Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 49 of 131
Found at i:10127210 original size:129 final size:129
Alignment explanation
Indices: 10127071--10127450 Score: 457
Period size: 129 Copynumber: 3.0 Consensus size: 129
10127061 TTTTTAAGGA
10127071 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTGGAAACTTTGATTTTCGAAAAAAATTGA
1 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTGGAAACTTTGATTTTCGAAAAAAATTGA
*
10127136 TACTTTCAACTTTTCCTC-AAAACTTTTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTTTC
66 TACTTTCAACTTTTCCTCAAAAAC-TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTC
* * * **
10127200 AAATTGATACTTTCAACTTTTCTCC-AAAAATATTTTTTGAAAAAATTT-ATTTT-TAAGGAAAT
1 AAATTGATACTTTCAACTTTTC-CCTAAAAATA-TTTTTG-GAAACTTTGATTTTCGAAAAAAAT
10127262 TGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTT
63 TGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTT
10127327 TC
128 TC
* * ** * * **
10127329 AACTT--TTCCCTAAAATATTT---T-----T-TTTTTGGATTCTTTGATTTTCGAAAAAAATTG
1 AAATTGATACTTTCAACT-TTTCCCTAAAAATATTTTTGGAAACTTTGATTTTCGAAAAAAATTG
* *
10127383 ATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAAGAGAATTGATACTTT
65 ATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTT
10127448 C
129 C
10127449 AA
1 AA
10127451 CTTTTCCCCA
Statistics
Matches: 221, Mismatches: 21, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
117 4 0.02
118 11 0.05
119 32 0.14
120 42 0.19
127 6 0.03
128 3 0.01
129 99 0.45
130 18 0.08
131 6 0.03
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (129 bp):
AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTGGAAACTTTGATTTTCGAAAAAAATTGA
TACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTC
Found at i:10127404 original size:119 final size:121
Alignment explanation
Indices: 10127258--10127475 Score: 386
Period size: 120 Copynumber: 1.8 Consensus size: 121
10127248 ATTTTTAAGG
*
10127258 AAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAAATTTATTTTTAAGGAAAATTGA
1 AAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAAGAAAATTGA
* *
10127322 TACTTTCAACTTTT-CCCTAAAATATTTTTTTTTTGGATTCTTTGATTTTCGAAAA
66 TACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGATTCTTTGATTTTCGAAAA
*
10127377 AAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAAGAGAATTGA
1 AAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAAGAAAATTGA
10127442 TACTTTCAACTTTTCCCCAAAAATATATTTTTTT
66 TACTTTCAACTTTTCCCCAAAAATATATTTTTTT
10127476 AAGTTTTATT
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
119 30 0.32
120 46 0.49
121 17 0.18
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (121 bp):
AAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAAGAAAATTGA
TACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGATTCTTTGATTTTCGAAAA
Found at i:10127417 original size:249 final size:246
Alignment explanation
Indices: 10126951--10127450 Score: 808
Period size: 249 Copynumber: 2.0 Consensus size: 246
10126941 ATTCCGAAGA
*
10126951 AAATTGATACTTTCAACTTTTTCTCAAAACTATTTTTTAAAAAAATTTATTTTTAAGGAAAAATT
1 AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAAATTTATTTTTAAGG-AAAATT
10127016 GATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
65 GATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
10127081 TTTCAACTTTTCCCTAAAAATATTTTTGGAAACTTTGATTTTCGAAAAAAATTGATACTTTCAAC
128 TTTCAACTTTTCCCTAAAAATATTTTTGGAAACTTTGATTTTCGAAAAAAATTGATACTTTCAAC
* * *
10127146 TTTTCCTCAAAACTTTTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTTTC
193 TTTTCCTCAAAACCTTTTTTTGAAAATTTATTTTTAAAGAAAATTGATACTTTC
*
10127200 AAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTGAAAAAATTTATTTTTAAGG-AAATT
1 AAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTAAAAAAATTTATTTTTAAGGAAAATT
*
10127263 GATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTT
65 GATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTT
* **
10127327 TCAACTTTTCCCTAAAATATTTTTTTTTTGGATTCTTTGATTTTCGAAAAAAATTGATACTTTCA
130 TCAACTTTTCCCTAAAA-A---TATTTTTGGAAACTTTGATTTTCGAAAAAAATTGATACTTTCA
*
10127392 ACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAAGAGAATTGATACTTTC
191 ACTTTTCCTC-AAAACCTTTTTTTGAAAATTTATTTTTAAAGAAAATTGATACTTTC
10127449 AA
1 AA
10127451 CTTTTCCCCA
Statistics
Matches: 235, Mismatches: 10, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
244 55 0.23
245 1 0.00
247 30 0.13
248 56 0.24
249 93 0.40
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (246 bp):
AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTT
CAACTTTTCCCTAAAAATATTTTTGGAAACTTTGATTTTCGAAAAAAATTGATACTTTCAACTTT
TCCTCAAAACCTTTTTTTGAAAATTTATTTTTAAAGAAAATTGATACTTTC
Found at i:10127473 original size:58 final size:57
Alignment explanation
Indices: 10127200--10127495 Score: 305
Period size: 58 Copynumber: 5.1 Consensus size: 57
10127190 TGATACTTTC
* *
10127200 AAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAAAATTTATTTTT-AAGG
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG--AAAATTTATTTTTAAAGA
* *
10127258 AAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTGAAAATTTATTTTTAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTATTTTTAAAGA
* * *** *
10127315 AAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTTTTGGATTCTTTGATTTTCGAAA-A
1 AAATTGATACTTTCAACTTTTCCCCAAAA-A--TATTTTTT-GAAAATTT-ATTTT-TAAAGA
*
10127377 AAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTGAAAATTTATTTTTAAAGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAAATTTATTTTTAAAGA
* ** * *
10127435 GAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTAAGTTT-TATTTAAAGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTGAAAATTTATTTTTAAAGA
10127492 AAAT
1 AAAT
10127496 AAAATAATAA
Statistics
Matches: 200, Mismatches: 27, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
56 14 0.07
57 45 0.22
58 80 0.40
59 7 0.04
60 12 0.06
61 7 0.04
62 33 0.17
63 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (57 bp):
AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAAGA
Found at i:10127524 original size:17 final size:16
Alignment explanation
Indices: 10127503--10127585 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 16
10127493 AATAAAATAA
10127503 TAAAACAAAATAAAAG
1 TAAAACAAAATAAAAG
*
10127519 TGAAAATAAAA-AAAA-
1 T-AAAACAAAATAAAAG
* *
10127534 TAAAAAAATAAAAAAAAG
1 T-AAAACA-AAATAAAAG
*
10127552 TAAAACAAAAATAAAAA
1 TAAAAC-AAAATAAAAG
*
10127569 TAAAATAAAGATAAAAG
1 TAAAACAAA-ATAAAAG
10127586 AACATTAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
15 6 0.11
16 11 0.21
17 34 0.64
18 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.13
Consensus pattern (16 bp):
TAAAACAAAATAAAAG
Found at i:10127535 original size:39 final size:38
Alignment explanation
Indices: 10127486--10127582 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 38
10127476 AAGTTTTATT
* **
10127486 TAAAGAAAATAAAATAATAAAACAAAA-TAAAAGTGAAAA
1 TAAAAAAAATAAAATAATAAAA-AAAAGTAAAA-CAAAAA
*
10127525 TAAAAAAAATAAAAAAATAAAAAAAAGTAAAACAAAAA
1 TAAAAAAAATAAAATAATAAAAAAAAGTAAAACAAAAA
10127563 TAAAAATAAAATAAAGATAA
1 T-AAAA-AAAATAAA-ATAA
10127583 AAGAACATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
38 9 0.18
39 29 0.59
40 8 0.16
41 3 0.06
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (38 bp):
TAAAAAAAATAAAATAATAAAAAAAAGTAAAACAAAAA
Found at i:10127556 original size:9 final size:8
Alignment explanation
Indices: 10127486--10127573 Score: 56
Period size: 8 Copynumber: 10.6 Consensus size: 8
10127476 AAGTTTTATT
10127486 TAAAGAAAA
1 TAAA-AAAA
*
10127495 TAAAATAA
1 TAAAAAAA
10127503 TAAAACAAA
1 TAAAA-AAA
* *
10127512 -ATAAAAG
1 TAAAAAAA
* *
10127519 TGAAAATA
1 TAAAAAAA
10127527 -AAAAAAA
1 TAAAAAAA
10127534 TAAAAAAA
1 TAAAAAAA
10127542 TAAAAAAAA
1 T-AAAAAAA
10127551 GTAAAACAAA
1 -TAAAA-AAA
10127561 -AATAAAAA
1 TAA-AAAAA
10127569 TAAAA
1 TAAAA
10127574 TAAAGATAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 17
0.69 0.11 0.19
Matches are distributed among these distances:
7 7 0.11
8 29 0.48
9 21 0.34
10 4 0.07
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (8 bp):
TAAAAAAA
Found at i:10127582 original size:11 final size:11
Alignment explanation
Indices: 10127491--10127584 Score: 68
Period size: 11 Copynumber: 8.4 Consensus size: 11
10127481 TTATTTAAAG
10127491 AAAATAAAATAAT
1 AAAAT-AAA-AAT
*
10127504 AAAA-CAAAAT
1 AAAATAAAAAT
*
10127514 AAAAGTGAAAAT
1 AAAA-TAAAAAT
* *
10127526 AAAAAAAATAAA
1 AAAATAAA-AAT
10127538 AAAATAAAAA-
1 AAAATAAAAAT
*
10127548 AAAGTAAAACA-
1 AAAATAAAA-AT
10127559 AAAATAAAAAT
1 AAAATAAAAAT
*
10127570 AAAATAAAGAT
1 AAAATAAAAAT
10127581 AAAA
1 AAAA
10127585 GAACATTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
10 16 0.24
11 29 0.43
12 18 0.27
13 4 0.06
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:10128322 original size:4 final size:4
Alignment explanation
Indices: 10128295--10128455 Score: 68
Period size: 4 Copynumber: 40.0 Consensus size: 4
10128285 ATATTACAAG
10128295 ATAA ATAA A-ATA AT-A AT-A AT-A ATAA ATAA ATTATA ATATA AT-A
1 ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA A-TA-A ATA-A ATAA
* * * * * *
10128338 ATAA ATAC ATAA CTAG ATAA ATAAA ATAC ATAT ATAA ATATTA ACAA A-AA
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATA--A ATAA ATAA
* * * * * *
10128388 ATAA ATAA ATAA ATAA AGAT ATAC ATAT ATTA ATAC ATAGTA AT-A ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA
*
10128437 ATAA AT-A ATAA ATAC ATAA
1 ATAA ATAA ATAA ATAA ATAA
10128456 GATACAAAGG
Statistics
Matches: 121, Mismatches: 22, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
3 22 0.18
4 80 0.66
5 12 0.10
6 7 0.06
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:10128357 original size:22 final size:22
