Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 15 of 74
Found at i:4060476 original size:79 final size:77
Alignment explanation
Indices: 4060322--4060485 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 77
4060312 TTTACTTATA
* * * *
4060322 AATAATATTATATTAATAAATAATATTATATTAATAAATAATATTATAATAAAATATTATTACTT
1 AATAATAATATATTAATAAATAATAATATATTAATAAATAATACTATAATAAAATATTATTACAT
* *
4060387 TAATTAATAAAG
66 AAATAAATAAAG
*
4060399 ATTATAATAATATATTAATAAATAA-AAT-TATTAATAAATAACATACTATTAATATAATA-TAT
1 A--ATAATAATATATTAATAAATAATAATATATTAATAAAT-A-ATACTA-TAATAAAATATTAT
4060461 TA-ATAAATAATATAAAG
61 TACATAAATAA-ATAAAG
4060478 AATAATAA
1 AATAATAA
4060486 ATAGTTTTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
77 19 0.26
78 8 0.11
79 38 0.51
80 9 0.12
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (77 bp):
AATAATAATATATTAATAAATAATAATATATTAATAAATAATACTATAATAAAATATTATTACAT
AAATAAATAAAG
Found at i:4060530 original size:19 final size:19
Alignment explanation
Indices: 4060508--4060607 Score: 56
Period size: 18 Copynumber: 5.6 Consensus size: 19
4060498 TAAGTTTTTT
4060508 TATTAACATAATATT-TTAA
1 TATTAA-ATAATATTATTAA
*
4060527 TATTAAATATTATTATTAA
1 TATTAAATAATATTATTAA
* *
4060546 GA-T--ATAATTATTTTTAA
1 TATTAAATAA-TATTATTAA
4060563 TATT-AAT-A-ATT-TTAA
1 TATTAAATAATATTATTAA
* * *
4060578 TAATAAATAATTTTAAT-A
1 TATTAAATAATATTATTAA
*
4060596 TATTTAATAATA
1 TATTAAATAATA
4060608 AATAATTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
15 7 0.11
16 9 0.15
17 10 0.16
18 22 0.35
19 14 0.23
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
TATTAAATAATATTATTAA
Found at i:4060574 original size:16 final size:16
Alignment explanation
Indices: 4060515--4060596 Score: 60
Period size: 16 Copynumber: 4.9 Consensus size: 16
4060505 TTTTATTAAC
4060515 ATAATATTTTAATATTAA
1 ATAAT-TTTTAATATT-A
* *
4060533 ATATTATTATTAAGATATA
1 ATA--ATTTTTAATAT-TA
*
4060552 ATTATTTTTAATATTA
1 ATAATTTTTAATATTA
*
4060568 ATAA-TTTTAATAATAA
1 ATAATTTTTAAT-ATTA
4060584 ATAA-TTTTAATAT
1 ATAATTTTTAATAT
4060597 ATTTAATAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
15 9 0.17
16 19 0.36
17 9 0.17
18 3 0.06
19 10 0.19
20 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
ATAATTTTTAATATTA
Found at i:4060588 original size:25 final size:24
Alignment explanation
Indices: 4060560--4060629 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
4060550 TAATTATTTT
*
4060560 TAATATTAATAATTTTAATAATAAA
1 TAATTTTAAT-ATTTTAATAATAAA
4060585 TAATTTTAATATATTTAATAATAAA
1 TAATTTTAATAT-TTTAATAATAAA
4060610 TAATTTTTAATATTTTAATA
1 TAA-TTTTAATATTTTAATA
4060630 GTTATATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 2 0.05
25 31 0.74
26 9 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATTTTAATATTTTAATAATAAA
Found at i:4060615 original size:15 final size:15
Alignment explanation
Indices: 4060558--4060615 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
4060548 TATAATTATT
*
4060558 TTTAAT-ATTAATAA
1 TTTAATAATAAATAA
4060572 TTTTAATAATAAATAA
1 -TTTAATAATAAATAA
4060588 TTT--TAAT--AT-A
1 TTTAATAATAAATAA
4060598 TTTAATAATAAATAA
1 TTTAATAATAAATAA
4060613 TTT
1 TTT
4060616 TTAATATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
10 4 0.11
11 2 0.06
12 4 0.11
13 4 0.11
14 2 0.06
15 13 0.36
16 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAATAATAAATAA
Found at i:4060621 original size:10 final size:9
Alignment explanation
Indices: 4060560--4060629 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
4060550 TAATTATTTT
*
4060560 TAATATTAA
1 TAATTTTAA
4060569 TAATTTTAA
1 TAATTTTAA
*
4060578 TAA--TAAA
1 TAATTTTAA
4060585 TAATTTTAA
1 TAATTTTAA
4060594 T-ATATTTAA
1 TAAT-TTTAA
*
4060603 TAA--TAAA
1 TAATTTTAA
4060610 TAATTTTTAA
1 TAA-TTTTAA
4060620 T-ATTTTAA
1 TAATTTTAA
4060628 TA
1 TA
4060630 GTTATATTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
7 12 0.25
8 9 0.19
9 22 0.46
10 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TAATTTTAA
Found at i:4060777 original size:13 final size:14
Alignment explanation
Indices: 4060744--4060777 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4060734 AAAATATAAA
4060744 TATTTTTTAAAAAT
1 TATTTTTTAAAAAT
* *
4060758 TATTTTTTAGAAGT
1 TATTTTTTAAAAAT
4060772 TATTTT
1 TATTTT
4060778 CTTGAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (14 bp):
TATTTTTTAAAAAT
Found at i:4061121 original size:30 final size:30
Alignment explanation
Indices: 4061063--4061121 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
4061053 AAAATTATTA
* * *
4061063 TATCATAATTTATATTAACACGTGAAATAT
1 TATCATAATTTATATCAACACATCAAATAT
* *
4061093 TATCTTAATTTATATCAACATATCAAATA
1 TATCATAATTTATATCAACACATCAAATA
4061122 CAAAATTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (30 bp):
TATCATAATTTATATCAACACATCAAATAT
Found at i:4061568 original size:28 final size:29
Alignment explanation
Indices: 4061534--4061591 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
4061524 TCATTGTATT
*
4061534 TTTAATTTTATATT-ATATGA-TTATTTA
1 TTTAAATTTATATTGATATGATTTATTTA
* *
4061561 TTTAAATTTATTTTGTTATGATTTATTTA
1 TTTAAATTTATATTGATATGATTTATTTA
4061590 TT
1 TT
4061592 ATTTATAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 12 0.46
28 5 0.19
29 9 0.35
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (29 bp):
TTTAAATTTATATTGATATGATTTATTTA
Found at i:4061611 original size:23 final size:23
Alignment explanation
Indices: 4061581--4061626 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4061571 TTTTGTTATG
*
4061581 ATTTATTTATTATTTATAAACAT
1 ATTTATTTATTATTCATAAACAT
4061604 ATTTATTTATTATTCATAAACAT
1 ATTTATTTATTATTCATAAACAT
4061627 GTTCATCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTTATTTATTATTCATAAACAT
Found at i:4069419 original size:25 final size:23
Alignment explanation
Indices: 4069381--4069443 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
4069371 AACTTATCTA
*
4069381 ATAAAAACTTTAATAAAAATTTTAT
1 ATAAAAA--TTAATAAAAATTTAAT
*
4069406 ATTGACAAATTAAT-AAAATTTAAT
1 A-T-AAAAATTAATAAAAATTTAAT
4069430 ATAAAAATTAATAA
1 ATAAAAATTAATAA
4069444 TATGTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 9 0.28
23 2 0.06
24 10 0.31
25 6 0.19
26 1 0.03
27 4 0.12
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (23 bp):
ATAAAAATTAATAAAAATTTAAT
Found at i:4070638 original size:17 final size:16
Alignment explanation
Indices: 4070616--4070671 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
4070606 TATATATATA
*
4070616 TATATTATTTATTTAAT
1 TATATTAATTATTT-AT
*
4070633 TATATTTAATTATTTTT
1 TATA-TTAATTATTTAT
4070650 TATATTAATTCATTT-T
1 TATATTAATT-ATTTAT
4070666 TATATT
1 TATATT
4070672 TATATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 13 0.37
17 13 0.37
18 9 0.26
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTAATTATTTAT
Found at i:4070671 original size:25 final size:24
Alignment explanation
Indices: 4070616--4070672 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
4070606 TATATATATA
*
4070616 TATATTATTTATTTAATTATATTT
1 TATATTTTTTATTTAATTATATTT
*
4070640 AATTATTTTTTATATTAATTCAT-TTT
1 TA-TATTTTTTAT-TTAATT-ATATTT
4070666 TATATTT
1 TATATTT
4070673 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.04
25 14 0.52
26 10 0.37
27 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TATATTTTTTATTTAATTATATTT
Found at i:4070702 original size:19 final size:18
Alignment explanation
Indices: 4070667--4070737 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 18
4070657 ATTCATTTTT
*
4070667 ATATTTATATTTTAAAAACA
1 ATATTTATA--TTAAAAATA
4070687 ATAATTTATATTAAAAATA
1 AT-ATTTATATTAAAAATA
*
4070706 ATTTTTTATATTTAAAAATA
1 A-TATTTATA-TTAAAAATA
4070726 ATATTT-TATTAA
1 ATATTTATATTAA
4070738 TTTCAGGTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 19 0.42
20 13 0.29
21 7 0.16
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTATATTAAAAATA
Found at i:4070720 original size:20 final size:20
Alignment explanation
Indices: 4070670--4070734 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
4070660 CATTTTTATA
* *
4070670 TTTATATTTTAAAAACAATAA
1 TTTATA-TTTAAAAATAATAT
*
4070691 TTTATA-TTAAAAATAATTT
1 TTTATATTTAAAAATAATAT
4070710 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
4070730 TTTAT
1 TTTAT
4070735 TAATTTCAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 16 0.41
20 17 0.44
