTTTTCAGA
1 TTTCGATGAAATTTTTCAGA
12092419 ATCCGACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (20 bp):
TTTCGATGAAATTTTTCAGA
Found at i:12092725 original size:18 final size:18
Alignment explanation
Indices: 12092693--12092758 Score: 68
Period size: 17 Copynumber: 3.8 Consensus size: 18
12092683 CCGCTCCAAG
*
12092693 TTTTTTT-TTTTTTTGAA
1 TTTTTTTATTTATTTGAA
12092710 TTTTTTTATTTATTTG--
1 TTTTTTTATTTATTTGAA
12092726 TTTTATTTATTTATTT-ATA
1 TTTT-TTTATTTATTTGA-A
*
12092745 TTTATTTATTTATT
1 TTTTTTTATTTATT
12092759 AGATTAGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
16 4 0.10
17 18 0.43
18 17 0.40
19 3 0.07
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTTTATTTATTTGAA
Found at i:12092729 original size:13 final size:12
Alignment explanation
Indices: 12092709--12092758 Score: 64
Period size: 13 Copynumber: 3.9 Consensus size: 12
12092699 TTTTTTTTGA
12092709 ATTTTTTTATTT
1 ATTTTTTTATTT
12092721 ATTTGTTTTATTT
1 ATTT-TTTTATTT
12092734 ATTTATTTATATTT
1 ATTT-TTT-TATTT
*
12092748 ATTTATTTATT
1 ATTTTTTTATT
12092759 AGATTAGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 8 0.24
13 17 0.50
14 9 0.26
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:12092752 original size:14 final size:14
Alignment explanation
Indices: 12092716--12092757 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
12092706 TGAATTTTTT
*
12092716 TATTTATTTGTTT-
1 TATTTATTTATTTA
12092729 TATTTATTTATTTA
1 TATTTATTTATTTA
12092743 TATTTATTTATTTA
1 TATTTATTTATTTA
12092757 T
1 T
12092758 TAGATTAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (14 bp):
TATTTATTTATTTA
Found at i:12092769 original size:18 final size:18
Alignment explanation
Indices: 12092714--12092774 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
12092704 TTTGAATTTT
* *
12092714 TTTATTTATTT-GTTTTA
1 TTTATTTATTTAGATTGA
* *
12092731 TTTATTTATTTATATTTA
1 TTTATTTATTTAGATTGA
12092749 TTTATTTA-TTAGATTAGA
1 TTTATTTATTTAGATT-GA
12092767 TTTATTTA
1 TTTATTTA
12092775 ATATTTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 17 0.45
18 21 0.55
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTATTTATTTAGATTGA
Found at i:12092774 original size:4 final size:4
Alignment explanation
Indices: 12092709--12092758 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
12092699 TTTTTTTTGA
* *
12092709 ATTT TTTT ATTT ATTT GTTTT ATTT ATTT ATTT A--T ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
12092756 ATT
1 ATT
12092759 AGATTAGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
4 34 0.87
5 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:12092835 original size:15 final size:15
Alignment explanation
Indices: 12092778--12092845 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
12092768 TTATTTAATA
12092778 TTTTTTATCTTTATCT
1 TTTTTTATCTTTAT-T
* * *
12092794 TATTTTCATTTTTGTT
1 T-TTTTTATCTTTATT
*
12092810 TTACTTT-TCTTTATT
1 TT-TTTTATCTTTATT
12092825 TTTTTTATCTTTATT
1 TTTTTTATCTTTATT
12092840 TATTTT
1 T-TTTT
12092846 CACTTTTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
14 3 0.08
15 18 0.45
16 9 0.22
17 10 0.25
ACGTcount: A:0.13, C:0.09, G:0.01, T:0.76
Consensus pattern (15 bp):
TTTTTTATCTTTATT
Found at i:12092851 original size:15 final size:15
Alignment explanation
Indices: 12092778--12092857 Score: 51
Period size: 15 Copynumber: 5.2 Consensus size: 15
12092768 TTATTTAATA
12092778 TTTTTT-ATCTTTAT
1 TTTTTTCATCTTTAT
* *
12092792 CTTATTTTCATTTTTGT
1 -TT-TTTTCATCTTTAT
12092809 TTTACTTT--TCTTTAT
1 TTT--TTTCATCTTTAT
*
12092824 TTTTTTTATCTTTAT
1 TTTTTTCATCTTTAT
12092839 TTATTTTCA-CTTTTAT
1 TT-TTTTCATC-TTTAT
12092855 TTT
1 TTT
12092858 GTTCTATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
13 3 0.06
15 22 0.42
16 18 0.35
17 9 0.17
ACGTcount: A:0.14, C:0.10, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTTTCATCTTTAT
Found at i:12092865 original size:22 final size:22
Alignment explanation
Indices: 12092827--12092868 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12092817 TCTTTATTTT
12092827 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
*
12092849 TTTTAT-TTTGTTCTATTTTC
1 TTTTATCTTTATT-TATTTTC
12092869 TTTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Found at i:12092944 original size:58 final size:58
Alignment explanation
Indices: 12092872--12093400 Score: 713
Period size: 58 Copynumber: 8.9 Consensus size: 58
12092862 TATTTTCTTT
12092872 AAAT-AATTTTCAAAAAAATATTTTTG-GGTAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAATTTTCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAA
** * **
12092929 AAATAAATTTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGG
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
12092987 AAATCAAAGTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAAT-AAATTTTC--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
12093048 AAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* **
12093106 AAATAAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
12093164 AAATCAAAGTTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAT-AAA-TTTTC--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
12093226 AAATAAATTTTCAAAAAAATATTTTTTGGGGAAAAGTGGAAAGTATCAATTTTCCTTGA
1 AAATAAATTTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* ** *
12093285 AAATCAAAATTTCTGAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTAAA
1 AAAT-AAATTTTCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
12093344 AAATAAATTTTCACAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAATAAATTTT--C---AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
12093401 TCCTACACAA
Statistics
Matches: 420, Mismatches: 34, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
57 4 0.01
58 166 0.40
59 86 0.20
60 32 0.08
61 49 0.12
62 47 0.11
63 35 0.08
64 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:12093024 original size:119 final size:120
Alignment explanation
Indices: 12092872--12093400 Score: 706
Period size: 119 Copynumber: 4.5 Consensus size: 120
12092862 TATTTTCTTT
12092872 AAAT-AATTTTC--AAAAAAATATTTTTG-GGTAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATAAATTTTCAAAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
** * **
12092933 -AAATTTTC-AAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGG
65 CAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
12092987 AAATCAAAGTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAAT-AAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
12093052 -AAATTTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAA
65 CAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* **
12093106 AAATAAATTTTC--AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATC
1 AAATAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATC
12093169 AAAGTTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
66 AAA-TTTTC-AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * *
12093226 AAATAAATTTTCAAAAAAATAT-TTTTTGGGGAAAAGTGGAAAGTATCAATTTTCCTTGAAAATC
1 AAATAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATC
* ** *
12093290 AAAATTTC-TGAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTAAA
66 AAATTTTCAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
12093344 AAATAAATTTTCACAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAATAAATTTT--C-AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
12093401 TCCTACACAA
Statistics
Matches: 371, Mismatches: 27, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
115 4 0.01
116 46 0.12
117 10 0.03
118 64 0.17
119 99 0.27
120 63 0.17
121 50 0.13
122 35 0.09
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (120 bp):
AAATAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATC
AAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:12093172 original size:177 final size:177
Alignment explanation
Indices: 12092864--12093402 Score: 834
Period size: 177 Copynumber: 3.0 Consensus size: 177
12092854 TTTTGTTCTA
* *
12092864 TTTTCTT-TAAAT-AATTTTCAAAAAAATATTTTTGGGTAAAAGTTGAAAGTATCAATTTTCCTT
1 TTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
12092927 AAAAATAAATTTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATC
66 AAAAATAAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATC
12092992 AAAGTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
131 AAAGTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
*
12093039 TTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT
1 TTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
12093104 AAAAATAAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATC
66 AAAAATAAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATC
12093169 AAAGTTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
131 AAAG-TTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* *
12093217 TTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTTGGGGAAAAGTGGAAAGTATCAATTTTCCT
1 TTTTCTTAAAAATAAATTTTCAAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * ** * ***
12093282 TGAAAATCAAAATTTCTGAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTAAAAA
65 TAAAAAT-AAATTTTCAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGGAA
* *
12093346 AT-AAATTTTCACAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAAT
128 ATCAAAGTTT--C-AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
12093398 TTTTC
1 TTTTC
12093403 CTACACAAGA
Statistics
Matches: 336, Mismatches: 19, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
175 7 0.02
176 4 0.01
177 116 0.35
178 75 0.22
179 42 0.12
180 50 0.15
181 42 0.12
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (177 bp):
TTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
AAAAATAAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATC
AAAGTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:12102894 original size:34 final size:34
Alignment explanation
Indices: 12102851--12102926 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 34
12102841 AAAAAACAAA
**
12102851 TTAGTGGCATTTTCTATTAA-AAATG-CTGCTAAAT
1 TTAGTGGCA-TTTCTAAGAACAAATGTC-GCTAAAT
12102885 TTAGTGGCATTTCTAAGAACAAATGTCGCTAAAT
1 TTAGTGGCATTTCTAAGAACAAATGTCGCTAAAT
12102919 TTAGTGGC
1 TTAGTGGC
12102927 GTTTGTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
33 8 0.21
34 29 0.76
35 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (34 bp):
TTAGTGGCATTTCTAAGAACAAATGTCGCTAAAT
Found at i:12103590 original size:31 final size:32
Alignment explanation
Indices: 12103542--12103618 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
12103532 TTTTTTTTTT
*
12103542 TTATATTTTAGTTTGGTTAAAAT-AAAATGCATA
1 TTATA-TTT-GTTTGGTTAAAATAAAAATCCATA
12103575 TTATATTTGTTTGGTTAAAATAAAAATCCATA
1 TTATATTTGTTTGGTTAAAATAAAAATCCATA
12103607 TTATGA-TTGTTT
1 TTAT-ATTTGTTT
12103619 TGTCATTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
31 13 0.32
32 22 0.54
33 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (32 bp):
TTATATTTGTTTGGTTAAAATAAAAATCCATA
Found at i:12108377 original size:2 final size:2
Alignment explanation
Indices: 12108370--12108395 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12108360 TCTCCTTGTC
12108370 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
12108396 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12108400 original size:2 final size:2
Alignment explanation
Indices: 12108395--12108426 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12108385 TCTCTCTCTC
12108395 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
12108427 CATTTTAGAT