Alignment explanation
Indices: 10128310--10128374 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
10128300 TAAAATAATA
* * *
10128310 ATAATAATAAATAAATTATAAT
1 ATAATAATAAATACATAATAAG
10128332 ATAATAATAAATACATAACT-AG
1 ATAATAATAAATACATAA-TAAG
10128354 AT-A-AATAAAATACATATATAA
1 ATAATAAT-AAATACATA-ATAA
10128375 ATATTAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.08
21 11 0.31
22 21 0.58
23 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (22 bp):
ATAATAATAAATACATAATAAG
Found at i:10128361 original size:42 final size:42
Alignment explanation
Indices: 10128263--10128363 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 42
10128253 CAAACATTAT
10128263 TACATAACTAGATAAATAAAAAATATTACAAGATAAATAAAA
1 TACATAACTAGATAAATAAAAAATATTACAAGATAAATAAAA
* * *
10128305 TA-ATAA-TA-AT-AATAAATAA-ATTATAATAT-AATAATAAA
1 TACATAACTAGATAAATAAAAAATATTACAAGATAAAT-A-AAA
10128343 TACATAACTAGATAAATAAAA
1 TACATAACTAGATAAATAAAA
10128364 TACATATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
36 3 0.06
37 9 0.18
38 13 0.27
39 6 0.12
40 4 0.08
41 6 0.12
42 8 0.16
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (42 bp):
TACATAACTAGATAAATAAAAAATATTACAAGATAAATAAAA
Found at i:10128366 original size:21 final size:21
Alignment explanation
Indices: 10128263--10128369 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 21
10128253 CAAACATTAT
10128263 TACATAACTAGATAAATAAAA
1 TACATAACTAGATAAATAAAA
* * * *
10128284 AATATTACAAGATAAATAAAA
1 TACATAACTAGATAAATAAAA
10128305 TA-ATAA-TA-AT-AAT-AAA
1 TACATAACTAGATAAATAAAA
* *
10128321 TAAATTA-TA-ATATAATAATAAA
1 TACATAACTAGATA-AAT-A-AAA
10128343 TACATAACTAGATAAATAAAA
1 TACATAACTAGATAAATAAAA
10128364 TACATA
1 TACATA
10128370 TATAAATATT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.07
17 10 0.15
18 2 0.03
19 4 0.06
20 3 0.04
21 27 0.40
22 9 0.13
23 5 0.07
24 3 0.04
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (21 bp):
TACATAACTAGATAAATAAAA
Found at i:10128399 original size:80 final size:82
Alignment explanation
Indices: 10128263--10128446 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 82
10128253 CAAACATTAT
* *
10128263 TACATAACTAGATAAATAAAAAATATTACAAGATAAATAAAATAATAATAATAATAAATAAA-TT
1 TACATAACTAGATAAATAAAAAATATTACAAGATAAACAAAATAATAATAATAATAAATAAAGAT
10128327 ATA-ATATAATAATAAA
66 ATACATATAATAATAAA
* *
10128343 TACATAACTAGATAAATAAAATACATATATA-AATATTAACAAAA-AAT-A-AATAAATAAATAA
1 TACATAACTAGATAAATAAAA-A-ATAT-TACAAGATAAACAAAATAATAATAAT-AATAAATAA
* *
10128404 AGATATACATATATTAATACA
62 AGATATACATATAATAATAAA
* *
10128425 TA-GTAA-TA-ATAAATAAATAATA
1 TACATAACTAGATAAATAAAAAATA
10128447 AATACATAAG
Statistics
Matches: 90, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
77 3 0.03
78 1 0.01
79 12 0.13
80 34 0.38
81 11 0.12
82 27 0.30
83 2 0.02
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.29
Consensus pattern (82 bp):
TACATAACTAGATAAATAAAAAATATTACAAGATAAACAAAATAATAATAATAATAAATAAAGAT
ATACATATAATAATAAA
Found at i:10128499 original size:22 final size:22
Alignment explanation
Indices: 10128469--10128516 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
10128459 ACAAAGGAAG
10128469 AAAAAAATATAAAATA-AAAAT
1 AAAAAAATATAAAATACAAAAT
10128490 AAAAATAATATAAAATACAAAAT
1 AAAAA-AATATAAAATACAAAAT
10128513 AAAA
1 AAAA
10128517 GCCAAATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 5 0.20
22 11 0.44
23 9 0.36
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAAAAATATAAAATACAAAAT
Found at i:10128502 original size:17 final size:16
Alignment explanation
Indices: 10128472--10128516 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
10128462 AAGGAAGAAA
10128472 AAAATATAAAATAAAAAT
1 AAAA-ATAAAAT-AAAAT
*
10128490 AAAAATAATATAAAAT
1 AAAAATAAAATAAAAT
10128506 ACAAAATAAAA
1 A-AAAATAAAA
10128517 GCCAAATTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 14 0.58
18 4 0.17
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:10128676 original size:6 final size:6
Alignment explanation
Indices: 10128665--10128704 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
10128655 TCAACTCGAC
10128665 ATTTTT ATTTTT ATTTTT ATTTTT -TTTGTT -TTTTT -TTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT-TT ATTTTT ATTTTT
10128705 TTTGACCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 10 0.30
6 23 0.70
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.88
Consensus pattern (6 bp):
ATTTTT
Found at i:10128696 original size:15 final size:14
Alignment explanation
Indices: 10128666--10128705 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
10128656 CAACTCGACA
*
10128666 TTTTTATTTTTATT
1 TTTTTTTTTTTATT
*
10128680 TTTATTTTTTTTGTT
1 TTT-TTTTTTTTATT
10128695 TTTTTTTTTTT
1 TTTTTTTTTTT
10128706 TTGACCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTTATT
Found at i:10128697 original size:16 final size:16
Alignment explanation
Indices: 10128678--10128708 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10128668 TTTATTTTTA
10128678 TTTTTATTTTTTTTGT
1 TTTTTATTTTTTTTGT
*
10128694 TTTTTTTTTTTTTTG
1 TTTTTATTTTTTTTG
10128709 ACCAAAGCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.90
Consensus pattern (16 bp):
TTTTTATTTTTTTTGT
Found at i:10128815 original size:42 final size:42
Alignment explanation
Indices: 10128715--10128973 Score: 324
Period size: 42 Copynumber: 6.2 Consensus size: 42
10128705 TTTGACCAAA
* * * * * *
10128715 GCTCCTTTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAAATAAATT
* * * *
10128758 GCTCCCCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
*
10128800 GCTCCTCTAAACAGAGGCACCACGATTTTGG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
*
10128841 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAA-TAAATT
* * * *
10128884 GCTCCTCTGAACAAAGGCACCACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
* *
10128926 GCTCCTCTAAACAGAGGCACCACAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
10128967 GCTCCTC
1 GCTCCTC
10128974 GACAATCATA
Statistics
Matches: 193, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
41 57 0.30
42 72 0.37
43 64 0.33
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
Found at i:10129997 original size:8 final size:8
Alignment explanation
Indices: 10129984--10130013 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10129974 CATTCACTTT
*
10129984 TTTTTTTA
1 TTTTTTCA
10129992 TTTTTTCA
1 TTTTTTCA
10130000 TTTTTTCA
1 TTTTTTCA
10130008 TTTTTT
1 TTTTTT
10130014 TTTCAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10136853 original size:59 final size:57
Alignment explanation
Indices: 10136697--10137004 Score: 359
Period size: 59 Copynumber: 5.2 Consensus size: 57
10136687 TTGATACTTT
**
10136697 CAAAAATATTCTTTTGAAACTTTAATTTGGAA-GAAAATTGATACTTTCAACTTTTCCTC
1 CAAAAATATT-TTTTGAAACTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCC-C
* * * *
10136756 AAAAAAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
1 CAAAAATA--TTTTTTGAAACTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCC
* * *
10136815 CAAAAATATTTTTTGGAAACTTTGATTTTCGAGAAAAATTGATACTTTCAACTTTTCCT
1 CAAAAATATTTTTT-GAAACTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCC
* * *
10136874 CAAAAATCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
1 CAAAAATATTTTTTGAAACTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCC
* ** *
10136931 CAAAATATTTTTTTTTAGATTCTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCT
1 CAAAA-A-TATTTTTT-GAAACTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCC
10136992 CAAAAA-ATTTTTT
1 CAAAAATATTTTTT
10137005 TTAAAGTTTT
Statistics
Matches: 215, Mismatches: 25, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
57 42 0.20
58 21 0.10
59 70 0.33
60 42 0.20
61 40 0.19
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
CAAAAATATTTTTTGAAACTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCC
Found at i:10137004 original size:118 final size:116
Alignment explanation
Indices: 10136697--10137027 Score: 454
Period size: 118 Copynumber: 2.8 Consensus size: 116
10136687 TTGATACTTT
* **
10136697 CAAAAATATTCTTTT-GAAACTTTAATTTGGAA-GAAAATTGATACTTTCAACTTTTCCTCAAAA
1 CAAAAATATT-TTTTAGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC--AA
10136760 AAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
63 AAAA-TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
* * *
10136815 CAAAAATATTTTTTGGAAACTTTGATTTTCGAGAAAAATTGATACTTTCAACTTTTCCTC-AAAA
1 CAAAAATATTTTTTAGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
10136879 ATCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
66 AT-TTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
* **
10136931 CAAAATATTTTTTTTTAGATTCTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAA
1 CAAAA-A-TATTTTTTAGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAA
* * * *
10136996 AAATTTTTTTTAAAGTTT-TATTTAAAGAAAAT
64 AAATTTTTTTGAAAATTTATTTTTAAGGAAAAT
10137028 AAAATAATAA
Statistics
Matches: 192, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
115 1 0.01
116 59 0.31
117 17 0.09
118 83 0.43
119 32 0.17
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (116 bp):
CAAAAATATTTTTTAGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
ATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
Found at i:10137033 original size:5 final size:5
Alignment explanation
Indices: 10137023--10137107 Score: 63
Period size: 5 Copynumber: 16.8 Consensus size: 5
10137013 TTATTTAAAG
*
10137023 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT -AAA- AAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
*
10137070 AAAAGT AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAA
1 AAAA-T AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAA
10137108 GAACATTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
3 3 0.05
4 10 0.15
5 28 0.43
6 20 0.31
7 4 0.06
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:10137056 original size:30 final size:28
Alignment explanation
Indices: 10137022--10137108 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 28
10137012 TTTATTTAAA
*
10137022 GAAAATAAAATAATAAAACAAAATAAAAGT
1 GAAAATAAAA-AATAAAA-AAAATAAAAGC
10137052 GAAAATAAAAAAATAAAAAAAAGTAAAA-C
1 GAAAAT-AAAAAATAAAAAAAA-TAAAAGC
*
10137081 AAAAAT-AAAAATAAAATAAAGATAAAAG
1 GAAAATAAAAAATAAAA-AAA-ATAAAAG
10137109 AACATTAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
27 10 0.20
28 8 0.16
29 10 0.20
30 18 0.36
31 4 0.08
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (28 bp):
GAAAATAAAAAATAAAAAAAATAAAAGC
Found at i:10137061 original size:22 final size:20
Alignment explanation
Indices: 10137023--10137100 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 20
10137013 TTATTTAAAG
10137023 AAAATAAAAT--AATAAAAC
1 AAAATAAAATAAAATAAAAC
10137041 AAAATAAAAGTGAAAAT-AAA-
1 AAAATAAAA-T-AAAATAAAAC
10137061 AAAATAAAA-AAAAGTAAAAC
1 AAAATAAAATAAAA-TAAAAC
10137081 AAAAATAAAAATAAAATAAA
1 -AAAAT-AAAATAAAATAAA
10137101 GATAAAAGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.08
18 10 0.20
19 4 0.08
20 9 0.18
21 8 0.16
22 11 0.22
23 4 0.08
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (20 bp):
AAAATAAAATAAAATAAAAC
Found at i:10137079 original size:40 final size:39
Alignment explanation
Indices: 10137018--10137102 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
10137008 AAGTTTTATT
* *
10137018 TAAAGAAAATAAAATAATAAAAC-AAAATAAAAGTGAAAA
1 TAAAGAAAATAAAAAAATAAAACAAAAATAAAAAT-AAAA
10137057 TAAA-AAAATAAAAAAAAGTAAAACAAAAATAAAAATAAAA
1 TAAAGAAAAT-AAAAAAA-TAAAACAAAAATAAAAATAAAA
10137097 TAAAGA
1 TAAAGA
10137103 TAAAAGAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
38 5 0.12
39 10 0.25
40 14 0.35
41 11 0.28
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (39 bp):
TAAAGAAAATAAAAAAATAAAACAAAAATAAAAATAAAA
Found at i:10137105 original size:17 final size:16
Alignment explanation
Indices: 10137023--10137107 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 16
10137013 TTATTTAAAG
*
10137023 AAAATAAAATAATAAAAC
1 AAAATAAAAT-A-AAAAT
*
10137041 AAAATAAAAGTGAAAAT
1 AAAATAAAA-TAAAAAT
10137058 -AAA-AAAATAAAAA-
1 AAAATAAAATAAAAAT
* *
10137071 AAAGTAAAACAAAAAT
1 AAAATAAAATAAAAAT
*
10137087 AAAAATAAAATAAAGAT
1 -AAAATAAAATAAAAAT
10137104 AAAA
1 AAAA
10137108 GAACATTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
14 7 0.13
15 13 0.24
16 7 0.13
17 17 0.31
18 9 0.17
19 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:10137139 original size:4 final size:4
Alignment explanation
Indices: 10137130--10137174 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
10137120 ATCTTAATTT
*
10137130 AATA AATAA AATA AATA AACA AATA AATA AAT- -ATA AATA AATA AA
1 AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
10137175 AAACCTGGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
4 30 0.83
5 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:10137156 original size:21 final size:22
Alignment explanation
Indices: 10137130--10137170 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
10137120 ATCTTAATTT
10137130 AATAAATAAA-ATAAATAAACA
1 AATAAATAAATATAAATAAACA
10137151 AATAAATAAATATAAATAAA
1 AATAAATAAATATAAATAAA
10137171 TAAAAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
AATAAATAAATATAAATAAACA
Found at i:10137678 original size:15 final size:15
Alignment explanation
Indices: 10137658--10137688 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10137648 AATACATAGT
10137658 AATAATAAATAAATA
1 AATAATAAATAAATA
*
10137673 AATAATAAATACATA
1 AATAATAAATAAATA
10137688 A
1 A
10137689 GATACAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:10137733 original size:22 final size:23
Alignment explanation
Indices: 10137702--10137750 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
10137692 ACAAAGAAGG
10137702 AAAAAAAATATAAAAT-AAAAAT
1 AAAAAAAATATAAAATGAAAAAT
* *
10137724 AAAAATAATATAAAATGCAAAAT
1 AAAAAAAATATAAAATGAAAAAT
10137747 AAAA
1 AAAA
10137751 GCCAAATTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (23 bp):
AAAAAAAATATAAAATGAAAAAT
Found at i:10147573 original size:18 final size:17
Alignment explanation
Indices: 10147542--10147575 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10147532 ATACATACCG
*
10147542 AAGAAGATCGAAAGAAT
1 AAGAAGATCAAAAGAAT
10147559 AAGATAGATCAAAAGAA
1 AAGA-AGATCAAAAGAA
10147576 AGTTGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.06, G:0.21, T:0.12
Consensus pattern (17 bp):
AAGAAGATCAAAAGAAT
Found at i:10150044 original size:2 final size:2
Alignment explanation
Indices: 10150037--10150061 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10150027 TGCACGCTTG
10150037 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10150062 TGTTTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10151435 original size:6 final size:6
Alignment explanation
Indices: 10151405--10151446 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
10151395 TTAAGTTGGA
*
10151405 TGATGAT TGATAT ATGATAT CGATAT TGATAT TGATAT TGAT
1 TGAT-AT TGATAT -TGATAT TGATAT TGATAT TGATAT TGAT
10151447 TCAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 22 0.69
7 10 0.31
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.45
Consensus pattern (6 bp):
TGATAT
Found at i:10163742 original size:2 final size:2
Alignment explanation
Indices: 10163735--10163760 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10163725 CCTAAAAGAA
10163735 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10163761 TGCGTAGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10165622 original size:25 final size:25
Alignment explanation
Indices: 10165594--10165641 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10165584 ACAATTATCC
10165594 AATGATGAAATCTTTA-AAAATTTTA
1 AATGAT-AAATCTTTATAAAATTTTA
* *
10165619 AATGGTAAATTTTTATAAAATTT
1 AATGATAAATCTTTATAAAATTT
10165642 CTAGGTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (25 bp):
AATGATAAATCTTTATAAAATTTTA
Found at i:10165804 original size:189 final size:186
Alignment explanation
Indices: 10165579--10165922 Score: 505
Period size: 189 Copynumber: 1.8 Consensus size: 186
10165569 TTTTGAGAAC
* * **
10165579 AAATAACAATTATCCAATGATGAAATCTTTAAAAATTTTAAATGGTAAATTTTTATAAAATTTCT
1 AAATAACAATTATCCAATGATAAAATCTTTAAAAATTTCAAATGGTAAATTTTTATAAAACCTCT
*
10165644 AGGTGA-AAATTTTTTTTCTAAATTTGTCCCAAATGGTGGAATAATTTAGATAAAATTTCAATAC
66 AAGTGAGAAA--TTTTTT-TAAATTTGTCCCAAATGGTGGAATAATTTAGATAAAATTTCAATA-
* *
10165708 AAA-TAATTAATATTTTTTTCAATTAAAAAAATAAGAAATTTTAACAAAAATTTTTGAATT
127 AAAGTAATT-ATATTATTTTCAAATAAAAAAATAAGAAATTTTAACAAAAATTTTTGAATT
*
10165768 AAATACCAATTATCCAATGATAAAAT-TCTTAAAAATTTCAAATGGTAAATTTTTATAAAACCTC
1 AAATAACAATTATCCAATGATAAAATCT-TTAAAAATTTCAAATGGTAAATTTTTATAAAACCTC
* * * *
10165832 TAAGTGAGAAATTTTTTTAAATTTGTCCCAAGTGGTGGAATAATTTAGGTGAAGTTTCAATAAAA
65 TAAGTGAGAAATTTTTTTAAATTTGTCCCAAATGGTGGAATAATTTAGATAAAATTTCAATAAAA
10165897 GTAATTATATTATTTTCAAATAAAAA
130 GTAATTATATTATTTTCAAATAAAAA
10165923 TTTTGGATAA
Statistics
Matches: 140, Mismatches: 12, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
186 21 0.15
187 46 0.33
188 7 0.05
189 63 0.45
190 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (186 bp):
AAATAACAATTATCCAATGATAAAATCTTTAAAAATTTCAAATGGTAAATTTTTATAAAACCTCT
AAGTGAGAAATTTTTTTAAATTTGTCCCAAATGGTGGAATAATTTAGATAAAATTTCAATAAAAG
TAATTATATTATTTTCAAATAAAAAAATAAGAAATTTTAACAAAAATTTTTGAATT
Found at i:10173429 original size:33 final size:33
Alignment explanation
Indices: 10173392--10173461 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
10173382 TTGGAGAAAA
* * *
10173392 GCATAGCATGCATTGCATTTCTA-AATGTTTAGT
1 GCATAGCATACATTGCATTT-AAGAATGTCTAGT
10173425 GCATAGCATACATTGCATTTAAGAATGTCTAGT
1 GCATAGCATACATTGCATTTAAGAATGTCTAGT
10173458 GCAT
1 GCAT
10173462 GAAGCAGGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (33 bp):
GCATAGCATACATTGCATTTAAGAATGTCTAGT
Found at i:10173775 original size:44 final size:43
Alignment explanation
Indices: 10173726--10173871 Score: 179
Period size: 44 Copynumber: 3.4 Consensus size: 43
10173716 TGAGCCTCCG
*
10173726 TTTAGATAAGCCTTATTTACTTTTTTAAAGTCGTTAAGCCTCTA
1 TTTAGAGAAGCCTTATTTA-TTTTTTAAAGTCGTTAAGCCTCTA
* *
10173770 TTTAGAGAAGCCTTATTTATTTTTTCAAAATCGTTAAACCTCTA
1 TTTAGAGAAGCCTTATTTATTTTTT-AAAGTCGTTAAGCCTCTA
* * * * * *
10173814 CTTAAAGAAGCTTTATTTATTTTTTAAAGCCATTGAGCCTCTA
1 TTTAGAGAAGCCTTATTTATTTTTTAAAGTCGTTAAGCCTCTA
10173857 TTTA-A-AAGCCTTATT
1 TTTAGAGAAGCCTTATT
10173872 AACATTTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 9 0.10
42 1 0.01
43 22 0.25
44 56 0.64
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (43 bp):
TTTAGAGAAGCCTTATTTATTTTTTAAAGTCGTTAAGCCTCTA
Found at i:10173972 original size:43 final size:43
Alignment explanation
Indices: 10173867--10173972 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
10173857 TTTAAAAGCC
* * *
10173867 TTATTAACATTTCAAAGTTATTAAGCCTATGCTTATATGAGCT
1 TTATTTACTTTTCAAAGTTGTTAAGCCTATGCTTATATGAGCT
*
10173910 TTATTTACTTTTCAAAGTTGTTGAA-CCTCTGCTTCA-ATGAGCT
1 TTATTTACTTTTCAAAGTTGTT-AAGCCTATGCTT-ATATGAGCT
*
10173953 TTATTTAGTTTTCAAAGTTG
1 TTATTTACTTTTCAAAGTTG
10173973 AATTTACTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 53 0.95
44 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.45
Consensus pattern (43 bp):
TTATTTACTTTTCAAAGTTGTTAAGCCTATGCTTATATGAGCT
