Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 29 of 39
Found at i:4216138 original size:28 final size:26
Alignment explanation
Indices: 4216093--4216147 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
4216083 TCAAATATAT
*
4216093 ATTTTTATTAATTATTAATTATATTTA
1 ATTTTTATTAATTATTAAATAT-TTTA
4216120 ATTTTTATTTAA-TATTTAAATATTTTA
1 ATTTTTA-TTAATTA-TTAAATATTTTA
4216147 A
1 A
4216148 AAAATTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTTATTAATTATTAAATATTTTA
Found at i:4216146 original size:27 final size:27
Alignment explanation
Indices: 4216074--4216147 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
4216064 TAAAAATAAT
* *
4216074 ATTATTAAATCAAATATATATTTTTATTA
1 ATTATTAAAT-ATATTTA-ATTTTTATTA
*
4216103 ATTATTAATTATATTTAATTTTTATTTA
1 ATTATTAAATATATTTAATTTTTA-TTA
4216131 A-TATTTAAATAT-TTTAA
1 ATTA-TTAAATATATTTAA
4216148 AAAATTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 14 0.36
28 16 0.41
29 9 0.23
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAATATATTTAATTTTTATTA
Found at i:4216369 original size:3 final size:3
Alignment explanation
Indices: 4216361--4216400 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4216351 TAGTTTGCTT
4216361 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4216401 ATAGTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4217354 original size:23 final size:23
Alignment explanation
Indices: 4217328--4217374 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4217318 AATTCTAAAA
4217328 AAAAAAT-TATAAATATTAAAATT
1 AAAAAATATATAAAT-TTAAAATT
**
4217351 AAAATTTATATAAATTTAAAATT
1 AAAAAATATATAAATTTAAAATT
4217374 A
1 A
4217375 TCTTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAAATATATAAATTTAAAATT
Found at i:4217623 original size:28 final size:31
Alignment explanation
Indices: 4217587--4217645 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 31
4217577 TAAAGAAAAT
4217587 TTTTAATC-T-ATATATTATAAAATT-TAATA
1 TTTTAATCTTAATAT-TTATAAAATTATAATA
*
4217616 TTTT-ATCTTAATATTTTTAAAATTATAATA
1 TTTTAATCTTAATATTTATAAAATTATAATA
4217646 AATAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 3 0.12
29 14 0.54
30 9 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTTAATCTTAATATTTATAAAATTATAATA
Found at i:4217912 original size:15 final size:14
Alignment explanation
Indices: 4217875--4217915 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
4217865 TGTGATAATT
4217875 TTTAAAATATAAAA
1 TTTAAAATATAAAA
*
4217889 TTTAAAATATTAAA
1 TTTAAAATATAAAA
4217903 TTTAATAATATAA
1 TTTAA-AATATAA
4217916 GAAGTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAAAATATAAAA
Found at i:4219010 original size:16 final size:17
Alignment explanation
Indices: 4218986--4219021 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4218976 TAAAAAACAA
*
4218986 ATCATATAAATATAAAT
1 ATCATATAAAAATAAAT
4219003 ATCA-ATAAAAATAAAT
1 ATCATATAAAAATAAAT
4219019 ATC
1 ATC
4219022 GAAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (17 bp):
ATCATATAAAAATAAAT
Found at i:4219673 original size:58 final size:58
Alignment explanation
Indices: 4219569--4219679 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
4219559 TTAAAATTAA
* * * *
4219569 TTAATTATAAAAATTAATTTTAATAAAAAATTATTAAGTTACATATAATTTTTTTATT
1 TTAATTATAAAAATTAAATTTAATAAAAAATTATTAAATTAAATATAAATTTTTTATT
* *
4219627 TTAATTATATAAATTAAATTT-AT-AATAATTATTTAAAATTAAATATAAATTTT
1 TTAATTATAAAAATTAAATTTAATAAAAAATTA-TT-AAATTAAATATAAATTTT
4219680 AAATTAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 7 0.16
57 4 0.09
58 34 0.76
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (58 bp):
TTAATTATAAAAATTAAATTTAATAAAAAATTATTAAATTAAATATAAATTTTTTATT
Found at i:4219684 original size:43 final size:44
Alignment explanation
Indices: 4219636--4219720 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
4219626 TTTAATTATA
* *
4219636 TAAATTAAATTTAT-AATAATTAT-TTA-AAATTAAATATAAATTT
1 TAAATT-AATTTATAAATAAATATATGACAAATTAAATA-AAATTT
4219679 TAAATTAATTTATAAATAAATATATGACAAATTAAATAAAAT
1 TAAATTAATTTATAAATAAATATATGACAAATTAAATAAAAT
4219721 ATTATTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
42 7 0.19
43 14 0.38
44 6 0.16
45 10 0.27
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (44 bp):
TAAATTAATTTATAAATAAATATATGACAAATTAAATAAAATTT
Found at i:4219846 original size:23 final size:24
Alignment explanation
Indices: 4219820--4219870 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
4219810 AATAAAATAA
* *
4219820 AAATAAAAAATTTTAAATGA-ATT
1 AAATAAAAAATCTTAAATCATATT
*
4219843 AAAT-ATAAATCTTAAATCATATT
1 AAATAAAAAATCTTAAATCATATT
4219866 AAATA
1 AAATA
4219871 TATTATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAAAAATCTTAAATCATATT
Found at i:4219857 original size:22 final size:23
Alignment explanation
Indices: 4219827--4219872 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
4219817 TAAAAATAAA
* *
4219827 AAATTTTAAATGA-ATTAAATAT
1 AAATCTTAAATCATATTAAATAT
4219849 AAATCTTAAATCATATTAAATAT
1 AAATCTTAAATCATATTAAATAT
4219872 A
1 A
4219873 TTATTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATCTTAAATCATATTAAATAT
Found at i:4220230 original size:13 final size:14
Alignment explanation
Indices: 4220207--4220335 Score: 53
Period size: 12 Copynumber: 9.6 Consensus size: 14
4220197 AATTAAAGTA
4220207 AAAATTAAATTAT-T
1 AAAA-TAAATTATAT
*
4220221 ATAATAAATTATAT
1 AAAATAAATTATAT
*
4220235 AAAATAAA-T-GAT
1 AAAATAAATTATAT
* *
4220247 AAATTAAGTTATGAT
1 AAAATAAATTAT-AT
*
4220262 AAAA-AAATT-TAA
1 AAAATAAATTATAT
4220274 AAAAT-AATTA-A-
1 AAAATAAATTATAT
* *
4220285 AATATGATATTATAT
1 AAAAT-AAATTATAT
*
4220300 -AAA-AAATAATAT
1 AAAATAAATTATAT
* *
4220312 AAATATAATTTTTAT
1 AAA-ATAAATTATAT
4220327 AAAAATAAA
1 -AAAATAAA
4220336 AAAATAAATT
Statistics
Matches: 83, Mismatches: 18, Indels: 27
0.65 0.14 0.21
Matches are distributed among these distances:
11 4 0.05
12 25 0.30
13 17 0.20
14 19 0.23
15 15 0.18
16 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
AAAATAAATTATAT
Found at i:4220327 original size:27 final size:28
Alignment explanation
Indices: 4220271--4220331 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
4220261 TAAAAAAATT
*
4220271 TAAAAAATAATTAAAATATGATATTATA
1 TAAAAAATAATTAAAATATAATATTATA
*
4220299 TAAAAAATAA-TATAAATATAAT-TTTTA
1 TAAAAAATAATTA-AAATATAATATTATA
4220326 TAAAAA
1 TAAAAA
4220332 TAAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
TAAAAAATAATTAAAATATAATATTATA
Found at i:4221893 original size:19 final size:20
Alignment explanation
Indices: 4221869--4221909 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4221859 TTTTAAAATT
4221869 TTTTAA-ATAATAAATAAAA
1 TTTTAATATAATAAATAAAA
* *
4221888 TTTTAATTTAATAAATCAAA
1 TTTTAATATAATAAATAAAA
4221908 TT
1 TT
4221910 AAATTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTTAATATAATAAATAAAA
Found at i:4221899 original size:20 final size:19
Alignment explanation
Indices: 4221876--4221924 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
4221866 ATTTTTTAAA
*
4221876 TAATAAATAAAATTTTAATT
1 TAATAAATAAAA-TTAAATT
*
4221896 TAATAAATCAAATTAAATT
1 TAATAAATAAAATTAAATT
4221915 TAAATAAATA
1 T-AATAAATA
4221925 TTTTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATAAATAAAATTAAATT
Found at i:4221924 original size:24 final size:24
Alignment explanation
Indices: 4221872--4221924 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
4221862 TAAAATTTTT
*
4221872 TAAAT-AATAAATAAAATTTTAAT
1 TAAATAAATAAATAAAATTTTAAA
* *
4221895 TTAATAAATCAAATTAAA-TTTAAA