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:12113832 original size:30 final size:30
Alignment explanation
Indices: 12113768--12113833 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
12113758 TTATTGAGTA
* *
12113768 AAAATAAATGTTTAAGAGTTTAATTGAATG
1 AAAATAAATATTTAAGAGTTTAATTGAATC
* *
12113798 AAAATAAATATTTAA-AGATTTAATTTATTC
1 AAAATAAATATTTAAGAG-TTTAATTGAATC
12113828 AAAATA
1 AAAATA
12113834 GAGAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (30 bp):
AAAATAAATATTTAAGAGTTTAATTGAATC
Found at i:12118295 original size:2 final size:2
Alignment explanation
Indices: 12118288--12118335 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
12118278 TGTCAATCAC
*
12118288 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12118330 TA TA TA
1 TA TA TA
12118336 GGTTTTATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:12119963 original size:21 final size:21
Alignment explanation
Indices: 12119924--12119965 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12119914 CCATTTGCAC
* *
12119924 TAGAACTCCTGGCAGCTGAAA
1 TAGAACTCCTAGCACCTGAAA
*
12119945 TAGAACTCCTAGCCCCTGAAA
1 TAGAACTCCTAGCACCTGAAA
12119966 AGTTCATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (21 bp):
TAGAACTCCTAGCACCTGAAA
Found at i:12121989 original size:19 final size:19
Alignment explanation
Indices: 12121967--12122009 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
12121957 TGATAATTCA
12121967 CTTATATAATGA-GTTTTAT
1 CTTATATAAT-ATGTTTTAT
12121986 CTTATATAATATGTTTTAT
1 CTTATATAATATGTTTTAT
12122005 CTTAT
1 CTTAT
12122010 GCATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (19 bp):
CTTATATAATATGTTTTAT
Found at i:12123827 original size:67 final size:67
Alignment explanation
Indices: 12123705--12123832 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 67
12123695 TTATTTGGTA
* * * * ** *
12123705 AAGGCCAACCATTGGTTCCATTCTTTAGGTCTCTCACCAGTCGTACATTTATTGGTTTATTGATT
1 AAGGCCAACCATTAGCTCCATTCTTTAAGTCTCTCACCAATCACACATCTATTGGTTTATTGATT
12123770 GT
66 GT
* *
12123772 AAGGCTAACCATTAGCTCCATTCTTTAAGTCTCTCACCAATCACACATCTGTTGGTTTATT
1 AAGGCCAACCATTAGCTCCATTCTTTAAGTCTCTCACCAATCACACATCTATTGGTTTATT
12123833 ATGCCATAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (67 bp):
AAGGCCAACCATTAGCTCCATTCTTTAAGTCTCTCACCAATCACACATCTATTGGTTTATTGATT
GT
Found at i:12131672 original size:20 final size:19
Alignment explanation
Indices: 12131647--12131700 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
12131637 CTTACTTATA
12131647 TTATATAAAATATTAATAAT
1 TTATATAAAATATTAA-AAT
** *
12131667 TTATATATTTATATTAAATT
1 TTATATA-AAATATTAAAAT
12131687 TTATATAAAA-ATTA
1 TTATATAAAATATTA
12131701 TGCATCACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 4 0.14
19 1 0.04
20 16 0.57
21 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATATAAAATATTAAAAT
Found at i:12136006 original size:15 final size:15
Alignment explanation
Indices: 12135980--12136027 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
12135970 TAAAAGTTAC
12135980 AAAAAAAA--AAAAT
1 AAAAAAAAGCAAAAT
* *
12135993 AAAAAGAAGCAAAAA
1 AAAAAAAAGCAAAAT
12136008 AAAAAAAAGCAAAAT
1 AAAAAAAAGCAAAAT
12136023 AAAAA
1 AAAAA
12136028 CAAATGGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 7 0.24
15 22 0.76
ACGTcount: A:0.85, C:0.04, G:0.06, T:0.04
Consensus pattern (15 bp):
AAAAAAAAGCAAAAT
Found at i:12144226 original size:19 final size:19
Alignment explanation
Indices: 12144204--12144249 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12144194 TCGATTTTCT
12144204 TACTTTGACTTGAAAATCC
1 TACTTTGACTTGAAAATCC
* * *
12144223 TACTTTGATTTGGAATTCC
1 TACTTTGACTTGAAAATCC
*
12144242 TACCTTGA
1 TACTTTGA
12144250 TTAGGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (19 bp):
TACTTTGACTTGAAAATCC
Found at i:12144250 original size:19 final size:19
Alignment explanation