Found at i:10173983 original size:19 final size:20
Alignment explanation
Indices: 10173955--10173992 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10173945 AATGAGCTTT
*
10173955 ATTTAGTTTTC-AAAGTTGA
1 ATTTACTTTTCAAAAGTTGA
10173974 ATTTACTTTTCAAAAGTTG
1 ATTTACTTTTCAAAAGTTG
10173993 TTGAGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTTACTTTTCAAAAGTTGA
Found at i:10174016 original size:63 final size:63
Alignment explanation
Indices: 10173912--10174036 Score: 157
Period size: 63 Copynumber: 2.0 Consensus size: 63
10173902 TATGAGCTTT
* *
10173912 ATTTACTTTTCAAAGTTGTTGAACCTCTGCTTCAATGAGCTTTATTTAGTT-TTCAAAGTTGA
1 ATTTACTTTTCAAAGTTGTTGAACCTCTACTTCAATGAGCTTTATTTAGTTCTTAAAAGTTGA
* * *
10173974 ATTTACTTTTCAAAAGTTGTTGAGCCTTTACTT-AGA-GAAGCTTTATTTATTTCTTAAAAGTTG
1 ATTTACTTTTC-AAAGTTGTTGAACCTCTACTTCA-ATG-AGCTTTATTTAGTTCTTAAAAGTTG
10174037 TTGAGCCTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 13 0.24
63 32 0.59
64 9 0.17
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (63 bp):
ATTTACTTTTCAAAGTTGTTGAACCTCTACTTCAATGAGCTTTATTTAGTTCTTAAAAGTTGA
Found at i:10175034 original size:21 final size:20
Alignment explanation
Indices: 10175010--10175066 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
10175000 AGTTGAACCG
*
10175010 ATTTT-TTTAGTTTTTTATTTT
1 ATTTTATTTA-TTTTTTA-GTT
10175031 ATTTTATTTATTTATTTAGTT
1 ATTTTATTTATTT-TTTAGTT
10175052 ATTTTATTTATTTTT
1 ATTTTATTTATTTTT
10175067 AAAGTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 2 0.06
21 23 0.70
22 8 0.24
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (20 bp):
ATTTTATTTATTTTTTAGTT
Found at i:10175077 original size:21 final size:21
Alignment explanation
Indices: 10175029--10175076 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
10175019 GTTTTTTATT
*
10175029 TTATTTTATTTATTTATTTAG
1 TTATTTTATTTATTTATTAAG
10175050 TTATTTTATTTATTT-TTAAAG
1 TTATTTTATTTATTTATT-AAG
10175071 -TATTTT
1 TTATTTT
10175077 TGCATGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
TTATTTTATTTATTTATTAAG
Found at i:10175379 original size:196 final size:192
Alignment explanation
Indices: 10175133--10175496 Score: 461
Period size: 194 Copynumber: 1.9 Consensus size: 192
10175123 AAAATAAATT
* * *
10175133 TTTTGAGAATAAATAACAATTATCCAATGATGAAATTTTTAGAAATTTCAAATGGTAAATTTCTA
1 TTTTGAGAATAAATAACAATTACCCAATGATGAAATTCTTAGAAATTTCAAAT-GAAAATTT-TA
* * *
10175198 TA-AAATT-TTTAGGTGA-AATTTTTTTTTCTAAATTTGTCCCAAATGGTAGAATAATTTAGATA
64 TATAAATTCTCTAGGTGACAA---ATTTCTCTAAATTTGTCCCAAATGGTAGAATAATTTAGATA
10175260 AAGTTTCAATAACAA-TAATTAATATT-TATTTTCAATATAAAAAATAATAATAAAAAATTTTAA
126 AAGTTTCAATAA-AAGTAATT-ATATTCT-TTTTCAA-ATAAAAAATAATAATAAAAAATTTTAA
10175323 TAAAAA
187 TAAAAA
* * * *
10175329 TTTTG-GAATTAAATACCAATTACCCTATGATGAGATTCTTAGAAATTTCAAATGAAAATTTTTT
1 TTTTGAGAA-TAAATAACAATTACCCAATGATGAAATTCTTAGAAATTTCAAATGAAAATTTTAT
* * * *
10175393 ATAAATTCTCTAGGTGACAAATTTCTCTAAATTTGTCCCAAATGGTGGAATAATTTAGGTGAGGT
65 ATAAATTCTCTAGGTGACAAATTTCTCTAAATTTGTCCCAAATGGTAGAATAATTTAGATAAAGT
*
10175458 TTCAATAAAAGTAATTGTATTCTTTTTCAAATAAAAAAT
130 TTCAATAAAAGTAATTATATTCTTTTTCAAATAAAAAAT
10175497 TTTGGTTAAA
Statistics
Matches: 147, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
192 9 0.06
193 13 0.09
194 56 0.38
195 15 0.10
196 52 0.35
197 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.39
Consensus pattern (192 bp):
TTTTGAGAATAAATAACAATTACCCAATGATGAAATTCTTAGAAATTTCAAATGAAAATTTTATA
TAAATTCTCTAGGTGACAAATTTCTCTAAATTTGTCCCAAATGGTAGAATAATTTAGATAAAGTT
TCAATAAAAGTAATTATATTCTTTTTCAAATAAAAAATAATAATAAAAAATTTTAATAAAAA
Found at i:10182186 original size:2 final size:2
Alignment explanation
Indices: 10182179--10182223 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
10182169 CTGAAAACAT
* *
10182179 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10182221 TA T
1 TA T
10182224 CACTTAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10192111 original size:28 final size:28
Alignment explanation
Indices: 10192011--10192115 Score: 104
Period size: 30 Copynumber: 3.6 Consensus size: 28
10192001 ATTAATTTAT
* *
10192011 ATTAAAATTTTATATAGATACAATTTAAAA
1 ATTAAAA-TTTATTTA-ATACAAATTAAAA
*
10192041 ATTAAGAATCTATTTAAATACAAATTAAAA
1 ATTAA-AATTTATTT-AATACAAATTAAAA
* *
10192071 ATTAAAAACTTATTTAATATAAATT-AAA
1 ATT-AAAATTTATTTAATACAAATTAAAA
10192099 ATTAAATATTTATTTAA
1 ATTAAA-ATTTATTTAA
10192116 ATGTAATAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
27 3 0.05
28 15 0.23
29 9 0.14
30 32 0.50
31 5 0.08
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (28 bp):
ATTAAAATTTATTTAATACAAATTAAAA
Found at i:10192127 original size:28 final size:28
Alignment explanation
Indices: 10192036--10192128 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 28
10192026 AGATACAATT
* *
10192036 TAAAAATTAAGAA-TCTATTTAAATACAAA
1 TAAAAATTAAAAACT-TATTT-AATATAAA
10192065 TTAAAAATTAAAAACTTATTTAATATAAA
1 -TAAAAATTAAAAACTTATTTAATATAAA
* * * *
10192094 TTAAAATTAAATATTTATTTAA-ATGTAA
1 TAAAAATTAAAAACTTATTTAATAT-AAA
10192122 TAAAAAT
1 TAAAAAT
10192129 AATTTTAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
27 2 0.04
28 27 0.50
29 7 0.13
30 17 0.31
31 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (28 bp):
TAAAAATTAAAAACTTATTTAATATAAA
Found at i:10193649 original size:18 final size:19
Alignment explanation
Indices: 10193626--10193669 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
10193616 ATCCATTGTC
10193626 ATAATTT-TAATTTCATCT
1 ATAATTTATAATTTCATCT
10193644 ATAATTTGAATAATTTCATCT
1 ATAATTT--ATAATTTCATCT
10193665 ATAAT
1 ATAAT
10193670 CATTTGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
21 16 0.70
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAATTTATAATTTCATCT
Found at i:10196737 original size:75 final size:77
Alignment explanation
Indices: 10196658--10196799 Score: 207
Period size: 75 Copynumber: 1.9 Consensus size: 77
10196648 TATGATTCGG
*
10196658 TCTTTACTTAAATTTTAAAAGATTTAAATAATTAAATAATCATTTTAA-TT-TTAATTTGATAAA
1 TCTTTACTTAAAGTTTAAAAGATTTAAATAATTAAATAATCATTTTAATTTATTAATTTGATAAA
10196721 TAGAATAAAAGA
66 TAGAATAAAAGA
* ** ** *
10196733 TCTTTACTTAAAGTTTGAAAGATTTCGATAATTAAATAATTTTTTTAATTTATTTATTTGATAAA
1 TCTTTACTTAAAGTTTAAAAGATTTAAATAATTAAATAATCATTTTAATTTATTAATTTGATAAA
10196798 TA
66 TA
10196800 CCATAAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 42 0.72
76 2 0.03
77 14 0.24
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (77 bp):
TCTTTACTTAAAGTTTAAAAGATTTAAATAATTAAATAATCATTTTAATTTATTAATTTGATAAA
TAGAATAAAAGA
Found at i:10201478 original size:35 final size:35
Alignment explanation
Indices: 10201426--10201497 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
10201416 CATATATAAC
* *
10201426 CAAATGTTTTTTAGGCATAAACCTACAACTAACTT
1 CAAATGTTTTCTAGGCATAAACCTAAAACTAACTT
* *
10201461 CAAATGTTTTCTGGGCATAAACCTAAAACTGACTT
1 CAAATGTTTTCTAGGCATAAACCTAAAACTAACTT
10201496 CA
1 CA
10201498 CATTTATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (35 bp):
CAAATGTTTTCTAGGCATAAACCTAAAACTAACTT
Found at i:10207296 original size:25 final size:26
Alignment explanation
Indices: 10207236--10207305 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
10207226 GCAATAATAA
10207236 TAAAAACT-AAAACTAAAATAGAAAT
1 TAAAAACTAAAAACTAAAATAGAAAT
**
10207261 TACCTAA--AAAAACTAAAATAG-AAT
1 TA-AAAACTAAAAACTAAAATAGAAAT
10207285 TAAAAACTAAAATAC-AAAATA
1 TAAAAACTAAAA-ACTAAAATA
10207306 ATAATAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
23 2 0.06
24 5 0.14
25 25 0.69
26 4 0.11
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (26 bp):
TAAAAACTAAAAACTAAAATAGAAAT
Found at i:10207310 original size:3 final size:3
Alignment explanation
Indices: 10207302--10207343 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
10207292 TAAAATACAA
* *
10207302 AAT AAT AAT AAT GAT AAT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10207344 GGATTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10207766 original size:49 final size:48
Alignment explanation
Indices: 10207709--10207827 Score: 145
Period size: 49 Copynumber: 2.4 Consensus size: 48
10207699 CTTAATAGCG
10207709 GCTTTGAAACTTTAAAAATTTTGCAACC-AAAAGCTT-TTCCTCAAC-AGAA
1 GCTTTGAAACTTTAAAAATTTT--AACCAAAAAGCTTATT-CTCAACGA-AA
* *
10207758 GTTTTGAAACTTTAAAAATTCATAACCAAAAAGCTTATTCTCAACGAAA
1 GCTTTGAAACTTTAAAAATT-TTAACCAAAAAGCTTATTCTCAACGAAA
*
10207807 GCATTGAAACTTTAAAAATTT
1 GCTTTGAAACTTTAAAAATTT
10207828 AAAAAAGAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
48 4 0.07
49 53 0.87
50 4 0.07
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (48 bp):
GCTTTGAAACTTTAAAAATTTTAACCAAAAAGCTTATTCTCAACGAAA
Found at i:10207952 original size:132 final size:133
Alignment explanation
Indices: 10207768--10208027 Score: 355
Period size: 132 Copynumber: 2.0 Consensus size: 133
10207758 GTTTTGAAAC
* *
10207768 TTTAAAAATTCATAACCAAAAAGCTTATTCTCAACGAAAGCATTGAAACTTTAAAAATTTAAAAA
1 TTTAAAAATTCATAACCAAAAAGCTTATTCTCAAAGAAAGCATTGAAACTTTAAAAATCTAAAAA
* * *
10207833 AGAACCTGAAAGTTTTAAGGATCATGCATT-AAGGTCTTATAGATCATTCTCATATTTGAAAAAG
66 AGAACCCGAAAGTTGTAAGGATCATGCATTGAA-GTCTTATAGATCATTATCATATTTGAAAAAG
10207897 CTCA
130 CTCA
* * * *
10207901 TTTAAAAATTCGTAACC-AAAAGCTTATTCTCAATAG-AGGTATTGAAGCTTTAAAAATCTAAAA
1 TTTAAAAATTCATAACCAAAAAGCTTATTCTCAA-AGAAAGCATTGAAACTTTAAAAATCTAAAA
** * * *
10207964 GGGAACCCGAAGGTTGTAAGGATCATGCATTGAAGTCTTATGGATCATTATCATCTTTGAAAAA
65 AAGAACCCGAAAGTTGTAAGGATCATGCATTGAAGTCTTATAGATCATTATCATATTTGAAAAA
10208028 ACTCCTCCTT
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
132 92 0.83
133 19 0.17
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (133 bp):
TTTAAAAATTCATAACCAAAAAGCTTATTCTCAAAGAAAGCATTGAAACTTTAAAAATCTAAAAA
