Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 62 of 113
Found at i:14981469 original size:14 final size:12
Alignment explanation
Indices: 14981445--14981496 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 12
14981435 TATTTATATG
*
14981445 TATTTTATTTAT
1 TATTATATTTAT
14981457 ATAGTTATATTTAT
1 -TA-TTATATTTAT
14981471 TATTATA-TTAT
1 TATTATATTTAT
*
14981482 AATT-TATTTAT
1 TATTATATTTAT
14981493 TATT
1 TATT
14981497 TTTTTTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.06
11 14 0.41
12 5 0.15
13 4 0.12
14 9 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:14982484 original size:13 final size:13
Alignment explanation
Indices: 14982468--14982503 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
14982458 TTTTTTTGAA
14982468 ATTTTTTTTATTT
1 ATTTTTTTTATTT
*
14982481 ATTTGTTTTATTT
1 ATTTTTTTTATTT
14982494 ATTTATTTTT
1 ATTT-TTTTT
14982504 TCTATTAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (13 bp):
ATTTTTTTTATTT
Found at i:14982509 original size:17 final size:17
Alignment explanation
Indices: 14982469--14982501 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14982459 TTTTTTGAAA
*
14982469 TTTTTTTTATTTATTTG
1 TTTTATTTATTTATTTG
14982486 TTTTATTTATTTATTT
1 TTTTATTTATTTATTT
14982502 TTTCTATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTATTTATTTATTTG
Found at i:14982586 original size:15 final size:15
Alignment explanation
Indices: 14982529--14982596 Score: 66
Period size: 15 Copynumber: 4.3 Consensus size: 15
14982519 TTATTTAATA
14982529 TTTTTTATCTTTATCT
1 TTTTTTATCTTTAT-T
* *
14982545 TATTTTTATTTTTGTT
1 T-TTTTTATCTTTATT
*
14982561 TTACTTT-TCTTTATT
1 TT-TTTTATCTTTATT
14982576 TTTTTTATCTTTATT
1 TTTTTTATCTTTATT
14982591 TATTTT
1 T-TTTT
14982597 CACTTTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
14 3 0.07
15 18 0.43
16 10 0.24
17 11 0.26
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.78
Consensus pattern (15 bp):
TTTTTTATCTTTATT
Found at i:14982616 original size:22 final size:22
Alignment explanation
Indices: 14982578--14982619 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14982568 TCTTTATTTT
14982578 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
*
14982600 TTTTAT-TTTGTTCTATTTTC
1 TTTTATCTTTATT-TATTTTC
14982620 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Found at i:14982726 original size:59 final size:58
Alignment explanation
Indices: 14982632--14983089 Score: 588
Period size: 57 Copynumber: 7.8 Consensus size: 58
14982622 TAAATAAAAA
14982632 TCAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
** * * * *
14982690 TCAAAAAAGGATTTTTGAGAAAAAAATTGAAAGTATCAATTTTCCTTAGAAATCAAAGTT
1 TCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTT
*
14982750 TCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TT
1 TC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* *
14982808 TCCAAAAACTATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * *
14982866 TCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTT
1 TC-AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTT
*
14982927 TCAAAAAAAAAATATTTTTGAGGAAAAGTT-AGAAGTATCAATTTTTCTTAAAAATAAA-TT
1 TC---AAAAAAATATTTTTGAGGAAAAGTTGA-AAGTATCAATTTTCCTTAAAAATAAATTT
* * *
14982987 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTT
14983047 TC-AAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCC
1 TCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCC
14983090 CTACACAAGA
Statistics
Matches: 356, Mismatches: 26, Indels: 35
0.85 0.06 0.08
Matches are distributed among these distances:
56 1 0.00
57 92 0.26
58 24 0.07
59 81 0.23
60 85 0.24
61 27 0.08
62 38 0.11
63 8 0.02
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (58 bp):
TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
Found at i:14982763 original size:119 final size:117
Alignment explanation
Indices: 14982634--14983089 Score: 613
Period size: 119 Copynumber: 3.9 Consensus size: 117
14982624 AATAAAAATC
14982634 AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAAAAA
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTCAAAAA
* * * *
14982697 AGGATTTTTGAGAAAAAAATTGAAAGTATCAATTTTCCTTAGAAATCAAAGTTTCA
65 A-TATTTTTGAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTCA
* * *
14982753 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTCCAAAAAC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTCAAAAAA
14982817 TATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
66 TATTTTTGAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCA
* * *
14982869 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAA
1 AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC----A
*
14982934 AAAAATATTTTTGAG-GAAAAGTT-AGAAGTATCAATTTTTCTTAAAAATAAATTTC-
61 AAAAATATTTTTGAGAGAAAAGTTGA-AAGTATCAATTTTCCTTAAAAATAAATTTCA
* * *
14982989 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATC-AAATTTTCAAAAA
*
14983054 ATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCC
65 ATATTTTTGAGAGAAAAGTTGAAAGTATCAATTTTCC
14983090 CTACACAAGA
Statistics
Matches: 305, Mismatches: 20, Indels: 27
0.87 0.06 0.08
Matches are distributed among these distances:
115 2 0.01
116 50 0.16
117 73 0.24
118 13 0.04
119 100 0.33
120 15 0.05
121 5 0.02
122 46 0.15
123 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (117 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTCAAAAAA
TATTTTTGAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCA
Found at i:14990904 original size:21 final size:20
Alignment explanation
Indices: 14990862--14990906 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
14990852 AAAATTCTTT
*
14990862 TTTATTTTCTCTCTCTTCCC
1 TTTATTTTCTCTCTCCTCCC
*
14990882 TTTATTTTCTCTATTCCTCCC
1 TTTATTTTCTCT-CTCCTCCC
14990903 TTTA
1 TTTA
14990907 AAAGGATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATTTTCTCTCTCCTCCC
Found at i:14994986 original size:12 final size:12
Alignment explanation
Indices: 14994969--14995001 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
14994959 TGTGTTCCAC
14994969 AAAAAAAAAGTA
1 AAAAAAAAAGTA
*
14994981 AAAAAAAAGGTA
1 AAAAAAAAAGTA
14994993 AAAAAAAAA
1 AAAAAAAAA
14995002 TTAATAGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAGTA
Found at i:14995079 original size:12 final size:11
Alignment explanation
Indices: 14995034--14995080 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
14995024 TGTTCCACCC
14995034 AAAAAAAAAGCA
1 AAAAAAAAAG-A
*
14995046 AAAATAAAA-A
1 AAAAAAAAAGA
*
14995056 AGAAAAAAAGA
1 AAAAAAAAAGA
14995067 AAAAAAAAGAGA
1 AAAAAAAA-AGA
14995079 AA
1 AA
14995081 TTGATGGGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.28
11 8 0.28
12 13 0.45
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:14995091 original size:79 final size:74
Alignment explanation
Indices: 14994969--14995144 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 74
14994959 TGTGTTCCAC
** * *
14994969 AAAAAAAAAGTAAAAAAAA-AGGTAAAAAAAAAATTAATAGGGCAAAATACCAATGTGTTCCACC
1 AAAAAAAAAG-AAAAAAAAGA-AAAAAAAAAAAATTAATAGGGCAAAATACCAATATGCTCCA-C
14995033 CAAAAAAAAAGCAA
63 C-AAAAAAAAG-AA
* * *
14995047 AAATAAAAAAG-AAAAAAAGAAAAAAAAAGAGAAATTGATGGGGCAAAATGCCAATATGCTCCAC
1 AAA-AAAAAAGAAAAAAAAGAAAAAAAAA-A-AAATTAATAGGGCAAAATACCAATATGCTCCAC
*
14995111 CAAAAAAAAGAG
63 CAAAAAAAAGAA
*
14995123 AGAAAAAAAGAAAAAAAAGAAA
1 AAAAAAAAAGAAAAAAAAGAAA
14995145 TTTGATATGG
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
75 7 0.08
76 14 0.17
77 22 0.26
78 7 0.08
79 34 0.40
ACGTcount: A:0.66, C:0.10, G:0.14, T:0.10
Consensus pattern (74 bp):
AAAAAAAAAGAAAAAAAAGAAAAAAAAAAAAATTAATAGGGCAAAATACCAATATGCTCCACCAA
AAAAAAGAA
Found at i:14995493 original size:21 final size:19
Alignment explanation
Indices: 14995461--14995516 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
14995451 AAAAAATTGT
*
14995461 AAAAAAATAAGACAAGCAA
1 AAAAAAAAAAGACAAGCAA
*
14995480 AAAAAAGAAGAAGACAAGTAA
1 AAAAAA-AA-AAGACAAGCAA
14995501 AAAGAAAAAAAGACAA
1 AAA-AAAAAAAGACAA
14995517 AAGAGGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 8 0.25
21 15 0.47
22 3 0.09
ACGTcount: A:0.75, C:0.07, G:0.14, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAAGACAAGCAA
Found at i:14996532 original size:114 final size:114
Alignment explanation
Indices: 14996399--14996611 Score: 293
Period size: 114 Copynumber: 1.9 Consensus size: 114
14996389 ATCAATCTGG
* * * *
14996399 TCATTTACTTATGACCTTGACTC-AGTCTTAGTCACCTTCAGACTTACAGTATCGTCCCAATCAT
1 TCATTTACCTATGACCTTGACTCGA-TCTTAGTCACCTTCAGACTCACAGCATCATCCCAATCAT
* *
14996463 TTGATCTCGACTTAGGTCAAATCATTTTTAGACTCACGACATTAGTCCGA
65 TTGATCTCGACTTAGGTCAAATCATCTTCAGACTCACGACATTAGTCCGA
* *** *
14996513 TCATTTACCTATGACCTTGACTCGATCTTAGTCACTTTCAGACTCGTGGCATCATCTCAATCATT
1 TCATTTACCTATGACCTTGACTCGATCTTAGTCACCTTCAGACTCACAGCATCATCCCAATCATT
* *
14996578 TGATCTTGACTTAGGTCAGATCATCTTCAGACTC
66 TGATCTCGACTTAGGTCAAATCATCTTCAGACTC
14996612 TTTTAAACTA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
114 84 0.99
115 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.36
Consensus pattern (114 bp):
TCATTTACCTATGACCTTGACTCGATCTTAGTCACCTTCAGACTCACAGCATCATCCCAATCATT
TGATCTCGACTTAGGTCAAATCATCTTCAGACTCACGACATTAGTCCGA
Found at i:14997562 original size:5 final size:5
Alignment explanation
Indices: 14997536--14997597 Score: 67
Period size: 5 Copynumber: 12.6 Consensus size: 5
14997526 TTGTACACAG
* *
14997536 TTTAT TATTAT TTT-T ATTAT TTTAT TTTAT TTTA- TTT-T CTTAT TATTAT