Indices: 12144220--12144256 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12144210 GACTTGAAAA
* *
12144220 TCCTACTTTGATTTGGAAT
1 TCCTACCTTGATTAGGAAT
12144239 TCCTACCTTGATTAGGAA
1 TCCTACCTTGATTAGGAA
12144257 AAGTATTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (19 bp):
TCCTACCTTGATTAGGAAT
Found at i:12145942 original size:20 final size:19
Alignment explanation
Indices: 12145897--12145939 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
12145887 CTTGCCATTA
*
12145897 GTTTTCCTACTTGAAAAAG
1 GTTTTCCCACTTGAAAAAG
*
12145916 GTTTTCCCACTTGAAAATG
1 GTTTTCCCACTTGAAAAAG
12145935 GTTTT
1 GTTTT
12145940 TCCAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
GTTTTCCCACTTGAAAAAG
Found at i:12148981 original size:21 final size:21
Alignment explanation
Indices: 12148953--12149005 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
12148943 ATTTTACTTG
12148953 AAAA-TAAAA-AAATTATCTT
1 AAAATTAAAATAAATTATCTT
* *
12148972 ATAAATTAAAATATATTATTTT
1 A-AAATTAAAATAAATTATCTT
*
12148994 AAAATTGAAATA
1 AAAATTAAAATA
12149006 TAAAGATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 15 0.54
22 9 0.32
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATTAAAATAAATTATCTT
Found at i:12149006 original size:21 final size:22
Alignment explanation
Indices: 12148964--12149007 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
12148954 AAATAAAAAA
12148964 ATTATCTTATAAATTAAAATAT
1 ATTATCTTATAAATTAAAATAT
* *
12148986 ATTATTTTA-AAATTGAAATAT
1 ATTATCTTATAAATTAAAATAT
12149007 A
1 A
12149008 AAGATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTATCTTATAAATTAAAATAT
Found at i:12151573 original size:15 final size:15
Alignment explanation
Indices: 12151523--12151575 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
12151513 TCTTAAAAAT
* *
12151523 AAAATAAATAAATGA
1 AAAATAAATTAATAA
*
12151538 AAAATAGAATTCA-AA
1 AAAATA-AATTAATAA
*
12151553 ATAATAAATTAATAA
1 AAAATAAATTAATAA
12151568 AAAATAAA
1 AAAATAAA
12151576 AATAAAGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 5 0.17
15 21 0.70
16 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (15 bp):
AAAATAAATTAATAA
Found at i:12156829 original size:16 final size:17
Alignment explanation
Indices: 12156822--12156854 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12156812 ATTGTTTGAA
12156822 TTCAAAATTATTTAAAT
1 TTCAAAATTATTTAAAT
*
12156839 TTC-AAATTATTCAAAT
1 TTCAAAATTATTTAAAT
12156855 CTGAAAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 12 0.80
17 3 0.20
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
TTCAAAATTATTTAAAT
Found at i:12158914 original size:12 final size:13
Alignment explanation
Indices: 12158897--12158926 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
12158887 ATAACAAATA
12158897 ATTTTTTAA-TTT
1 ATTTTTTAATTTT
12158909 ATTTTTTAATTTT
1 ATTTTTTAATTTT
12158922 ATTTT
1 ATTTT
12158927 AAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTTTAATTTT
Found at i:12159781 original size:24 final size:25
Alignment explanation
Indices: 12159749--12159796 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
12159739 TGACTCTATC
12159749 AATAAAAAAACA-ATTTTCTTATTG
1 AATAAAAAAACACATTTTCTTATTG
*
12159773 AATAAAAAAACACTTTTTCTTATT
1 AATAAAAAAACACATTTTCTTATT
12159797 TTACCGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (25 bp):
AATAAAAAAACACATTTTCTTATTG
Found at i:12161164 original size:3 final size:3
Alignment explanation
Indices: 12161125--12161149 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12161115 TAGTAAAATG
12161125 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
12161150 TACTTGGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12161309 original size:20 final size:21
Alignment explanation
Indices: 12161284--12161328 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
12161274 TAATATTACT