1 TAAATAAAT-AAATAAAATTTTAAA
4221919 TAAATA
1 TAAATA
4221925 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 4 0.17
24 13 0.54
25 7 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAATAAATAAATAAAATTTTAAA
Found at i:4222388 original size:6 final size:6
Alignment explanation
Indices: 4222377--4222427 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
4222367 TTCAGTTTTA
* *
4222377 TAAATT TAAATT TAAATTT TAAATA TAATTTTT TAAATT T-AATT TAAATT
1 TAAATT TAAATT TAAA-TT TAAATT TAA--ATT TAAATT TAAATT TAAATT
4222427 T
1 T
4222428 TTTTAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 5 0.14
6 22 0.59
7 6 0.16
8 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TAAATT
Found at i:4222394 original size:12 final size:12
Alignment explanation
Indices: 4222377--4222427 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
4222367 TTCAGTTTTA
4222377 TAAATTTAAATT
1 TAAATTTAAATT
*
4222389 TAAATTTTAAATA
1 TAAA-TTTAAATT
*
4222402 TAATTTTTTAAATT
1 TAA--ATTTAAATT
4222416 T-AATTTAAATT
1 TAAATTTAAATT
4222427 T
1 T
4222428 TTTTAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
11 9 0.28
12 4 0.12
13 11 0.34
14 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAAATTTAAATT
Found at i:4222668 original size:16 final size:17
Alignment explanation
Indices: 4222640--4222674 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
4222630 CAAATAATAC
4222640 ATATAATTATTTTTAAA
1 ATATAATTATTTTTAAA
4222657 ATATAA-TATTTTTAAA
1 ATATAATTATTTTTAAA
4222673 AT
1 AT
4222675 TAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATAATTATTTTTAAA
Found at i:4222717 original size:53 final size:52
Alignment explanation
Indices: 4222646--4222748 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 52
4222636 ATACATATAA
**
4222646 TTATTTTTAAAATATAATATTTTTAAAATTAAATATAA-ATAAATTTATATTT
1 TTATTTTTAAAATATAATA-TCATAAAATTAAATATAATATAAATTTATATTT
* *
4222698 TTATTTATTAATAA-ATAATATCATATAATTTAATATAATATAAATTTATAT
1 TTATTT-TTAA-AATATAATATCATAAAATTAAATATAATATAAATTTATAT
4222749 ATTGATAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
52 20 0.45
53 22 0.50
54 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (52 bp):
TTATTTTTAAAATATAATATCATAAAATTAAATATAATATAAATTTATATTT
Found at i:4222756 original size:16 final size:16
Alignment explanation
Indices: 4222713--4222749 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4222703 TATTAATAAA
*
4222713 TAATATCATAT-AATT
1 TAATATAATATAAATT
4222728 TAATATAATATAAATT
1 TAATATAATATAAATT
4222744 T-ATATA
1 TAATATA
4222750 TTGATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATAATATAAATT
Found at i:4222969 original size:22 final size:23
Alignment explanation
Indices: 4222944--4222987 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
4222934 AATATTATTG
*
4222944 TTATTAAAATTT-TATTTTAAAT
1 TTATAAAAATTTATATTTTAAAT
4222966 TTATAAAAATTTATATTTTAAA
1 TTATAAAAATTTATATTTTAAA
4222988 AATAATTACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATAAAAATTTATATTTTAAAT
Found at i:4222992 original size:21 final size:21
Alignment explanation
Indices: 4222949--4222992 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
4222939 TATTGTTATT
*
4222949 AAAATTTTATTTTAAATTTATA
1 AAAATTTTATTTTAAA-TAATA
4222971 AAAATTTATATTTTAAA-AATA
1 AAAATTT-TATTTTAAATAATA
4222992 A
1 A
4222993 TTACGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAATTTTATTTTAAATAATA
Found at i:4223602 original size:24 final size:24
Alignment explanation
Indices: 4223557--4223604 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4223547 TTAATTATTA
4223557 AATATATAAATAATATTTTTAATT
1 AATATATAAATAATATTTTTAATT
4223581 AATATA-AAAT-ATATTATATTAATT
1 AATATATAAATAATATT-T-TTAATT
4223605 TAAAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 5 0.23
24 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATATAAATAATATTTTTAATT
Found at i:4223679 original size:19 final size:19
Alignment explanation
Indices: 4223626--4223689 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 19
4223616 ATAAGTAATG
* *
4223626 AATATTATTATTAAATTTA
1 AATATTAATATTAAATTAA
*
4223645 AA-AGTAAT-TT--ATTAA
1 AATATTAATATTAAATTAA
4223660 AATATTAATATTAAATTAA
1 AATATTAATATTAAATTAA
* *
4223679 ATTATAAATAT
1 AATATTAATAT
4223690 ATATTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
15 6 0.17
16 5 0.14
17 4 0.11
18 4 0.11
19 16 0.46
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AATATTAATATTAAATTAA
Found at i:4223681 original size:28 final size:28
Alignment explanation
Indices: 4223657--4223713 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
4223647 AGTAATTTAT
4223657 TAAA-ATAT-TAATATTAAATTAAATTA
1 TAAATATATATAATATTAAATTAAATTA
*
4223683 TAAATATATATTATATTAAA-TATAATTA
1 TAAATATATATAATATTAAATTA-AATTA
4223711 TAA
1 TAA
4223714 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 4 0.15
27 6 0.22
28 17 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAATATATATAATATTAAATTAAATTA
Found at i:4223704 original size:16 final size:15
Alignment explanation
Indices: 4223649--4223712 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 15
4223639 AATTTAAAAG
4223649 TAATT-TATTAAA-A
1 TAATTATATTAAATA
4223662 T-ATTAATATTAAAT-
1 TAATT-ATATTAAATA
*
4223676 TAAAT-TA-TAAATA
1 TAATTATATTAAATA
4223689 TATATTATATTAAATA
1 TA-ATTATATTAAATA
4223705 TAATTATA
1 TAATTATA
4223713 ATTTAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
12 8 0.20
13 5 0.12
14 10 0.24
15 10 0.24
16 8 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATATTAAATA
Found at i:4223710 original size:33 final size:34
Alignment explanation
Indices: 4223635--4223753 Score: 95
Period size: 33 Copynumber: 3.4 Consensus size: 34
4223625 GAATATTATT
*
4223635 ATTAAATTTAAA-AGTAATTTATTAAAATATTAATATTAA
1 ATTAAATTTAAATA-TAA--TA-TAAATTATTAA-ATT-A
*
4223674 ATTAAATTATAAATAT-ATAT-TA-TATTAAATATA
1 ATTAAATT-TAAATATAATATAAATTATTAAAT-TA
*
4223707 ATTATAATTTAAAAATAATATAAATTATTAAATT-
1 ATTA-AATTTAAATATAATATAAATTATTAAATTA
4223741 ATTAAATTTAAAT
1 ATTAAATTTAAAT
4223754 CAAAGTAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
33 21 0.30
34 19 0.28
35 3 0.04
36 9 0.13
37 2 0.03
39 9 0.13
40 5 0.07
41 1 0.01
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.45
Consensus pattern (34 bp):
ATTAAATTTAAATATAATATAAATTATTAAATTA
Found at i:4223885 original size:7 final size:7
Alignment explanation
Indices: 4223873--4223911 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
4223863 TCAGTTTTAA
4223873 ATAAAAT
1 ATAAAAT
4223880 ATAAAAT
1 ATAAAAT
4223887 ATAAAAT
1 ATAAAAT
4223894 -TAAAAT
1 ATAAAAT
4223900 -T-AAAT
1 ATAAAAT
4223905 -TAAAAT
1 ATAAAAT
4223911 A
1 A
4223912 AATCAAACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 11 0.37
7 14 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAAAAT
Found at i:4225249 original size:15 final size:16
Alignment explanation
Indices: 4225229--4225261 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4225219 GAGGGTGGAT
4225229 AATTTTTTAAATT-TA
1 AATTTTTTAAATTATA
*
4225244 AATTTTTTTAATTATA
1 AATTTTTTAAATTATA
4225260 AA
1 AA
4225262 AATACGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTTTTAAATTATA
Found at i:4225567 original size:13 final size:13
Alignment explanation
Indices: 4225549--4225587 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4225539 AAAAATTTAA
4225549 ATTTTATAATTTT
1 ATTTTATAATTTT
* *
4225562 ATTTTATTATTAT
1 ATTTTATAATTTT
*
4225575 ATTTTTTAATTTT
1 ATTTTATAATTTT
4225588 GTGACATTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTATAATTTT
Found at i:4225905 original size:13 final size:14
Alignment explanation
Indices: 4225875--4225906 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4225865 TTAAATCGAA
4225875 AAATTTTAAAATTC
1 AAATTTTAAAATTC
4225889 -AATTTT-AAATTC
1 AAATTTTAAAATTC
4225901 AAATTT
1 AAATTT
4225907 GATTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTTTAAAATTC
Found at i:4227181 original size:15 final size:15
Alignment explanation
Indices: 4227161--4227203 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
4227151 ATTTATTAAA
4227161 AAATTAAATTATTTT
1 AAATTAAATTATTTT
*
4227176 AAATTAAATTAATTT
1 AAATTAAATTATTTT
*
4227191 AAAATAATATTAT
1 AAATTAA-ATTAT
4227204 ATAATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTAAATTATTTT
Found at i:4227223 original size:35 final size:33
Alignment explanation
Indices: 4227173--4227267 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 33
4227163 ATTAAATTAT
4227173 TTTAAATTAAA-TTAATTTAAAATAATATTATATAA
1 TTTAAA-TAAATTTAATTTAAAATAA-ATT-TATAA
* *
4227208 TTTAAATAAATTTAATTT-AATTTAATTTATAA
1 TTTAAATAAATTTAATTTAAAATAAATTTATAA
* *
4227240 TTTAAGTAATATTTTATTTAAAATAAAT
1 TTTAAATAA-ATTTAATTTAAAATAAAT
4227268 AATAAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
32 13 0.25
33 11 0.22
34 14 0.27
35 13 0.25
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (33 bp):
TTTAAATAAATTTAATTTAAAATAAATTTATAA
Found at i:4227228 original size:20 final size:20
Alignment explanation
Indices: 4227175--4227232 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
4227165 TAAATTATTT
*
4227175 TAAA-TTAAATTAATTTAAA
1 TAAATTTAATTTAATTTAAA
*
4227194 -ATAATATT-ATATAATTTAAA
1 TA-AAT-TTAATTTAATTTAAA
4227214 TAAATTTAATTTAATTTAA
1 TAAATTTAATTTAATTTAA
4227233 TTTATAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
18 1 0.03
19 4 0.13
20 23 0.74
21 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAATTTAATTTAATTTAAA
Found at i:4229283 original size:10 final size:10
Alignment explanation
Indices: 4229270--4229309 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
4229260 TAATTATTTT
4229270 TTTAAATTAA
1 TTTAAATTAA
*
4229280 TTTAAATAAAA
1 TTTAAAT-TAA
*
4229291 TTTAAATTTA
1 TTTAAATTAA
4229301 TTTAAATTA
1 TTTAAATTA
4229310 TTATTGAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTAAATTAA
Found at i:4229389 original size:13 final size:14
Alignment explanation
Indices: 4229361--4229393 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4229351 TAAATAAGAA
*
4229361 TATTTTTAAATTTT
1 TATTTTTAAATATT
4229375 TATTTTT-AATATT
1 TATTTTTAAATATT
4229388 TATTTT
1 TATTTT
4229394 AATTCATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTTTAAATATT
Found at i:4229460 original size:25 final size:25
Alignment explanation
Indices: 4229432--4229481 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4229422 TTTAAATTTA
4229432 AAATTAAAATTTATTTT-TATCAAAT
1 AAATTAAAATTT-TTTTATATCAAAT
* *
4229457 AAATTAATATTTTTTTATCTCAAAT
1 AAATTAAAATTTTTTTATATCAAAT
4229482 CAACCACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (25 bp):
AAATTAAAATTTTTTTATATCAAAT
Found at i:4232188 original size:2 final size:2
Alignment explanation
Indices: 4232181--4232211 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4232171 TTTATCACCT
4232181 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4232212 TTGTCGACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4232909 original size:3 final size:3
Alignment explanation
Indices: 4232903--4232971 Score: 79
Period size: 3 Copynumber: 23.3 Consensus size: 3
4232893 TTACGTTGAA
* ** *
4232903 AAT AAT AA- AA- AAT AAA AAT AAT TTT AAT CAGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
4232947 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
4232972 GCATTGCAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 4 0.07
3 50 0.89
4 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4233742 original size:20 final size:20
Alignment explanation
Indices: 4233719--4233757 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4233709 TTTTATATTT
4233719 TTTAA-AAAATAATTATTATA
1 TTTAATAAAAT-ATTATTATA
*
4233739 TTTAATACAATATTATTAT
1 TTTAATAAAATATTATTAT
4233758 TATAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTAATAAAATATTATTATA
Found at i:4233771 original size:20 final size:18
Alignment explanation
Indices: 4233725--4233773 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
4233715 ATTTTTTAAA
4233725 AAATAAT-TATTATATTT
1 AAATAATATATTATATTT
4233742 -AATACA-ATATTATTATTAT
1 AAATA-ATATATTA-TATT-T
4233761 AAATAATATATTA
1 AAATAATATATTA
4233774 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 4 0.15
17 6 0.23
18 4 0.15
19 2 0.08
20 10 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAATATATTATATTT
Found at i:4239035 original size:32 final size:32
Alignment explanation
Indices: 4238999--4239060 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
4238989 TAATTTATAT
* *
4238999 AATTA-TTATATAATATTTAATAAATAAAAAAC
1 AATTATTTATATAAAATAT-ATAAATAAAAAAC
*
4239031 AATTATTTATTTAAAATATATAAATAAAAA
1 AATTATTTATATAAAATATATAAATAAAAA
4239061 TTAATTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
AATTATTTATATAAAATATATAAATAAAAAAC
Found at i:4239386 original size:14 final size:14
Alignment explanation
Indices: 4239369--4239398 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4239359 TTTTACTCTT
*
4239369 TTTTTTTTAATTAA
1 TTTTTTATAATTAA
4239383 TTTTTTATAATTAA
1 TTTTTTATAATTAA
4239397 TT
1 TT
4239399 AATCAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTATAATTAA
Found at i:4241388 original size:18 final size:16
Alignment explanation
Indices: 4241349--4241379 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4241339 TTGTTTCATT
*
4241349 TTTTTTAACAAAATAA
1 TTTTTTAAAAAAATAA
4241365 TTTTTTAAAAAAATA
1 TTTTTTAAAAAAATA
4241380 TTATTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTTTAAAAAAATAA
Found at i:4246277 original size:50 final size:50
Alignment explanation
Indices: 4246202--4246560 Score: 591
Period size: 50 Copynumber: 7.2 Consensus size: 50
4246192 AGTTGTTGTC
*
4246202 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
4246252 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
4246302 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
4246352 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
4246402 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
4246452 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
4246502 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
4246552 ATTGTTGAC
1 ATTGTTGAC
4246561 TCTAAGTATA
Statistics
Matches: 291, Mismatches: 11, Indels: 14
0.92 0.03 0.04
Matches are distributed among these distances:
49 1 0.00
50 288 0.99
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:4246375 original size:100 final size:100
Alignment explanation
Indices: 4246202--4246560 Score: 684
Period size: 100 Copynumber: 3.6 Consensus size: 100
4246192 AGTTGTTGTC
* *
4246202 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTC
4246266 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
65 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
4246302 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
4246367 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
4246402 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
4246467 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
4246502 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
4246561 TCTAAGTATA
Statistics