21 6 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:4072152 original size:29 final size:26
Alignment explanation
Indices: 4072095--4072152 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 26
4072085 AATTTTTTGA
* * *
4072095 AAATTTTATATTATTTTTGTTATTTT
1 AAATTTTATATTATATTTATTATATT
4072121 AAATTTTATTATTAATATTTATTCATATT
1 AAATTTTA-TATT-ATATTTATT-ATATT
4072150 AAA
1 AAA
4072153 ATGTTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 4 0.15
28 7 0.27
29 7 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
AAATTTTATATTATATTTATTATATT
Found at i:4072427 original size:13 final size:14
Alignment explanation
Indices: 4072409--4072447 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
4072399 ATATATTTCA
4072409 TTATTTATT-TTAT
1 TTATTTATTATTAT
4072422 TTATTTATTATTA-
1 TTATTTATTATTAT
4072435 TTA-TTATTATTAT
1 TTATTTATTATTAT
4072448 AAAAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.38
13 12 0.50
14 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATTTATTATTAT
Found at i:4072440 original size:9 final size:10
Alignment explanation
Indices: 4072408--4072447 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
4072398 TATATATTTC
4072408 ATTATTTATT
1 ATTATTTATT
4072418 -TTATTTATTT
1 ATTATTTA-TT
4072428 ATTA-TTATT
1 ATTATTTATT
4072437 ATTA-TTATT
1 ATTATTTATT
4072446 AT
1 AT
4072448 AAAAACAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 20 0.71
10 5 0.18
11 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTATTTATT
Found at i:4076312 original size:12 final size:11
Alignment explanation
Indices: 4076295--4076342 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
4076285 AATTTTAACA
4076295 ATTTATTTCATT
1 ATTTATTT-ATT
4076307 ATTTATTTATTT
1 ATTTATTTA-TT
4076319 ATTTATTT-TT
1 ATTTATTTATT
4076329 A-TTATTTTATT
1 ATTTA-TTTATT
4076340 ATT
1 ATT
4076343 GTAAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.09
10 6 0.19
11 4 0.12
12 19 0.59
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:4079286 original size:25 final size:24
Alignment explanation
Indices: 4079240--4079298 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
4079230 AAAAATTAAA
**
4079240 TTAAATTTAAATCGAATTTCAAATC
1 TTAAATTTAAATCGAAACTCAAA-C
4079265 TTAAATTTCAAATC-AAACTCAAAC
1 TTAAATTT-AAATCGAAACTCAAAC
*
4079289 TCAAATTTAA
1 TTAAATTTAA
4079299 TATTTATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 2 0.07
24 8 0.27
25 15 0.50
26 5 0.17
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (24 bp):
TTAAATTTAAATCGAAACTCAAAC
Found at i:4080618 original size:17 final size:18
Alignment explanation
Indices: 4080587--4080622 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4080577 TTGTTACAAA
4080587 GTGAAAAAATTAAAAAGAT
1 GTGAAAAAA-TAAAAAGAT
4080606 GTGAAAAAA-AAAAAGAT
1 GTGAAAAAATAAAAAGAT
4080623 TAGAATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (18 bp):
GTGAAAAAATAAAAAGAT
Found at i:4097385 original size:6 final size:6
Alignment explanation
Indices: 4097376--4097431 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
4097366 TGTTGTTGTA
* * * * *
4097376 GCTGCT GCTGCT GCTGTT GCTGTT GCTGTT GCTGCT GATGTT GCTG-T
1 GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT
4097423 GGCTGCT GC
1 -GCTGCT GC
4097432 ATTTGAGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
5 1 0.02
6 41 0.95
7 1 0.02
ACGTcount: A:0.02, C:0.23, G:0.36, T:0.39
Consensus pattern (6 bp):
GCTGCT
Found at i:4097391 original size:12 final size:12
Alignment explanation
Indices: 4097376--4097421 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
4097366 TGTTGTTGTA
*
4097376 GCTGCTGCTGCT
1 GCTGTTGCTGCT
*
4097388 GCTGTTGCTGTT
1 GCTGTTGCTGCT
4097400 GCTGTTGCTGCT
1 GCTGTTGCTGCT
*
4097412 GATGTTGCTG
1 GCTGTTGCTG
4097422 TGGCTGCTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.02, C:0.22, G:0.35, T:0.41
Consensus pattern (12 bp):
GCTGTTGCTGCT
Found at i:4097393 original size:24 final size:24
Alignment explanation
Indices: 4097366--4097431 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
4097356 TTGTTGAGGT
* *
4097366 TGTTGTTGTAGCTGCTGCTGCTGC
1 TGTTGCTGTAGCTGCTGCTGCTGA
* *
4097390 TGTTGCTGTTGCTGTTGCTGCTGA
1 TGTTGCTGTAGCTGCTGCTGCTGA
*
4097414 TGTTGCTGTGGCTGCTGC
1 TGTTGCTGTAGCTGCTGC
4097432 ATTTGAGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.03, C:0.20, G:0.35, T:0.42
Consensus pattern (24 bp):
TGTTGCTGTAGCTGCTGCTGCTGA
Found at i:4097402 original size:18 final size:18
Alignment explanation
Indices: 4097376--4097431 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
4097366 TGTTGTTGTA
* * *
4097376 GCTGCTGCTGCTGCTGTT
1 GCTGTTGCTGTTGCTGCT
4097394 GCTGTTGCTGTTGCTGCT
1 GCTGTTGCTGTTGCTGCT
* *
4097412 GATGTTGCTGTGGCTGCT
1 GCTGTTGCTGTTGCTGCT
4097430 GC
1 GC
4097432 ATTTGAGGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.02, C:0.23, G:0.36, T:0.39
Consensus pattern (18 bp):
GCTGTTGCTGTTGCTGCT
Found at i:4103504 original size:16 final size:16
Alignment explanation
Indices: 4103470--4103507 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4103460 ATTTATTTTT
4103470 TATATAATACAAAATA
1 TATATAATACAAAATA
*
4103486 TATA-AATATAAAATAA
1 TATATAATACAAAAT-A
4103502 TATATA
1 TATATA
4103508 TTTTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 9 0.47
17 1 0.05
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
TATATAATACAAAATA
Found at i:4103781 original size:23 final size:21
Alignment explanation
Indices: 4103739--4103784 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
4103729 TTTAAAGGAG
4103739 AATTTTTTTAGACACCTTTAA
1 AATTTTTTTAGACACCTTTAA
* *
4103760 AATTTTATTCTAGATACTTTTAA
1 AATTTT-TT-TAGACACCTTTAA
4103783 AA
1 AA
4103785 ATAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 2 0.10
23 13 0.62
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (21 bp):
AATTTTTTTAGACACCTTTAA
Found at i:4103891 original size:2 final size:2
Alignment explanation
Indices: 4103884--4103908 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4103874 AATTCGTTAC
4103884 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
4103909 CACTAGTGGG
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:4104095 original size:21 final size:21
Alignment explanation
Indices: 4104069--4104127 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
4104059 AAAAAAAATA
*
4104069 ATAATGATATAATTAATTATT
1 ATAATGATATAATTAAATATT
*
4104090 ATAATGATAAAATTAAATATT
1 ATAATGATATAATTAAATATT
4104111 ATAATGATATAATTAAA
1 ATAATGATATAATTAAA
4104128 AATAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
ATAATGATATAATTAAATATT
Found at i:4104968 original size:21 final size:21
Alignment explanation
Indices: 4104924--4104968 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4104914 AAATAATAAA
* * *
4104924 AATAATGAAATTAATTATTAT
1 AATAATAAAATTAAATACTAT
*
4104945 AATAATAAAATTAAATACTGT
1 AATAATAAAATTAAATACTAT
4104966 AAT
1 AAT
4104969 GATGTAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
AATAATAAAATTAAATACTAT
Found at i:4105260 original size:22 final size:22
Alignment explanation
Indices: 4105235--4105277 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4105225 AATTTGATAA
4105235 TAATAATTTTATATT-AAAATAT
1 TAATAATTTT-TATTCAAAATAT
*
4105257 TAATTATTTTTATTCAAAATA
1 TAATAATTTTTATTCAAAATA
4105278 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATAATTTTTATTCAAAATAT
Found at i:4105282 original size:21 final size:21
Alignment explanation
Indices: 4105231--4105282 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
4105221 TTAAAATTTG
*
4105231 ATAATAATAATTTTATATTAAA
1 ATAA-AATTATTTTATATTAAA
*
4105253 ATATTAATTATTTT-TATTCAAA
1 ATA-AAATTATTTTATATT-AAA
4105275 ATAAAATT
1 ATAAAATT
4105283 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATTATTTTATATTAAA
Found at i:4105683 original size:23 final size:24
Alignment explanation
Indices: 4105656--4105768 Score: 90
Period size: 23 Copynumber: 4.7 Consensus size: 24
4105646 TAAATTAATA
4105656 AATAAATAAAATTATTATTATATT
1 AATAAATAAAATTATTATTATATT
* *
4105680 -ATAAACTAAAA-AATGATTAT-TT
1 AATAAA-TAAAATTATTATTATATT
* * * *
4105702 TATAAATATAATTATAATATAAATT
1 AATAAATAAAATTATTAT-TATATT
*
4105727 AATAAATAATATTA-TATTATAATT
1 AATAAATAAAATTATTATTAT-ATT
*
4105751 AAAAAATAAAATTTATTA
1 AATAAATAAAA-TTATTA
4105769 GATTACAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
22 6 0.09
23 23 0.34
24 21 0.31
25 16 0.24