AGAACCCGAAAGTTGTAAGGATCATGCATTGAAGTCTTATAGATCATTATCATATTTGAAAAAGC
TCA
Found at i:10208699 original size:18 final size:18
Alignment explanation
Indices: 10208676--10208712 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10208666 AATATGGAGA
* *
10208676 TCTTTTATGCATTTTTAT
1 TCTTTTATCCATTATTAT
10208694 TCTTTTATCCATTATTAT
1 TCTTTTATCCATTATTAT
10208712 T
1 T
10208713 ATAATATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.14, G:0.03, T:0.65
Consensus pattern (18 bp):
TCTTTTATCCATTATTAT
Found at i:10222722 original size:27 final size:27
Alignment explanation
Indices: 10222670--10222724 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
10222660 TATGATCCAT
* **
10222670 TATATTAACCAAAATGAACCTGTGTTC
1 TATATTAACCAAAATAAACCCATGTTC
10222697 TATATTAACCAAAATAAACCCATGTTC
1 TATATTAACCAAAATAAACCCATGTTC
10222724 T
1 T
10222725 TACAATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
TATATTAACCAAAATAAACCCATGTTC
Found at i:10223359 original size:60 final size:58
Alignment explanation
Indices: 10223271--10223707 Score: 441
Period size: 60 Copynumber: 7.3 Consensus size: 58
10223261 AAACATAATC
* * *
10223271 TTTGTACAATAAATTTTTTTCCAATTAAAGACCATGTTTCAACTTTAAAAAATGTAGTT
1 TTTGTACAATAATTTTTTTTTCAATTAAAGACCATATTTC-ACTTTAAAAAATGTAGTT
* * ***
10223330 TTTGTACAATAATTATTTTTTTCAATTAAAGACCACATTTTCACTTTAAGAAGCATAGTT
1 TTTGTACAATAATT-TTTTTTTCAATTAAAGACCATA-TTTCACTTTAAAAAATGTAGTT
*
10223390 TTTGTACAATAA-TTTTTTTTCAATTAAAAACCATATTTCCACTTTAAAAAATGTA-TT
1 TTTGTACAATAATTTTTTTTTCAATTAAAGACCATATTT-CACTTTAAAAAATGTAGTT
* * * * * *
10223447 CTTTGTACAATTATTTTGTCATTTACAATTAAAGACCACATTGCCACTTTAAAAAATATAGTC
1 -TTTGTACAATAATTTT-T--TTTTCAATTAAAGACCATATT-TCACTTTAAAAAATGTAGTT
* *** *
10223510 TTTGTACAATAATTATTTTTTTCAATTAAAGACCATATTTTCACTTTAAGAAGCATATTT
1 TTTGTACAATAATT-TTTTTTTCAATTAAAGACCATA-TTTCACTTTAAAAAATGTAGTT
* * * *
10223570 TTTGTACAATAATTTTTTTTTCAATTAAAAACCACATTTTTACTTTAAAAAATGTATTT
1 TTTGTACAATAATTTTTTTTTCAATTAAAGACCATA-TTTCACTTTAAAAAATGTAGTT
* * * **
10223629 TTTGTACAATTATTTTGTCATTTACAATTAAAAACCGCATTGTCACTTTAAAAAA--TAGTT
1 TTTGTACAATAATTTT-T--TTTTCAATTAAAGACCATATT-TCACTTTAAAAAATGTAGTT
10223689 TTTGTACAATAATTTTTTT
1 TTTGTACAATAATTTTTTT
10223708 AATTAAAGAT
Statistics
Matches: 319, Mismatches: 43, Indels: 34
0.81 0.11 0.09
Matches are distributed among these distances:
57 7 0.02
58 43 0.13
59 71 0.22
60 111 0.35
61 8 0.03
62 76 0.24
63 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
TTTGTACAATAATTTTTTTTTCAATTAAAGACCATATTTCACTTTAAAAAATGTAGTT
Found at i:10223556 original size:180 final size:181
Alignment explanation
Indices: 10223292--10223732 Score: 671
Period size: 180 Copynumber: 2.5 Consensus size: 181
10223282 AATTTTTTTC
** * * *
10223292 CAATTAAAGACCATGTTTCAACTTTAAAAAATGTAGTTTTTGTACAATAATTATTTTTTTCAATT
1 CAATTAAAGACCACATTGCCACTTTAAAAAATATAGTTTTTGTACAATAATTATTTTTTTCAATT
10223357 AAAGACCACATTTTCACTTTAAGAAGCATAGTTTTTGTACAATAA-TTTTTTTTCAATTAAAAAC
66 AAAGACCACATTTTCACTTTAAGAAGCATAGTTTTTGTACAATAATTTTTTTTTCAATTAAAAAC
*
10223421 CATATTTCCACTTTAAAAAATGTATTCTTTGTACAATTATTTTGTCATTTA
131 CACATTTCCACTTTAAAAAATGTATTCTTTGTACAATTATTTTGTCATTTA
*
10223472 CAATTAAAGACCACATTGCCACTTTAAAAAATATAGTCTTTGTACAATAATTATTTTTTTCAATT
1 CAATTAAAGACCACATTGCCACTTTAAAAAATATAGTTTTTGTACAATAATTATTTTTTTCAATT
* *
10223537 AAAGACCATATTTTCACTTTAAGAAGCATATTTTTTGTACAATAATTTTTTTTTCAATTAAAAAC
66 AAAGACCACATTTTCACTTTAAGAAGCATAGTTTTTGTACAATAATTTTTTTTTCAATTAAAAAC
** *
10223602 CACATTTTTACTTTAAAAAATGTATTTTTTGTACAATTATTTTGTCATTTA
131 CACATTTCCACTTTAAAAAATGTATTCTTTGTACAATTATTTTGTCATTTA
* * *
10223653 CAATTAAAAACCGCATTGTCACTTT-AAAAA-ATAGTTTTTGTACAAT-A--ATTTTTTT-AATT
1 CAATTAAAGACCACATTGCCACTTTAAAAAATATAGTTTTTGTACAATAATTATTTTTTTCAATT
* * *
10223712 AAAGATCACGTTTTCAATTTA
66 AAAGACCACATTTTCACTTTA
10223733 CAAAAATGTA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
175 21 0.09
176 8 0.03
178 1 0.00
179 15 0.06
180 107 0.45
181 88 0.37
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.44
Consensus pattern (181 bp):
CAATTAAAGACCACATTGCCACTTTAAAAAATATAGTTTTTGTACAATAATTATTTTTTTCAATT
AAAGACCACATTTTCACTTTAAGAAGCATAGTTTTTGTACAATAATTTTTTTTTCAATTAAAAAC
CACATTTCCACTTTAAAAAATGTATTCTTTGTACAATTATTTTGTCATTTA
Found at i:10223560 original size:19 final size:20
Alignment explanation
Indices: 10223528--10223570 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
10223518 ATAATTATTT
10223528 TTTTCAATTAAAG-ACCATA
1 TTTTCAATTAAAGAACCATA
* * *
10223547 TTTTCACTTTAAGAAGCATA
1 TTTTCAATTAAAGAACCATA
10223567 TTTT
1 TTTT
10223571 TTGTACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (20 bp):
TTTTCAATTAAAGAACCATA
Found at i:10226494 original size:21 final size:21
Alignment explanation
Indices: 10226470--10226538 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
10226460 TCGAATGATC
10226470 AAATAAATTAGTACACATGAA
1 AAATAAATTAGTACACATGAA
* * * *
10226491 AAATCAAAAT-CTACAAAATAGAC
1 AAAT-AAATTAGTAC-ACAT-GAA
*
10226514 AAATAAATTAGTACACATAAA
1 AAATAAATTAGTACACATGAA
10226535 AAAT
1 AAAT
10226539 TATAAGGTAC
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 12 0.34
22 14 0.40
23 9 0.26
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.22
Consensus pattern (21 bp):
AAATAAATTAGTACACATGAA
Found at i:10226519 original size:44 final size:44
Alignment explanation
Indices: 10226469--10226589 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 44
10226459 TTCGAATGAT
*
10226469 CAAATAAATTAGTACACATGAAAAATCAAAATCTACAAAATAGA
1 CAAATAAATTAGTACACATGAAAAATCAAAATCTACAAAATAAA
* * * **
10226513 CAAATAAATTAGTACACATAAAAAATTATAAGGTACAAAATAAA
1 CAAATAAATTAGTACACATGAAAAATCAAAATCTACAAAATAAA
** *
10226557 CAAATAGGTTATTGA-ACATGAAAAATCATAAAT
1 CAAATAAATTAGT-ACACATGAAAAATCA-AAAT
10226590 AATTACATAA
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
44 59 0.95
45 3 0.05
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.23
Consensus pattern (44 bp):
CAAATAAATTAGTACACATGAAAAATCAAAATCTACAAAATAAA
Found at i:10226528 original size:23 final size:22
Alignment explanation
Indices: 10226463--10226528 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
10226453 CACGAATTCG
10226463 AATGATCAAATAAATTAGTAC-A
1 AATGA-CAAATAAATTAGTACAA
* * * *
10226485 CATGAAAAATCAAAAT-CTACAA
1 AATGACAAAT-AAATTAGTACAA
10226507 AATAGACAAATAAATTAGTACA
1 AAT-GACAAATAAATTAGTACA
10226529 CATAAAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 7
0.68 0.17 0.15
Matches are distributed among these distances:
21 7 0.22
22 15 0.47
23 10 0.31
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.23
Consensus pattern (22 bp):
AATGACAAATAAATTAGTACAA
Found at i:10227330 original size:15 final size:14
Alignment explanation
Indices: 10227286--10227330 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
10227276 AGAATATCAT
*
10227286 AATAAAATCAGACA
1 AATAAAATCATACA
* *
10227300 AAAAAAATCATGCA
1 AATAAAATCATACA
10227314 AATAAAATCCATACA
1 AATAAAAT-CATACA
10227329 AA
1 AA
10227331 ATCATGTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (14 bp):
AATAAAATCATACA
Found at i:10227433 original size:33 final size:31
Alignment explanation
Indices: 10227365--10227443 Score: 97
Period size: 33 Copynumber: 2.5 Consensus size: 31
10227355 TCATGCAAAC
*
10227365 AAAATCCATACAAAATATTATACAAATAAAT
1 AAAATCCATGCAAAATATTATACAAATAAAT
*
10227396 AAAATCCATGCAAAATATATCATGA-AAGTAAAT
1 AAAATCCATGCAAAATAT-T-AT-ACAAATAAAT
*
10227429 AAAATTCATGCAAAA
1 AAAATCCATGCAAAA
10227444 GTATCATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 17 0.40
32 1 0.02
33 23 0.55
34 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (31 bp):
AAAATCCATGCAAAATATTATACAAATAAAT
Found at i:10227476 original size:35 final size:34
Alignment explanation
Indices: 10227434--10227499 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
10227424 TAAATAAAAT
10227434 TCATGCAAA-AGTATCATAATAAATCATGCCAATAA
1 TCATGCAAAGA-TATCATAA-AAATCATGCCAATAA
*
10227469 TCATGCAAAGATATTATAAAAATCATGCCAA
1 TCATGCAAAGATATCATAAAAATCATGCCAA
10227500 AGTTTCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 12 0.41
35 16 0.55
36 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (34 bp):
TCATGCAAAGATATCATAAAAATCATGCCAATAA
Found at i:10227496 original size:34 final size:35
Alignment explanation
Indices: 10227434--10227499 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10227424 TAAATAAAAT
10227434 TCATGCAAAAGTATCATAATAAATCATGCCAATAA
1 TCATGCAAAAGTATCATAATAAATCATGCCAATAA
*
10227469 TCATGC-AAAGATATTATAA-AAATCATGCCAA
1 TCATGCAAAAG-TATCATAATAAATCATGCCAA
10227500 AGTTTCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (35 bp):
TCATGCAAAAGTATCATAATAAATCATGCCAATAA
Found at i:10227557 original size:6 final size:6
Alignment explanation
Indices: 10227546--10227633 Score: 77
Period size: 6 Copynumber: 14.0 Consensus size: 6
10227536 TAGTCACAAT
* *
10227546 TAAAAA TAAAAA TCAAAAA TCAAAAA TCAAAA TCAAAA TAAAAA TAAAAAA
1 TAAAAA TAAAAA T-AAAAA T-AAAAA TAAAAA TAAAAA TAAAAA T-AAAAA
* * * * *
10227597 TCAAAA TCAAAA TCAAAA TCAAAA TCAAAA TCAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA
10227634 AGAAAAAAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
6 52 0.69
7 23 0.31
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:10227589 original size:12 final size:12
Alignment explanation
Indices: 10227548--10227633 Score: 100
Period size: 12 Copynumber: 6.8 Consensus size: 12
10227538 GTCACAATTA
10227548 AAAATAAAAATC
1 AAAATAAAAATC
10227560 AAAAATCAAAAATC
1 -AAAAT-AAAAATC
* *
10227574 AAAATCAAAATA
1 AAAATAAAAATC
10227586 AAAATAAAAAATC
1 AAAAT-AAAAATC
*
10227599 AAAATCAAAATC
1 AAAATAAAAATC
*
10227611 AAAATCAAAATC
1 AAAATAAAAATC