Matches: 256, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
100 254 0.99
101 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (100 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:4250980 original size:50 final size:50
Alignment explanation
Indices: 4250905--4251263 Score: 591
Period size: 50 Copynumber: 7.2 Consensus size: 50
4250895 AGTTGTTGTC
*
4250905 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
4250955 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
4251005 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
4251055 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
4251105 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
4251155 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
4251205 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
4251255 ATTGTTGAC
1 ATTGTTGAC
4251264 TCTAAGTATA
Statistics
Matches: 291, Mismatches: 11, Indels: 14
0.92 0.03 0.04
Matches are distributed among these distances:
49 1 0.00
50 288 0.99
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:4251078 original size:100 final size:100
Alignment explanation
Indices: 4250905--4251263 Score: 684
Period size: 100 Copynumber: 3.6 Consensus size: 100
4250895 AGTTGTTGTC
* *
4250905 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTC
4250969 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
65 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
4251005 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
4251070 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
4251105 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
4251170 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
4251205 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
4251264 TCTAAGTATA
Statistics
Matches: 256, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
100 254 0.99
101 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (100 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:4257464 original size:2 final size:2
Alignment explanation
Indices: 4257457--4257488 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4257447 CATTGATGTG
4257457 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
4257489 TTTAAAGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4258424 original size:34 final size:34
Alignment explanation
Indices: 4258372--4258520 Score: 163
Period size: 34 Copynumber: 4.4 Consensus size: 34
4258362 ATTTATCATT
*
4258372 GATTTGGTGGTTTATCATTATTGACTAAATGAGA
1 GATTTGGTAGTTTATCATTATTGACTAAATGAGA
* * * * *
4258406 GATTTGGTAATTTGTCATTGTTGATTAAATGAGT
1 GATTTGGTAGTTTATCATTATTGACTAAATGAGA
** *
4258440 GATTTAATACTTTATCATTATTGACTAAATGAGA
1 GATTTGGTAGTTTATCATTATTGACTAAATGAGA
* * * * *
4258474 GATTTGATAGTTTACCATTATTGATTAAATGGGT
1 GATTTGGTAGTTTATCATTATTGACTAAATGAGA
*
4258508 GATTTGGTGGTTT
1 GATTTGGTAGTTT
4258521 TTACCAAACT
Statistics
Matches: 94, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 94 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.44
Consensus pattern (34 bp):
GATTTGGTAGTTTATCATTATTGACTAAATGAGA
Found at i:4258498 original size:68 final size:68
Alignment explanation
Indices: 4258382--4258512 Score: 208
Period size: 68 Copynumber: 1.9 Consensus size: 68
4258372 GATTTGGTGG
* ** *
4258382 TTTATCATTATTGACTAAATGAGAGATTTGGTAATTTGTCATTGTTGATTAAATGAGTGATTTAA
1 TTTATCATTATTGACTAAATGAGAGATTTGATAATTTACCATTATTGATTAAATGAGTGATTTAA
4258447 TAC
66 TAC
* *
4258450 TTTATCATTATTGACTAAATGAGAGATTTGATAGTTTACCATTATTGATTAAATGGGTGATTT
1 TTTATCATTATTGACTAAATGAGAGATTTGATAATTTACCATTATTGATTAAATGAGTGATTT
4258513 GGTGGTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (68 bp):
TTTATCATTATTGACTAAATGAGAGATTTGATAATTTACCATTATTGATTAAATGAGTGATTTAA
TAC
Found at i:4263039 original size:34 final size:34
Alignment explanation
Indices: 4262976--4263192 Score: 247
Period size: 34 Copynumber: 6.4 Consensus size: 34
4262966 GTTTGTCATT
* * * * *
4262976 GATTTGGTGGTTTACTATTATTGACTAAATGGAA
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGGGA
* * *
4263010 GATTTGGTAGTTTGTCATTGTTGATTAAATGGGT
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGGGA
* *
4263044 GATTTGGTGGTTTACCATTGTTGACTAAATGGGA
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGGGA
* *
4263078 GATTTGGTAGTTTGCCATTGTTGATTAAATGGGT
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGGGA
* *
4263112 GATTTGGTGGTTTGCTATTGTTGACTAAATGGGA
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGGGA
* * * *
4263146 GATTTGATAATTTACCATTGTTGATTAAAT-GGA
1 GATTTGGTAGTTTGCCATTGTTGACTAAATGGGA
*
4263179 TGATTTGGTGGTTT
1 -GATTTGGTAGTTT
4263193 TTACCAAATA
Statistics
Matches: 152, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
33 3 0.02
34 149 0.98
ACGTcount: A:0.24, C:0.06, G:0.28, T:0.43
Consensus pattern (34 bp):
GATTTGGTAGTTTGCCATTGTTGACTAAATGGGA
Found at i:4263084 original size:68 final size:68
Alignment explanation
Indices: 4262975--4263192 Score: 355
Period size: 68 Copynumber: 3.2 Consensus size: 68
4262965 AGTTTGTCAT
* * *
4262975 TGATTTGGTGGTTTACTATTATTGACTAAATGGAAGATTTGGTAGTTTGTCATTGTTGATTAAAT
1 TGATTTGGTGGTTTACTATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
4263040 GGG
66 GGG
*
4263043 TGATTTGGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
1 TGATTTGGTGGTTTACTATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
4263108 GGG
66 GGG
* * * *
4263111 TGATTTGGTGGTTTGCTATTGTTGACTAAATGGGAGATTTGATAATTTACCATTGTTGATTAAAT
1 TGATTTGGTGGTTTACTATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
*
4263176 GGA
66 GGG
4263179 TGATTTGGTGGTTT
1 TGATTTGGTGGTTT
4263193 TTACCAAATA
Statistics
Matches: 140, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 140 1.00
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.44
Consensus pattern (68 bp):
TGATTTGGTGGTTTACTATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
GGG
Found at i:4263160 original size:102 final size:102
Alignment explanation
Indices: 4262975--4263192 Score: 278
Period size: 102 Copynumber: 2.1 Consensus size: 102
4262965 AGTTTGTCAT
* *
4262975 TGATTTGGTGGTTTACTATTATTGACTAAATGGAAGATTTGGTAGTTTGTCATTGTTGATTAAAT
1 TGATTTGGTGGTTTACCATTATTGACTAAATGGAAGATTTGGTAGTTTGTCATTGTTGACTAAAT
* * **
4263040 GGGTGATTTGGTGGTTTACCATTGTTGACTAAATGGGA
66 GGGAGATTTGATAATTTACCATTGTTGACTAAAT-GGA
* * * * ** *
4263078 -GATTTGGTAGTTTGCCATTGTTGATTAAATGGGTGATTTGGTGGTTTG-CTATTGTTGACTAAA
1 TGATTTGGTGGTTTACCATTATTGACTAAATGGAAGATTTGGTAGTTTGTC-ATTGTTGACTAAA
*
4263141 TGGGAGATTTGATAATTTACCATTGTTGATTAAATGGA
65 TGGGAGATTTGATAATTTACCATTGTTGACTAAATGGA
4263179 TGATTTGGTGGTTT
1 TGATTTGGTGGTTT
4263193 TTACCAAATA
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
101 4 0.04
102 94 0.96
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.44
Consensus pattern (102 bp):
TGATTTGGTGGTTTACCATTATTGACTAAATGGAAGATTTGGTAGTTTGTCATTGTTGACTAAAT
GGGAGATTTGATAATTTACCATTGTTGACTAAATGGA
Found at i:4264357 original size:12 final size:12
Alignment explanation
Indices: 4264340--4264378 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4264330 TATCATAATT
4264340 TAATTATTATAA
1 TAATTATTATAA
*
4264352 TAATTATTATAT
1 TAATTATTATAA
* *
4264364 TTATAATTATAA
1 TAATTATTATAA
4264376 TAA
1 TAA
4264379 ATTTAATACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TAATTATTATAA
Found at i:4265703 original size:20 final size:20
Alignment explanation
Indices: 4265680--4265719 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4265670 AATAAATAAT
4265680 ATTTAAAT-TTAATTATAAAA
1 ATTTAAATATTAA-TATAAAA