26 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (24 bp):
AATAAATAAAATTATTATTATATT
Found at i:4105732 original size:25 final size:23
Alignment explanation
Indices: 4105703--4105760 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
4105693 TGATTATTTT
4105703 ATAAATATAATTATAATATAAATTA
1 ATAAATA-AATTATAATAT-AATTA
*
4105728 ATAAATAATATTATATTATAATTA
1 ATAAATAA-ATTATAATATAATTA
*
4105752 AAAAATAAA
1 ATAAATAAA
4105761 ATTTATTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 13 0.43
25 16 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAATAAATTATAATATAATTA
Found at i:4105766 original size:25 final size:25
Alignment explanation
Indices: 4105705--4105763 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
4105695 ATTATTTTAT
* *
4105705 AAATATAATTATAATATAAATTAAT
1 AAATAAAATTATAATATAAATTAAA
* *
4105730 AAATAATATTATATTAT-AATTAAA
1 AAATAAAATTATAATATAAATTAAA
4105754 AAATAAAATT
1 AAATAAAATT
4105764 TATTAGATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AAATAAAATTATAATATAAATTAAA
Found at i:4106384 original size:20 final size:20
Alignment explanation
Indices: 4106359--4106399 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4106349 TAATATCATA
4106359 AATAAATTTTATTACTTATT
1 AATAAATTTTATTACTTATT
*
4106379 AATAAATTTTATTATTTATT
1 AATAAATTTTATTACTTATT
4106399 A
1 A
4106400 GCAACTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATAAATTTTATTACTTATT
Found at i:4106408 original size:20 final size:20
Alignment explanation
Indices: 4106362--4106410 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4106352 TATCATAAAT
*
4106362 AAATTTTATTACTTATTAAT
1 AAATTTTATTACTTATTAAC
* *
4106382 AAATTTTATTATTTATTAGC
1 AAATTTTATTACTTATTAAC
*
4106402 AACTTTTAT
1 AAATTTTAT
4106411 ATAATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTTTATTACTTATTAAC
Found at i:4106439 original size:16 final size:18
Alignment explanation
Indices: 4106345--4106433 Score: 56
Period size: 20 Copynumber: 4.8 Consensus size: 18
4106335 TTTTTTTATT
* *
4106345 AATTTAATATCATAAATA
1 AATTTTATATAATAAATA
* *
4106363 AATTTTATTACTTATTAATA
1 AATTTTA-TA-TAATAAATA
* * *
4106383 AATTTTAT-TATTTATTA
1 AATTTTATATAATAAATA
4106400 GCAACTTTTATATAATAAATA
1 --AA-TTTTATATAATAAATA
4106421 AATTTTATA-AATA
1 AATTTTATATAATA
4106434 TTAAATAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
17 10 0.18
18 13 0.23
19 7 0.12
20 20 0.36
21 6 0.11
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (18 bp):
AATTTTATATAATAAATA
Found at i:4106477 original size:15 final size:15
Alignment explanation
Indices: 4106439--4106478 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
4106429 AAATATTAAA
4106439 TAATTTAA-A-ATTT
1 TAATTTAATATATTT
4106452 TAA-TTATATATATTT
1 TAATTTA-ATATATTT
4106467 TAATTTAATATA
1 TAATTTAATATA
4106479 ATTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.13
13 4 0.17
14 1 0.04
15 12 0.52
16 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTTAATATATTT
Found at i:4113468 original size:16 final size:16
Alignment explanation
Indices: 4113443--4113489 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
4113433 AAATATTATT
4113443 TTTTAA-ATATAAATA
1 TTTTAATATATAAATA
*
4113458 TTTTAATATATAATTA
1 TTTTAATATATAAATA
* *
4113474 TATAAATATATAAATA
1 TTTTAATATATAAATA
4113490 AAATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTAATATATAAATA
Found at i:4113475 original size:8 final size:8
Alignment explanation
Indices: 4113449--4113489 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
4113439 TATTTTTTAA
4113449 ATATAAAT
1 ATATAAAT
* *
4113457 ATTTTAAT
1 ATATAAAT
*
4113465 ATATAATT
1 ATATAAAT
4113473 ATATAAAT
1 ATATAAAT
4113481 ATATAAAT
1 ATATAAAT
4113489 A
1 A
4113490 AAATAATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
ATATAAAT
Found at i:4114294 original size:21 final size:22
Alignment explanation
Indices: 4114250--4114294 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
4114240 TACCTGTTAG
*
4114250 TAAAACTCTTAATGTTTCAAAT
1 TAAAACTCTTAATCTTTCAAAT
* *
4114272 TAAAACTTTTGATCTTT-AAAT
1 TAAAACTCTTAATCTTTCAAAT
4114293 TA
1 TA
4114295 TAATAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (22 bp):
TAAAACTCTTAATCTTTCAAAT
Found at i:4115502 original size:7 final size:7
Alignment explanation
Indices: 4115490--4115514 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4115480 GGCCAAAACA
4115490 AAATAAT
1 AAATAAT
4115497 AAATAAT
1 AAATAAT
4115504 AAATAAT
1 AAATAAT
4115511 AAAT
1 AAAT
4115515 TAATTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:4115770 original size:3 final size:3
Alignment explanation
Indices: 4115762--4115819 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
4115752 AAATCAGTTT
*
4115762 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
4115808 TTA TAA TAA TAA
1 TAA TAA TAA TAA
4115820 ATTTTCTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
3 49 0.96
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4118903 original size:11 final size:12
Alignment explanation
Indices: 4118882--4118906 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4118872 AATATGTAGT
4118882 TAAATTTTTTTA
1 TAAATTTTTTTA
4118894 TAAATTTTTTTA
1 TAAATTTTTTTA
4118906 T
1 T
4118907 TTTTAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAAATTTTTTTA
Found at i:4118944 original size:20 final size:21
Alignment explanation
Indices: 4118911--4118950 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4118901 TTTTATTTTT
4118911 AAAATAAACTTTAAAAATAAA
1 AAAATAAACTTTAAAAATAAA
*
4118932 AAAATAAAC-TTAATAATAA
1 AAAATAAACTTTAAAAATAA
4118951 TACAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATAAACTTTAAAAATAAA
Found at i:4120607 original size:20 final size:20
Alignment explanation
Indices: 4120582--4120619 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4120572 TAATACAAAA
4120582 CAAAACA-AAACAAAAAATCT
1 CAAAACATAAA-AAAAAATCT
4120602 CAAAACATAAAAAAAAAT
1 CAAAACATAAAAAAAAAT
4120620 GTTTTTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.74, C:0.16, G:0.00, T:0.11
Consensus pattern (20 bp):
CAAAACATAAAAAAAAATCT
Found at i:4130071 original size:47 final size:47
Alignment explanation
Indices: 4130002--4130193 Score: 206
Period size: 47 Copynumber: 4.0 Consensus size: 47
4129992 GAAAAATCAA
* *
4130002 TTTTAAAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTT
1 TTTTAAAAAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTT
* * *
4130049 TTTTAAAAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCTT
1 TTTTAAAAAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTT
* * * * * * *
4130096 TTTCAAGAGAATTTTGAAGTTATTAAGCCTCTACTGAGAGGAGC-CT
1 TTTTAAAAAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTT
* * * *
4130142 TTTTAAGATAAAATTTTTAAAATTGTTGAGCCTTTACTGAGAAGAACTTT
1 TTTTAA-A-AAAA-TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTT
4130192 TT
1 TT
4130194 AAGATAGAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
46 6 0.05
47 80 0.68
48 3 0.03
49 26 0.22
50 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (47 bp):
TTTTAAAAAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTT
Found at i:4130184 original size:94 final size:93
Alignment explanation
Indices: 4130013--4130223 Score: 230
Period size: 94 Copynumber: 2.2 Consensus size: 93
4130003 TTTAAAAAAT
* * * * *
4130013 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTTAAAAAAATTTTAAAGTTGTTGAGCC
1 TTTTAAAGTTATTAAGCCTCTACTGAGAGGAGCTCTTTTTAAAAAAATTTTAAAATTGTTGAGCC
*
4130078 TCTGCTGAGAGAAGCCTTTTTCAAGAGAA
66 TCTACT-AGAGAAGCCTTTTTCAAGAGAA
*
4130107 TTTTGAAGTTATTAAGCCTCTACTGAGAGGAGC-CTTTTTAAGATAAAATTTTTAAAATTGTTGA
1 TTTTAAAGTTATTAAGCCTCTACTGAGAGGAGCTCTTTTTAA-A-AAAA-TTTTAAAATTGTTGA
* *
4130171 GCCTTTACT-GAGAAGAACTTTTT-AAGATAGAA
63 GCCTCTACTAGAGAAG-CCTTTTTCAAG--AGAA
* *
4130203 TTTTTAAAGTTGTGAAGCCTC
1 -TTTTAAAGTTATTAAGCCTC
4130224 AAGTAAGAGG
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
93 7 0.07
94 39 0.40
95 10 0.10
96 25 0.26
97 17 0.17
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (93 bp):
TTTTAAAGTTATTAAGCCTCTACTGAGAGGAGCTCTTTTTAAAAAAATTTTAAAATTGTTGAGCC
TCTACTAGAGAAGCCTTTTTCAAGAGAA
Found at i:4130194 original size:48 final size:47
Alignment explanation
Indices: 4130007--4130223 Score: 194
Period size: 47 Copynumber: 4.6 Consensus size: 47
4129997 ATCAATTTTA
* * *
4130007 AAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTTAA-