1 TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT
14997585 TTTAT TTTAT TTT
1 TTTAT TTTAT TTT
14997598 CTTTCTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
4 8 0.17
5 30 0.62
6 10 0.21
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:14997593 original size:24 final size:23
Alignment explanation
Indices: 14997536--14997600 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 23
14997526 TTGTACACAG
*
14997536 TTTATTATTATTTTTATTATTTTAT
1 TTTATT-TTA-TTTTCTTATTTTAT
14997561 TTTATTTTATTTTCTTATTATTAT
1 TTTATTTTATTTTCTTATT-TTAT
14997585 TTTATTTTATTTTCTT
1 TTTATTTTATTTTCTT
14997601 TCTTTTTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
23 9 0.24
24 23 0.61
25 6 0.16
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTATTTTATTTTCTTATTTTAT
Found at i:14998509 original size:16 final size:16
Alignment explanation
Indices: 14998466--14998537 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
14998456 TCTTTTTTCC
14998466 ATTTTTATTTTATTTT
1 ATTTTTATTTTATTTT
* *
14998482 TTTATTTGATTTTCTTTT
1 ATT-TTT-ATTTTATTTT
* *
14998500 ATTTTTATTTT-CTTA
1 ATTTTTATTTTATTTT
14998515 AGTTTTTATTTTATTTT
1 A-TTTTTATTTTATTTT
14998532 CATTTT
1 -ATTTT
14998538 CTTTACTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.07
16 17 0.39
17 12 0.27
18 12 0.27
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (16 bp):
ATTTTTATTTTATTTT
Found at i:14998617 original size:19 final size:19
Alignment explanation
Indices: 14998588--14998630 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
14998578 TGGAAAACGG
14998588 AAAAAGAAAAG-AATAAAA
1 AAAAAGAAAAGAAATAAAA
14998606 AAAAAGAGAAAGAAATAAAA
1 AAAAAGA-AAAGAAATAAAA
14998626 AAAAA
1 AAAAA
14998631 CCATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.30
19 4 0.17
20 12 0.52
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAAAGAAAAGAAATAAAA
Found at i:14998683 original size:24 final size:24
Alignment explanation
Indices: 14998656--14998702 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14998646 TTCAAATAAG
14998656 TTTTCTAAATAAT-AAAAAAATATA
1 TTTT-TAAATAATCAAAAAAATATA
**
14998680 TTTTTAAATTTTCAAAAAAATAT
1 TTTTTAAATAATCAAAAAAATAT
14998703 TTATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTTTAAATAATCAAAAAAATATA
Found at i:14998733 original size:14 final size:14
Alignment explanation
Indices: 14998685--14998733 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
14998675 ATATATTTTT
14998685 AAAT-TTTC-AAAA
1 AAATCTTTCAAAAA
*
14998697 AAATATTT-ATAAAA
1 AAATCTTTCA-AAAA
14998711 AAATCCTTTCAAAAA
1 AAAT-CTTTCAAAAA
14998726 AAATCTTT
1 AAATCTTT
14998734 TTTAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 4 0.13
13 3 0.10
14 12 0.39
15 11 0.35
16 1 0.03
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCTTTCAAAAA
Found at i:14999540 original size:26 final size:25
Alignment explanation
Indices: 14999489--14999543 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
14999479 AATCAAATGA
*
14999489 AAAAAACAAAAAATGAAGGATAAAC
1 AAAAAACAAAAAATGAAGAATAAAC
* * *
14999514 AAAAACCAAATAAATGAATAATCAAC
1 AAAAAACAAA-AAATGAAGAATAAAC
14999540 AAAA
1 AAAA
14999544 GATAAAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.71, C:0.11, G:0.07, T:0.11
Consensus pattern (25 bp):
AAAAAACAAAAAATGAAGAATAAAC
Found at i:14999890 original size:19 final size:20
Alignment explanation
Indices: 14999863--14999901 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
14999853 ATAATGCATA
*
14999863 AAATTAAATTAA-AAATAAT
1 AAATAAAATTAACAAATAAT
14999882 AAATAAAATTAACAAATAAT
1 AAATAAAATTAACAAATAAT
14999902 GACAATCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAAAATTAACAAATAAT
Found at i:15003356 original size:18 final size:18
Alignment explanation
Indices: 15003333--15003384 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
15003323 TAATGAAACA
15003333 ATTTA-TATTATCATTTTT
1 ATTTATTATTAT-ATTTTT
*
15003351 ATTTATTTTTATATTTTT
1 ATTTATTATTATATTTTT
15003369 ATTTATTATTACTATT
1 ATTTATTATTA-TATT
15003385 ATATATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTATTATTATATTTTT
Found at i:15003526 original size:21 final size:22
Alignment explanation
Indices: 15003500--15003541 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15003490 ATGGTAAATT
15003500 TAATTATT-TTTTTTATTATTA
1 TAATTATTATTTTTTATTATTA
15003521 TAATTATTATTTTTTATTATT
1 TAATTATTATTTTTTATTATT
15003542 GGTTATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TAATTATTATTTTTTATTATTA
Found at i:15003560 original size:18 final size:17
Alignment explanation
Indices: 15003536--15003577 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
15003526 ATTATTTTTT
*
15003536 ATTATTGGTTATGATTA
1 ATTATTGGTAATGATTA
*
15003553 ATTTATTGGTAATTATTA
1 A-TTATTGGTAATGATTA
15003571 ATTATTG
1 ATTATTG
15003578 ATATTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (17 bp):
ATTATTGGTAATGATTA
Found at i:15004949 original size:86 final size:86
Alignment explanation
Indices: 15004794--15004951 Score: 226
Period size: 86 Copynumber: 1.8 Consensus size: 86
15004784 GTTTTTTTTT
* * * * *
15004794 TTTTGGCTTATTTTTCTATTATATTTGAGTTTGATATATATTTTTTATTTTGGGTTAGTTGATGC
1 TTTTGGCTTATTTGTCTATTATATTTAAGTTTGATATATATTTTTTATTTTAGGTTAGTTAATAC
15004859 TGAGTTTCAAAAATTTTAAAA
66 TGAGTTTCAAAAATTTTAAAA
* * * * *
15004880 TTTTGGTTTATTTGTCTATTATATTTAAGTTTGATTTATGTTTTTTATTTTAGGTTATTTAATAT
1 TTTTGGCTTATTTGTCTATTATATTTAAGTTTGATATATATTTTTTATTTTAGGTTAGTTAATAC
15004945 TGAGTTT
66 TGAGTTT
15004952 GGGAATGTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 62 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.59
Consensus pattern (86 bp):
TTTTGGCTTATTTGTCTATTATATTTAAGTTTGATATATATTTTTTATTTTAGGTTAGTTAATAC
TGAGTTTCAAAAATTTTAAAA
Found at i:15006934 original size:16 final size:17
Alignment explanation
Indices: 15006913--15006947 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15006903 AATTCTTGAA
*
15006913 TTTATTTGCA-AAGATT
1 TTTATTTGAAGAAGATT
15006929 TTTATTTGAAGAAGATT
1 TTTATTTGAAGAAGATT
15006946 TT
1 TT
15006948 CTTCTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.51
Consensus pattern (17 bp):
TTTATTTGAAGAAGATT
Found at i:15007081 original size:19 final size:16
Alignment explanation
Indices: 15007036--15007085 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 16
15007026 TTTTTTTCCT
15007036 TTTTTTAAAAA-AAAA
1 TTTTTTAAAAATAAAA
*
15007051 TTTTTTACAAATAATAA
1 TTTTTTAAAAATAA-AA
15007068 TATTTCTTAAAAATAAAA
1 T-TTT-TTAAAAATAAAA
15007086 CCAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 10 0.34
16 2 0.07
17 3 0.10
18 5 0.17
19 9 0.31
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTTTAAAAATAAAA
Found at i:15007105 original size:20 final size:22
Alignment explanation
Indices: 15007076--15007118 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
15007066 AATATTTCTT
*
15007076 AAAAATAAAACC-AAAAA-AAA
1 AAAAAAAAAACCTAAAAATAAA
15007096 AAAAAAAAAACCTAAAAATAAA
1 AAAAAAAAAACCTAAAAATAAA
15007118 A
1 A
15007119 TGAGCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 5 0.25
22 4 0.20
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAACCTAAAAATAAA
Found at i:15007153 original size:19 final size:18
Alignment explanation
Indices: 15007110--15007170 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
15007100 AAAAAACCTA
*
15007110 AAAATAAAATGAGCTAAAAT
1 AAAATAAAATGA--AAAAAT
*
15007130 AAAATAAAATTAAAAAATT
1 AAAATAAAATGAAAAAA-T
*
15007149 AAAATAAAATGAAAAAAG
1 AAAATAAAATGAAAAAAT
15007167 AAAA
1 AAAA
15007171 CCTTGTGATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.22
19 17 0.47
20 11 0.31
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (18 bp):
AAAATAAAATGAAAAAAT
Found at i:15008041 original size:3 final size:3
Alignment explanation
Indices: 15008033--15008132 Score: 59
Period size: 3 Copynumber: 35.3 Consensus size: 3
15008023 GAAAAGGAAA
* * * * * *
15008033 AAT AAT AAT AAT AAT AA- AA- AAT AGT AGT AGT AGT AGT AA- AGT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** **
15008077 AAT AAT AAT GAT AAT AAT -AT AAT AA- AAT AAT AAT GGT AAT AAT GGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15008123 AAT AAT AAT A
1 AAT AAT AAT A
15008133 CAATATACTA
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
2 10 0.13
3 68 0.87
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15008150 original size:5 final size:5
Alignment explanation
Indices: 15008122--15008213 Score: 57
Period size: 5 Copynumber: 18.6 Consensus size: 5
15008112 GTAATAATGG
* * *
15008122 TAATAA TAATA CAATA TACTATA TCATA TAATA T-AT- TAATA TACTA
1 TAAT-A TAATA TAATA TA--ATA TAATA TAATA TAATA TAATA TAATA
* * ** *
15008168 TACTA T-AT- TAATA TACTA TGCTA TAATA TAATA TCATA TAATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
15008214 ATACACAAAC
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
3 2 0.03
4 7 0.10
5 51 0.75
6 4 0.06
7 4 0.06
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:15008162 original size:25 final size:26
Alignment explanation
Indices: 15008134--15008182 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
15008124 ATAATAATAC
15008134 AATATACTATA-TCATA-TAATATATT
1 AATATACTATACT-ATATTAATATATT
15008159 AATATACTATACTATATTAATATA
1 AATATACTATACTATATTAATATA
15008183 CTATGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATACTATACTATATTAATATATT
Found at i:15008191 original size:18 final size:18