12161284 ATAACACACTATAATATA-TA
1 ATAACACACTATAATATAGTA
*
12161304 ATAACACACTATATTATAGTA
1 ATAACACACTATAATATAGTA
12161325 ATAA
1 ATAA
12161329 TAAAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAACACACTATAATATAGTA
Found at i:12162922 original size:13 final size:13
Alignment explanation
Indices: 12162904--12162928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12162894 AAAAAATAAG
12162904 AAAAATTTTTTAA
1 AAAAATTTTTTAA
12162917 AAAAATTTTTTA
1 AAAAATTTTTTA
12162929 CCTGAATCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAAATTTTTTAA
Found at i:12162993 original size:19 final size:19
Alignment explanation
Indices: 12162963--12163010 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
12162953 CGGTCAATGC
*
12162963 ACGGTTCGGCTCGGTCTGG
1 ACGGTTCAGCTCGGTCTGG
**
12162982 GTGGTTCAGCTCGGTCTGG
1 ACGGTTCAGCTCGGTCTGG
12163001 ACGGTTCAGC
1 ACGGTTCAGC
12163011 GGTTATGTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.08, C:0.25, G:0.40, T:0.27
Consensus pattern (19 bp):
ACGGTTCAGCTCGGTCTGG
Found at i:12164286 original size:45 final size:45
Alignment explanation
Indices: 12164209--12164459 Score: 333
Period size: 45 Copynumber: 5.4 Consensus size: 45
12164199 GTAGAAGCTT
*
12164209 AACAACTTTAAAAATTCCATCTTGGAAAAGCTCCTCTCAGCCA-AGGCTC
1 AACAACTTT-AAAA-T-C-TCTTGAAAAAGCTCCTCTCAG-CAGAGGCTC
*
12164258 AACAACTTTAAAATCTCTTGAAAAAGCTCCTCTCAGTAGAGGCTC
1 AACAACTTTAAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
*
12164303 AATAACTTTAAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
1 AACAACTTTAAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* * *
12164348 AACAACTTTAAAATTTTTATCTTGGAAAAGCTCCTCTTAGCAGAGGCTC
1 AACAACTTTAAAA----TCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
*
12164397 AACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAACAGAGGCTC
1 AACAACTTT-AAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
*
12164443 AATAACTTTAAAATCTC
1 AACAACTTTAAAATCTC
12164460 ATCTGTTTTT
Statistics
Matches: 183, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
44 1 0.01
45 89 0.49
46 37 0.20
47 1 0.01
48 4 0.02
49 47 0.26
50 4 0.02
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (45 bp):
AACAACTTTAAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
Found at i:12164312 original size:94 final size:91
Alignment explanation
Indices: 12164184--12164459 Score: 358
Period size: 94 Copynumber: 3.0 Consensus size: 91
12164174 TTGAAAGTTT
* * * * *
12164184 AAAAGGCTCATCTTAGTAGAAGCTTAACAACTTTAAAAATTCCATCTTGGAAAAGCTCCTCTCAG
1 AAAAAGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAAA-T-C-TCTTGAAAAAGCTCCTCTCAG
12164249 CCA-AGGCTCAACAACTTTAAAATCTCTTG
63 -CAGAGGCTCAACAACTTTAAAATCTCTTG
* *
12164278 AAAAAGCTCCTCTCAGTAGAGGCTCAATAACTTT-AAAATCTCTTGAAAAAGCTCCTCTCAGCAG
1 AAAAAGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAGCAG
*
12164342 AGGCTCAACAACTTTAAAATTTTTATCTTG
66 AGGCTCAACAACTTTAAAA----TCTCTTG
* * *
12164372 GAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAACAG
1 AAAAAGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAGCAG
*
12164437 AGGCTCAATAACTTTAAAATCTC
66 AGGCTCAACAACTTTAAAATCTC
12164460 ATCTGTTTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
89 2 0.01
90 39 0.24
91 4 0.02
92 1 0.01
93 4 0.02
94 64 0.40
95 47 0.29
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.28
Consensus pattern (91 bp):
AAAAAGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAGCAG
AGGCTCAACAACTTTAAAATCTCTTG
Found at i:12168780 original size:14 final size:14
Alignment explanation
Indices: 12168761--12168799 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
12168751 ATGGAATGGC
12168761 AAGAAAATGATGAA
1 AAGAAAATGATGAA
12168775 AAGAAAA-GAATGAA
1 AAGAAAATG-ATGAA
12168789 AAGTAAAATGA
1 AAG-AAAATGA
12168800 AGATGAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 15 0.68