*
4265700 ATTTATATATTAATATAAAA
1 ATTTAAATATTAATATAAAA
4265720 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAATATTAATATAAAA
Found at i:4268442 original size:1 final size:1
Alignment explanation
Indices: 4268436--4268464 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
4268426 CATAGACTTG
4268436 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4268465 CTTTGAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4271569 original size:15 final size:14
Alignment explanation
Indices: 4271549--4271582 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
4271539 TTATATAAAA
4271549 ATATTAATATATATT
1 ATATTAATATATA-T
*
4271564 ATATTAATATTTAT
1 ATATTAATATATAT
4271578 ATATT
1 ATATT
4271583 TATAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTAATATATAT
Found at i:4271572 original size:21 final size:21
Alignment explanation
Indices: 4271548--4271591 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4271538 ATTATATAAA
4271548 AATATTAATATATATTAT-ATT
1 AATATTAATATAT-TTATAATT
*
4271569 AATATTTATATATTTATAATT
1 AATATTAATATATTTATAATT
4271590 AA
1 AA
4271592 ATTTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTAATATATTTATAATT
Found at i:4272510 original size:11 final size:10
Alignment explanation
Indices: 4272480--4272524 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
4272470 TAAAAATAAA
*
4272480 ATATATTTTT
1 ATATATATTT
4272490 ATATATATTT
1 ATATATATTT
4272500 ATATCATATTT
1 ATAT-ATATTT
4272511 ATAT-TATTT
1 ATATATATTT
4272520 -TATAT
1 ATATAT
4272525 TATCATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 3 0.09
9 6 0.19
10 13 0.41
11 10 0.31
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATATATTT
Found at i:4272525 original size:10 final size:10
Alignment explanation
Indices: 4272486--4272616 Score: 56
Period size: 10 Copynumber: 12.6 Consensus size: 10
4272476 TAAAATATAT
4272486 TTTTATA-TA
1 TTTTATATTA
*
4272495 TATTTATATCA
1 T-TTTATATTA
4272506 TATTTATATTA
1 T-TTTATATTA
4272517 TTTTATATTA
1 TTTTATATTA
* *
4272527 --TCATAATA
1 TTTTATATTA
* *
4272535 -TTTAAAATA
1 TTTTATATTA
*
4272544 TTTTATATGAA
1 TTTTATAT-TA
4272555 TTTTAACGTATTCA
1 TTTT-A--TATT-A
4272569 TATATTAATATTA
1 T-T-TT-ATATTA
4272582 TTTT-TATTA
1 TTTTATATTA
* *
4272591 TATCATATTA
1 TTTTATATTA
*
4272601 TATTATATTA
1 TTTTATATTA
4272611 TTTTAT
1 TTTTAT
4272617 TATCCAAAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
8 6 0.06
9 14 0.15
10 39 0.41
11 19 0.20
12 2 0.02
13 2 0.02
14 9 0.09
15 1 0.01
16 4 0.04
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTTATATTA
Found at i:4272603 original size:5 final size:5
Alignment explanation
Indices: 4272569--4272619 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
4272559 AACGTATTCA
* *
4272569 TATAT TAATAT TAT-T TTTAT TATAT CATAT TATAT TATAT TAT-T T-TAT
1 TATAT T-ATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
4272617 TAT
1 TAT
4272620 CCAAAATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 1 0.03
4 7 0.18
5 25 0.66
6 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:4272616 original size:15 final size:15
Alignment explanation
Indices: 4272569--4272616 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
4272559 AACGTATTCA
4272569 TATATTAATATTATTT
1 TATATT-ATATTATTT
* *
4272585 T-TATTATATCATAT
1 TATATTATATTATTT
4272599 TATATTATATTATTT
1 TATATTATATTATTT
4272614 TAT
1 TAT
4272617 TATCCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 8 0.30
15 18 0.67
16 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTATATTATTT
Found at i:4272793 original size:3 final size:3
Alignment explanation
Indices: 4272785--4272823 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4272775 AGCTTTTACA
4272785 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4272824 ACATTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4273810 original size:23 final size:22
Alignment explanation
Indices: 4273767--4273820 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
4273757 TTTAATAAAA
*
4273767 ATTTTAAAATTTATAATTTTTTT
1 ATTTTAAAATTTATAA-ATTTTT
*
4273790 ATTTTTAAA-TTATGAAATTTTT
1 ATTTTAAAATTTAT-AAATTTTT
*
4273812 ATTTAAAAA
1 ATTTTAAAA
4273821 AAAAAGCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTAAAATTTATAAATTTTT
Found at i:4277494 original size:21 final size:21
Alignment explanation
Indices: 4277474--4277512 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4277464 TAGAATTAAT
*
4277474 TAATATA-TTATTTATAATAA
1 TAATATATTTATTAATAATAA
*
4277494 TATTATATTTATTAATAAT
1 TAATATATTTATTAATAAT
4277513 TTTATTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATATATTTATTAATAATAA
Found at i:4277509 original size:18 final size:18
Alignment explanation
Indices: 4277468--4277517 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
4277458 TTTTTTTAGA
4277468 ATTAATTAATA-TATTATTT
1 ATTAA-TAATATTA-TATTT
4277487 A-TAATAATATTATATTT
1 ATTAATAATATTATATTT
*
4277504 ATTAATAATTTTAT
1 ATTAATAATATTAT
4277518 TAATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 11 0.39
18 16 0.57
19 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATAATATTATATTT
Found at i:4277516 original size:51 final size:51
Alignment explanation
Indices: 4277461--4277567 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 51
4277451 TCAAAATTTT
* *
4277461 TTTTA-GAATTAATTAATATATTATT-TATAATAATATTATATT-TATTAATAA
1 TTTTATGAATTAATTAA-AT-TTATTAAATAAAAATATTATATTATA-TAATAA
* * *
4277512 TTTTATTAATTATTTTAATTTATTAAATAAAAATATTATATTATATAATAA
1 TTTTATGAATTAATTAAATTTATTAAATAAAAATATTATATTATATAATAA
4277563 TTTTA
1 TTTTA
4277568 AAGAAAGTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
50 5 0.10
51 33 0.69
52 10 0.21
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (51 bp):
TTTTATGAATTAATTAAATTTATTAAATAAAAATATTATATTATATAATAA
Found at i:4277529 original size:21 final size:19
Alignment explanation
Indices: 4277477--4277530 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 19
4277467 AATTAATTAA
4277477 TATATTATTTATAATAATAT
1 TATATTATTT-TAATAATAT
* *
4277497 TATATT-TATTAATAATTT
1 TATATTATTTTAATAATAT
4277515 TATTAATTATTTTAAT
1 TA-T-ATTATTTTAAT
4277531 TTATTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 10 0.36
19 3 0.11
20 9 0.32
21 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTATTTTAATAATAT
Found at i:4277833 original size:20 final size:20
Alignment explanation
Indices: 4277810--4277878 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
4277800 ATATTATTTA
4277810 AAAATATTATATCAATTTTT
1 AAAATATTATATCAATTTTT
* * *
4277830 AAAAGATTA-ATCTAATATTA
1 AAAATATTATATC-AATTTTT
*
4277850 AAAATATT-TATTAATTTTTT
1 AAAATATTATATCAA-TTTTT
*
4277870 AAAAAATTA
1 AAAATATTA
4277879 ATGATAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
19 5 0.14
20 32 0.86
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (20 bp):
AAAATATTATATCAATTTTT
Found at i:4277951 original size:23 final size:23
Alignment explanation
Indices: 4277906--4277950 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4277896 TAGTTAATTG
4277906 TAAAAATAAATAAACATACAAAA
1 TAAAAATAAATAAACATACAAAA
4277929 TAAAAATAAA-AAA-ATCACAAAA
1 TAAAAATAAATAAACAT-ACAAAA
4277951 AGTCAGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 2 0.10
22 9 0.43
23 10 0.48
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.16
Consensus pattern (23 bp):
TAAAAATAAATAAACATACAAAA
Found at i:4278115 original size:11 final size:11
Alignment explanation
Indices: 4278095--4278167 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