1 AAAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAAC--TTTTTAAG
*
4130055 AAAAA-TTTTAAAGTTGTTGAGCCTCTGCTGAG-AGAAGCCTTTTTCAAG
1 AAAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAA--CTTTTT-AAG
* * * * * *
4130103 -AGAA-TTTTGAAGTTATTAAGCCTCTACTGAGAGGAGCCTTTTTAAG
1 AAAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGA-ACTTTTTAAG
* *
4130149 ATAAAATTTTTAAAATTGTTGAGCCTTTACTGAGAAGAACTTTTTAAG
1 A-AAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAACTTTTTAAG
*
4130197 ATAGAATTTTTAAAGTTG-TGAAGCCTC
1 A-AAAATTTTTAAAGTTGTTG-AGCCTC
4130224 AAGTAAGAGG
Statistics
Matches: 139, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
46 10 0.07
47 63 0.45
48 41 0.29
49 25 0.18
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (47 bp):
AAAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAACTTTTTAAG
Found at i:4130511 original size:28 final size:29
Alignment explanation
Indices: 4130473--4130535 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
4130463 TCAGGCTAAG
* *
4130473 GCCCAATTTTCAATTCAATTGGGCTTTAA
1 GCCCAATTTTCAATTCAATTGGACTTGAA
* *
4130502 GCCCAA-TTTCAGTTCGATTGGACTTGAA
1 GCCCAATTTTCAATTCAATTGGACTTGAA
4130530 GCCCAA
1 GCCCAA
4130536 ATTCGATCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (29 bp):
GCCCAATTTTCAATTCAATTGGACTTGAA
Found at i:4130665 original size:29 final size:30
Alignment explanation
Indices: 4130632--4130688 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
4130622 AAAATACACC
4130632 AAAAAAATGAAAAAATGAAAAAA-AAAACA
1 AAAAAAATGAAAAAATGAAAAAACAAAACA
*
4130661 AAAAAAATGCAAAAATGAAAAAACAAAA
1 AAAAAAATGAAAAAATGAAAAAACAAAA
4130689 GCTAAGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.07
Consensus pattern (30 bp):
AAAAAAATGAAAAAATGAAAAAACAAAACA
Found at i:4130674 original size:9 final size:8
Alignment explanation
Indices: 4130633--4130683 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
4130623 AAATACACCA
4130633 AAAAAATG
1 AAAAAATG
4130641 AAAAAATG
1 AAAAAATG
4130649 AAAAAA--
1 AAAAAATG
4130655 AAAACAA--
1 AAAA-AATG
4130662 AAAAAATG
1 AAAAAATG
*
4130670 CAAAAATG
1 AAAAAATG
4130678 AAAAAA
1 AAAAAA
4130684 CAAAAGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 6 0.16
7 6 0.16
8 26 0.68
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:4131836 original size:20 final size:21
Alignment explanation
Indices: 4131803--4131842 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4131793 TTTTATTTTT
4131803 AAAATAAACTTTAAAAATAAA
1 AAAATAAACTTTAAAAATAAA
*
4131824 AAAATAAAC-TTAATAATAA
1 AAAATAAACTTTAAAAATAA
4131843 TACAAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATAAACTTTAAAAATAAA
Found at i:4133277 original size:11 final size:11
Alignment explanation
Indices: 4133261--4133291 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
4133251 AAATTTTTAA
4133261 ATTATTGAACC
1 ATTATTGAACC
4133272 ATTATTGAACC
1 ATTATTGAACC
4133283 ATTATTGAA
1 ATTATTGAA
4133292 GAAGAGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (11 bp):
ATTATTGAACC
Found at i:4142267 original size:43 final size:43
Alignment explanation
Indices: 4142206--4142296 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
4142196 AAAATTTCTC
4142206 TCTTTTACTAAAATAAAATACATCTTTGTTTATCCTTCATTTA
1 TCTTTTACTAAAATAAAATACATCTTTGTTTATCCTTCATTTA
4142249 TCTTTTACTAAAATAAAATACATCTTTGTTTATCCTTCATTTA
1 TCTTTTACTAAAATAAAATACATCTTTGTTTATCCTTCATTTA
4142292 TCTTT
1 TCTTT
4142297 CTCATTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (43 bp):
TCTTTTACTAAAATAAAATACATCTTTGTTTATCCTTCATTTA
Found at i:4143121 original size:34 final size:34
Alignment explanation
Indices: 4143083--4143172 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 34
4143073 CTGGTTAGAG
* * * *
4143083 GAGCTATTTAAAGTGTCATTACCTCTAGTCATAT
1 GAGCTATTTAAAGTGTCATAACCTCTAATAAGAT
*
4143117 GAGCTTTCTTTAAAGTGTCATAACCTCTAATAAGAT
1 GAGC--TATTTAAAGTGTCATAACCTCTAATAAGAT
* *
4143153 GAGCCATTTAAAGTTTCATA
1 GAGCTATTTAAAGTGTCATA
4143173 GCGTTTGGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
34 17 0.37
36 29 0.63
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (34 bp):
GAGCTATTTAAAGTGTCATAACCTCTAATAAGAT
Found at i:4143544 original size:42 final size:42
Alignment explanation
Indices: 4143474--4143553 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
4143464 AAGGTAATCT
* * ** * *
4143474 TTTTTAAATTTTCAAAAGTTGTTGAGCTTCTATTTAGAGGAG
1 TTTTTAAATTTTCAAAAATTCTCAAGCTTATACTTAGAGGAG
4143516 TTTTTAAATTTTCAAAAATTCTCAAGCTTATACTTAGA
1 TTTTTAAATTTTCAAAAATTCTCAAGCTTATACTTAGA
4143554 AAAACCTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (42 bp):
TTTTTAAATTTTCAAAAATTCTCAAGCTTATACTTAGAGGAG
Found at i:4152153 original size:2 final size:2
Alignment explanation
Indices: 4152146--4152185 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
4152136 TTGGTCATTC
*
4152146 AT AT AT AT AT AT AT AT AT AT AT A- AT AC AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4152186 GTCATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4152203 original size:21 final size:20
Alignment explanation
Indices: 4152179--4152221 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4152169 ATACATATAT
4152179 ATATATAGTCATATTTTTAAA
1 ATATATAGTCA-ATTTTTAAA
* * *
4152200 ATATTTATTTAATTTTTAAA
1 ATATATAGTCAATTTTTAAA
4152220 AT
1 AT
4152222 TTTTAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATATAGTCAATTTTTAAA
Found at i:4152216 original size:20 final size:21
Alignment explanation
Indices: 4152191--4152242 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4152181 ATATAGTCAT
4152191 ATTTTTAAAATATTT-ATTTA
1 ATTTTTAAAATATTTAATTTA
*
4152211 ATTTTTAAAATTTTTAATTTA
1 ATTTTTAAAATATTTAATTTA
**
4152232 ATCATTAAAAT
1 ATTTTTAAAAT
4152243 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTAAAATATTTAATTTA
Found at i:4152230 original size:21 final size:20
Alignment explanation
Indices: 4152191--4152244 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
4152181 ATATAGTCAT
*
4152191 ATTTTTAAAATATTTATTTA
1 ATTTTTAAAATTTTTATTTA
4152211 ATTTTTAAAATTTTTAATTTA
1 ATTTTTAAAATTTTT-ATTTA
**
4152232 ATCATTAAAATTT
1 ATTTTTAAAATTT
4152245 AAATAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTAAAATTTTTATTTA
Found at i:4156514 original size:29 final size:28
Alignment explanation
Indices: 4156481--4156542 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
4156471 TTCAATTATA
* *
4156481 ATAAAATATTTAATATAATAGTTGAATTT
1 ATAAAATATTTAATATAATACTT-AAATT
* *
4156510 ATAAAATTTTTAATATGATACTTAAATT
1 ATAAAATATTTAATATAATACTTAAATT
4156538 ATAAA
1 ATAAA
4156543 TTTATCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (28 bp):
ATAAAATATTTAATATAATACTTAAATT
Found at i:4157995 original size:11 final size:11
Alignment explanation
Indices: 4157979--4158004 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4157969 AATTCGATAT
4157979 TATATAAATTA
1 TATATAAATTA
4157990 TATATAAATTA
1 TATATAAATTA
4158001 TATA
1 TATA
4158005 CGATCTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATAAATTA
Found at i:4158045 original size:21 final size:21
Alignment explanation
Indices: 4158019--4158063 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
4158009 CTGAAATTAA
4158019 AAAATATTAT-TTTTTAAATAT
1 AAAATATTATATTTTT-AATAT
4158040 AAAATATTATATTTTTAATAT
1 AAAATATTATATTTTTAATAT
4158061 AAA
1 AAA
4158064 TATAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATATTATATTTTTAATAT
Found at i:4166762 original size:27 final size:27
Alignment explanation
Indices: 4166731--4166782 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
4166721 ATACTTTAGG
*
4166731 TTATATTTTTATATATTGACTTTTTTT
1 TTATACTTTTATATATTGACTTTTTTT
*
4166758 TTATACTTTTATGTATTGACTTTTT
1 TTATACTTTTATATATTGACTTTTT
4166783 ACCGATCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (27 bp):
TTATACTTTTATATATTGACTTTTTTT
Found at i:4167556 original size:21 final size:21
Alignment explanation
Indices: 4167525--4167585 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 21
4167515 ATATATAATT
4167525 ATATATTTATATTTTAAAAATA
1 ATAT-TTTATATTTTAAAAATA
*
4167547 ATATTTTATA-TTAAAAAATA
1 ATATTTTATATTTTAAAAATA
4167567 ATATTTTATTAATTTTAAA
1 ATATTTTA-T-ATTTTAAA
4167586 TCGAATCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 17 0.50
21 7 0.21
22 5 0.15
23 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTATATTTTAAAAATA
Found at i:4168740 original size:8 final size:8