Alignment explanation
Indices: 15008148--15008192 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
15008138 TACTATATCA
*
15008148 TATAATATATTAATATAC
1 TATACTATATTAATATAC
15008166 TATACTATATTAATATAC
1 TATACTATATTAATATAC
*
15008184 TATGCTATA
1 TATACTATA
15008193 ATATAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (18 bp):
TATACTATATTAATATAC
Found at i:15008196 original size:15 final size:15
Alignment explanation
Indices: 15008142--15008213 Score: 64
Period size: 15 Copynumber: 5.1 Consensus size: 15
15008132 ACAATATACT
15008142 ATATCATATAATAT-
1 ATATCATATAATATA
* *
15008156 AT-TAATATACTATA
1 ATATCATATAATATA
*
15008170 CTAT-AT-TAATATA
1 ATATCATATAATATA
*
15008183 CTATGC-TATAATATA
1 ATAT-CATATAATATA
15008198 ATATCATATAATATA
1 ATATCATATAATATA
15008213 A
1 A
15008214 ATACACAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
13 19 0.40
14 7 0.15
15 21 0.45
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (15 bp):
ATATCATATAATATA
Found at i:15009885 original size:14 final size:14
Alignment explanation
Indices: 15009842--15009886 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
15009832 CTTTTTCCTC
15009842 TTTACTTTTTTTTT
1 TTTACTTTTTTTTT
* **
15009856 TTTGCCCTTTTTTT
1 TTTACTTTTTTTTT
15009870 TTTACTTTTTTTTT
1 TTTACTTTTTTTTT
15009884 TTT
1 TTT
15009887 TTTACACATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTACTTTTTTTTT
Found at i:15009898 original size:17 final size:17
Alignment explanation
Indices: 15009863--15009901 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15009853 TTTTTTGCCC
***
15009863 TTTTTTTTTTACTTTTT
1 TTTTTTTTTTACACATT
15009880 TTTTTTTTTTACACATT
1 TTTTTTTTTTACACATT
15009897 TTTTT
1 TTTTT
15009902 CTCATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTACACATT
Found at i:15009910 original size:31 final size:31
Alignment explanation
Indices: 15009847--15009912 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
15009837 TCCTCTTTAC
* * * *
15009847 TTTTTTTTTTTTGCCCTTTTTTTTTTACTTT
1 TTTTTTTTTTTTACCATTTTTTTCTCACTTT
15009878 TTTTTTTTTTTTACACATTTTTTTCTCA-TTT
1 TTTTTTTTTTTTAC-CATTTTTTTCTCACTTT
15009909 TTTT
1 TTTT
15009913 AATTCTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.79
Consensus pattern (31 bp):
TTTTTTTTTTTTACCATTTTTTTCTCACTTT
Found at i:15010258 original size:21 final size:21
Alignment explanation
Indices: 15010233--15010289 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
15010223 TTTCTTTCAT
* *
15010233 TTTTTTCATTTT-TTTTTTTTG
1 TTTTTTC-TTTTGCTTTTATTG
*
15010254 TTTTTGCTTTTGCTTTTATTG
1 TTTTTTCTTTTGCTTTTATTG
15010275 TTTTTT-TTTT-CTTTT
1 TTTTTTCTTTTGCTTTT
15010290 TGGTGGAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 5 0.16
20 8 0.26
21 18 0.58
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.82
Consensus pattern (21 bp):
TTTTTTCTTTTGCTTTTATTG
Found at i:15011546 original size:12 final size:11
Alignment explanation
Indices: 15011523--15011622 Score: 55
Period size: 11 Copynumber: 9.2 Consensus size: 11
15011513 TTCTATTTTA
15011523 TTTTTATTATT
1 TTTTTATTATT
*
15011534 TTTTTATTAAT
1 TTTTTATTATT
*
15011545 TTTTT-TT-GT
1 TTTTTATTATT
* *
15011554 TTATTATTA-A
1 TTTTTATTATT
15011564 TTTTTATTA-T
1 TTTTTATTATT
** *
15011574 TTACTATTATA
1 TTTTTATTATT
* *
15011585 TTATTATTTATA
1 TTTTTA-TTATT
*
15011597 TTATTATTATTT
1 TTTTTATTA-TT
15011609 TTTTTATTGATT
1 TTTTTATT-ATT
15011621 TT
1 TT
15011623 ATCTTTTCTT
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
9 5 0.07
10 19 0.27
11 23 0.32
12 23 0.32
13 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:15011560 original size:20 final size:20
Alignment explanation
Indices: 15011522--15011616 Score: 93
Period size: 20 Copynumber: 4.6 Consensus size: 20
15011512 TTTCTATTTT
* *
15011522 ATTTTTATTATTTTTTTATTA
1 ATTTTTTTTA-TTTATTATTA
*
15011543 ATTTTTTTTGTTTATTATTA
1 ATTTTTTTTATTTATTATTA
* *
15011563 ATTTTTATTATTTACTATTA
1 ATTTTTTTTATTTATTATTA
*
15011583 TATTATTATTTATATTATTATT-
1 -ATT-TTTTTTAT-TTATTATTA
15011605 ATTTTTTTTATT
1 ATTTTTTTTATT
15011617 GATTTTATCT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.02
20 33 0.54
21 14 0.23
22 6 0.10
23 7 0.11
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (20 bp):
ATTTTTTTTATTTATTATTA
Found at i:15011588 original size:15 final size:13
Alignment explanation
Indices: 15011519--15011601 Score: 53
Period size: 13 Copynumber: 6.2 Consensus size: 13
15011509 TTGTTTCTAT
*
15011519 TTTATTTTTATTA
1 TTTATTTATATTA
*
15011532 TTTTTTTATTAATT-
1 TTTATTTA-T-ATTA
* *
15011546 TTTTTTGTTTATTA
1 TTTATT-TATATTA
* *
15011560 TTAATTTTTATTA
1 TTTATTTATATTA
15011573 TTTACTATTATATTA
1 TTTA-T-TTATATTA
15011588 -TTATTTATATTA
1 TTTATTTATATTA
15011600 TT
1 TT
15011602 ATTATTTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
12 8 0.14
13 21 0.38
14 16 0.29
15 11 0.20
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (13 bp):
TTTATTTATATTA
Found at i:15011590 original size:18 final size:18
Alignment explanation
Indices: 15011516--15011607 Score: 73
Period size: 18 Copynumber: 5.1 Consensus size: 18
15011506 ATTTTGTTTC
*
15011516 TATTT-TATTTTTATTAT
1 TATTTATATTATTATTAT
* * *
15011533 T-TTTTTATTAATTTTTTT
1 TATTTATATT-ATTATTAT
* *
15011551 TGTTTATTATTAATTTTTAT
1 TATTTA-TATT-ATTATTAT
15011571 TATTTACTATTA-TATTAT
1 TATTTA-TATTATTATTAT
15011589 TATTTATATTATTATTAT
1 TATTTATATTATTATTAT
15011607 T
1 T
15011608 TTTTTTATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
16 3 0.05
17 10 0.16
18 24 0.39
19 4 0.06
20 21 0.34
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (18 bp):
TATTTATATTATTATTAT
Found at i:15011615 original size:15 final size:15
Alignment explanation
Indices: 15011516--15011616 Score: 68
Period size: 15 Copynumber: 6.9 Consensus size: 15
15011506 ATTTTGTTTC
*
15011516 TATTTTATTT-TTAT
1 TATTTTTTTTATTAT
15011530 TA-TTTTTTTATTA-
1 TATTTTTTTTATTAT
*
15011543 -ATTTTTTTTGTTTAT
1 TATTTTTTTT-ATTAT
*
15011558 TATTAATTTTTATTAT
1 TATT-TTTTTTATTAT
* * *
15011574 T-TACTATTATATTAT
1 TAT-TTTTTTTATTAT
* *
15011589 TATTTATATTATTAT
1 TATTTTTTTTATTAT
15011604 TATTTTTTTTATT
1 TATTTTTTTTATT
15011617 GATTTTATCT
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
12 1 0.02
13 13 0.20
14 8 0.12
15 30 0.45
16 9 0.14
17 5 0.08
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (15 bp):
TATTTTTTTTATTAT
Found at i:15012062 original size:19 final size:20
Alignment explanation
Indices: 15012038--15012082 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
15012028 TTCAAGTCAG
15012038 TTTTTCCAGTTTCTGGCT-A
1 TTTTTCCAGTTTCTGGCTAA
* *
15012057 TTTTTCCAGTTTTTGGTTAA
1 TTTTTCCAGTTTCTGGCTAA
15012077 TTTTTC
1 TTTTTC
15012083 AACTAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (20 bp):
TTTTTCCAGTTTCTGGCTAA
Found at i:15012631 original size:58 final size:59
Alignment explanation
Indices: 15012531--15012678 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 59
15012521 GATTTTTTTT
* * *
15012531 AAAATAAAAATTCCAAAATATATATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTCCTTA
1 AAAAT-AAAATTCTAAAATA-A-ATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTA
*
15012593 AAAATAAAATTCTAAAA-AAATATTTTT-AGGAAAAAGTTGAAAATATCAATTTTTCTTA
1 AAAATAAAATTCTAAAATAAATATTTTTGA-GAAAAAGTTGAAAATATCAATTTTCCTTA
* *
15012651 AAAATAAAGTTTCTAAAATAAAAATTTT
1 AAAATAAA-ATTCTAAAATAAATATTTT
15012679 CAAAAGTATT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
57 1 0.01
58 42 0.55
59 9 0.12
60 9 0.12
61 11 0.14
62 5 0.06
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (59 bp):
AAAATAAAATTCTAAAATAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTA
Found at i:15012725 original size:56 final size:56
Alignment explanation
Indices: 15012665--15012785 Score: 158
Period size: 56 Copynumber: 2.2 Consensus size: 56
15012655 TAAAGTTTCT
* * *
15012665 AAAATAAAAATTTTC-AAAAGTATTTTG-GGAGAAAGTTGAAAGTGTC-AATTTCCTTG
1 AAAATAAAAA-GTTCAAAAAATATTTTGAGGA-AAAGTTGAAAGTATCAAATTT-CTTG
*
15012721 AAAATAAAAAGTTCAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAAATTTCTTT
1 AAAATAAAAAGTTCAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAAATTTCTTG
15012777 AAAATAAAA
1 AAAATAAAA
15012786 TTTCTAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
55 3 0.05
56 47 0.81
57 8 0.14
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (56 bp):
AAAATAAAAAGTTCAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAAATTTCTTG
Found at i:15015296 original size:5 final size:5
Alignment explanation
Indices: 15015286--15015326 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
15015276 GAATTCTTAA
15015286 TTTAT TTTAT TTTATT TTTAT TTTAAT GTTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTT-AT -TTTAT TTTAT TTT
15015327 TTTAAATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 21 0.64
6 9 0.27
7 3 0.09
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:15015443 original size:58 final size:57
Alignment explanation
Indices: 15015369--15015727 Score: 314
Period size: 58 Copynumber: 6.1 Consensus size: 57
15015359 AAATATATAT
* * * * *
15015369 ATATTTTTGAGAAAAAGTTGAAAGAATCAATTTTTCATGAAAACAAAATTTTTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTCCTTGAAAATAAAATTTTTAAAAA
* *
15015427 ATATTTTTGGGGAAAAGTTGAAAGTATAAATTTCCCTTGAAAATAAAAAAGTTTTTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTT-CCTTGAAAAT--AAAA-TTTTTAAAAA
* * * *
15015488 AT-TATTTTCAGGGAAAAATTGAAAGTATTAA--TCCTTGAAAATAAAATTTCTAAAAA