4278085 AAATAAAATT
*
4278095 ATATATTATAA
1 ATATAATATAA
4278106 ATATAATATAA
1 ATATAATATAA
4278117 A-A-AAT-TAAA
1 ATATAATAT-AA
4278126 ATATAATATAA
1 ATATAATATAA
4278137 AT-TAATAT-A
1 ATATAATATAA
4278146 ATATAAATATAA
1 ATAT-AATATAA
4278158 A-ATAAATATA
1 ATAT-AATATA
4278168 TCAAAATTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 14
0.78 0.01 0.20
Matches are distributed among these distances:
8 1 0.02
9 9 0.17
10 9 0.17
11 32 0.59
12 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAATATAA
Found at i:4278129 original size:20 final size:20
Alignment explanation
Indices: 4278099--4278159 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
4278089 AAAATTATAT
4278099 ATTATAAATATAATATAAAAA
1 ATTA-AAATATAATATAAAAA
*
4278120 ATTAAAATATAATATAAATTA
1 ATTAAAATATAATATAAA-AA
*
4278141 A-TATAATATAAATATAAAA
1 ATTAAAATAT-AATATAAAA
4278160 TAAATATATC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTAAAATATAATATAAAAA
Found at i:4278181 original size:46 final size:45
Alignment explanation
Indices: 4278078--4278182 Score: 117
Period size: 46 Copynumber: 2.4 Consensus size: 45
4278068 TCTAATAATT
* * *
4278078 TCAAATTA-AATA-AAATTATATATTATAAATATAATATAAAAAA
1 TCAAAATATAATATAAATTATATAATATAAATATAAAATAAAAAA
* *
4278121 TTAAAATATAATATAAATTAATATAATATAAATATAAAATAAATATA
1 TCAAAATATAATATAAATT-ATATAATATAAATATAAAATAAA-AAA
*
4278168 TCAAAAT-TTATATAA
1 TCAAAATATAATATAA
4278183 TATAAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
43 6 0.12
44 4 0.08
45 5 0.10
46 28 0.55
47 8 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (45 bp):
TCAAAATATAATATAAATTATATAATATAAATATAAAATAAAAAA
Found at i:4278187 original size:5 final size:5
Alignment explanation
Indices: 4278095--4278167 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
4278085 AAATAAAATT
* * *
4278095 ATATA TTATAA ATATA ATATA A-AAA ATTAAA ATATA ATATA A-ATTA
1 ATATA ATAT-A ATATA ATATA ATATA A-TATA ATATA ATATA ATA-TA
*
4278141 ATATA ATATAA ATATA AAATAA ATATA
1 ATATA ATAT-A ATATA ATAT-A ATATA
4278168 TCAAAATTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 33 0.60
6 18 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:4278191 original size:15 final size:15
Alignment explanation
Indices: 4278086--4278190 Score: 74
Period size: 15 Copynumber: 6.7 Consensus size: 15
4278076 TTTCAAATTA
4278086 AATA-AAATT-ATAT
1 AATATAAATTAATAT
*
4278099 ATTATAAATATAATAT
1 AATATAAAT-TAATAT
4278115 AA-A-AAATTAAAATAT
1 AATATAAATT--AATAT
4278130 AATATAAATTAATAT
1 AATATAAATTAATAT
*
4278145 AATATAAATATAAAATAA
1 AATATAAAT-T--AATAT
*
4278163 ATATATCAAAATTTATAT
1 A-ATAT--AAATTAATAT
4278181 AATATAAATT
1 AATATAAATT
4278191 TTTAATATAT
Statistics
Matches: 74, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
13 4 0.05
14 8 0.11
15 28 0.38
16 7 0.09
17 9 0.12
18 9 0.12
19 4 0.05
20 1 0.01
21 4 0.05
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATAAATTAATAT
Found at i:4278205 original size:46 final size:48
Alignment explanation
Indices: 4278095--4278205 Score: 111
Period size: 51 Copynumber: 2.2 Consensus size: 48
4278085 AAATAAAATT
4278095 ATATATTATAAATATAATATAAAAAATTAAAATATAATATAAATTAATATA
1 ATATATTA-AAATATAATATAAAAAATT-AAATATAATATAAATT-ATATA
* * *
4278146 ATATAAATATAAAATA-AATATATCAAAATT-TATATAATATAAATT-TTTA
1 ATAT--AT-TAAAATATAATATA-AAAAATTAAATATAATATAAATTATATA
4278195 ATATATTAAAA
1 ATATATTAAAA
4278206 CCTATTAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
46 5 0.09
47 2 0.04
49 7 0.13
51 18 0.34
52 6 0.11
53 13 0.25
54 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (48 bp):
ATATATTAAAATATAATATAAAAAATTAAATATAATATAAATTATATA
Found at i:4278250 original size:18 final size:20
Alignment explanation
Indices: 4278212--4278268 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
4278202 AAAACCTATT
* *
4278212 AAATATA-TAATTTTTTAAA
1 AAATATACTAATATTATAAA
*
4278231 AAATTTA-TAATA-TAT-AA
1 AAATATACTAATATTATAAA
4278248 AAATATACTAATATTATAAA
1 AAATATACTAATATTATAAA
4278268 A
1 A
4278269 TATAGTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 8 0.26
18 7 0.23
19 13 0.42
20 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATATACTAATATTATAAA
Found at i:4278269 original size:18 final size:18
Alignment explanation
Indices: 4278229--4278272 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4278219 TAATTTTTTA
*
4278229 AAAAATTTA-TAATATAT
1 AAAAATATACTAATATAT
4278246 AAAAATATACTAATAT-T
1 AAAAATATACTAATATAT
4278263 ATAAAATATA
1 A-AAAATATA
4278273 GTTCAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATATACTAATATAT
Found at i:4279585 original size:32 final size:33
Alignment explanation
Indices: 4279549--4279627 Score: 79
Period size: 35 Copynumber: 2.4 Consensus size: 33
4279539 AAATATTTTT
* **
4279549 ATATTAATA-ATTATAATTTATTTTAAATGAAA
1 ATATTAATATATAATAATTTAAATTAAATGAAA
*
4279581 ATATTATTATATATAATAATTTAAATTAAATTAAA
1 ATATTA--ATATATAATAATTTAAATTAAATGAAA
* *
4279616 TTATTAAAATAT
1 ATATTAATATAT
4279628 TTATTTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 6 0.16
33 5 0.13
34 3 0.08
35 24 0.63
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (33 bp):
ATATTAATATATAATAATTTAAATTAAATGAAA
Found at i:4279615 original size:40 final size:40
Alignment explanation
Indices: 4279538--4279616 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
4279528 TAAATTTTTA
* * **
4279538 AAAATATTTTTATATTAATAATTATAATTTATTTTAAATG
1 AAAATATTATTATATTAATAATTATAAATTAAATTAAATG
4279578 AAAATATTATTATATATAATAATT-TAAATTAAATTAAAT
1 AAAATATTATTATAT-TAATAATTATAAATTAAATTAAAT
4279617 TATTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 26 0.76
41 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (40 bp):
AAAATATTATTATATTAATAATTATAAATTAAATTAAATG
Found at i:4282326 original size:12 final size:13
Alignment explanation
Indices: 4282294--4282327 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
4282284 TTCAACACTA
4282294 TATTCCATTTGCT
1 TATTCCATTTGCT
4282307 T-TTCCATTTGCT
1 TATTCCATTTGCT
4282319 TATT-CATTT
1 TATTCCATTT
4282328 AGATAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.59
Consensus pattern (13 bp):
TATTCCATTTGCT
Found at i:4284684 original size:19 final size:19
Alignment explanation
Indices: 4284660--4284697 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
4284650 TGATTTAACT
4284660 TATTT-ATATAATTAATTAA
1 TATTTAATA-AATTAATTAA
4284679 TATTTAATAAATTAATTAA
1 TATTTAATAAATTAATTAA
4284698 ATTCAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTAATAAATTAATTAA
Found at i:4290026 original size:22 final size:22
Alignment explanation
Indices: 4289983--4290165 Score: 76
Period size: 20 Copynumber: 9.5 Consensus size: 22
4289973 AATTTAAATT
* *
4289983 ATTTTATATTTAAATGAGTTAA
1 ATTTTATATTTAAATTAATTAA
4290005 ATTTTATA-TT---TTAATT-A
1 ATTTTATATTTAAATTAATTAA
*
4290022 A-TTAAT-TTTAAATTAATTAA
1 ATTTTATATTTAAATTAATTAA
* *
4290042 ATTTAATATTTAAATTTATTAA
1 ATTTTATATTTAAATTAATTAA
* * *
4290064 ATTTAATTATTT---TTTATTTA
1 ATTTTA-TATTTAAATTAATTAA
*
4290084 A-TTTAT-TTTGAATTAATT--
1 ATTTTATATTTAAATTAATTAA
4290102 ATTTTA-A-TTAAATT-A-T--
1 ATTTTATATTTAAATTAATTAA
*
4290118 -TTTT-TA-TTAAATTAATTTA
1 ATTTTATATTTAAATTAATTAA
*
4290137 ATTTTA-A-ATAAATTAATTAA
1 ATTTTATATTTAAATTAATTAA
4290157 ATTTT-TATT
1 ATTTTATATT
4290166 AACTCAGAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 45
0.70 0.06 0.24
Matches are distributed among these distances:
15 12 0.09
16 8 0.06
17 7 0.05
18 12 0.09
19 13 0.10
20 37 0.29
21 7 0.05
22 27 0.21