Alignment explanation
Indices: 4168723--4168769 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
4168713 TACGACCTCT
*
4168723 ACACAAAG
1 ACACACAG
4168731 ACACACAG
1 ACACACAG
*
4168739 ACACACAC
1 ACACACAG
*
4168747 ACACACGG
1 ACACACAG
*
4168755 ACACACAC
1 ACACACAG
4168763 ACACACA
1 ACACACA
4168770 CAAAGCCCCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.51, C:0.40, G:0.09, T:0.00
Consensus pattern (8 bp):
ACACACAG
Found at i:4168744 original size:2 final size:2
Alignment explanation
Indices: 4168731--4168771 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
4168721 CTACACAAAG
* **
4168731 AC AC AC AG AC AC AC AC AC AC AC GG AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
4168772 AAGCCCCCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.44, G:0.07, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4174700 original size:8 final size:8
Alignment explanation
Indices: 4174687--4174711 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4174677 ACTTCTGTTG
4174687 ACCAATTT
1 ACCAATTT
4174695 ACCAATTT
1 ACCAATTT
4174703 ACCAATTT
1 ACCAATTT
4174711 A
1 A
4174712 ATGAAAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (8 bp):
ACCAATTT
Found at i:4179089 original size:2 final size:2
Alignment explanation
Indices: 4179082--4179117 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4179072 TGAGATCTCA
4179082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4179118 CCATTCCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4184184 original size:19 final size:20
Alignment explanation
Indices: 4184146--4184188 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
4184136 TGAATTGAAC
* *
4184146 TATATATTTTTCTTAATTTT
1 TATATATGTTTCTAAATTTT
4184166 TATATATGTTT-TAAATTTT
1 TATATATGTTTCTAAATTTT
4184185 TATA
1 TATA
4184189 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TATATATGTTTCTAAATTTT
Found at i:4184730 original size:13 final size:13
Alignment explanation
Indices: 4184712--4184737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4184702 CAATTAATCG
4184712 ATTTTAATTTTTA
1 ATTTTAATTTTTA
4184725 ATTTTAATTTTTA
1 ATTTTAATTTTTA
4184738 TTAAATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTAATTTTTA
Found at i:4185192 original size:20 final size:21
Alignment explanation
Indices: 4185163--4185210 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
4185153 ATAATATGAA
* *
4185163 AATAATATTATTTA-AAATTT
1 AATAAAATTATATATAAATTT
4185183 AATAAAATTATATATAAATTT
1 AATAAAATTATATATAAATTT
*
4185204 GATAAAA
1 AATAAAA
4185211 ATCAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AATAAAATTATATATAAATTT
Found at i:4185847 original size:20 final size:20
Alignment explanation
Indices: 4185803--4185849 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
4185793 ATTAATTTTT
*
4185803 TTTTAATATTATGATTCAAAA
1 TTTTAA-ATTATGATTAAAAA
4185824 -TTTAAATT-TGATTAAAATA
1 TTTTAAATTATGATTAAAA-A
4185843 TTTTAAA
1 TTTTAAA
4185850 ATGAATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 4 0.17
20 11 0.48
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
TTTTAAATTATGATTAAAAA
Found at i:4188262 original size:13 final size:14
Alignment explanation
Indices: 4188230--4188273 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
4188220 AATATTTATA
4188230 TTAT-TATTAT-AT
1 TTATGTATTATAAT
*
4188242 TT-TATATTA-AAT
1 TTATGTATTATAAT
4188254 TTATGTATTATAAT
1 TTATGTATTATAAT
4188268 TTATGT
1 TTATGT
4188274 TAATATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 1 0.04
12 11 0.41
13 6 0.22
14 9 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (14 bp):
TTATGTATTATAAT
Found at i:4188270 original size:25 final size:24
Alignment explanation
Indices: 4188230--4188276 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
4188220 AATATTTATA
*
4188230 TTATTATTATATTTTATATTAAAT
1 TTATTATTATAATTTATATTAAAT
*
4188254 TTATGTATTATAATTTATGTTAA
1 TTAT-TATTATAATTTATATTAA
4188277 TATAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
TTATTATTATAATTTATATTAAAT
Found at i:4189315 original size:28 final size:28
Alignment explanation
Indices: 4189244--4189315 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 28
4189234 GGACACCGCC
* *
4189244 AAAAATAATGAGACCACATAAAAAATAGT
1 AAAAAAAATGAGA-AACATAAAAAATAGT
* *
4189273 AAAAAATAT-ATGAAACAT-AAAAATATTT
1 AAAAAAAATGA-GAAACATAAAAAATA-GT
4189301 AAAAAAAATGAGAAA
1 AAAAAAAATGAGAAA
4189316 AAAAAGTACG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 7 0.20
28 18 0.51
29 10 0.29
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.19
Consensus pattern (28 bp):
AAAAAAAATGAGAAACATAAAAAATAGT
Found at i:4190847 original size:23 final size:25
Alignment explanation
Indices: 4190820--4190877 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
4190810 ATTCAAAATA
*
4190820 TTAATATATTAAA-AAAAAAT-TAT
1 TTAATATATTAAATAAAAAATATAC
*
4190843 TTAAT-T-TCAAATAAAAAATATAC
1 TTAATATATTAAATAAAAAATATAC
4190866 TTAATATTATTA
1 TTAATA-TATTA
4190878 TTTTTAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 4 0.15
22 8 0.30
23 12 0.44
25 1 0.04
26 2 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (25 bp):
TTAATATATTAAATAAAAAATATAC
Found at i:4209798 original size:3 final size:3
Alignment explanation
Indices: 4209785--4209834 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
4209775 CTTTTAAGAA
4209785 AAT AAT AAAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4209830 AAT AA
1 AAT AA
4209835 AAGCCTCTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4209817 original size:20 final size:19
Alignment explanation
Indices: 4209785--4209831 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 19
4209775 CTTTTAAGAA
4209785 AATAATAAATAATAATAAT
1 AATAATAAATAATAATAAT
4209804 AATAATATAATAATAATAAT
1 AATAATA-AATAATAATAAT
4209824 AATAATAA
1 AATAATAA
4209832 TAAAAGCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAATAAATAATAATAAT
Found at i:4210961 original size:2 final size:2
Alignment explanation
Indices: 4210954--4210987 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4210944 ACCAAACATT
* *
4210954 TA TA TA TA CA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4210988 CAAAGATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4211915 original size:17 final size:18
Alignment explanation
Indices: 4211889--4211931 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4211879 CACCGAAAGT
*
4211889 TTTAAATTAA-AAATAAA
1 TTTAATTTAATAAATAAA
*
4211906 TTTAATTTAATAATTAAA
1 TTTAATTTAATAAATAAA
4211924 TTTAATTT
1 TTTAATTT
4211932 TTGATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAATTTAATAAATAAA
Found at i:4213865 original size:15 final size:15
Alignment explanation
Indices: 4213845--4213877 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4213835 ATGCATGGAA
4213845 AGACTTTTGAATTTG
1 AGACTTTTGAATTTG
4213860 AGACTTTTGAATTTG
1 AGACTTTTGAATTTG
4213875 AGA
1 AGA
4213878 TTATGTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (15 bp):
AGACTTTTGAATTTG
Found at i:4216153 original size:37 final size:37
Alignment explanation
Indices: 4216110--4216185 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
4216100 TTTAATCCAT
4216110 TAGCACCTTCCTGGCGTCATGCATTCTTTCTTTTATG
1 TAGCACCTTCCTGGCGTCATGCATTCTTTCTTTTATG
4216147 TAGCACCTTCCTGGCGTCATGCATTCTTTCTTTTATG
1 TAGCACCTTCCTGGCGTCATGCATTCTTTCTTTTATG
4216184 TA
1 TA
4216186 AAGAATGTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.14, C:0.26, G:0.16, T:0.43
Consensus pattern (37 bp):
TAGCACCTTCCTGGCGTCATGCATTCTTTCTTTTATG
Found at i:4218848 original size:20 final size:21
Alignment explanation
Indices: 4218825--4218870 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4218815 TTTTTTTTTT
*
4218825 TTTA-GAATTTTTTCATCAAA
1 TTTATGAATTTTTTAATCAAA
* *
4218845 TTTATTACTTTTTTAATCAAA
1 TTTATGAATTTTTTAATCAAA
4218866 TTTAT
1 TTTAT
4218871 TGCAATGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTATGAATTTTTTAATCAAA
Found at i:4218856 original size:21 final size:21
Alignment explanation
Indices: 4218832--4218871 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4218822 TTTTTTAGAA
*
4218832 TTTTTTCATCAAATTTATTAC
1 TTTTTTAATCAAATTTATTAC
4218853 TTTTTTAATCAAATTTATT
1 TTTTTTAATCAAATTTATT
4218872 GCAATGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTAATCAAATTTATTAC
Found at i:4228291 original size:18 final size:19
Alignment explanation