15 5 0.23
16 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (14 bp):
AAGAAAATGATGAA
Found at i:12176190 original size:13 final size:13
Alignment explanation
Indices: 12176149--12176190 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
12176139 AAGAAGAAGG
12176149 GAAAAG-GAAGAA
1 GAAAAGAGAAGAA
*
12176161 GGAAAAAAAGAAGAA
1 -G-AAAAGAGAAGAA
12176176 GAAAAGAGAAGAA
1 GAAAAGAGAAGAA
12176189 GA
1 GA
12176191 CAAACGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 14 0.56
14 5 0.20
15 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAAAGAGAAGAA
Found at i:12180049 original size:154 final size:154
Alignment explanation
Indices: 12179767--12180068 Score: 496
Period size: 154 Copynumber: 2.0 Consensus size: 154
12179757 TATTTGAACC
* * **
12179767 AAGGTTCAATATACGCAATAGTACTACAGCGTCTATATTTGTCATGTCCGAAGGGGTCTCTATGC
1 AAGGTTCAATATACGCAACAGTACTACAGAGTCTATATTTGTCATGTCCGAAAAGGTCTCTATGC
*
12179832 AAAGATATTAGCATTACTTCTAAGCAATTAAATTAATCCAACCTTACGAAAAAGTTTAAAGTCAA
66 AAAAATATTAGCATTACTTCTAAGCAATTAAATTAATCCAACCTTACGAAAAAGTTTAAAGTCAA
12179897 CCTACATGAAATTTTCCTACGAAA
131 CCTACATGAAATTTTCCTACGAAA
* * * *
12179921 AAGGTTCTATATATGCAACATTACTACAGAGTCTATATTTGTCATGTCTGAAAAGGTCTCTATGC
1 AAGGTTCAATATACGCAACAGTACTACAGAGTCTATATTTGTCATGTCCGAAAAGGTCTCTATGC
* *
12179986 AAAAATATTAGCATTACTTCTAAGCAATTAAATTAATCCAATCTTACGAAAAAGTTTAGAGTCAA
66 AAAAATATTAGCATTACTTCTAAGCAATTAAATTAATCCAACCTTACGAAAAAGTTTAAAGTCAA
*
12180051 CTTACATGAAATTTTCCT
131 CCTACATGAAATTTTCCT
12180069 TGTCATCCTT
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
154 136 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (154 bp):
AAGGTTCAATATACGCAACAGTACTACAGAGTCTATATTTGTCATGTCCGAAAAGGTCTCTATGC
AAAAATATTAGCATTACTTCTAAGCAATTAAATTAATCCAACCTTACGAAAAAGTTTAAAGTCAA
CCTACATGAAATTTTCCTACGAAA
Found at i:12192492 original size:3 final size:3
Alignment explanation
Indices: 12192484--12192508 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12192474 AATCGAGTGC
12192484 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
12192509 TAGCAGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12199021 original size:17 final size:18
Alignment explanation
Indices: 12198996--12199035 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
12198986 ATAAAAAATT
12198996 AAATATTTAA-TACTAATA
1 AAATATTTAACTAC-AATA
12199014 AAAT-TTTAACTACAATA
1 AAATATTTAACTACAATA
12199031 AAATA
1 AAATA
12199036 AAAGTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATTTAACTACAATA
Found at i:12199214 original size:37 final size:37
Alignment explanation
Indices: 12199162--12199232 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
12199152 CCATTATCCC
*
12199162 CTTCTTAAAGGTGTTCATGAATTAAGCTCTATTAACA
1 CTTCTTAAAGATGTTCATGAATTAAGCTCTATTAACA
*
12199199 CTTCTTGAAGATGTTCATGAATTAAGCTCTATTA
1 CTTCTTAAAGATGTTCATGAATTAAGCTCTATTA
12199233 GCACCTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (37 bp):
CTTCTTAAAGATGTTCATGAATTAAGCTCTATTAACA
Found at i:12201038 original size:117 final size:112
Alignment explanation
Indices: 12200826--12201093 Score: 296
Period size: 116 Copynumber: 2.4 Consensus size: 112
12200816 AGAATTATAG
* * *
12200826 TAATTTAATATATAATTAAGTTTTATA-TA-ATT--AATTTAATAAGAGTATTATAATAATTTTT
1 TAATTCAATATATAATTAA-TTTTATATTATATTAAAATTTAACAAGAGTATTACAATAATTTTT
*
12200887 AAAATGTCACATATCAAATTTTTATGAAACAATAGTAA-GGATATATTAA
65 AAAATGTCACATATCAAATTTTTATAAAACAATAGTAAGGGAT-T-TTAA
* * *
12200936 TAATTCATTATATAATTAATTTTATATTATATTAAAATTTAACATGAGTATTACAGTAATTTTCA
1 TAATTCAATATATAATTAATTTTATATTATATTAAAATTTAACAAGAGTATTACAATAATTTT--
* * * *
12201001 AATAAAATGTCATATGTTAAATTTTTATAAAATAATAGTAAGGGATTTTAA
64 --TAAAATGTCACATATCAAATTTTTATAAAACAATAGTAAGGGATTTTAA
* * *
12201052 TAATTTAATA-AGTAATTGATTTTATATTATATTAAAGTTTAA
1 TAATTCAATATA-TAATTAATTTTATATTATATTAAAATTTAA