10227623 AAAATCAAAAA
1 AAAAT-AAAAA
10227634 AGAAAAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
12 33 0.52
13 24 0.38
14 7 0.11
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:10227595 original size:25 final size:25
Alignment explanation
Indices: 10227548--10227646 Score: 119
Period size: 25 Copynumber: 3.9 Consensus size: 25
10227538 GTCACAATTA
* *
10227548 AAAATAAAAATCAAAAATCAAAAATC
1 AAAATCAAAAT-AAAAATAAAAAATC
10227574 AAAATCAAAATAAAAATAAAAAATC
1 AAAATCAAAATAAAAATAAAAAATC
* *
10227599 AAAATCAAAATCAAAAT-CAAAATC
1 AAAATCAAAATAAAAATAAAAAATC
* *
10227623 AAAATCAAAAAAGAAAAAAAAAAA
1 AAAATCAAAATA-AAAATAAAAAA
10227647 AGAAAACATA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 16 0.25
25 33 0.52
26 14 0.22
ACGTcount: A:0.76, C:0.10, G:0.01, T:0.13
Consensus pattern (25 bp):
AAAATCAAAATAAAAATAAAAAATC
Found at i:10228582 original size:19 final size:19
Alignment explanation
Indices: 10228558--10228620 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
10228548 ATAATAAAAA
*
10228558 TAAAAACTACAATAGAAAT
1 TAAAAACTAAAATAGAAAT
10228577 TAAAAACTAAAATAGAAAAT
1 TAAAAACTAAAATAG-AAAT
*
10228597 TAAAATACTAAAAAAG-AAT
1 TAAAA-ACTAAAATAGAAAT
10228616 TAAAA
1 TAAAA
10228621 TAAAATTACT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 22 0.55
20 9 0.22
21 9 0.22
ACGTcount: A:0.68, C:0.06, G:0.05, T:0.21
Consensus pattern (19 bp):
TAAAAACTAAAATAGAAAT
Found at i:10228621 original size:19 final size:21
Alignment explanation
Indices: 10228550--10228622 Score: 79
Period size: 19 Copynumber: 3.8 Consensus size: 21
10228540 AAGCAATAAT
*
10228550 AATA-AAAA-TAAAA-ACTAC
1 AATAGAAAATTAAAATACTAA
10228568 AATAG-AAATTAAAA-ACTAA
1 AATAGAAAATTAAAATACTAA
10228587 AATAGAAAATTAAAATACTAA
1 AATAGAAAATTAAAATACTAA
*
10228608 AA-A-AGAATTAAAATA
1 AATAGAAAATTAAAATA
10228623 AAATTACTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
18 7 0.14
19 25 0.51
20 10 0.20
21 7 0.14
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (21 bp):
AATAGAAAATTAAAATACTAA
Found at i:10229156 original size:6 final size:6
Alignment explanation
Indices: 10229144--10229182 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
10229134 AGAATAAAGG
*
10229144 AAGAAA TAGAAA TAAGAAA AAGGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA -AAGAAA AA-GAAA AAGAAA AAGAAA A
10229183 TAAAAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:10229160 original size:13 final size:12
Alignment explanation
Indices: 10229144--10229182 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
10229134 AGAATAAAGG
*
10229144 AAGAAATAGAAA
1 AAGAAAAAGAAA
10229156 TAAGAAAAAGGAAA
1 -AAGAAAAA-GAAA
10229170 AAGAAAAAGAAA
1 AAGAAAAAGAAA
10229182 A
1 A
10229183 TAAAAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 15 0.62
14 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (12 bp):
AAGAAAAAGAAA
Found at i:10230440 original size:12 final size:11
Alignment explanation
Indices: 10230409--10230485 Score: 55
Period size: 12 Copynumber: 6.5 Consensus size: 11
10230399 ACTAAATATG
*
10230409 AAAAAAAAGGA
1 AAAAAAAAGAA
* *
10230420 GAAATAAAGAA
1 AAAAAAAAGAA
10230431 AAAGAAAAAGTAA
1 AAA-AAAAAG-AA
*
10230444 ATAAAAAAGTAA
1 AAAAAAAAG-AA
10230456 GAAAAAAAAGTAA
1 -AAAAAAAAG-AA
* *
10230469 AAGAAAATGAA
1 AAAAAAAAGAA
10230480 AAAAAA
1 AAAAAA
10230486 GTGCTTGACA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
11 17 0.32
12 21 0.40
13 15 0.28
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:10230462 original size:13 final size:12
Alignment explanation
Indices: 10230425--10230485 Score: 63
Period size: 12 Copynumber: 5.1 Consensus size: 12
10230415 AAGGAGAAAT
10230425 AAAG-AAAAAGAA
1 AAAGTAAAAA-AA
*
10230437 AAAGTAAATAAA
1 AAAGTAAAAAAA
10230449 AAAGTAAGAAAAA
1 AAAGTAA-AAAAA
*
10230462 AAAGTAAAAGAA
1 AAAGTAAAAAAA
*
10230474 AATG-AAAAAAA
1 AAAGTAAAAAAA
10230485 A
1 A
10230486 GTGCTTGACA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
11 7 0.17
12 20 0.48
13 15 0.36
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (12 bp):
AAAGTAAAAAAA
Found at i:10230837 original size:18 final size:17
Alignment explanation
Indices: 10230811--10230844 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10230801 TATTTGAGTT
*
10230811 TTTAAATTTATTTTTAA
1 TTTAAATTTAATTTTAA
10230828 TTTAAGATTTAATTTTA
1 TTTAA-ATTTAATTTTA
10230845 TATTATTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTAAATTTAATTTTAA
Found at i:10232177 original size:3 final size:3
Alignment explanation
Indices: 10232171--10232224 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
10232161 ATAATATCAT
10232171 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10232218 TTA TTA T
1 TTA TTA T
10232225 CAATTTTCTA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10233261 original size:22 final size:21
Alignment explanation
Indices: 10233216--10233261 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
10233206 CAAATTAAAT
* *
10233216 TTTAATAAAATTATATATAGA
1 TTTAATAAAATTAAAAATAGA
*
10233237 TTTAATAGAAATTAAAAATATA
1 TTTAATA-AAATTAAAAATAGA
10233259 TTT
1 TTT
10233262 TATATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
TTTAATAAAATTAAAAATAGA
Found at i:10234583 original size:20 final size:20
Alignment explanation
Indices: 10234544--10234616 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
10234534 CGTCAATAAA
10234544 TTCATCGATAATAATAAAAAT
1 TTCATCGATAATAAT-AAAAT
*
10234565 TTCATCGATAATAGTAAAAT
1 TTCATCGATAATAATAAAAT
* *
10234585 TTCATCGATAAAAATACAAT
1 TTCATCGATAATAATAAAAT
*
10234605 TTCATCAATAAT
1 TTCATCGATAAT
10234617 TTAAATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 32 0.70
21 14 0.30
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
TTCATCGATAATAATAAAAT
Found at i:10234794 original size:20 final size:20
Alignment explanation
Indices: 10234752--10234815 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
10234742 TAACTTTCAT
*
10234752 TAAATACATCATAAAACATCCA
1 TAAA-ACATCAT-AAATATCCA
* *
10234774 TCAAATATCCAT-AATATCCA
1 TAAAACAT-CATAAATATCCA
10234794 TAAAACATCATAAATATCCA
1 TAAAACATCATAAATATCCA
10234814 TA
1 TA
10234816 GCATCCATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.09
20 23 0.66
21 3 0.09
22 6 0.17
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAACATCATAAATATCCA
Found at i:10234821 original size:29 final size:31
Alignment explanation
Indices: 10234757--10234823 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 31
10234747 TTCATTAAAT
10234757 ACAT-CATAAAACATCCATCAAATATCCATA
1 ACATCCATAAAACATCCATCAAATATCCATA
*
10234787 ATATCCATAAAACAT-CAT-AAATATCCATA
1 ACATCCATAAAACATCCATCAAATATCCATA
*
10234816 GCATCCAT
1 ACATCCAT
10234824 CTATCAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 17 0.52
30 6 0.18
31 10 0.30
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (31 bp):
ACATCCATAAAACATCCATCAAATATCCATA
Found at i:10236390 original size:17 final size:17
Alignment explanation
Indices: 10236370--10236404 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10236360 AAACAGAATG
10236370 AAAATTCAAATTTTTCA
1 AAAATTCAAATTTTTCA
10236387 AAAATTCAAATTTTTCA
1 AAAATTCAAATTTTTCA
10236404 A
1 A
10236405 GAAAAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTCAAATTTTTCA
Found at i:10246500 original size:37 final size:37
Alignment explanation
Indices: 10246414--10246500 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
10246404 TAAACTATCA
*
10246414 AATATATAAATTACTTCAAAACAAATATAGATCCTAAT
1 AATATATAAATTACTTCAAAACAAATATAAAT-CTAAT
*
10246452 AATATAT-AATTACTTCAAAACAATATATAAAT-TAGT
1 AATATATAAATTACTTCAAAACAA-ATATAAATCTAAT
10246488 AATATATAAATTA
1 AATATATAAATTA
10246501 TAACCTCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
36 10 0.22
37 21 0.47
38 14 0.31
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.34
Consensus pattern (37 bp):
AATATATAAATTACTTCAAAACAAATATAAATCTAAT
Found at i:10246957 original size:59 final size:59
Alignment explanation
Indices: 10246838--10246981 Score: 188
Period size: 59 Copynumber: 2.5 Consensus size: 59
10246828 AACAAATATA
* * * *
10246838 TAACCAATACCCAAACAAATTTCAAC--A--AATAGCCAACAAAAACTTAATAAATCGG
1 TAACCAAAACCCAAACAAATTTCAACAAATGAATAACCAACAAAAACTCAACAAATCGG
* * * *
10246893 TAACCAAAACCCAAAGAAATTTTAACAAATGAATAACCAACAAAAACTCAACACATTGG
1 TAACCAAAACCCAAACAAATTTCAACAAATGAATAACCAACAAAAACTCAACAAATCGG
10246952 TAACCAAAACCCAAACAAATTTCAACAAAT
1 TAACCAAAACCCAAACAAATTTCAACAAAT
10246982 TTATAAGAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
55 23 0.31
57 1 0.01
59 51 0.68
ACGTcount: A:0.54, C:0.24, G:0.05, T:0.17
Consensus pattern (59 bp):
TAACCAAAACCCAAACAAATTTCAACAAATGAATAACCAACAAAAACTCAACAAATCGG
Found at i:10247780 original size:20 final size:21
Alignment explanation
Indices: 10247755--10247793 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10247745 CTGATGTTAC
10247755 CATTGACTTGA-TGGCATAAA
1 CATTGACTTGATTGGCATAAA
*
10247775 CATTGACTTTATTGGCATA
1 CATTGACTTGATTGGCATA
10247794 TCAATATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (21 bp):
CATTGACTTGATTGGCATAAA
Found at i:10248018 original size:44 final size:41
Alignment explanation
Indices: 10247970--10248065 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 41
10247960 GTTAAATCAG
10247970 ATTTTAATTTTTTTAAAAAATTAATATTTTGA-ATTGTTTAGAAA
1 ATTTTAATTTTTTTAAAAAATTAA-A-TTTGATATT-TTTA-AAA
* * * *
10248014 ATTTTTATATTTTTAAAATATTAAATTTGATATTTTTAAAT
1 ATTTTAATTTTTTTAAAAAATTAAATTTGATATTTTTAAAA
10248055 ATTTTAATTTT
1 ATTTTAATTTT
10248066 AAATAATAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 11 0.24
42 9 0.20
43 4 0.09
44 21 0.47
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (41 bp):