Indices: 4228265--4228300 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4228255 CACACGTTGC
*
4228265 AATGTAAAAAATA-CCAAA
1 AATGAAAAAAATATCCAAA
4228283 AATGAAAAAAATATCCAA
1 AATGAAAAAAATATCCAA
4228301 TAGTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.11, G:0.06, T:0.17
Consensus pattern (19 bp):
AATGAAAAAAATATCCAAA
Found at i:4228771 original size:24 final size:24
Alignment explanation
Indices: 4228713--4228775 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 24
4228703 ATATCAACAT
**
4228713 AATAATATTTGATACACTGAATAC
1 AATAATATTTGATGTACTGAATAC
*
4228737 AAT-A-A-TTGATGTATTGAATAC
1 AATAATATTTGATGTACTGAATAC
4228758 AATAATATTTGATGTACT
1 AATAATATTTGATGTACT
4228776 TTGAGTATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 16 0.50
22 2 0.06
23 2 0.06
24 12 0.38
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (24 bp):
AATAATATTTGATGTACTGAATAC
Found at i:4228851 original size:26 final size:28
Alignment explanation
Indices: 4228822--4228874 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
4228812 TTTATTAAAG
4228822 AATAAAATTAAA-ATTTAAAAA-ATTTT
1 AATAAAATTAAATATTTAAAAATATTTT
*
4228848 AATATAATTAAATATTTAAAAATATTT
1 AATAAAATTAAATATTTAAAAATATTT
4228875 ATGTTTAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 11 0.46
27 9 0.38
28 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AATAAAATTAAATATTTAAAAATATTTT
Found at i:4233976 original size:6 final size:6
Alignment explanation
Indices: 4233967--4233992 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4233957 CCATTTGCAT
4233967 TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TT
4233993 AATTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:4234064 original size:46 final size:48
Alignment explanation
Indices: 4234010--4234146 Score: 165
Period size: 46 Copynumber: 2.9 Consensus size: 48
4234000 TTATTATTAC
4234010 TATTATTATTTATTAATATATAATTTTTTTATTATTTATC-A-ACATA
1 TATTATTATTTATTAATATATAATTTTTTTATTATTTATCTATACATA
* * * *
4234056 TTTTATTATCTATTAATATATATTTTTTATTATTATTTATCTATTCATA
1 TATTATTATTTATTAATATATAATTTTT-TTATTATTTATCTATACATA
*
4234105 TATTATTATTTATCTATTA-ATATATATTTTTTATT-TTTATCT
1 TATTATTATTTAT-TAATATATA-AT-TTTTTTATTATTTATCT
4234147 TTTTCTTGAT
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
46 25 0.32
47 12 0.16
48 1 0.01
49 25 0.32
50 10 0.13
51 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (48 bp):
TATTATTATTTATTAATATATAATTTTTTTATTATTTATCTATACATA
Found at i:4234070 original size:53 final size:51
Alignment explanation
Indices: 4234004--4234146 Score: 140
Period size: 49 Copynumber: 2.9 Consensus size: 51
4233994 ATTAATTTAT
*
4234004 TATTACTATTATTATTTATTAATATATAATTTTTTTATTATTTATC-A-ACATA
1 TATTATTA-TATTA-TTATTAATATAT-ATTTTTTTATTATTTATCTATACATA
* * * *
4234056 TTTTATTAT-CTATTAAT-ATATAT-TTTTTATTATTATTTATCTATTCATA
1 TATTATTATATTATTATTAATATATATTTTT-TTATTATTTATCTATACATA
4234105 TATTATTAT-TTATCTATTAATATATA-TTTTTTATT-TTTATCT
1 TATTATTATATTAT-TATTAATATATATTTTTTTATTATTTATCT
4234147 TTTTCTTGAT
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
46 5 0.06
47 12 0.16
48 7 0.09
49 26 0.34
50 10 0.13
51 11 0.14
52 6 0.08
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (51 bp):
TATTATTATATTATTATTAATATATATTTTTTTATTATTTATCTATACATA
Found at i:4234076 original size:20 final size:20
Alignment explanation
Indices: 4234036--4234129 Score: 62
Period size: 20 Copynumber: 5.0 Consensus size: 20
4234026 TATATAATTT
* * *
4234036 TTTTATTATTTATCAACATA
1 TTTTATTATCTATTAATATA
4234056 TTTTATTATCTATTAATATA
1 TTTTATTATCTATTAATATA
4234076 ---TATT-T-T-TT-AT-TA
1 TTTTATTATCTATTAATATA
* *
4234088 TTAT-TTATCTATTCATATA
1 TTTTATTATCTATTAATATA
4234107 TTATTATTTATCTATTAATATA
1 TT-TTA-TTATCTATTAATATA
4234129 T
1 T
4234130 ATTTTTTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
12 2 0.03
13 2 0.03
14 4 0.07
15 3 0.05
16 2 0.03
17 6 0.10
18 2 0.03
19 4 0.07
20 18 0.31
22 15 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATTATCTATTAATATA
Found at i:4234089 original size:10 final size:11
Alignment explanation
Indices: 4234061--4234123 Score: 60
Period size: 10 Copynumber: 5.9 Consensus size: 11
4234051 ACATATTTTA
4234061 TTATCTATTA-
1 TTATCTATTAT
* * *
4234071 ATATATATTTT
1 TTATCTATTAT
4234082 TTAT-TATTAT
1 TTATCTATTAT
4234092 TTATCTATTCAT
1 TTATCTATT-AT
*
4234104 ATAT-TATTAT
1 TTATCTATTAT
4234114 TTATCTATTA
1 TTATCTATTA
4234124 ATATATATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 21 0.50
11 16 0.38
12 5 0.12
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATCTATTAT
Found at i:4234099 original size:31 final size:31
Alignment explanation
Indices: 4234054--4234132 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
4234044 TTTATCAACA
*
4234054 TATT-TTATTATCTATTAATATA-TATTTTT
1 TATTATTATTATCTATTAATATATTATTATT
*
4234083 TATTATTATTTATCTATTCATATATTATTATT
1 TATTATTA-TTATCTATTAATATATTATTATT
* *
4234115 TATCTATTAATATATATT
1 TAT-TATTATTATCTATT
4234133 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.10
30 3 0.07
31 14 0.33
32 16 0.38
33 5 0.12
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (31 bp):
TATTATTATTATCTATTAATATATTATTATT
Found at i:4234111 original size:22 final size:22
Alignment explanation
Indices: 4234083--4234138 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
4234073 ATATATTTTT
*
4234083 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTAATA
4234105 TATTATTATTTATCTATTAATA
1 TATTATTATTTATCTATTAATA
*
4234127 TA-TATTTTTTAT
1 TATTATTATTTAT
4234139 TTTTATCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTATTTATCTATTAATA
Found at i:4235026 original size:16 final size:17
Alignment explanation
Indices: 4234994--4235037 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
4234984 TCTTTTTTTA
4234994 TATTTATATATTTATTAAT
1 TATTTAT-TA-TTATTAAT
*
4235013 TA-TTATTATTATTATT
1 TATTTATTATTATTAAT
4235029 TATTTATTA
1 TATTTATTA
4235038 GATTAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 4 0.17
19 2 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTATTATTATTAAT
Found at i:4235042 original size:16 final size:15
Alignment explanation
Indices: 4234997--4235042 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
4234987 TTTTTTATAT
*
4234997 TTATATATTTATTAA
1 TTATTTATTTATTAA
4235012 TTA-TTA-TTATT-A
1 TTATTTATTTATTAA
4235024 TTATTTATTTATTAGA
1 TTATTTATTTATTA-A
4235040 TTA
1 TTA
4235043 GAATTATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
12 4 0.15
13 8 0.31
14 7 0.27
15 3 0.12
16 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATTTATTTATTAA
Found at i:4235071 original size:5 final size:5
Alignment explanation
Indices: 4235061--4235098 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
4235051 TAGAGATTTC
4235061 TTATT TTATT TT-TT TTATT TTCATTT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TT-A-TT TTATT TTATT TT
4235099 TTTAAATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.13
5 20 0.67
6 2 0.07
7 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:4235192 original size:59 final size:58
Alignment explanation
Indices: 4235124--4235258 Score: 234
Period size: 59 Copynumber: 2.3 Consensus size: 58
4235114 TTAAATAAAA
* *
4235124 TTTCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
1 TTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAG-T
*
4235183 TTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTTAAAATAAGT
1 TTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAGT
4235241 TTTCTAAAAAATATTTTT
1 TTTCTAAAAAATATTTTT
4235259 GAGTATAAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 19 0.26
59 54 0.74
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.41
Consensus pattern (58 bp):
TTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAGT
Found at i:4235271 original size:45 final size:46
Alignment explanation
Indices: 4235221--4235307 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 46
4235211 TGAAAATATC
* *
4235221 AATTTTCCTTTAAAATAAGTTTTC-TAAAAAATATTTTTGAGTATA
1 AATTTTCCTTGAAAATAAGTTTTCAAAAAAAATATTTTTGAGTATA
* *
4235266 AATTTTTCTTGAAAATAAGTTTTCAAAAAAAATGTTTTTGAG
1 AATTTTCCTTGAAAATAAGTTTTCAAAAAAAATATTTTTGAG
4235308 AAAAAGTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 22 0.59
46 15 0.41
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (46 bp):
AATTTTCCTTGAAAATAAGTTTTCAAAAAAAATATTTTTGAGTATA