12201094 TATGTAATTT
Statistics
Matches: 133, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
109 7 0.05
110 19 0.14
111 3 0.02
113 24 0.18
115 1 0.01
116 40 0.30
117 35 0.26
118 4 0.03
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (112 bp):
TAATTCAATATATAATTAATTTTATATTATATTAAAATTTAACAAGAGTATTACAATAATTTTTA
AAATGTCACATATCAAATTTTTATAAAACAATAGTAAGGGATTTTAA
Found at i:12205975 original size:17 final size:17
Alignment explanation
Indices: 12205946--12205978 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12205936 CTTTTTGAAT
12205946 TTTCTCTTACAAGATTG
1 TTTCTCTTACAAGATTG
12205963 TTTCT-TTACCAAGATT
1 TTTCTCTTA-CAAGATT
12205979 ATTTAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (17 bp):
TTTCTCTTACAAGATTG
Found at i:12215783 original size:61 final size:61
Alignment explanation
Indices: 12215715--12215836 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 61
12215705 TCAAAGAATA
* * * * *
12215715 CATTATAAGCTTGATAAGTGATATTAATATTTATTTTTTATCATGCCTAAGCTCATATCCC
1 CATTATAAGCTTGATAAGTGATATTAATATTTACTTTATATCACGCCTAAACCCATATCCC
*
12215776 CATTATAAGCTTGATAAGTTATATTAATATTTACTTTATATCACGCCTAAACCCATATCCC
1 CATTATAAGCTTGATAAGTGATATTAATATTTACTTTATATCACGCCTAAACCCATATCCC
12215837 TTCTTATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (61 bp):
CATTATAAGCTTGATAAGTGATATTAATATTTACTTTATATCACGCCTAAACCCATATCCC
Found at i:12215907 original size:14 final size:14
Alignment explanation
Indices: 12215888--12215915 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12215878 ATGGTCTTCA
12215888 AATTTATTTTTATG
1 AATTTATTTTTATG
12215902 AATTTATTTTTATG
1 AATTTATTTTTATG
12215916 TACATTTTTT
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:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
AATTTATTTTTATG
Found at i:12217381 original size:62 final size:62
Alignment explanation
Indices: 12217305--12217426 Score: 181
Period size: 62 Copynumber: 2.0 Consensus size: 62
12217295 AAGATCCCCA
*
12217305 CCACGTAAGATCACTAAATGGTTACCAAACACAACGATCTAATCACCTTGCGCAGATCACTG
1 CCACATAAGATCACTAAATGGTTACCAAACACAACGATCTAATCACCTTGCGCAGATCACTG
* ** * * *
12217367 CCACATAAGATCACTAAGTGGTTACCAAACACAGTGATTTAATCACCTTGTGTAGATCAC
1 CCACATAAGATCACTAAATGGTTACCAAACACAACGATCTAATCACCTTGCGCAGATCAC
12217427 CATAATTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (62 bp):
CCACATAAGATCACTAAATGGTTACCAAACACAACGATCTAATCACCTTGCGCAGATCACTG
Found at i:12217612 original size:23 final size:23
Alignment explanation
Indices: 12217586--12217640 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
12217576 CAATTATCCT
*
12217586 TAGGTGTGATTCCTAAGGAATTG
1 TAGGTGTGATTCCAAAGGAATTG
12217609 TAGGTGTGATTCCAAAGGAATTG
1 TAGGTGTGATTCCAAAGGAATTG
12217632 TAGGTGTGA
1 TAGGTGTGA
12217641 AGCTTAGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (23 bp):
TAGGTGTGATTCCAAAGGAATTG
Found at i:12218829 original size:16 final size:16
Alignment explanation
Indices: 12218810--12218840 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12218800 TTATTCAAAT
12218810 TATTTTTTAATGTATA
1 TATTTTTTAATGTATA
12218826 TATTTTTTAATGTAT
1 TATTTTTTAATGTAT
12218841 TAAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TATTTTTTAATGTATA
Found at i:12221181 original size:59 final size:59
Alignment explanation
Indices: 12221089--12221208 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
12221079 TAATGTAGAG
*
12221089 AGATAACTCATGAGTATAGTGTTGCAAATTCATAAGAATTTAAATAAAAATTAAATAAT
1 AGATAACTCATGAGTAAAGTGTTGCAAATTCATAAGAATTTAAATAAAAATTAAATAAT
*
12221148 AGATAACTCATGAGTAAAGTTTTGCAAATTCATAAGAATTTAAATAAAAATTAAATAAT
1 AGATAACTCATGAGTAAAGTGTTGCAAATTCATAAGAATTTAAATAAAAATTAAATAAT
12221207 AG
1 AG
12221209 CAAGAAACTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.32
Consensus pattern (59 bp):
AGATAACTCATGAGTAAAGTGTTGCAAATTCATAAGAATTTAAATAAAAATTAAATAAT
Done.