1 ATAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTCCTTGAAAATAAAATTTTTAAAAA
* * *
15015544 ATATTTTTGAGGAAAATTTGAAAGTATCAATTTTCCTTTAAAATAAAA-TTTCAAGGAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTCCTTGAAAATAAAATTTTTAA--AAA
* * * * * *
15015603 AAAGTATTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTTAAAATACAATTTTCAAAAA
1 ATA-T-TTTTGAGGAAAAGTTGAAAGTATCAATTTCCTTGAAAATAAAATTTTTAAAAA
* * * * *
15015662 AAATATTTTAAGGAAAAGTTAAAAGTATCAATTTTCATT-AAAATAAAATTTCTAAAATA
1 ATAT-TTTTGAGGAAAAGTTGAAAGTATCAA-TTTCCTTGAAAATAAAATTTTTAAAA-A
*
15015721 AAATTTT
1 ATATTTT
15015728 AAAAAAATAC
Statistics
Matches: 255, Mismatches: 29, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
55 18 0.07
56 16 0.06
57 12 0.05
58 92 0.36
59 31 0.12
60 22 0.09
61 46 0.18
62 18 0.07
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.36
Consensus pattern (57 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTCCTTGAAAATAAAATTTTTAAAAA
Found at i:15015510 original size:62 final size:58
Alignment explanation
Indices: 15015413--15015591 Score: 195
Period size: 55 Copynumber: 3.0 Consensus size: 58
15015403 TCATGAAAAC
* *
15015413 AAAATTTTTAAAAAATATTTTTGGGGAAAAGTTGAAAGTATAAATTTCCCTTGAAAATAA
1 AAAATTTTTAAAAAATA-TTTTAGGGAAAAATTGAAAGTATAAATTT-CCTTGAAAATAA
*
15015473 AAAAGTTTTTAAAAAATTATTTTCAGGGAAAAATTGAAAGTATTAA--TCCTTGAAAAT--
1 AAAA-TTTTTAAAAAA-TATTTT-AGGGAAAAATTGAAAGTATAAATTTCCTTGAAAATAA
* * * * *
15015530 AAAATTTCTAAAAAATATTTTTGAGGAAAATTTGAAAGTATCAATTTTCCTTTAAAATAA
1 AAAATTTTTAAAAAATATTTTAG-GGAAAAATTGAAAGTAT-AAATTTCCTTGAAAATAA
15015590 AA
1 AA
15015592 TTTCAAGGAA
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
54 1 0.01
55 22 0.22
56 11 0.11
57 4 0.04
58 10 0.10
59 10 0.10
60 7 0.07
61 15 0.15
62 21 0.21
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAATTTTTAAAAAATATTTTAGGGAAAAATTGAAAGTATAAATTTCCTTGAAAATAA
Found at i:15015612 original size:117 final size:114
Alignment explanation
Indices: 15015406--15015713 Score: 316
Period size: 117 Copynumber: 2.6 Consensus size: 114
15015396 CAATTTTTCA
* * * * *
15015406 TGAAAACAAAATTTTTAAAAAATATTTTTGGGGAAAAGTTGAAAGTATAAATTTCCCTTGAAAAT
1 TGAAAATAAAA-TTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAAT
** * * *
15015471 AAAAAAGTTT-TTAAAAAATTATTTTCAGGGAAAAATTGAAAGTATTAA-TCCT
65 --AAAA-TTTCGGAAAAAAGTATTTTCA-GGAAAAATTAAAAGTATCAATTCCT
*
15015523 TGAAAATAAAATTTCTAAAAAATATTTTTGAGGAAAATTTGAAAGTATCAATTTTCCTTTAAAAT
1 TGAAAATAAAATTT-TAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAAT
* * *
15015588 AAAATTTCAAGGAAAAAAGTATTTTGAGGAAAAGTTAAAAGTATCAATTTTCT
65 AAAATTTC--GGAAAAAAGTATTTTCAGGAAAAATTAAAAGTATCAA-TTCCT
* * * * * *
15015641 TTAAAATACAATTTTCAAAAAAAATATTTTAAGGAAAAGTTAAAAGTATCAATTTT-CATTAAAA
1 TGAAAATAAAATTTT-AAAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAA
15015705 TAAAATTTC
64 TAAAATTTC
15015714 TAAAATAAAA
Statistics
Matches: 162, Mismatches: 21, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
114 3 0.02
115 4 0.02
116 20 0.12
117 69 0.43
118 39 0.24
119 27 0.17
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (114 bp):
TGAAAATAAAATTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAATA
AAATTTCGGAAAAAAGTATTTTCAGGAAAAATTAAAAGTATCAATTCCT
Found at i:15015654 original size:17 final size:19
Alignment explanation
Indices: 15015622--15015656 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
15015612 TGAGGAAAAG
15015622 TTAAAAGTATCAATTTTCT
1 TTAAAAGTATCAATTTTCT
15015641 TTAAAA-TA-CAATTTTC
1 TTAAAAGTATCAATTTTC
15015657 AAAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (19 bp):
TTAAAAGTATCAATTTTCT
Found at i:15015732 original size:14 final size:14
Alignment explanation
Indices: 15015700--15015731 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15015690 CAATTTTCAT
15015700 TAAAATAAAATTTC
1 TAAAATAAAATTTC
15015714 TAAAATAAAATTT-
1 TAAAATAAAATTTC
15015727 TAAAA
1 TAAAA
15015732 AAATACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAATAAAATTTC
Found at i:15020383 original size:33 final size:35
Alignment explanation
Indices: 15020308--15020384 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 35
15020298 AGATTTTCTA
*
15020308 CTTTTT-TTTTTTTTTGAAAACTTATTTGAAAAGATT
1 CTTTTTCTTTTTTTTT--AAACTTATTCGAAAAGATT
*
15020344 TTTTTTCTTTTTTTTT-AACTTATTCGAAAAGA-T
1 CTTTTTCTTTTTTTTTAAACTTATTCGAAAAGATT
15020377 CTTTTTCT
1 CTTTTTCT
15020385 ATATAACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 8 0.22
34 15 0.41
36 5 0.14
37 9 0.24
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.61
Consensus pattern (35 bp):
CTTTTTCTTTTTTTTTAAACTTATTCGAAAAGATT
Found at i:15020500 original size:19 final size:19
Alignment explanation
Indices: 15020469--15020510 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
15020459 ATAAATGAGC
15020469 TAAAAAATAAAATCAAAAA
1 TAAAAAATAAAATCAAAAA
*
15020488 TAAAAAATAAAATGAAAAA
1 TAAAAAATAAAATCAAAAA
15020507 -AAAA
1 TAAAA
15020511 TCTTGCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (19 bp):
TAAAAAATAAAATCAAAAA
Found at i:15020509 original size:35 final size:34
Alignment explanation
Indices: 15020437--15020511 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 34
15020427 AAAATTTCTT
**
15020437 AAAAATAAAACAAAAAAATAAAATAAATGAGCTA
1 AAAAATAAAACAAAAAAATAAAATAAATGAGAAA
15020471 AAAAATAAAATCAAAAATAA-AAAATAAAATGA-AAA
1 AAAAATAAAA-CAAAAA-AATAAAAT-AAATGAGAAA
15020506 AAAAAT
1 AAAAAT
15020512 CTTGCAATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
34 10 0.28
35 18 0.50
36 8 0.22
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (34 bp):
AAAAATAAAACAAAAAAATAAAATAAATGAGAAA
Found at i:15020859 original size:20 final size:21
Alignment explanation
Indices: 15020822--15020860 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15020812 CCGAAATCTA
15020822 GTTGAAAAAATTCAATCGATT
1 GTTGAAAAAATTCAATCGATT
*
15020843 GTTGAAAAATTTC-ATCGA
1 GTTGAAAAAATTCAATCGA
15020861 AAATTCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
GTTGAAAAAATTCAATCGATT
Found at i:15023101 original size:2 final size:2
Alignment explanation
Indices: 15023094--15023144 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
15023084 TCAAATTCAG
* *
15023094 AT AT AT AT AT AT CT GT 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 AT AT AT
15023136 AT AT A- AT AT
1 AT AT AT AT AT
15023145 GGATAGAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15036650 original size:13 final size:13
Alignment explanation
Indices: 15036632--15036665 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15036622 TGTGTTCCAC
15036632 AAAAAAAAAGTAA
1 AAAAAAAAAGTAA
**
15036645 AAAAAAAGGGTAA
1 AAAAAAAAAGTAA
15036658 AAAAAAAA
1 AAAAAAAA
15036666 TTGATAGGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAGTAA
Found at i:15036722 original size:17 final size:17
Alignment explanation
Indices: 15036700--15036744 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
15036690 CCTCCACTCC
15036700 CAAAAAAAAAGCAAAA-A
1 CAAAAAAAAAG-AAAAGA
*
15036717 CAAAAAACAAGAAAAGA
1 CAAAAAAAAAGAAAAGA
15036734 -AAAAAAAAAGA
1 CAAAAAAAAAGA
15036745 GAAATTGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAGAAAAGA
Found at i:15037161 original size:20 final size:20
Alignment explanation
Indices: 15037120--15037175 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
15037110 AAAAAATTGT
*
15037120 AAAAAAATAAGACAAGCAAA
1 AAAAAAAAAAGACAAGCAAA
*
15037140 AATAAAAAAAAGACAAGTAAA
1 AA-AAAAAAAAGACAAGCAAA
*
15037161 AAGAAAAAAAGACAA
1 AAAAAAAAAAGACAA
15037176 AGGAGGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.77, C:0.07, G:0.11, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAAGACAAGCAAA
Found at i:15038741 original size:174 final size:173
Alignment explanation
Indices: 15038423--15038741 Score: 406
Period size: 174 Copynumber: 1.8 Consensus size: 173
15038413 GTTAGATTAT
* **
15038423 CTTCAGACTCAAGCATCAGTCCGATCATTTAACTATAACCTTAACTCGATCTTAGTCGTCTTCAA
1 CTTCAGACTCAAGCATCAGTCCGATCATTTAACTACAACCTTAACTCGATCTTAGTCACCTTCAA
* * * * *
15038488 ACTCGCCACATCGTCTTAGTCATCTAATCTAGACTCAAGTCAGATCATTTTTAGACACGCGACAT
66 ACTAGCCACATCATCCTAGTCATCTAATATAGACTCAAGTCAGATCATTCTTAGACACGCGACAT
15038553 CAGTCTGATCATTTATCTACCACTTTGACTTGATCTTAGTCAC
131 CAGTCTGATCATTTATCTACCACTTTGACTTGATCTTAGTCAC
* * ** * *
15038596 CTTCAGACTCACGGCATTAGTCCTCTCATTTACCTACAACCTTGAA-TCGATCTTGGTCACCTTC
1 CTTCAGACTCA-AGCATCAGTCCGATCATTTAACTACAACCTT-AACTCGATCTTAGTCACCTTC
* * * * * * *
15038660 AAACTAGCGACATCATCCTAGTCATCTGATATTGACTTAAGTCAGATCATTCTTAGACTCGTGGC
64 AAACTAGCCACATCATCCTAGTCATCTAATATAGACTCAAGTCAGATCATTCTTAGACACGCGAC
* *
15038725 ATCAGTTTGGTCATTTA
129 ATCAGTCTGATCATTTA
15038742 CTTACGACCT
Statistics
Matches: 121, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
173 11 0.09
174 108 0.89
175 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (173 bp):
CTTCAGACTCAAGCATCAGTCCGATCATTTAACTACAACCTTAACTCGATCTTAGTCACCTTCAA
ACTAGCCACATCATCCTAGTCATCTAATATAGACTCAAGTCAGATCATTCTTAGACACGCGACAT
CAGTCTGATCATTTATCTACCACTTTGACTTGATCTTAGTCAC
Found at i:15038782 original size:174 final size:174
Alignment explanation
Indices: 15038447--15038783 Score: 392
Period size: 174 Copynumber: 1.9 Consensus size: 174
15038437 ATCAGTCCGA
* ** * * *
15038447 TCATTTAACTATAACCTTAACTCGATCTTAGTCGTCTTCAAACTCGCCACATCGTCTTAGTCATC
1 TCATTTAACTACAACCTTAACTCGATCTTAGTCACCTTCAAACTAGCCACATCATCCTAGTCATC