Found at i:4245817 original size:10 final size:11
Alignment explanation
Indices: 4245778--4245841 Score: 78
Period size: 11 Copynumber: 5.7 Consensus size: 11
4245768 TACTATGCTT
4245778 AAAAAAAGAA-G
1 AAAAAAA-AATG
*
4245789 AAAAATGAAATG
1 AAAAA-AAAATG
4245801 AAAAAAAAATG
1 AAAAAAAAATG
4245812 AAAAAAAAA-G
1 AAAAAAAAATG
4245822 AAAAAAAAATG
1 AAAAAAAAATG
4245833 AATAAAAAA
1 AA-AAAAAA
4245842 GAAGGACTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
10 10 0.21
11 24 0.51
12 13 0.28
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (11 bp):
AAAAAAAAATG
Found at i:4245824 original size:21 final size:21
Alignment explanation
Indices: 4245778--4245844 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
4245768 TACTATGCTT
*
4245778 AAAAAAAGAA-GAAAAATGAAATG
1 AAAAAAA-AATGAAAAA--AAAAG
4245801 AAAAAAAAATGAAAAAAAAAG
1 AAAAAAAAATGAAAAAAAAAG
*
4245822 AAAAAAAAATGAATAAAAAAG
1 AAAAAAAAATGAAAAAAAAAG
4245843 AA
1 AA
4245845 GGACTCAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 26 0.63
22 2 0.05
23 13 0.32
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAAAAAAATGAAAAAAAAAG
Found at i:4246908 original size:92 final size:92
Alignment explanation
Indices: 4246786--4246967 Score: 337
Period size: 92 Copynumber: 2.0 Consensus size: 92
4246776 TCAAACACAA
4246786 TTTGAAGAAATTAATTAGCCAACATTTGCATAGCATGCATTGAATTTCACACGCATTGCATAGCA
1 TTTGAAGAAATTAATTAGCCAACATTTGCATAGCATGCATTGAATTTCACACGCATTGCATAGCA
4246851 TATACTACATTCAAGGAAATATAGTAG
66 TATACTACATTCAAGGAAATATAGTAG
* * *
4246878 TTTGAAGGAATTAATTAGCTAACATTTGCATAGCATGCATTGAATTTCACATGCATTGCATAGCA
1 TTTGAAGAAATTAATTAGCCAACATTTGCATAGCATGCATTGAATTTCACACGCATTGCATAGCA
4246943 TATACTACATTCAAGGAAATATAGT
66 TATACTACATTCAAGGAAATATAGT
4246968 GCATAAATTC
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (92 bp):
TTTGAAGAAATTAATTAGCCAACATTTGCATAGCATGCATTGAATTTCACACGCATTGCATAGCA
TATACTACATTCAAGGAAATATAGTAG
Found at i:4247604 original size:18 final size:17
Alignment explanation
Indices: 4247581--4247615 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4247571 ATTTATCAAC
4247581 ATATTTTATTATCTATTA
1 ATATTTTATTAT-TATTA
*
4247599 ATATTTTTTTATTATTA
1 ATATTTTATTATTATTA
4247616 TTTATCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTTTATTATTATTA
Found at i:4247622 original size:28 final size:31
Alignment explanation
Indices: 4247582--4247657 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
4247572 TTTATCAACA
4247582 TATT-TTATTATCTATT-A-ATATT-TT-TT
1 TATTATTATTATCTATTCATATATTATTATT
4247608 TATTATTATTTATCTATTCATATATTATTATT
1 TATTATTA-TTATCTATTCATATATTATTATT
* *
4247640 TATCTATTAATATATATT
1 TAT-TATTATTATCTATT
4247658 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 4 0.10
27 3 0.07
28 9 0.22
29 1 0.02
30 5 0.12
31 2 0.05
32 12 0.29
33 5 0.12
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (31 bp):
TATTATTATTATCTATTCATATATTATTATT
Found at i:4247625 original size:14 final size:14
Alignment explanation
Indices: 4247589--4247639 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4247579 ACATATTTTA
4247589 TTATCTATTAATAT
1 TTATCTATTAATAT
* * *
4247603 TTTTTTATTATTAT
1 TTATCTATTAATAT
*
4247617 TTATCTATTCATAT
1 TTATCTATTAATAT
4247631 ATTAT-TATT
1 -TTATCTATT
4247640 TATCTATTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 25 0.86
15 4 0.14
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATCTATTAATAT
Found at i:4247633 original size:22 final size:22
Alignment explanation
Indices: 4247608--4247663 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
4247598 AATATTTTTT
*
4247608 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTAATA
4247630 TATTATTATTTATCTATTAATA
1 TATTATTATTTATCTATTAATA
*
4247652 TA-TATTTTTTAT
1 TATTATTATTTAT
4247664 TTTTATCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTATTTATCTATTAATA
Found at i:4248718 original size:40 final size:40
Alignment explanation
Indices: 4248673--4248773 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 40
4248663 ATCAATTTTC
*
4248673 GTTGAAAATA-AGTTTTTCTAAAAAATATTTTTGA-AGAAAA
1 GTTGAAAATATA-ATTTTCTAAAAAATATTTTTGAGA-AAAA
4248713 GTTGAAAATATTAATTTTCTAAAAAATATTTTTGAGAAAAA
1 GTTGAAAATA-TAATTTTCTAAAAAATATTTTTGAGAAAAA
*
4248754 GTTGAAAGTATCAATTTTCT
1 GTTGAAAATAT-AATTTTCT
4248774 TTGAAAATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
40 11 0.20
41 42 0.76
42 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.40
Consensus pattern (40 bp):
GTTGAAAATATAATTTTCTAAAAAATATTTTTGAGAAAAA
Found at i:4248736 original size:41 final size:41
Alignment explanation
Indices: 4248686--4248773 Score: 142
Period size: 41 Copynumber: 2.1 Consensus size: 41
4248676 GAAAATAAGT
*
4248686 TTTTCTAAAAAATATTTTTGA-AGAAAAGTTGAAAATATTAA
1 TTTTCTAAAAAATATTTTTGAGA-AAAAGTTGAAAATATCAA
*
4248727 TTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA
1 TTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAA
4248768 TTTTCT
1 TTTTCT
4248774 TTGAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 43 0.98
42 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (41 bp):
TTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAA
Found at i:4248785 original size:57 final size:56
Alignment explanation
Indices: 4248724--4248894 Score: 166
Period size: 63 Copynumber: 2.9 Consensus size: 56
4248714 TTGAAAATAT
4248724 TAATTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAA
1 TAATTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TTTGAAAA
* * * *
4248781 TAATTTTCTAAAAAAAGGTTTTTTTTTTTAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAAT
1 TAATTTTCT-AAAAAA-----TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT-TTGAAAA
* * * *
4248844 TAAAGTTT-TAGAAAAACA-TTTTGAGGAAAAGTTAAAAGTATCAATTTTTTT
1 T-AATTTTCTA-AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTT
4248895 TGTACAAAAG
Statistics
Matches: 94, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
56 1 0.01
57 37 0.39
58 6 0.06
62 2 0.02
63 43 0.46
64 5 0.05
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (56 bp):
TAATTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTGAAAA
Found at i:4248794 original size:41 final size:41
Alignment explanation
Indices: 4248686--4248787 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
4248676 GAAAATAAGT
* *
4248686 TTTTCTAAAAAATATTTTTGA-AGAAAAGTTGAAAATATTAA
1 TTTTCTAAAAAATAATTTTGAGA-AAAAGTTGAAAATATCAA
* *
4248727 TTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA
1 TTTTCTAAAAAATAATTTTGAGAAAAAGTTGAAAATATCAA
**
4248768 TTTTCTTTGAAAATAATTTT
1 TTTTC-TAAAAAATAATTTT
4248788 CTAAAAAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 42 0.78
42 12 0.22
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (41 bp):
TTTTCTAAAAAATAATTTTGAGAAAAAGTTGAAAATATCAA
Found at i:4250475 original size:19 final size:19
Alignment explanation
Indices: 4250451--4250493 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4250441 ATTTTTCTCA
4250451 TTAAACCCTAAGTCAAACC
1 TTAAACCCTAAGTCAAACC
* *
4250470 TTAAACCTTAGGTCAAACC
1 TTAAACCCTAAGTCAAACC
*
4250489 CTAAA
1 TTAAA
4250494 ATCTAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (19 bp):
TTAAACCCTAAGTCAAACC
Found at i:4252424 original size:157 final size:157
Alignment explanation
Indices: 4252137--4252454 Score: 494
Period size: 157 Copynumber: 2.0 Consensus size: 157
4252127 TCTCCTATAC
*
4252137 AAAAACATATGTTATTTGATAAGATACATATAAATCGTAACTTATTCATGCACATCAAGCCTGTG
1 AAAAACATATGTTATTTGATAAGATACATATAAATCGTAACTTATTCATGCACATCAAGCCTGTC
** * *
4252202 AATCAAGTATTAAAATTTTGAATAATTTTAATATCATGTATTTATATTTTGGCCCCGTAATAACA
66 AATCAAGTATTAAAATTTAAAAAAATTTTAATATCATGTATTTATATTTTGGCCCCGTAACAACA
* * * * *
4252267 CAATAGTCTTAAGCATATGTAAACGAT
131 CAATAGTATTAAACATACGCAAACAAT
* * *
4252294 AAAAACATATGTTATTTGATATGATACATATCAA-CTGTAACTTATTCATGCATATCAAGCCTGT
1 AAAAACATATGTTATTTGATAAGATACATATAAATC-GTAACTTATTCATGCACATCAAGCCTGT
4252358 CAATCAAGTATTAAAATTTAAAAAAATTTTAATATCATGTATTTATATTTTGGCCCCGTAACAAC
65 CAATCAAGTATTAAAATTTAAAAAAATTTTAATATCATGTATTTATATTTTGGCCCCGTAACAAC
*
4252423 ACAATGGTATTAAACATACGCAAACAAT
130 ACAATAGTATTAAACATACGCAAACAAT
4252451 AAAA
1 AAAA
4252455 GCTTTCGATA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
156 1 0.01
157 145 0.99
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (157 bp):
AAAAACATATGTTATTTGATAAGATACATATAAATCGTAACTTATTCATGCACATCAAGCCTGTC
AATCAAGTATTAAAATTTAAAAAAATTTTAATATCATGTATTTATATTTTGGCCCCGTAACAACA