ATTTTAATTTTTTTAAAAAATTAAATTTGATATTTTTAAAA
Found at i:10248656 original size:26 final size:27
Alignment explanation
Indices: 10248618--10248675 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
10248608 AATATTCTAT
*
10248618 AAAAATATGAAATATTGATTGTTTA-AA
1 AAAAATATAAAATA-TGATTGTTTAGAA
* *
10248645 AAAAAT-TAAAATATGGTTTTTTAGAA
1 AAAAATATAAAATATGATTGTTTAGAA
10248671 AAAAA
1 AAAAA
10248676 AAGTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (27 bp):
AAAAATATAAAATATGATTGTTTAGAA
Found at i:10260236 original size:22 final size:20
Alignment explanation
Indices: 10260186--10260274 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 20
10260176 TAGAGTTCAC
*
10260186 ATAAATATAAAATAAAAATT
1 ATAAAAATAAAATAAAAATT
*
10260206 ACAAAAAATAGAAATAAAAATAT
1 A-TAAAAATA-AAATAAAAAT-T
** *
10260229 ATAAAAATTGAGTAAAAA--
1 ATAAAAATAAAATAAAAATT
*
10260247 ATAAAAA-AAAACCAAAAATT
1 ATAAAAATAAAA-TAAAAATT
10260267 ATGAAAAA
1 AT-AAAAA
10260275 AATACAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
17 1 0.02
18 12 0.23
20 3 0.06
21 18 0.35
22 16 0.31
23 2 0.04
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.20
Consensus pattern (20 bp):
ATAAAAATAAAATAAAAATT
Found at i:10261043 original size:15 final size:15
Alignment explanation
Indices: 10261023--10261053 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10261013 AAAATAATAA
*
10261023 TAATAATAATGAAAT
1 TAATAATAATAAAAT
10261038 TAATAATAATAAAAT
1 TAATAATAATAAAAT
10261053 T
1 T
10261054 TAGAGTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
TAATAATAATAAAAT
Found at i:10265057 original size:14 final size:14
Alignment explanation
Indices: 10265038--10265078 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10265028 AACATCTGGC
*
10265038 AGCCATGTCTTTAG
1 AGCCATGTCCTTAG
10265052 AGCCATGTCCTTAG
1 AGCCATGTCCTTAG
* *
10265066 AGCTAAGTCCTTA
1 AGCCATGTCCTTA
10265079 TGCTACTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (14 bp):
AGCCATGTCCTTAG
Found at i:10266352 original size:26 final size:26
Alignment explanation
Indices: 10266322--10266375 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
10266312 ACTTTTATCT
*
10266322 TATTTGAAATCATTAAATATAATATA
1 TATTTAAAATCATTAAATATAATATA
*
10266348 TATTTAAAATCATTAAATATAATTTA
1 TATTTAAAATCATTAAATATAATATA
10266374 TA
1 TA
10266376 ATAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
TATTTAAAATCATTAAATATAATATA
Found at i:10268165 original size:15 final size:15
Alignment explanation
Indices: 10268137--10268181 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10268127 AATAAAAAAT
* *
10268137 ATTTTTGATGTTTTC
1 ATTTTTCATTTTTTC
*
10268152 ATTTTTCATTTTTTT
1 ATTTTTCATTTTTTC
10268167 ATCTTTTCATTTTTT
1 AT-TTTTCATTTTTT
10268182 ATCTATTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.73
Consensus pattern (15 bp):
ATTTTTCATTTTTTC
Found at i:10268182 original size:15 final size:16
Alignment explanation
Indices: 10268154--10268185 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
10268144 ATGTTTTCAT
10268154 TTTTCATTTTTTTATC
1 TTTTCATTTTTTTATC
10268170 TTTTCA-TTTTTTATC
1 TTTTCATTTTTTTATC
10268185 T
1 T
10268186 ATTCTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTCATTTTTTTATC
Found at i:10270718 original size:20 final size:20
Alignment explanation
Indices: 10270681--10270718 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10270671 TACCAAATTA
* *
10270681 AGTTAAAATTAGTCAAACAT
1 AGTTAAAATTAATAAAACAT
10270701 AGTTAAAATTAATAAAAC
1 AGTTAAAATTAATAAAAC
10270719 TTGATCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (20 bp):
AGTTAAAATTAATAAAACAT
Found at i:10272786 original size:15 final size:14
Alignment explanation
Indices: 10272755--10272824 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
10272745 ATTTTTCATA
* *
10272755 AAACCCCAAACTTG
1 AAACCCAAAATTTG
10272769 AAATCCCAAAATTTG
1 AAA-CCCAAAATTTG
* *
10272784 AAACCCTAAACTTG
1 AAACCCAAAATTTG
* *
10272798 AAACCTTAAAATTTA
1 AAACC-CAAAATTTG
*
10272813 AAACCCCAAATT
1 AAACCCAAAATT
10272825 CCCTTGAAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
14 22 0.50
15 22 0.50
ACGTcount: A:0.47, C:0.26, G:0.04, T:0.23
Consensus pattern (14 bp):
AAACCCAAAATTTG
Found at i:10272797 original size:29 final size:29
Alignment explanation
Indices: 10272753--10272822 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
10272743 GCATTTTTCA
10272753 TAAAACCCCAAACTTGAAATCC-CAAAATT
1 TAAAACCCCAAACTTGAAA-CCTCAAAATT
* * *
10272782 TGAAACCCTAAACTTGAAACCTTAAAATT
1 TAAAACCCCAAACTTGAAACCTCAAAATT
10272811 TAAAACCCCAAA
1 TAAAACCCCAAA
10272823 TTCCCTTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.06
29 33 0.94
ACGTcount: A:0.49, C:0.26, G:0.04, T:0.21
Consensus pattern (29 bp):
TAAAACCCCAAACTTGAAACCTCAAAATT
Found at i:10272807 original size:14 final size:14
Alignment explanation
Indices: 10272755--10272807 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
10272745 ATTTTTCATA
*
10272755 AAACCCCAAACTTG
1 AAACCCTAAACTTG
* *
10272769 AAATCCCAAAATTTG
1 AAA-CCCTAAACTTG
10272784 AAACCCTAAACTTG
1 AAACCCTAAACTTG
*
10272798 AAACCTTAAA
1 AAACCCTAAA
10272808 ATTTAAAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (14 bp):
AAACCCTAAACTTG
Found at i:10274047 original size:33 final size:32
Alignment explanation
Indices: 10274010--10274133 Score: 102
Period size: 32 Copynumber: 4.0 Consensus size: 32
10274000 AATATTTTAA
10274010 AAAATAAAAAATATAAAAATTTTCAAAAAATT
1 AAAATAAAAAATATAAAAATTTTCAAAAAATT
* * *
10274042 CAAAATCAAAAAT-TAAAAA-ATTAAAAAAATT
1 -AAAATAAAAAATATAAAAATTTTCAAAAAATT
*
10274073 ---A-AAAATATATACAAAATTTTC-AAAAA-T
1 AAAATAAAAAATATA-AAAATTTTCAAAAAATT
* *
10274100 AAAATTAAAAAATATGAAAATTTTTTAAAAAATT
1 AAAA-TAAAAAATAT-AAAAATTTTCAAAAAATT
10274134 TAACACATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
26 5 0.07
27 4 0.06
28 9 0.13
29 2 0.03
30 1 0.01
31 10 0.14
32 21 0.30
33 17 0.24
34 1 0.01
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (32 bp):
AAAATAAAAAATATAAAAATTTTCAAAAAATT
Found at i:10274052 original size:25 final size:26
Alignment explanation
Indices: 10273997--10274055 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
10273987 CATGAAGAGA
* *
10273997 AAAAATATTTTAAAAAATAAAAAATAT
1 AAAAAT-TTTCAAAAAATAAAAAATAC
**
10274024 AAAAATTTTCAAAAAATTCAAAAT-C
1 AAAAATTTTCAAAAAATAAAAAATAC
10274049 AAAAATT
1 AAAAATT
10274056 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.25
26 15 0.54
27 6 0.21
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (26 bp):
AAAAATTTTCAAAAAATAAAAAATAC
Found at i:10276024 original size:57 final size:59
Alignment explanation
Indices: 10275924--10276037 Score: 180
Period size: 57 Copynumber: 2.0 Consensus size: 59
10275914 CACTTAAATT
10275924 CTTAAAATAAGGAACAAATATATAAATACGTAATTTCAATGCAATGCTTTAATACATTC
1 CTTAAAATAAGGAACAAATATATAAATACGTAATTTCAATGCAATGCTTTAATACATTC
* *
10275983 CTTAAAATAA-GAA-ATAA-ATATGAATACGTAATTTCATTGCAATGCTTTAATACAT
1 CTTAAAATAAGGAACA-AATATATAAATACGTAATTTCAATGCAATGCTTTAATACAT
10276038 GTAACACTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
57 37 0.71
58 5 0.10
59 10 0.19
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (59 bp):
CTTAAAATAAGGAACAAATATATAAATACGTAATTTCAATGCAATGCTTTAATACATTC
Found at i:10284111 original size:19 final size:19
Alignment explanation
Indices: 10284089--10284153 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
10284079 TGGTTTAGGA
10284089 TTTAGGGTTTGGATGGTAG
1 TTTAGGGTTTGGATGGTAG
*
10284108 TTTAGGGTTTGGATGGTAA
1 TTTAGGGTTTGGATGGTAG
* * *
10284127 TTTAAGGTTTAGATGGTGG
1 TTTAGGGTTTGGATGGTAG
10284146 TTTAGGGT
1 TTTAGGGT
10284154 ATAGGTGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.43
Consensus pattern (19 bp):
TTTAGGGTTTGGATGGTAG
Found at i:10284116 original size:38 final size:37
Alignment explanation
Indices: 10284069--10284153 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
10284059 GGGGCTTAAG
* * *
10284069 GTTTAGGGTTTGGTTTAGG-ATTTAGGGTTTGGATGGTA
1 GTTTAGGGTTTGG-AT-GGAATTTAAGGTTTAGATGGTA
*
10284107 GTTTAGGGTTTGGATGGTAATTTAAGGTTTAGATGGTG
1 GTTTAGGGTTTGGATGG-AATTTAAGGTTTAGATGGTA
10284145 GTTTAGGGT
1 GTTTAGGGT
10284154 ATAGGTGAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 2 0.05
37 1 0.02
38 38 0.93
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.44
Consensus pattern (37 bp):
GTTTAGGGTTTGGATGGAATTTAAGGTTTAGATGGTA
Found at i:10287070 original size:79 final size:79
Alignment explanation
Indices: 10286923--10287070 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 79
10286913 TTTTAATAAA
* * * *
10286923 ATTCAAACAATGATACTTGGATATCACCATTGAGTGATTTTGAAAAAGCTTGGATATCACCATTA
1 ATTCAAACAATGATACTTGAATATCACCATTAAGTGATTTTGAAAAAGCTTAGATATCACCATCA
10286988 AGAATTTTAAAGAC
66 AGAATTTTAAAGAC
* * ** *
10287002 ATTCAAAC-ATGAATACTTGAATATTACCATTAAGTTATTTTGAAAAATTTTAGATA-CAACTAT
1 ATTCAAACAATG-ATACTTGAATATCACCATTAAGTGATTTTGAAAAAGCTTAGATATC-ACCAT
10287065 CAAGAA
64 CAAGAA
10287071 AATTTAATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
78 4 0.07
79 54 0.93
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (79 bp):
ATTCAAACAATGATACTTGAATATCACCATTAAGTGATTTTGAAAAAGCTTAGATATCACCATCA
AGAATTTTAAAGAC
Found at i:10287270 original size:43 final size:43
Alignment explanation
Indices: 10287187--10287274 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
10287177 TATGACAAAG
* * * * *
10287187 ACTTGAATATCACTATCAAGATTTAAAATTTTGGATTTTGAAC
1 ACTTAAATATCACCATCAAGATTTAAAATCTTAGAATTTGAAC
*
10287230 ACTTAAATATCACCATCAAGATTTGAGAA-CTTAGAATTTGAAC
1 ACTTAAATATCACCATCAAGATTT-AAAATCTTAGAATTTGAAC
10287273 AC
1 AC
10287275 ATGGATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 35 0.92
44 3 0.08