* * *
15038512 TAATCTAGACTCAAGTCAGATCATTTTTAGACACGCGACATCAGTCTGATCATTTATCTACCACT
66 TAATATAGACTCAAGTCAGATCATTCTTAGACACGCGACATCAGTCTGATCATTTATCTACCACC
* *
15038577 TTGACTTGATCTTAGTCACCTTCAGACTCACGGCATTAGTCCTC
131 TTGACTCGATCTTAGTCACCTTCAAACTCACGGCATTAGTCCTC
* * *
15038621 TCATTTACCTACAACCTTGAA-TCGATCTTGGTCACCTTCAAACTAGCGACATCATCCTAGTCAT
1 TCATTTAACTACAACCTT-AACTCGATCTTAGTCACCTTCAAACTAGCCACATCATCCTAGTCAT
* * * * * * * * *
15038685 CTGATATTGACTTAAGTCAGATCATTCTTAGACTCGTGGCATCAGTTTGGTCATTTA-CTTACGA
65 CTAATATAGACTCAAGTCAGATCATTCTTAGACACGCGACATCAGTCTGATCATTTATC-TACCA
* **
15038749 CCTTGACTCGAT-TTTGATCATTTTCAAACTCACGG
129 CCTTGACTCGATCTTAG-TCACCTTCAAACTCACGG
15038784 TATCATCCTA
Statistics
Matches: 134, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
173 4 0.03
174 128 0.96
175 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (174 bp):
TCATTTAACTACAACCTTAACTCGATCTTAGTCACCTTCAAACTAGCCACATCATCCTAGTCATC
TAATATAGACTCAAGTCAGATCATTCTTAGACACGCGACATCAGTCTGATCATTTATCTACCACC
TTGACTCGATCTTAGTCACCTTCAAACTCACGGCATTAGTCCTC
Found at i:15039117 original size:13 final size:13
Alignment explanation
Indices: 15039099--15039181 Score: 58
Period size: 13 Copynumber: 6.1 Consensus size: 13
15039089 AGGTTATTTT
*
15039099 TATTATTTTATTA
1 TATTATATTATTA
15039112 TATTATATTATTA
1 TATTATATTATTA
* **
15039125 TAGTATATTAACA
1 TATTATATTATTA
* * *
15039138 TAGTATATGGCAATA
1 TATTATAT--TATTA
*
15039153 TATTATATTACTA
1 TATTATATTATTA
15039166 TTATTATTATTATTA
1 -TATTA-TATTATTA
15039181 T
1 T
15039182 GTTGTACACA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
13 33 0.59
14 6 0.11
15 17 0.30
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:15039172 original size:3 final size:3
Alignment explanation
Indices: 15039153--15039226 Score: 55
Period size: 3 Copynumber: 24.3 Consensus size: 3
15039143 TATGGCAATA
* * *
15039153 TAT TA- TAT TAC TAT TAT TAT TAT TAT TAT GT-T GTACA CAGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TA-T TAT TAT
*
15039200 TAT TAT TAT TAT TAT TTT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15039227 TTTTTCTTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:15041343 original size:41 final size:43
Alignment explanation
Indices: 15041298--15041387 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
15041288 ATGATTGTCA
* *
15041298 AGGAGCAATTTAT-TTT-TCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATGTTTCTCAAAGTCGTGGAGCCTCTATTTAG
*
15041339 AGGAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTATTTAG
1 AGGAGCAATTTATGTTTCTCAAAGTCGTGGAGCCTCTATTTAG
15041382 AGGAGC
1 AGGAGC
15041388 TTTGGTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 13 0.30
42 3 0.07
43 28 0.64
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (43 bp):
AGGAGCAATTTATGTTTCTCAAAGTCGTGGAGCCTCTATTTAG
Found at i:15041400 original size:1 final size:1
Alignment explanation
Indices: 15041394--15041451 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
15041384 GAGCTTTGGT
* * * * * *
15041394 AAAAAAAAAAACAAAAAACAAAAAAAAAACAAAAAAAAACACAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15041452 TGACAATGTT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15041411 original size:12 final size:12
Alignment explanation
Indices: 15041394--15041444 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
15041384 GAGCTTTGGT
15041394 AAAAAAA-AAAA
1 AAAAAAACAAAA
*
15041405 CAAAAAAC-AAA
1 AAAAAAACAAAA
15041416 AAAAAAACAAAA
1 AAAAAAACAAAA
*
15041428 AAAAACACAAAA
1 AAAAAAACAAAA
15041440 AAAAA
1 AAAAA
15041445 CAAAAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
11 16 0.46
12 19 0.54
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:15041422 original size:22 final size:22
Alignment explanation
Indices: 15041394--15041451 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
15041384 GAGCTTTGGT
15041394 AAAAAAAAAAACAAAAAACA-AA
1 AAAAAAAAAAA-AAAAAACACAA
*
15041416 AAAAAAACAAAAAAAAACACAA
1 AAAAAAAAAAAAAAAAACACAA
*
15041438 AAAAAAACAAAAAA
1 AAAAAAAAAAAAAA
15041452 TGACAATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 8 0.24
22 26 0.76
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAAACACAA
Found at i:15041445 original size:12 final size:12
Alignment explanation
Indices: 15041400--15041451 Score: 72
Period size: 12 Copynumber: 4.4 Consensus size: 12
15041390 TGGTAAAAAA
*
15041400 AAAAACAAAAAAC
1 AAAAA-AAAACAC
15041413 AAAAAAAAA-AC
1 AAAAAAAAACAC
15041424 AAAAAAAAACAC
1 AAAAAAAAACAC
15041436 AAAAAAAAACA-
1 AAAAAAAAACAC
15041447 AAAAA
1 AAAAA
15041452 TGACAATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
11 16 0.42
12 17 0.45
13 5 0.13
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAC
Found at i:15041457 original size:10 final size:10
Alignment explanation
Indices: 15041394--15041451 Score: 73
Period size: 11 Copynumber: 5.6 Consensus size: 10
15041384 GAGCTTTGGT
15041394 AAAAAAAAA-
1 AAAAAAAAAC
*
15041403 AACAAAAAAC
1 AAAAAAAAAC
15041413 AAAAAAAAAAC
1 -AAAAAAAAAC
15041424 AAAAAAAAACAC
1 -AAAAAAAA-AC
15041436 AAAAAAAAAC
1 AAAAAAAAAC
15041446 AAAAAA
1 AAAAAA
15041452 TGACAATGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
9 8 0.18
10 8 0.18
11 26 0.59
12 2 0.05
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:15041653 original size:21 final size:20
Alignment explanation
Indices: 15041615--15041672 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
15041605 TTGTATCTTG
* * *
15041615 TATTATTTTATTTTTTTTCT
1 TATTATTTTATGTATTTTAT
*
15041635 TTTGTATTTTATGTATTTTAT
1 TAT-TATTTTATGTATTTTAT
15041656 TATTATTATTATGTATT
1 TATTATT-TTATGTATT
15041673 AATATATGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTATTTTATGTATTTTAT
Found at i:15041766 original size:16 final size:15
Alignment explanation
Indices: 15041711--15041766 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
15041701 TTGTTGTTAA
15041711 TATTTATATGTAT-TT
1 TATTTATAT-TATATT
15041726 TATTATATAGTTATATT
1 TATT-TATA-TTATATT
15041743 TATATTATATTATAATT
1 TAT-TTATATTAT-ATT
15041760 TATTTAT
1 TATTTAT
15041767 TATTCTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.11
16 15 0.42
17 16 0.44
18 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (15 bp):
TATTTATATTATATT
Found at i:15042776 original size:9 final size:8
Alignment explanation
Indices: 15042740--15042862 Score: 50
Period size: 9 Copynumber: 13.5 Consensus size: 8
15042730 TTTGAAATTT
15042740 TTTTATTTA
1 TTTT-TTTA
15042749 TTTGTTTTA
1 TTT-TTTTA
*
15042758 TTTATTTA
1 TTTTTTTA
15042766 TTTTTTCTA
1 TTTTTT-TA
* **
15042775 TTAGATTAGA
1 TT--TTTTTA
*
15042785 TTTATTTAA
1 TTT-TTTTA
15042794 TATTTTTTA
1 T-TTTTTTA
15042803 TCTTTATCTTA
1 T-TTT-T-TTA
15042814 TTTTTATT-
1 TTTTT-TTA
15042822 TTTGTTTTA
1 TTT-TTTTA
15042831 CTTTTCTTTA
1 -TTTT-TTTA
15042841 TTTTTTTA
1 TTTTTTTA
15042849 TCTTTATTTA
1 T-TTT-TTTA
15042859 TTTT
1 TTTT
15042863 CACTTTTATT
Statistics
Matches: 89, Mismatches: 11, Indels: 28
0.70 0.09 0.22
Matches are distributed among these distances:
8 19 0.21
9 42 0.47
10 22 0.25
11 6 0.07
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (8 bp):
TTTTTTTA
Found at i:15042776 original size:13 final size:13
Alignment explanation
Indices: 15042736--15042769 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
15042726 TTTTTTTGAA
15042736 ATTT-TTTTATTT
1 ATTTGTTTTATTT
15042748 ATTTGTTTTATTT
1 ATTTGTTTTATTT
*
15042761 ATTTATTTT
1 ATTTGTTTT
15042770 TTCTATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
ATTTGTTTTATTT
Found at i:15042776 original size:17 final size:17
Alignment explanation
Indices: 15042737--15042768 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15042727 TTTTTTGAAA
15042737 TTTT-TTTATTTATTTG
1 TTTTATTTATTTATTTG
15042753 TTTTATTTATTTATTT
1 TTTTATTTATTTATTT
15042769 TTTCTATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTATTTATTTATTTG
Found at i:15042819 original size:17 final size:16
Alignment explanation
Indices: 15042741--15042862 Score: 60
Period size: 17 Copynumber: 7.8 Consensus size: 16
15042731 TTGAAATTTT
* *
15042741 TTTATTTATTTGTTTTA
1 TTTATTTATTT-TTATC
15042758 TTTATTTATTTTT-TC
1 TTTATTTATTTTTATC
* **
15042773 TATTAGATTAGATTTAT-
1 T-TTA-TTTATTTTTATC
* *
15042790 TTAATAT-TTTTTATC
1 TTTATTTATTTTTATC
*
15042805 TTTATCTTATTTTTATT
1 TTTAT-TTATTTTTATC
* *
15042822 TTTGTTT-TACTTT-TC
1 TTTATTTAT-TTTTATC
15042837 TTTA-TT-TTTTTATC
1 TTTATTTATTTTTATC
15042851 TTTATTTATTTT
1 TTTATTTATTTT
15042863 CACTTTTATT
Statistics
Matches: 78, Mismatches: 17, Indels: 21
0.67 0.15 0.18
Matches are distributed among these distances:
13 3 0.04
14 14 0.18
15 14 0.18
16 17 0.22
17 29 0.37
18 1 0.01
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTATTTATTTTTATC
Found at i:15042882 original size:22 final size:22
Alignment explanation
Indices: 15042844--15042885 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15042834 TTCTTTATTT
15042844 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
*
15042866 TTTTAT-TTTGTTCTATTTTC
1 TTTTATCTTTATT-TATTTTC
15042886 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Found at i:15042970 original size:59 final size:58
Alignment explanation
Indices: 15042898--15043467 Score: 694
Period size: 59 Copynumber: 9.7 Consensus size: 58
15042888 TAAATAAAAA
15042898 TCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
1 TCAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