CAATAGTATTAAACATACGCAAACAAT
Found at i:4259046 original size:124 final size:124
Alignment explanation
Indices: 4258827--4259089 Score: 314
Period size: 124 Copynumber: 2.1 Consensus size: 124
4258817 TTATTCTAGG
* * *
4258827 AAAACACCTTTAATATTTCCTTTTAGGCTCAATACATAATTACTGAAGGCGTTTGTTAATAACAA
1 AAAACACCTTTAATATTTCCTTTTAGGCTCAATACATAATTACTAAAAGCGTTTATTAATAACAA
** * ***
4258892 ATGCCTATACATCCTTCCCTCATGCTAATTTTAGGATTATTAAAGGCATCTTCTATTGA
66 ATAACTACACATCCTTCCCTCATAAAAATTTTAGGATTATTAAAGGCATCTTCTATTGA
* *
4258951 AAAACATCTTTAATATTTCCTTTTAGGCTCAATACATTATTACTAAAAGCGTTTATTAATAACAA
1 AAAACACCTTTAATATTTCCTTTTAGGCTCAATACATAATTACTAAAAGCGTTTATTAATAACAA
* * ** * * * *
4259016 ATAACTACACATCATT-TCTTTTAAAAAATTTTAGTATTTTTAAAGGCATCTTTTACT-A
66 ATAACTACACATCCTTCCCTCAT-AAAAATTTTAGGATTATTAAAGGCATCTTCTATTGA
*
4259074 GAAAACACCTTCAATA
1 -AAAACACCTTTAATA
4259090 AACTATGGTT
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
123 4 0.03
124 112 0.97
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.38
Consensus pattern (124 bp):
AAAACACCTTTAATATTTCCTTTTAGGCTCAATACATAATTACTAAAAGCGTTTATTAATAACAA
ATAACTACACATCCTTCCCTCATAAAAATTTTAGGATTATTAAAGGCATCTTCTATTGA
Found at i:4259114 original size:294 final size:294
Alignment explanation
Indices: 4258748--4259400 Score: 832
Period size: 294 Copynumber: 2.2 Consensus size: 294
4258738 CTCTCATGTT
* * * * * ** *
4258748 AATTTTGAGATTATTAAAGACGTCTTTTACT-GAAAA-ATGCCATCAATATACTACAGTTATAAA
1 AATTTTGAGATTATTAAAGGCATCTTCTACTAGAAAACA--CCTTCAATAAACTATGGTTATAGA
*
4258811 AGGCATTTATTCTAGGAAAACACCTTTAATATTTCCTTTTAGGCTCAATACATAATTACTGAAGG
64 AGCCATTTATTCTAGGAAAACACCTTTAATATTTCCTTTTAGGCTCAATACATAATTACTGAAGG
* * *
4258876 CGTTTGTTAATAACAAATGCCTATACATCCTTCCCTCATGCTAATTTT-AGGATTATTAAAGGCA
129 CGTTTGTTAATAACAAACGCCTACACATCCTTCCCTAATGCTAATTTTGA-GATTATTAAAGGCA
* *
4258940 TCTTCTATTGAAAAACATCTTTAATATTTCCTTTTAGGCTCAATACATTATTACTAAAAGCGTT-
193 TCTTCTACTGAAAAACACCTTTAATATTTCCTTTTAGGCTCAATACATTATTACTAAAAGC-TTA
**
4259004 TATTAATAACAAATAACTACACATCATTTCTTTTA-AAA
257 TATTAATAACAAATAACTACACAT-ATTTCCCTTATAAA
* *
4259042 AATTTT-AGTATTTTTAAAGGCATCTTTTACTAGAAAACACCTTCAATAAACTATGGTTATAGAA
1 AATTTTGAG-ATTATTAAAGGCATCTTCTACTAGAAAACACCTTCAATAAACTATGGTTATAGAA
* * * * * *
4259106 GCCATTTATTCTAGGAAAACGCTTTTAATATTTCTTTTTAGGCTTAGTACATAATTACTGAAGGT
65 GCCATTTATTCTAGGAAAACACCTTTAATATTTCCTTTTAGGCTCAATACATAATTACTGAAGGC
* * *
4259171 GTTTGTTAATAACAAACGCCTACACATCTTTCTCTAATGCTAATTTTGAGATTATTAAAGGCGTC
130 GTTTGTTAATAACAAACGCCTACACATCCTTCCCTAATGCTAATTTTGAGATTATTAAAGGCATC
* * ** *
4259236 TTCTACTGAAAAATACCTTTAATATTTTCTTTTAGGCTCGGTACATTATTACTGAAAGCTTATAT
195 TTCTACTGAAAAACACCTTTAATATTTCCTTTTAGGCTCAATACATTATTACTAAAAGCTTATAT
** * ***
4259301 TAATAACAAATGCCTACACATTTTTCCCTTATGCT
260 TAATAACAAATAACTACACATATTTCCCTTATAAA
* ** *
4259336 AATTTTGAGATTATTAAAGGCATCTTCTATTAGAAAATGCCTTCAATATACTATGGTTATAGAAG
1 AATTTTGAGATTATTAAAGGCATCTTCTACTAGAAAACACCTTCAATAAACTATGGTTATAGAAG
4259401 GCGTTTGTTA
Statistics
Matches: 310, Mismatches: 42, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
293 11 0.04
294 290 0.94
295 8 0.03
296 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (294 bp):
AATTTTGAGATTATTAAAGGCATCTTCTACTAGAAAACACCTTCAATAAACTATGGTTATAGAAG
CCATTTATTCTAGGAAAACACCTTTAATATTTCCTTTTAGGCTCAATACATAATTACTGAAGGCG
TTTGTTAATAACAAACGCCTACACATCCTTCCCTAATGCTAATTTTGAGATTATTAAAGGCATCT
TCTACTGAAAAACACCTTTAATATTTCCTTTTAGGCTCAATACATTATTACTAAAAGCTTATATT
AATAACAAATAACTACACATATTTCCCTTATAAA
Found at i:4259349 original size:124 final size:124
Alignment explanation
Indices: 4259129--4259616 Score: 471
Period size: 124 Copynumber: 4.1 Consensus size: 124
4259119 GGAAAACGCT
** * * * *
4259129 TTTAATATTTCTTTTTAGGCTTAGTACATAATTACTG-AAGGTGTTTGTTAATAACAAACGCCTA
1 TTTAATATTTCTTTTTAGGCTCGGTACATTATTACTGAAAGCT-TATATTAATAACAAACGCCTA
* * *
4259193 CACATCTTT-CTCTAATGCTAATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATACC
65 CACATCTTTCCT-TCATGCTAATTTTGAGATTATTAAAGGCATCTTCTATTGAAAAATACC
*
4259253 TTTAATATTT-TCTTTTAGGCTCGGTACATTATTACTGAAAGCTTATATTAATAACAAATGCCTA
1 TTTAATATTTCT-TTTTAGGCTCGGTACATTATTACTGAAAGCTTATATTAATAACAAACGCCTA
* *
4259317 CACATTTTTCCCTT-ATGCTAATTTTGAGATTATTAAAGGCATCTTCTATT-AGAAAATGCC
65 CACATCTTT-CCTTCATGCTAATTTTGAGATTATTAAAGGCATCTTCTATTGA-AAAATACC
* * * *
4259377 TTCAATA-TAC----TA---T-GG----TTA-TA--GAAGGCGTT-TGTTAATAACAAACGCCTA
1 TTTAATATTTCTTTTTAGGCTCGGTACATTATTACTGAAAGC-TTATATTAATAACAAACGCCTA
* * * * *
4259425 CACATCTTTCTTTCATGCTAATTTTGGGATTATTAAAGGCGTCTTCTATTGGAAAACACC
65 CACATCTTTCCTTCATGCTAATTTTGAGATTATTAAAGGCATCTTCTATTGAAAAATACC
* ** * * *
4259485 TTTAATATTTCTTTTTAAGCTCGGTGTATTATTACTAAAAGCGTATATTAATAACAAATGCCTAC
1 TTTAATATTTCTTTTTAGGCTCGGTACATTATTACTGAAAGCTTATATTAATAACAAACGCCTAC
* * * * *
4259550 ACATCTTTCTTTCGTGCTAATTTTGGGATTATTAAAGACATCTTCTATTGAAAAATGCC
66 ACATCTTTCCTTCATGCTAATTTTGAGATTATTAAAGGCATCTTCTATTGAAAAATACC
*
4259609 TTCAATAT
1 TTTAATAT
4259617 ACTACGATTA
Statistics
Matches: 301, Mismatches: 37, Indels: 52
0.77 0.09 0.13
Matches are distributed among these distances:
107 3 0.01
108 76 0.25
109 4 0.01
110 2 0.01
111 3 0.01
113 2 0.01
115 2 0.01
116 2 0.01
117 2 0.01
119 2 0.01
121 3 0.01
122 2 0.01
123 4 0.01
124 187 0.62
125 5 0.02
126 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (124 bp):
TTTAATATTTCTTTTTAGGCTCGGTACATTATTACTGAAAGCTTATATTAATAACAAACGCCTAC
ACATCTTTCCTTCATGCTAATTTTGAGATTATTAAAGGCATCTTCTATTGAAAAATACC
Found at i:4259582 original size:232 final size:232
Alignment explanation
Indices: 4259165--4259634 Score: 712
Period size: 232 Copynumber: 2.0 Consensus size: 232
4259155 CATAATTACT
*
4259165 GAAGGTGTTTGTTAATAACAAACGCCTACACATCTTTCTCTAATGCTAATTTTGAGATTATTAAA
1 GAAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCTCTAATGCTAATTTTGAGATTATTAAA
* * *
4259230 GGCGTCTTCTACTGAAAAATACCTTTAATATTTTCTTTTAGGCTCGGTACATTATTACTGAAAGC
66 GGCGTCTTCTACTGAAAAACACCTTTAATATTTTCTTTTAAGCTCGGTACATTATTACTAAAAGC
* * *
4259295 TTATATTAATAACAAATGCCTACACATTTTTCCCTTATGCTAATTTTGAGATTATTAAAGGCATC
131 GTATATTAATAACAAATGCCTACACATCTTTCCCTTATGCTAATTTTGAGATTATTAAAGACATC
* *
4259360 TTCTATT-AGAAAATGCCTTCAATATACTATGGTTATA
196 TTCTATTGA-AAAATGCCTTCAATATACTACGATTATA
* * *
4259397 GAAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCTTTCATGCTAATTTTGGGATTATTAAA
1 GAAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCTCTAATGCTAATTTTGAGATTATTAAA
* * **
4259462 GGCGTCTTCTATTGGAAAACACCTTTAATA-TTTCTTTTTAAGCTCGGTGTATTATTACTAAAAG
66 GGCGTCTTCTACTGAAAAACACCTTTAATATTTTC-TTTTAAGCTCGGTACATTATTACTAAAAG
* * *
4259526 CGTATATTAATAACAAATGCCTACACATCTTT-CTTTCGTGCTAATTTTGGGATTATTAAAGACA
130 CGTATATTAATAACAAATGCCTACACATCTTTCCCTT-ATGCTAATTTTGAGATTATTAAAGACA
4259590 TCTTCTATTGAAAAATGCCTTCAATATACTACGATTATA
194 TCTTCTATTGAAAAATGCCTTCAATATACTACGATTATA
*
4259629 AAAGGC
1 GAAGGC
4259635 ATTTATTCTA
Statistics
Matches: 215, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
231 7 0.03
232 207 0.96
233 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (232 bp):
GAAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCTCTAATGCTAATTTTGAGATTATTAAA
GGCGTCTTCTACTGAAAAACACCTTTAATATTTTCTTTTAAGCTCGGTACATTATTACTAAAAGC
GTATATTAATAACAAATGCCTACACATCTTTCCCTTATGCTAATTTTGAGATTATTAAAGACATC
TTCTATTGAAAAATGCCTTCAATATACTACGATTATA
Found at i:4259641 original size:124 final size:123
Alignment explanation
Indices: 4259408--4259641 Score: 283
Period size: 124 Copynumber: 1.9 Consensus size: 123
4259398 AAGGCGTTTG
* *
4259408 TTAATAACAAACGCCTACACATCTTTCTTTCATGCTAATTTTGGGATTATTAAAGGCGTCTTCTA
1 TTAATAACAAACGCCTACACATCTTTCTTTCATGCTAATTTTGGGATTATTAAAGACATCTTCTA
* * * * * ** **
4259473 TTGGAAAACACCTTTAATATTTCTTTTTAAGCTCGGTGTATTATTACTAAAAGCGTATA
66 TTGAAAAACACCTTCAATATTACATTATAA-CAAGGCATATTATTACTAAAAGCGTATA
* *
4259532 TTAATAACAAATGCCTACACATCTTTCTTTCGTGCTAATTTTGGGATTATTAAAGACATCTTCTA
1 TTAATAACAAACGCCTACACATCTTTCTTTCATGCTAATTTTGGGATTATTAAAGACATCTTCTA
**
4259597 TTGAAAAATGCCTTCAATATACTACGATTATAA-AAGGCAT-TTATT
66 TTGAAAAACACCTTCAATAT--TAC-ATTATAACAAGGCATATTATT
4259642 CTAGGAAAAC
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
124 82 0.89
125 3 0.03
126 2 0.02
127 5 0.05
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (123 bp):
TTAATAACAAACGCCTACACATCTTTCTTTCATGCTAATTTTGGGATTATTAAAGACATCTTCTA
TTGAAAAACACCTTCAATATTACATTATAACAAGGCATATTATTACTAAAAGCGTATA
Done.