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (43 bp):
ACTTAAATATCACCATCAAGATTTAAAATCTTAGAATTTGAAC
Found at i:10288142 original size:40 final size:39
Alignment explanation
Indices: 10288055--10288164 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 39
10288045 ATTATGCCCG
* * *
10288055 AAAGTCTTGGAAATCATTTAAAAACTTAAGGTTTTGCTGA
1 AAAGTCTT-GAAATCATTCAAAAATTTAAGGTTTTCCTGA
10288095 AAAGTCTTAGAAATCATTCAAAAATTTAAGGTTTTACCTG-
1 AAAGTCTT-GAAATCATTCAAAAATTTAAGGTTTT-CCTGA
* * *
10288135 TAGGTCTTGAAAATTCTTTCAAAAATTTAA
1 AAAGTCTTG-AAA-TCATTCAAAAATTTAA
10288165 AATTCTACTA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.02
40 41 0.68
41 18 0.30
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (39 bp):
AAAGTCTTGAAATCATTCAAAAATTTAAGGTTTTCCTGA
Found at i:10288261 original size:21 final size:23
Alignment explanation
Indices: 10288235--10288280 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
10288225 AGTTTGAAGT
10288235 CTTTTCAT-TTCAAAA-TT-TTCA
1 CTTTTCATCTT-AAAAGTTCTTCA
10288256 CTTTTCATCTTAAAAGTTCTTCA
1 CTTTTCATCTTAAAAGTTCTTCA
10288279 CT
1 CT
10288281 CTTTATTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.55
22 4 0.18
23 6 0.27
ACGTcount: A:0.26, C:0.22, G:0.02, T:0.50
Consensus pattern (23 bp):
CTTTTCATCTTAAAAGTTCTTCA
Found at i:10290159 original size:26 final size:27
Alignment explanation
Indices: 10290104--10290168 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 27
10290094 CAATCATTTA
10290104 TTTCTTTTTTCCTTCATTTTTGTCCCT
1 TTTCTTTTTTCCTTCATTTTTGTCCCT
*
10290131 TTTCTTATTTT-C-TCATTTTT-TCACT
1 TTTCTT-TTTTCCTTCATTTTTGTCCCT
*
10290156 TTT-TCTTTTCCTT
1 TTTCTTTTTTCCTT
10290169 TTTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 8 0.24
26 8 0.24
27 7 0.21
28 4 0.12
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTCTTTTTTCCTTCATTTTTGTCCCT
Found at i:10290504 original size:17 final size:18
Alignment explanation
Indices: 10290473--10290506 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10290463 TAAAGAAAAG
*
10290473 TTTTTATTTTTTTTATTC
1 TTTTTATTTTCTTTATTC
10290491 TTTTTA-TTTCTTTATT
1 TTTTTATTTTCTTTATT
10290507 TGGGATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTCTTTATTC
Found at i:10294012 original size:37 final size:37
Alignment explanation
Indices: 10293806--10294014 Score: 186
Period size: 37 Copynumber: 5.6 Consensus size: 37
10293796 AAGATATATA
* *
10293806 ATGAAATGGAGTGCATGTACTATCTATTAAAATGTGC
1 ATGAAATGGAATGCATGTATTATCTATTAAAATGTGC
* * *
10293843 ATAAAATGGAATGCATGTATTATCTATTGAGATGTGC
1 ATGAAATGGAATGCATGTATTATCTATTAAAATGTGC
* * * * *
10293880 ATAAAAAGGAGTGCATATACTTATCTTATTAATATGTGC
1 ATGAAATGGAATGCATGTA-TTATC-TATTAAAATGTGC
** * * ** *
10293919 ATGGGATAGG-GTACATGTACAATCCATTAAAATGTGC
1 ATGAAAT-GGAATGCATGTATTATCTATTAAAATGTGC
* * **
10293956 ATGAGATGAAATGCATGTATTATCTATTAAGGTGTGC
1 ATGAAATGGAATGCATGTATTATCTATTAAAATGTGC
*
10293993 ATGACATGGAATGCATGTATTA
1 ATGAAATGGAATGCATGTATTA
10294015 AGGTGTACAT
Statistics
Matches: 137, Mismatches: 31, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
36 1 0.01
37 105 0.77
38 8 0.06
39 21 0.15
40 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (37 bp):
ATGAAATGGAATGCATGTATTATCTATTAAAATGTGC
Found at i:10294043 original size:30 final size:30
Alignment explanation
Indices: 10293980--10294044 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
10293970 ATGTATTATC
* * *
10293980 TATTAAGGTGTGCATGACATGGAATGCATG
1 TATTAAGGTGTACATGACATGGAATACAAG
* *
10294010 TATTAAGGTGTACATGAGATGGGATACAAG
1 TATTAAGGTGTACATGACATGGAATACAAG
10294040 TATTA
1 TATTA
10294045 TTTTATCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (30 bp):
TATTAAGGTGTACATGACATGGAATACAAG
Found at i:10294350 original size:13 final size:12
Alignment explanation
Indices: 10294312--10294352 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
10294302 AAGGAATAAC
*
10294312 TTTTTATTTG-T
1 TTTTTGTTTGTT
10294323 TTTTTGTTTGTT
1 TTTTTGTTTGTT
10294335 TTTCTTGTTT-TT
1 TTT-TTGTTTGTT
10294347 TTTTTG
1 TTTTTG
10294353 AAAATTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 12 0.44
12 9 0.33
13 6 0.22
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.83
Consensus pattern (12 bp):
TTTTTGTTTGTT
Found at i:10296157 original size:30 final size:31
Alignment explanation
Indices: 10296121--10296206 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
10296111 TTTGGTGTTG
*
10296121 AAGGTTTGGATGT-GTTTAGGGTTTTGATTT
1 AAGGTTTGGATGTAGTTTAAGGTTTTGATTT
* * * *
10296151 AGGGTTTAGA-GTTCGGTTTAAGG-TTTGGTTT
1 AAGGTTTGGATG-T-AGTTTAAGGTTTTGATTT
10296182 AAGGTTTGGATGTAGTTTAAGGTTT
1 AAGGTTTGGATGTAGTTTAAGGTTT
10296207 AGACGGTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
29 1 0.02
30 17 0.39
31 18 0.41
32 8 0.18
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.47
Consensus pattern (31 bp):
AAGGTTTGGATGTAGTTTAAGGTTTTGATTT
Found at i:10296180 original size:12 final size:12
Alignment explanation
Indices: 10296165--10296190 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10296155 TTTAGAGTTC
10296165 GGTTTAAGGTTT
1 GGTTTAAGGTTT
10296177 GGTTTAAGGTTT
1 GGTTTAAGGTTT
10296189 GG
1 GG
10296191 ATGTAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (12 bp):
GGTTTAAGGTTT
Found at i:10296233 original size:19 final size:19
Alignment explanation
Indices: 10296176--10296252 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
10296166 GTTTAAGGTT
*
10296176 TGGTTTAAGGTTTGGAT-G
1 TGGTTTAAGGTTTTGATGG
* * *
10296194 TAGTTTAAGGTTTAGACGG
1 TGGTTTAAGGTTTTGATGG
10296213 TGGTTTAAGGTTTTGATGG
1 TGGTTTAAGGTTTTGATGG
* *
10296232 TGATTTAGGGTTTTGATGG
1 TGGTTTAAGGTTTTGATGG
10296251 TG
1 TG
10296253 ACTTAAAGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
18 14 0.28
19 36 0.72
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.44
Consensus pattern (19 bp):
TGGTTTAAGGTTTTGATGG
Found at i:10296253 original size:19 final size:19
Alignment explanation
Indices: 10296179--10296263 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
10296169 TAAGGTTTGG
*
10296179 TTTAAGGTTTGGAT-GT-A
1 TTTAAGGTTTTGATGGTGA
* * *
10296196 GTTTAAGGTTTAGACGGTGG
1 -TTTAAGGTTTTGATGGTGA
10296216 TTTAAGGTTTTGATGGTGA
1 TTTAAGGTTTTGATGGTGA
*
10296235 TTTAGGGTTTTGATGGTGA
1 TTTAAGGTTTTGATGGTGA
* *
10296254 CTTAAAGTTT
1 TTTAAGGTTT
10296264 AGGGTTTGGA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.22
19 43 0.78
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (19 bp):
TTTAAGGTTTTGATGGTGA
Found at i:10296298 original size:14 final size:14
Alignment explanation
Indices: 10296261--10296298 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
10296251 TGACTTAAAG
10296261 TTTAGGGTTT-GGA
1 TTTAGGGTTTGGGA
* *
10296274 TTTTGGTTTTGGGA
1 TTTAGGGTTTGGGA
10296288 TTTAGGGTTTG
1 TTTAGGGTTTG
10296299 AAATTTGTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.11, C:0.00, G:0.37, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTGGGA
Found at i:10304088 original size:3 final size:3
Alignment explanation
Indices: 10304082--10304158 Score: 145
Period size: 3 Copynumber: 25.7 Consensus size: 3
10304072 CCATCTTAAC
10304082 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
10304130 ATT ATT ATT ATT ATT ATT ATT ATC ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10304159 ACATATATAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10304468 original size:63 final size:63
Alignment explanation
Indices: 10304368--10304581 Score: 272
Period size: 63 Copynumber: 3.4 Consensus size: 63
10304358 ATCAAAAAAA
* * * * *
10304368 CTAGGCAAACAAAACAATAGTAGGACTATGCCA-TGCATTTGA-TGCTTTCATTACATATGGAAG
1 CTAGGCAAACAAGACAATGGTGGGACCATG-CATTGCATTTGACT-CTTTCACTACATATGGAAG
* *
10304431 CTAGGCAAACAAGACCATGGTGGGACCATGCATTGCATTTGACTCTTTCACTACATATGAAAG
1 CTAGGCAAACAAGACAATGGTGGGACCATGCATTGCATTTGACTCTTTCACTACATATGGAAG
* * * *
10304494 TTAGGCAAACAAGACTATGGTGGGACCATGCATTGTATTTGACTCTTTCACTGCATAT-GAGAG
1 CTAGGCAAACAAGACAATGGTGGGACCATGCATTGCATTTGACTCTTTCACTACATATGGA-AG
*
10304557 CTAGGCAAACAAGATAATGGTGGGA
1 CTAGGCAAACAAGACAATGGTGGGA
10304582 TCGTGTAGTA
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
62 3 0.02
63 129 0.97
64 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (63 bp):
CTAGGCAAACAAGACAATGGTGGGACCATGCATTGCATTTGACTCTTTCACTACATATGGAAG
Found at i:10305948 original size:144 final size:144
Alignment explanation
Indices: 10305676--10305996 Score: 403
Period size: 144 Copynumber: 2.2 Consensus size: 144
10305666 GAAAAGTTTC
* * * *
10305676 ATGAAATA-CCTTATAAGGGTATTTTGGTAATTTCACACTTTTTGGGGTATTGCTATGATTTCAG
1 ATGAAATACCCTTATAAGGGTATTTTGGTAATTTCACACTTTTGGGGGTACTGATATGATTTCAA
* * * * ***
10305740 ATTCACCAAAAATCATGAAATATTATAAAATTAAGATCTGCAAAGTCTTGTGAAATTTTGAGCTC
66 ATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTCTTATGAAAATCCAAGCTC
*
10305805 GGGAAAGCCAAATT
131 GAGAAAGCCAAATT
* * * * *
10305819 ATGAAATACCCCTATAAAGGTATTTTTGTAATTTCATACTTTTGGGGGTACTGATGTGATTTCAA
1 ATGAAATACCCTTATAAGGGTATTTTGGTAATTTCACACTTTTGGGGGTACTGATATGATTTCAA
*
10305884 ATGCACCAAAAATCATGAAATGTTATAAAATTAAGATCTGAAAAGT-TTCATGAAAATCCAAGCT
66 ATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTCTT-ATGAAAATCCAAGCT
* *
10305948 CGAGAAGGTCAAATT
130 CGAGAAAGCCAAATT
**
10305963 ACAAAAATATCCCTTATAAGGGTATTTTGGTAAT
1 A-TGAAATA-CCCTTATAAGGGTATTTTGGTAAT
10305997 GTTGTCCTTC
Statistics
Matches: 149, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
143 10 0.07
144 113 0.76
145 5 0.03
146 21 0.14
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (144 bp):
ATGAAATACCCTTATAAGGGTATTTTGGTAATTTCACACTTTTGGGGGTACTGATATGATTTCAA
ATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTCTTATGAAAATCCAAGCTC
GAGAAAGCCAAATT
Done.