** *
15042957 TTGAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTT
1 TCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
* * * * *
15043014 TCAAAAAAGGATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTAGAAATC-AAAGTT
1 TCAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
* *
15043073 TCAAAAAAAATATTTTTGAGGAAAAGTCGAAAGTATCAATTTTCCTTAGAAAT--AAATTT
1 TC--AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
* ** *
15043132 TCAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATC-AAAGTT
1 TCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
*
15043190 TCAAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAAT--AAATTT
1 TC--AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
* *
15043249 CCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
1 TCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
* * * * *
15043308 TCGAAAAATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATC-AGAGTT
1 TCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
15043366 TCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTT
1 TC---AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
15043426 TCAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TCAAAAAA-TATTTTT-GGGAAAAGTTGAAAGTATCAATTTT
15043468 TCCTGCACAA
Statistics
Matches: 454, Mismatches: 37, Indels: 41
0.85 0.07 0.08
Matches are distributed among these distances:
57 108 0.24
58 84 0.19
59 121 0.27
60 91 0.20
61 50 0.11
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (58 bp):
TCAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT
Found at i:15043036 original size:117 final size:115
Alignment explanation
Indices: 15042898--15043467 Score: 748
Period size: 117 Copynumber: 4.9 Consensus size: 115
15042888 TAAATAAAAA
* **
15042898 TCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTTGAAA
1 TCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTAAAAA
15042963 AATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
66 AATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * * * * * *
15043014 TCAAAAAAGGATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTAGAAATCAAAGTTTCAAAA
1 TCAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT-TAAA
* *
15043079 AAAATATTTTTGAGGAAAAGTCGAAAGTATCAATTTTCCTTAGAAATAAATTT
64 AAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* ** * *
15043132 TCAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAAAAA
1 TCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTT-TAAAA
*
15043197 AAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAATTT
65 AAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * **
15043249 CCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCGAAA
1 TCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTAAAAA
* * * *
15043314 AATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAGAGTT
66 AATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTT
*
15043366 TCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTTCA
1 TC---AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTT-A
* *
15043429 AAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
62 AAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTT
15043468 TCCTGCACAA
Statistics
Matches: 405, Mismatches: 39, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
115 1 0.00
116 51 0.13
117 207 0.51
118 62 0.15
119 37 0.09
120 47 0.12
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (115 bp):
TCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTAAAAA
AATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
Found at i:15043226 original size:177 final size:174
Alignment explanation
Indices: 15042900--15043467 Score: 829
Period size: 177 Copynumber: 3.2 Consensus size: 174
15042890 AATAAAAATC
* * *
15042900 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTTGAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAAA-TTTTCAAAAA
* * * **
15042965 TATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC-AAAAAAGGATTT
64 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAAATATTT
* * *
15043028 TTGAGAAAAAATTGAAAGTATCAATTTTCCTTAGAAATCAAAGTTTCAA
129 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTC-A
* *
15043077 AAAAAATATTTTTGAGGAAAAGTCGAAAGTATCAATTTTCCTTAGAAAT-AAATTTTCAAAAACT
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTTTCAAAAA-T
* *
15043141 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAAAAAAAATATTTT
65 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAAATATTTT
* *
15043206 TGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAATTTCC
130 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCA
15043251 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTTCGAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT-AAAATTTTC-AAAA
* *
15043315 ATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAGAGTTTCAAAAAAAAATAT
63 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC-AAAAAAAATAT
15043380 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
127 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCA
*
15043429 AAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
15043468 TCCTGCACAA
Statistics
Matches: 356, Mismatches: 26, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
173 1 0.00
174 54 0.15
175 46 0.13
176 66 0.19
177 147 0.41
178 42 0.12
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (174 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTTTCAAAAATA
TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAAATATTTTT
GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCA
Found at i:15044310 original size:3 final size:3
Alignment explanation
Indices: 15044302--15044333 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15044292 AAGGAAAAGG
15044302 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15044334 CAACATACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15044356 original size:5 final size:5
Alignment explanation
Indices: 15044343--15044396 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
15044333 ACAACATACT
* * *
15044343 ATATC ATATA ATAT- AT-TA ATATA CTATA CTATA ATATA ATATCA A-ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A ATATA
15044391 ATATA A
1 ATATA A
15044397 ATACACAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
3 1 0.02
4 6 0.14
5 33 0.79
6 2 0.05
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:15053919 original size:21 final size:20
Alignment explanation
Indices: 15053877--15053921 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15053867 AAAATTCTTT
*
15053877 TTTATTTTCTCTCTCTTCCC
1 TTTATTTTCTCTCTCCTCCC
*
15053897 TTTATTTTCTCTATTCCTCCC
1 TTTATTTTCTCT-CTCCTCCC
15053918 TTTA
1 TTTA
15053922 AAAGGATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATTTTCTCTCTCCTCCC
Found at i:15058010 original size:11 final size:11
Alignment explanation
Indices: 15057994--15058024 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15057984 TGTGTTTCAC
15057994 AAAAAAAAAGT
1 AAAAAAAAAGT
*
15058005 AAAAAAAAGGT
1 AAAAAAAAAGT
15058016 AAAAAAAAA
1 AAAAAAAAA
15058025 ATTGATAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAGT
Found at i:15058518 original size:21 final size:20
Alignment explanation
Indices: 15058486--15058539 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
15058476 AAAATTGTAA
15058486 AAAAATAAGACAAGCAAAAAG
1 AAAAA-AAGACAAGCAAAAAG
* *
15058507 AAGAAGAAGACAAGTAAAAAG
1 AA-AAAAAGACAAGCAAAAAG
15058528 AAAAAAAGACAA
1 AAAAAAAGACAA
15058540 AAGAGGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.72, C:0.07, G:0.17, T:0.04
Consensus pattern (20 bp):
AAAAAAAGACAAGCAAAAAG
Found at i:15059577 original size:114 final size:111
Alignment explanation
Indices: 15059418--15059632 Score: 279
Period size: 114 Copynumber: 1.9 Consensus size: 111
15059408 ACAACATCAA
* * * *
15059418 TCCGGTCATTTACTTATGACCTTGACTCAGTCTTAGTCACCTTCAGACTTATAGTATCGTCCCAA
1 TCCGATCATTTACCTATGACCTTGACTCAGTCTTAGTCACCTTCAGACTCAT-GGATC-T-CCAA
* *
15059483 TCATCTGATCTCGACTTAGGTCAAATCATTTTTAGACTCACGACATTAG
63 TCATCTGATCTCGACTTAGGTCAAATCATCTTCAGACTCACGACATTAG
* * *
15059532 TCCGATCATTTACCTATGACCTTGACTC-GATCTTAGTCACTTTCAGACTCGTGGATCTTCAATC
1 TCCGATCATTTACCTATGACCTTGACTCAG-TCTTAGTCACCTTCAGACTCATGGATCTCCAATC
* * *
15059596 ATCTGATCTTGACTTAGGTTAGATCATCTTCAGACTC
65 ATCTGATCTCGACTTAGGTCAAATCATCTTCAGACTC
15059633 TTTTAAACTA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
111 37 0.42
112 1 0.01
113 5 0.06
114 45 0.51
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (111 bp):
TCCGATCATTTACCTATGACCTTGACTCAGTCTTAGTCACCTTCAGACTCATGGATCTCCAATCA
TCTGATCTCGACTTAGGTCAAATCATCTTCAGACTCACGACATTAG
Found at i:15060237 original size:113 final size:113
Alignment explanation
Indices: 15059969--15060259 Score: 289
Period size: 113 Copynumber: 2.6 Consensus size: 113
15059959 ATCTTGTCAC
** * *
15059969 CTTCAGACTCGCGGCATCAGTCCTCTCATTTACCTACGACCTTGAATCGATCTTGGTCATCTTTA
1 CTTCAGACTCGCGGCATCAGTCCGATCATTTACTTACGACCTTGACTCGATCTTGGTCAT-TTTA
** ** * * *
15060034 AACTCGTGACATCATCCCAATCATCTGATATTGACTTAAGTCAGATCAT
65 AACTCACGACATCATCCCAATCATCTGATATCAACTCAAGTAAAATCAT
* * * ** * *
15060083 TTTTAGACTCGTGGCATCAGTTTGGTCATTTACTTACGACCTTGACTCGATTTTGGTCATTTTCA
1 CTTCAGACTCGCGGCATCAGTCCGATCATTTACTTACGACCTTGACTCGATCTTGGTCATTTT-A
** * *
15060148 AACTCACGGTAT-ATCCTAATCATCTGATCTCAACTCAAGTAAAATCAT
65 AACTCACGACATCATCCCAATCATCTGATATCAACTCAAGTAAAATCAT