23 5 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTATATTTAAATTAATTAA
Found at i:4290032 original size:37 final size:37
Alignment explanation
Indices: 4289974--4290069 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 37
4289964 TGTGATTTGA
* * * *
4289974 ATTTAAATTATTTTATATTTAAATGAGTTAAATTTTAT
1 ATTTAAATTA-ATTAAATTTAAATGAATTAAATTTAAT
* * *
4290012 ATTTTAATTAATTAATTTTAAATTAATTAAATTTAAT
1 ATTTAAATTAATTAAATTTAAATGAATTAAATTTAAT
*
4290049 ATTTAAATTTATTAAATTTAA
1 ATTTAAATTAATTAAATTTAA
4290070 TTATTTTTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 39 0.81
38 9 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (37 bp):
ATTTAAATTAATTAAATTTAAATGAATTAAATTTAAT
Found at i:4290037 original size:15 final size:15
Alignment explanation
Indices: 4290012--4290154 Score: 80
Period size: 15 Copynumber: 9.2 Consensus size: 15
4290002 TAAATTTTAT
4290012 ATTTT-AATTAATTA
1 ATTTTAAATTAATTA
4290026 ATTTTAAATTAATTA
1 ATTTTAAATTAATTA
*
4290041 AATTTAATATTTAAATT-
1 ATTTTAA-A-TT-AATTA
*
4290058 -TATTAAATTTAATTA
1 ATTTTAAA-TTAATTA
* * * *
4290073 TTTTTTATTTAATTT
1 ATTTTAAATTAATTA
*
4290088 ATTTTGAATTAATT-
1 ATTTTAAATTAATTA
4290102 ATTTT-AATTAAATTA
1 ATTTTAAATT-AATTA
*
4290117 TTTTTTATTAAATTAATTTA
1 ---ATT-TTAAATTAA-TTA
*
4290137 ATTTTAAATAAATTA
1 ATTTTAAATTAATTA
4290152 ATT
1 ATT
4290155 AAATTTTTAT
Statistics
Matches: 102, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
13 4 0.04
14 18 0.18
15 42 0.41
16 17 0.17
17 4 0.04
18 6 0.06
19 4 0.04
20 7 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (15 bp):
ATTTTAAATTAATTA
Found at i:4290100 original size:30 final size:30
Alignment explanation
Indices: 4289979--4290106 Score: 95
Period size: 30 Copynumber: 4.3 Consensus size: 30
4289969 TTTGAATTTA
* * * *
4289979 AATTATTTTATATTTAAATGA-GTTAAATT
1 AATTATTTTTTATTTAATTTATTTTAAATT
* * *
4290008 --TTATATTTTAATTAATTAATTTTAAATT
1 AATTATTTTTTATTTAATTTATTTTAAATT
**
4290036 AATTAAATTTAATATTTAAATTTA--TTAAATTT
1 AATT--ATTTTTTATTT-AATTTATTTTAAA-TT
*
4290068 AATTATTTTTTATTTAATTTATTTTGAATT
1 AATTATTTTTTATTTAATTTATTTTAAATT
4290098 AATTATTTT
1 AATTATTTT
4290107 AATTAAATTA
Statistics
Matches: 76, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
27 14 0.18
28 7 0.09
29 6 0.08
30 22 0.29
31 9 0.12
32 13 0.17
33 5 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
AATTATTTTTTATTTAATTTATTTTAAATT
Found at i:4290121 original size:29 final size:28
Alignment explanation
Indices: 4290065--4290139 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
4290055 ATTTATTAAA
* *
4290065 TTTAATT-ATT-TTTTATTTAATTTATT
1 TTTAATTAATTATTTTAATTAAATTATT
*
4290091 TTGAATTAATTATTTTAATTAAATTATT
1 TTTAATTAATTATTTTAATTAAATTATT
* *
4290119 TTTTATTAAATTAATTTAATT
1 TTTAATT-AATTATTTTAATT
4290140 TTAAATAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.15
27 3 0.08
28 19 0.47
29 12 0.30
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTAATTAATTATTTTAATTAAATTATT
Found at i:4290652 original size:24 final size:23
Alignment explanation
Indices: 4290599--4290653 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
4290589 AATATAAAAA
* *
4290599 ATAAATA-AAAATTTTAAAATTT
1 ATAAATATAAAATATAAAAATTT
4290621 ATATAATATAAAATATAAAAATATT
1 ATA-AATATAAAATATAAAAAT-TT
*
4290646 TTAAATAT
1 ATAAATAT
4290654 TATTATGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 3 0.11
23 4 0.15
24 16 0.59
25 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAAATATAAAATATAAAAATTT
Found at i:4290669 original size:38 final size:34
Alignment explanation
Indices: 4290585--4290675 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 34
4290575 TAATAATATA
4290585 ATATAATATAAAAAATAAATAAAAATTTTAAAATTT
1 ATATAATAT--AAAATAAATAAAAATTTTAAAATTT
*
4290621 ATATAATATAAAATATAA-AAATATTTTAAATATTATT
1 ATATAATATAAAATA-AATAAAAATTTTAAA-A-T-TT
*
4290658 ATGATATTATAAAATAAA
1 AT-ATAATATAAAATAAA
4290676 CAAACATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
34 17 0.35
35 3 0.06
36 10 0.21
37 6 0.12
38 12 0.25
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (34 bp):
ATATAATATAAAATAAATAAAAATTTTAAAATTT
Found at i:4293329 original size:12 final size:12
Alignment explanation
Indices: 4293312--4293336 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4293302 ATTTAAAATA
4293312 ATAAAATATAAT
1 ATAAAATATAAT
4293324 ATAAAATATAAT
1 ATAAAATATAAT
4293336 A
1 A
4293337 CGTATTATAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAAATATAAT
Found at i:4293364 original size:19 final size:18
Alignment explanation
Indices: 4293311--4293372 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
4293301 AATTTAAAAT
*
4293311 AATAAAATATAATAT-AA
1 AATATAATATAATATAAA
*
4293328 AATATAATACGTATTATAAA
1 AATATAATA--TAATATAAA
*
4293348 AATATAATATAAATATATA
1 AATATAATAT-AATATAAA
4293367 AATATA
1 AATATA
4293373 TCAAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 8 0.22
18 1 0.03
19 17 0.46
20 11 0.30
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AATATAATATAATATAAA
Found at i:4293410 original size:18 final size:17
Alignment explanation
Indices: 4293349--4293422 Score: 59
Period size: 18 Copynumber: 4.5 Consensus size: 17
4293339 TATTATAAAA
*
4293349 ATATAATAT--AAATAT
1 ATATAATATCAAAATTT
*
4293364 ATAAATATATCAAAATTT
1 ATATA-ATATCAAAATTT
4293382 ATATAA-A--AAAATTT
1 ATATAATATCAAAATTT
* *
4293396 ATTTACATATCAAAATAT
1 ATATA-ATATCAAAATTT
4293414 ATATAATAT
1 ATATAATAT
4293423 ATAATACTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
14 11 0.24
15 5 0.11
16 6 0.13
17 5 0.11
18 19 0.41
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATAATATCAAAATTT
Found at i:4295639 original size:19 final size:21
Alignment explanation
Indices: 4295612--4295656 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4295602 TTATTTATAT
*
4295612 TTTTCTATTAA-A-AATTTAA
1 TTTTATATTAATATAATTTAA
*
4295631 TTTTATATTAATATATTTTAA
1 TTTTATATTAATATAATTTAA
4295652 TTTTA
1 TTTTA
4295657 AATATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
21 11 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATATTAATATAATTTAA
Found at i:4296047 original size:20 final size:23
Alignment explanation
Indices: 4296022--4296065 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
4296012 TATATAAAAT
4296022 AATTTATA-A-ATTAAAA-ATTA
1 AATTTATATATATTAAAATATTA
4296042 AATTTATATATATTAAAATATTA
1 AATTTATATATATTAAAATATTA
4296065 A
1 A
4296066 CCGAAGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 7 0.33
23 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTATATATATTAAAATATTA
Found at i:4296276 original size:3 final size:3
Alignment explanation
Indices: 4296270--4296304 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4296260 CTACTACTAC
4296270 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4296305 CCTATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4296818 original size:19 final size:19
Alignment explanation
Indices: 4296754--4296818 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
4296744 AGATCAAATA
*
4296754 ATTATTTAAATTTTGTTATT
1 ATTATTTAAATTTTATT-TT
**
4296774 -TTATTTAAA-TTTAAATT
1 ATTATTTAAATTTTATTTT
*
4296791 AAT-TTTAAATTTTATTTT
1 ATTATTTAAATTTTATTTT
4296809 ATTATTTAAA
1 ATTATTTAAA
4296819 ATAATATTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
17 8 0.23
18 12 0.34
19 15 0.43
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTATTTAAATTTTATTTT
Found at i:4296828 original size:36 final size:36
Alignment explanation
Indices: 4296758--4296828 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