* * * * *
15060196 CTTCAGACTCACAGCATCAGTCCGATCATTTATTTATGACCTCGACT-GAGTCTTGGTCACTTTT
1 CTTCAGACTCGCGGCATCAGTCCGATCATTTACTTACGACCTTGACTCGA-TCTTGGTCA-TTTT
15060260 TGACTCGTGA
Statistics
Matches: 141, Mismatches: 33, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
112 2 0.01
113 76 0.54
114 63 0.45
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (113 bp):
CTTCAGACTCGCGGCATCAGTCCGATCATTTACTTACGACCTTGACTCGATCTTGGTCATTTTAA
ACTCACGACATCATCCCAATCATCTGATATCAACTCAAGTAAAATCAT
Found at i:15060490 original size:13 final size:13
Alignment explanation
Indices: 15060472--15060556 Score: 62
Period size: 13 Copynumber: 6.2 Consensus size: 13
15060462 AGGTTATTTT
*
15060472 TATTATTTTATTA
1 TATTATATTATTA
15060485 TATTATATTATTA
1 TATTATATTATTA
* **
15060498 TAGTATATTAACA
1 TATTATATTATTA
* * *
15060511 TAGTATATGGCAATA
1 TATTATAT--TATTA
*
15060526 TATTATATTACTA
1 TATTATATTATTA
15060539 TTATTATTATTATTA
1 -TATTA-TATTATTA
15060554 TAT
1 TAT
15060557 GTTGTACACA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
13 33 0.57
14 8 0.14
15 17 0.29
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:15060545 original size:3 final size:3
Alignment explanation
Indices: 15060526--15060602 Score: 54
Period size: 3 Copynumber: 25.3 Consensus size: 3
15060516 TATGGCAATA
* * *
15060526 TAT TA- TAT TAC TAT TAT TAT TAT TAT TA- TAT GT-T GTACA CAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TAT TA-T
15060572 TAT TATT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
15060603 TTCTTTCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
2 6 0.10
3 46 0.77
4 8 0.13
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:15060578 original size:7 final size:7
Alignment explanation
Indices: 15060566--15060598 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
15060556 TGTTGTACAC
15060566 ATTATTT
1 ATTATTT
15060573 ATTATTT
1 ATTATTT
15060580 ATTA-TT
1 ATTATTT
15060586 ATTA-TT
1 ATTATTT
15060592 ATTATTT
1 ATTATTT
15060599 TATTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:15061492 original size:24 final size:24
Alignment explanation
Indices: 15061464--15061527 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
15061454 TCTTTTTTCC
*
15061464 ATTTTTATTTTATTTTTTGAT-TTG
1 ATTTTTATTTTATTTTTT-ATCTTA
* *
15061488 A-TTTTCTTTTATTTTTTTTCTTA
1 ATTTTTATTTTATTTTTTATCTTA
15061511 AGTTTTTATTTTATTTT
1 A-TTTTTATTTTATTTT
15061528 CATTTTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 1 0.03
23 18 0.55
24 1 0.03
25 13 0.39
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.77
Consensus pattern (24 bp):
ATTTTTATTTTATTTTTTATCTTA
Found at i:15061604 original size:19 final size:21
Alignment explanation
Indices: 15061580--15061622 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
15061570 TGGAAAACAG
15061580 AAAAAGA-AAAG-AATAAAAA
1 AAAAAGAGAAAGAAATAAAAA
15061599 AAAAAGAGAAAGAAATAAAAA
1 AAAAAGAGAAAGAAATAAAAA
15061620 AAA
1 AAA
15061623 CCATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAAAGAGAAAGAAATAAAAA
Found at i:15061675 original size:24 final size:24
Alignment explanation
Indices: 15061648--15061694 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15061638 TTCAAATAAG
15061648 TTTTCTAAATAAT-AAAAAAATATA
1 TTTT-TAAATAATCAAAAAAATATA
**
15061672 TTTTTAAATTTTCAAAAAAATAT
1 TTTTTAAATAATCAAAAAAATAT
15061695 TTATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTTTAAATAATCAAAAAAATATA
Found at i:15061725 original size:14 final size:14
Alignment explanation
Indices: 15061677--15061725 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15061667 ATATATTTTT
15061677 AAAT-TTTC-AAAA
1 AAATCTTTCAAAAA
*
15061689 AAATATTT-ATAAAA
1 AAATCTTTCA-AAAA
15061703 AAATCCTTTCAAAAA
1 AAAT-CTTTCAAAAA
15061718 AAATCTTT
1 AAATCTTT
15061726 TTTAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 4 0.13
13 3 0.10
14 12 0.39
15 11 0.35
16 1 0.03
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCTTTCAAAAA
Found at i:15062552 original size:4 final size:4
Alignment explanation
Indices: 15062543--15062569 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15062533 TAAAACCCAA
15062543 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
15062570 ATAATGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:15062886 original size:19 final size:20
Alignment explanation
Indices: 15062859--15062901 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
15062849 ATAATGCATA
* *
15062859 AAATTAAATTAA-AAATAAT
1 AAATAAAATTAACAAATAAC
15062878 AAATAAAATTAACAAATAAC
1 AAATAAAATTAACAAATAAC
15062898 AAAT
1 AAAT
15062902 TAACAAATAA
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:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAAAATTAACAAATAAC
Found at i:15062903 original size:15 final size:15
Alignment explanation
Indices: 15062883--15062911 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15062873 ATAATAAATA
15062883 AAATTAACAAATAAC
1 AAATTAACAAATAAC
15062898 AAATTAACAAATAA
1 AAATTAACAAATAA
15062912 TGACATCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATTAACAAATAAC
Found at i:15067507 original size:86 final size:86
Alignment explanation
Indices: 15067352--15067509 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 86
15067342 TTTTTTTTTT
* * * * * *
15067352 TTTTGGCTTATTTTTCTATTATATTTGAGTTTGATATATATTTTTTATTTTGGGTTAGTTGATGC
1 TTTTGGCTTATTTGTCCATTATATTTAAGTTTGATATATATTTTTTATTTTAGGTTAGTTAATAC
15067417 TGAGTTTAAAAAATTTTAAAA
66 TGAGTTTAAAAAATTTTAAAA
* * * * *
15067438 TTTTGGTTTATTTGTCCATTATATTTAAGTTTGATTTATGTTTTTTATTTTAGGTTATTTAATAT
1 TTTTGGCTTATTTGTCCATTATATTTAAGTTTGATATATATTTTTTATTTTAGGTTAGTTAATAC
15067503 TGAGTTT
66 TGAGTTT
15067510 GGGAATGTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 61 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (86 bp):
TTTTGGCTTATTTGTCCATTATATTTAAGTTTGATATATATTTTTTATTTTAGGTTAGTTAATAC
TGAGTTTAAAAAATTTTAAAA
Found at i:15069699 original size:16 final size:16
Alignment explanation
Indices: 15069667--15069709 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
15069657 CAAAAAAATA
15069667 AAAAATAAAA-AACCT
1 AAAAATAAAATAACCT
* *
15069682 AAAAATAAAATGAGCT
1 AAAAATAAAATAACCT
15069698 -AAAATAAAATAA
1 AAAAATAAAATAA
15069710 ATTAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAACCT
Found at i:15069725 original size:18 final size:18
Alignment explanation
Indices: 15069698--15069742 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
15069688 AAAATGAGCT
*
15069698 AAAATAAAATA-AATTAA
1 AAAATAAAATACAATGAA
15069715 AAAATTAAAATACAATGAA
1 AAAA-TAAAATACAATGAA
*
15069734 AAAAGAAAA
1 AAAATAAAA
15069743 CCTTGTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 9 0.38
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAATAAAATACAATGAA
Found at i:15070614 original size:3 final size:3
Alignment explanation
Indices: 15070606--15070706 Score: 68
Period size: 3 Copynumber: 35.3 Consensus size: 3
15070596 GAAAAGGAAA
* * * * * *
15070606 AAT AAT AAT AAT AAT AA- AAA AAT AAT AGT AGT AGT AGT AA- AGT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** **
15070651 AAT AAT AAT GAT AAT AAT -AT AAT AA- AAT AAT AAT GGT AAT AAT GGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15070697 AAT AAT AAT A
1 AAT AAT AAT A
15070707 CAATATACTA
Statistics
Matches: 78, Mismatches: 15, Indels: 10
0.76 0.15 0.10
Matches are distributed among these distances:
2 8 0.10
3 70 0.90
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15070679 original size:25 final size:25
Alignment explanation
Indices: 15070607--15070693 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 25
15070597 AAAAGGAAAA
*
15070607 ATAATAATAATAATAAAAAAATAAT-
1 ATAATAAT-ATAATAAAATAATAATG
* * *
15070632 AGTAGTAGTAGTAAAGTATAATAATAATG
1 A-TAATAATA-T-AA-TAAAATAATAATG
15070661 ATAATAATATAATAAAATAATAATG
1 ATAATAATATAATAAAATAATAATG
*
15070686 GTAATAAT
1 ATAATAAT
15070694 GGTAATAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
25 21 0.43
26 8 0.16
27 3 0.06
28 16 0.33
29 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (25 bp):
ATAATAATATAATAAAATAATAATG
Found at i:15070724 original size:5 final size:5
Alignment explanation
Indices: 15070696--15070790 Score: 50
Period size: 5 Copynumber: 18.0 Consensus size: 5
15070686 GTAATAATGG
* * *
15070696 TAATAA TAATA CAATA TACTATA TCATA TAATA T-AT- TAATA TACTA
1 TAAT-A TAATA TAATA TA--ATA TAATA TAATA TAATA TAATA TAATA
* * * *
15070742 TACTAA TAATA TACTA TAGTTA TAATTA TAAATA TCATA TAATA TAATA
1 TAAT-A TAATA TAATA TA-ATA TAA-TA T-AATA TAATA TAATA TAATA
15070791 CACGAACCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 17
0.71 0.11 0.17
Matches are distributed among these distances:
3 1 0.01
4 4 0.06
5 41 0.59
6 18 0.26
7 6 0.09
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:15072861 original size:3 final size:3
Alignment explanation
Indices: 15072844--15072917 Score: 55
Period size: 3 Copynumber: 24.3 Consensus size: 3
15072834 GAAAGAAAAA
* **
15072844 AAT AA- AAT AAA AAT AAT AAT AAT AAT AAT AAT AACT GTGT ACA- ACAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T -AAT A-AT A-AT
*
15072891 AAT AAT AAT AAT AAT AGT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15072918 TATTGCCATA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15072952 original size:13 final size:13
Alignment explanation
Indices: 15072925--15072964 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
15072915 ATATATTGCC
**
15072925 ATATACTATGTTA
1 ATATACTATAATA
15072938 ATATACTATAATA
1 ATATACTATAATA
*
15072951 ATATAATATAATA
1 ATATACTATAATA
15072964 A
1 A
15072965 AATAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (13 bp):
ATATACTATAATA
Found at i:15073519 original size:60 final size:60
Alignment explanation
Indices: 15073404--15073521 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
15073394 GGGATGATGT
* * * *
15073404 CGCAAGTTTAAAGGTGACCAAGATCAATTCAAGGTCATAGGTAAATGAGAGGACTGATCC
1 CGCAAGTCTAAAGGTGACCAAGATCAAGTCAAGGTCATAGATAAATGACAGGACTGATCC
* * *
15073464 CGCAAGTCTGAAGGTGACTAAGATCAAGTCAAGGTCGTAGATAAATGATCA-GACTGAT
1 CGCAAGTCTAAAGGTGACCAAGATCAAGTCAAGGTCATAGATAAATGA-CAGGACTGAT
15073522 GTCGCGTGTC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (60 bp):
CGCAAGTCTAAAGGTGACCAAGATCAAGTCAAGGTCATAGATAAATGACAGGACTGATCC
Found at i:15073967 original size:113 final size:113
Alignment explanation
Indices: 15073827--15074042 Score: 265
Period size: 113 Copynumber: 1.9 Consensus size: 113
15073817 GAGTCTGAAG
* * * *
15073827 ATGATCTGACCTAAGTTAAGATCAGATGATTGAGACGATGCCACGAGTCTGAAAG-TGACTAAAA
1 ATGATCTGACCTAAGTCAAGATCAGATGATTGAGACGATACCACAAGTCT-AAAGACGACTAAAA
*
15073891 -TCGAGTCAAGGTCATAGGTAAATGATCGGACTAATGTCGGAGTCCAAAA
65 CT-GAGTCAAGGTCATAAGTAAATGATCGGACTAATGTCGGAGTCCAAAA
* * * * *** *
15073940 ATGATTTGACCTAAGTCGAGATTAGATGATTGGGACGATACTGTAAGTCTAAAGACGACTAAGAC
1 ATGATCTGACCTAAGTCAAGATCAGATGATTGAGACGATACCACAAGTCTAAAGACGACTAAAAC
* *
15074005 TGAGTCAAGGTCGTAAGTAAATGATCGGACTGATGTCG
66 TGAGTCAAGGTCATAAGTAAATGATCGGACTAATGTCG
15074043 TAAGTCAATA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
112 4 0.05
113 81 0.94
114 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (113 bp):
ATGATCTGACCTAAGTCAAGATCAGATGATTGAGACGATACCACAAGTCTAAAGACGACTAAAAC
TGAGTCAAGGTCATAAGTAAATGATCGGACTAATGTCGGAGTCCAAAA
Found at i:15074933 original size:21 final size:21
Alignment explanation
Indices: 15074909--15074964 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
15074899 TTTTCCTCCT
15074909 TTGTCTTTTTTTTCTTTTTGC
1 TTGTCTTTTTTTTCTTTTTGC
* *
15074930 TTGTCTTCTTCTTCTTTTTGC
1 TTGTCTTTTTTTTCTTTTTGC
15074951 TTGTCTTATTTTTT
1 TTGTCTT-TTTTTT
15074965 TACAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.02, C:0.16, G:0.09, T:0.73
Consensus pattern (21 bp):
TTGTCTTTTTTTTCTTTTTGC
Found at i:15075293 original size:9 final size:9
Alignment explanation
Indices: 15075279--15075312 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
15075269 TTCCATATCA
15075279 TTTTTCTTT
1 TTTTTCTTT
15075288 TTTTTCTTT
1 TTTTTCTTT
15075297 TTTTCTCTCTT
1 TTTT-TCT-TT
15075308 TTTTT
1 TTTTT
15075313 TGGTGGAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 4 0.17
11 6 0.26
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:15075382 original size:18 final size:16
Alignment explanation
Indices: 15075351--15075388 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
15075341 TCAATTTCTC
15075351 TTTTTTTTTTCTTTTT
1 TTTTTTTTTTCTTTTT
15075367 TTTTTCTTTTTGCTTTTT
1 TTTTT-TTTTT-CTTTTT
15075385 TTTT
1 TTTT
15075389 GTGGAGCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 5 0.25
18 10 0.50
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTTTTTTCTTTTT
Found at i:15075383 original size:74 final size:75
Alignment explanation
Indices: 15075279--15075429 Score: 200
Period size: 74 Copynumber: 2.0 Consensus size: 75
15075269 TTCCATATCA
* * *
15075279 TTTTTCTTTTTTTTCTTTTTTTCTCTCTTTTTTTTGGTGGAGCATATTGGCATTTTACCCCATCA
1 TTTTTCTTTTTTTTCTTCTTTTCTCGCTTTTTTTTGGTGGAGCACATTGGCATTTTACCCCATCA
15075344 ATTTCTCTTTTT
66 ATTT-T-TTTTT
* * * *
15075356 TTTTTCTTTTTTTT-TTCTTTT-T-GCTTTTTTTTTGTGGAGCACATTGGTATTTTGCCCTATCA
1 TTTTTCTTTTTTTTCTTCTTTTCTCGCTTTTTTTTGGTGGAGCACATTGGCATTTTACCCCATCA
15075418 ATTTTTTTTT
66 ATTTTTTTTT
15075428 TT
1 TT
15075430 ACTTTTTTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
72 7 0.10
73 1 0.01
74 38 0.57
75 1 0.01
76 6 0.09
77 14 0.21
ACGTcount: A:0.10, C:0.15, G:0.10, T:0.65
Consensus pattern (75 bp):
TTTTTCTTTTTTTTCTTCTTTTCTCGCTTTTTTTTGGTGGAGCACATTGGCATTTTACCCCATCA
ATTTTTTTTT
Found at i:15075389 original size:11 final size:11
Alignment explanation
Indices: 15075349--15075377 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
15075339 CATCAATTTC
15075349 TCTTTTTTTTT
1 TCTTTTTTTTT
15075360 TCTTTTTTTTT
1 TCTTTTTTTTT
15075371 TCTTTTT
1 TCTTTTT
15075378 GCTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:15075460 original size:52 final size:53
Alignment explanation
Indices: 15075366--15075473 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 53
15075356 TTTTTCTTTT
* ** * *** * *
15075366 TTTTTTCTTTTTGCTTTTTTTTTGTGGAGCACATTGGTATTTTGCCCTATCAA
1 TTTTTTCTTTTTACTTTTTTTCGGTGGAACACATTAACATTTTACCCCATCAA
15075419 TTTTTT-TTTTTACTTTTTTTCGGTGGAACACATTAACATTTTACCCCATCAA
1 TTTTTTCTTTTTACTTTTTTTCGGTGGAACACATTAACATTTTACCCCATCAA
15075471 TTT
1 TTT
15075474 CTCCTTCATT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
52 40 0.87
53 6 0.13
ACGTcount: A:0.18, C:0.17, G:0.11, T:0.55
Consensus pattern (53 bp):
TTTTTTCTTTTTACTTTTTTTCGGTGGAACACATTAACATTTTACCCCATCAA
Found at i:15080131 original size:94 final size:95
Alignment explanation
Indices: 15079947--15080142 Score: 234
Period size: 94 Copynumber: 2.1 Consensus size: 95
15079937 ATATTTTAAA
* *
15079947 AAATTTTAAAAAATAGTTTTTTTTTCTTACCAAACAATTGGAGGATTTTAATTTTAAATTATGAA
1 AAATTTTAAAAAATAGTTTTTTTTTCCTACCAAACAATTGGAGAATTTTAATTTTAAATTATGAA
*** *
15080012 TTCTATTGAACGATTGAAAATTTTCATAAT
66 TTCTACCAAACGATTGAAAATTTTCAAAAT
* * * ** *
15080042 GAATTTTGAAAAATAG-TTTTTTTTCCTACTAAATGATTGGAGAATTTTAATTTTAAATTATGGA
1 AAATTTTAAAAAATAGTTTTTTTTTCCTACCAAACAATTGGAGAATTTTAATTTTAAATTATGAA
** *
15080106 TTCTACCAAATTATTGGAGAA-TTTCAAAAT
66 TTCTACCAAACGATT-GAAAATTTTCAAAAT
15080136 AAATTTT
1 AAATTTT
15080143 TGTGAAATTA
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
94 66 0.79
95 18 0.21
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (95 bp):
AAATTTTAAAAAATAGTTTTTTTTTCCTACCAAACAATTGGAGAATTTTAATTTTAAATTATGAA
TTCTACCAAACGATTGAAAATTTTCAAAAT
Found at i:15086349 original size:6 final size:6
Alignment explanation
Indices: 15086346--15086380 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
15086336 TCTTTTTTCA
*
15086346 TTTTAT TTTTAT TTTTATT TTTTAA TTTTAT TTTT
1 TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTT
15086381 TAGCTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:15086354 original size:13 final size:12
Alignment explanation
Indices: 15086332--15086403 Score: 60
Period size: 13 Copynumber: 6.0 Consensus size: 12
15086322 CGATCGTAAG
*
15086332 ATTTTCTTTTTT
1 ATTTTATTTTTT
15086344 CATTTTA-TTTTT
1 -ATTTTATTTTTT
15086356 ATTTTTATTTTTT
1 A-TTTTATTTTTT
15086369 AATTTTATTTTTT
1 -ATTTTATTTTTT
** *
15086382 AGCTCA--TTTT
1 ATTTTATTTTTT
15086392 ATTTTATTTTTT
1 ATTTTATTTTTT
15086404 TGGTTTTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
10 7 0.15
11 1 0.02
12 17 0.36
13 21 0.45
14 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:15086367 original size:25 final size:25
Alignment explanation
Indices: 15086333--15086380 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15086323 GATCGTAAGA
* *
15086333 TTTTCTTTTTTCATTTTATTTTTAT
1 TTTTATTTTTTAATTTTATTTTTAT
15086358 TTTTATTTTTTAATTTTATTTTT
1 TTTTATTTTTTAATTTTATTTTT
15086381 TAGCTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTATTTTTTAATTTTATTTTTAT
Found at i:15086426 original size:35 final size:36
Alignment explanation
Indices: 15086352--15086429 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
15086342 TTCATTTTAT
* **
15086352 TTTTATTTTTATTTTTTAATTTTATTTTTTAGCTCA
1 TTTTATTTTTATTTTTTAATTTTATTTTTGAGCAAA
**
15086388 TTTTA-TTTTATTTTTTTGGTTTTATTTTTGAG-AAA
1 TTTTATTTTTA-TTTTTTAATTTTATTTTTGAGCAAA
15086423 TTTTATT
1 TTTTATT
15086430 ATTTTGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 11 0.31
36 24 0.69
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (36 bp):
TTTTATTTTTATTTTTTAATTTTATTTTTGAGCAAA
Found at i:15090925 original size:13 final size:14
Alignment explanation
Indices: 15090894--15090925 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15090884 AAAATGTACT
15090894 TTTTTAAAATTTTA
1 TTTTTAAAATTTTA
*
15090908 TTTTTGAAATTTTA
1 TTTTTAAAATTTTA
15090922 TTTT
1 TTTT
15090926 AAGGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTTTAAAATTTTA
Found at i:15090932 original size:72 final size:71
Alignment explanation
Indices: 15090854--15091039 Score: 236
Period size: 71 Copynumber: 2.6 Consensus size: 71
15090844 TTTTTTAAAA
*
15090854 AAGGAAAATCAG-TAC-TTCTAACTTTTCCGT-AAAATGTACTTTTTT-AAAATTTTATTTTTGA
1 AAGGAAAAT-AGATACTTTC-AACTTTTCC-TCAAAA--TACTTTTTTGAAAATTTTATTTTAGA
15090915 AATTTTATTTT
61 AATTTTATTTT
* * *
15090926 AAGGAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTTGAAAATTTTATTTTAGAAATTT
1 AAGGAAAATAGATACTTTCAACTTTTCCTCAAAATACTTTTTTGAAAATTTTATTTTAGAAATTT
15090991 TATTTT
66 TATTTT
* * *
15090997 AAAGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTT
1 AAGGAAAATAGATACTTTCAACTTTTCCTCAAAATACTTTTTT
15091040 TCTTGAAATT
Statistics
Matches: 104, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
70 8 0.08
71 69 0.66
72 24 0.23
73 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (71 bp):
AAGGAAAATAGATACTTTCAACTTTTCCTCAAAATACTTTTTTGAAAATTTTATTTTAGAAATTT
TATTTT
Done.