4296748 CAAATAATTA
* *
4296758 TTTAAATTTTGTTATTTTATTTAAATTTAAATTAAT
1 TTTAAATTTTATTATTTTATTTAAATATAAATTAAT
4296794 TTTAAATTTTATT-TTATTATTTAAA-ATAATATTAA
1 TTTAAATTTTATTATT-TTATTTAAATATAA-ATTAA
4296829 AAATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 5 0.16
36 26 0.84
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (36 bp):
TTTAAATTTTATTATTTTATTTAAATATAAATTAAT
Found at i:4297106 original size:16 final size:16
Alignment explanation
Indices: 4297085--4297126 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4297075 TTTTATAAAT
4297085 AAAAAAATTATTATTA
1 AAAAAAATTATTATTA
* *
4297101 AAAAAATTTATTTTTA
1 AAAAAAATTATTATTA
*
4297117 AAATAAATTA
1 AAAAAAATTA
4297127 ATTAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAAAAATTATTATTA
Found at i:4297424 original size:16 final size:16
Alignment explanation
Indices: 4297411--4297450 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4297401 TTAAAATTTG
4297411 TAAATTAAAAAATTAT
1 TAAATTAAAAAATTAT
*
4297427 TTAATTAAAAATATTAAT
1 TAAATTAAAAA-ATT-AT
4297445 TAAATT
1 TAAATT
4297451 TTAATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTAAAAAATTAT
Found at i:4298065 original size:16 final size:16
Alignment explanation
Indices: 4298046--4298086 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4298036 AGTATTTTAA
4298046 AATAATATTATTATAT
1 AATAATATTATTATAT
* *
4298062 AATAATATTTTTATTT
1 AATAATATTATTATAT
4298078 AAT-ATATTA
1 AATAATATTA
4298087 GAAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATAATATTATTATAT
Found at i:4298912 original size:8 final size:8
Alignment explanation
Indices: 4298901--4298930 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
4298891 AATATATTTA
4298901 TATTATAT
1 TATTATAT
4298909 TATTATAT
1 TATTATAT
4298917 TATTATAT
1 TATTATAT
4298925 T-TTATA
1 TATTATA
4298931 AATTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.23
8 17 0.77
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTATAT
Found at i:4299078 original size:44 final size:45
Alignment explanation
Indices: 4299025--4299130 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 45
4299015 AAGTACATCT
4299025 AAATTTATATATTATTATTTATA-ATTATTA-AA-AAATTTAAA-A
1 AAATTTATATATTATTATTTATATATT-TTATAATAAATTTAAATA
*
4299067 AATATTT-TATATTAATATTTATATATTTTATAATTAAATTTAAATA
1 AA-ATTTATATATTATTATTTATATATTTTATAA-TAAATTTAAATA
4299113 AAATTTATTATATTATTA
1 AAATTTA-TATATTATTA
4299131 AATATTAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
42 20 0.37
43 9 0.17
45 13 0.24
46 3 0.06
47 9 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (45 bp):
AAATTTATATATTATTATTTATATATTTTATAATAAATTTAAATA
Found at i:4299094 original size:21 final size:21
Alignment explanation
Indices: 4299068--4299108 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4299058 AATTTAAAAA
4299068 ATATTTTAT-ATTAATATTTAT
1 ATATTTTATAATTAA-ATTTAT
4299089 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
4299109 AATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:4299321 original size:467 final size:470
Alignment explanation
Indices: 4298458--4299861 Score: 2182
Period size: 467 Copynumber: 3.0 Consensus size: 470
4298448 TAGGGTCAAG
* * ** *
4298458 AAATTATAAATTAAAAAGTGTTCATGAATTAAATAAATCACAATTTAAAAAATTTTAAATTTTTA
1 AAATTATAAATTAAAAAATATTCATGAATTAAATAAATCATGATTTAAAAAAATTTAAATTTTT-
* * * *
4298523 ATTTAAATTTAAATTTAATCAAGTACGTCTAAAATTATATATTACTACTTATAATTATTAAAAAA
65 ATTTAAATTTAAATTTAAT-AAGTACATCTAAATTTATATATTATTATTTATAATTATTAAAAAA
*
4298588 TTT-AAAAATATTTTATATTAATATTTATATATTTTATAATTAAATGTAAATAAAATTTATTATA
129 TTTAAAAAATATTTTATATTAATATTTATATATTTTATAATTAAATTTAAATAAAATTTATTATA
4298652 TTATTAAATATTAATTCATATTAAATTAAATTAATATAATACGTATCTAAAACTATATTCAAATA
194 TTATTAAATATTAATT-ATATT-AATTAAATTAATATAA-ACGTATCTAAAACTATATTCAAATA
4298717 ATCAAACTTACCCGGCCCATCCAT-GACAGGTATATTACTGAATATATAATTGGTTCTTCGATTG
256 ATCAAACTTACCCGGCCCATCCATGGACAGGTATATTACTGAATATATAATTGGTTCTTCGATTG
* * *
4298781 ACCAAAAGTGTGTGGGAACGGAGGGTCAGGGTCCACTGGAAGGGTAGGTAGTGAAAGTTTTTAAT
321 ACTAAAAGTGTGTGGGAACAGAGGGTAAGGGTCCACTGGAAGGGTAGGTAGTGAAAGTTTTTAAT
4298846 ACTTTGTGTGGGTGGGTGCAGAGATTCGTGGTTTCTTTTAAATTTAATATATTTATATTATA-TT
386 ACTTTGTGTGGGTGGGTGCAGAGATTCGTGGTTTCTTTTAAATTTAATATATTTATATTATATTT
4298910 ATTATATTATTATATTTTAT
451 ATTATATTATTATATTTTAT
* * *
4298930 AAATTATAAAATAAAAAATATTCATGAATTAAGTAAATTATGATTTAAAAAAATTTAAATTTTTT
1 AAATTATAAATTAAAAAATATTCATGAATTAAATAAATCATGATTTAAAAAAATTTAAA-TTTTT
4298995 ATTTAAATTTAAATTTAATTAAGTACATCTAAATTTATATATTATTATTTATAATTATTAAAAAA
65 ATTTAAATTTAAATTTAA-TAAGTACATCTAAATTTATATATTATTATTTATAATTATTAAAAAA
4299060 TTTAAAAAATATTTTATATTAATATTTATATATTTTATAATTAAATTTAAATAAAATTTATTATA
129 TTTAAAAAATATTTTATATTAATATTTATATATTTTATAATTAAATTTAAATAAAATTTATTATA
*
4299125 TTATTAAATATTAATT-TA-T-ATTAAATTACTATAAACGTATCTAAAACTATATTCAAATAATC
194 TTATTAAATATTAATTATATTAATTAAATTAATATAAACGTATCTAAAACTATATTCAAATAATC
* *
4299187 AAACTT-GCCGGCCCATCCATGGCCAGGTATATTACTGAATATATAATTGGTTCTTCGATTGACT
259 AAACTTACCCGGCCCATCCATGGACAGGTATATTACTGAATATATAATTGGTTCTTCGATTGACT
*
4299251 AAAAGTGTGTGGGAACAGAGGGTAAGGGTCCACCGGAAGGGTAGGTAGTGAAAGTTTTTAATACT
324 AAAAGTGTGTGGGAACAGAGGGTAAGGGTCCACTGGAAGGGTAGGTAGTGAAAGTTTTTAATACT
*
4299316 TTGTGTGGGTGTGTGCAGAGATTCGTGGTTTCTTTTAAATTTAATATATTTATATTATATTATAA
389 TTGTGTGGGTGGGTGCAGAGATTCGTGGTTTCTTTTAAATTTAATATATTTATATTATATT-T-A
4299381 TTATATAATTATATTTTATATTTTAT
452 -T-TAT-A-T-TA--TTATATTTTAT
* *
4299407 AAATTATAAATTAAAAAATATTTATGAATTAAATAAATGATGATTTAAAAAAATTT-AA-----A
1 AAATTATAAATTAAAAAATATTCATGAATTAAATAAATCATGATTTAAAAAAATTTAAATTTTTA
*
4299466 TTTAAATTT-AA-TT-A-AA-TACATTTAAATTTATATATTATTATTTATAATTATTAAAAAATT
66 TTTAAATTTAAATTTAATAAGTACATCTAAATTTATATATTATTATTTATAATTATTAAAAAATT
*
4299526 TAAAAAATATTTTATA-TAATATTTATATATTTTATAATTAAATTTAAATAAAAATTATTATATT
131 TAAAAAATATTTTATATTAATATTTATATATTTTATAATTAAATTTAAATAAAATTTATTATATT
* * *
4299590 ATTAAATATTAATTTATATTAAATTAAATTAATATAAAACTTATCAAAAATTATATTCAAATAAT
196 ATTAAATATTAA-TTATATT-AATTAAATTAATAT-AAACGTATCTAAAACTATATTCAAATAAT
*
4299655 CAAACTTACCCGGCCCATCCATGGACAGGTATATTACTGAATATATAATTGGTTCTTCTATTGAC
258 CAAACTTACCCGGCCCATCCATGGACAGGTATATTACTGAATATATAATTGGTTCTTCGATTGAC
* *
4299720 TAAAAGTGTGTGGGAACAGAGGGTAAGGGTCCACTGGAAGGGTAGGTAGCGAAAGTTTTTTATAC
323 TAAAAGTGTGTGGGAACAGAGGGTAAGGGTCCACTGGAAGGGTAGGTAGTGAAAGTTTTTAATAC
*
4299785 TTTTGTGTGGGTAGGTGCAGAGATTCGTGGTTTTCTTTTAAATTTAATATATTTATATTATATTT
388 -TTTGTGTGGGTGGGTGCAGAGATTCGTGG-TTTCTTTTAAATTTAATATATTTATATTATATTT
*
4299850 AATATATT-TTAT
451 ATTATATTATTAT
4299862 TATGTAATAA
Statistics
Matches: 869, Mismatches: 40, Indels: 56
0.90 0.04 0.06
Matches are distributed among these distances:
462 4 0.00
463 59 0.07
464 61 0.07
465 5 0.01
466 15 0.02
467 197 0.23
468 32 0.04
469 36 0.04
470 129 0.15
471 31 0.04
472 149 0.17
473 83 0.10
474 1 0.00
475 2 0.00
476 2 0.00
477 63 0.07
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (470 bp):
AAATTATAAATTAAAAAATATTCATGAATTAAATAAATCATGATTTAAAAAAATTTAAATTTTTA
TTTAAATTTAAATTTAATAAGTACATCTAAATTTATATATTATTATTTATAATTATTAAAAAATT
TAAAAAATATTTTATATTAATATTTATATATTTTATAATTAAATTTAAATAAAATTTATTATATT
ATTAAATATTAATTATATTAATTAAATTAATATAAACGTATCTAAAACTATATTCAAATAATCAA
ACTTACCCGGCCCATCCATGGACAGGTATATTACTGAATATATAATTGGTTCTTCGATTGACTAA
AAGTGTGTGGGAACAGAGGGTAAGGGTCCACTGGAAGGGTAGGTAGTGAAAGTTTTTAATACTTT
GTGTGGGTGGGTGCAGAGATTCGTGGTTTCTTTTAAATTTAATATATTTATATTATATTTATTAT
ATTATTATATTTTAT
Found at i:4299393 original size:14 final size:15
Alignment explanation
Indices: 4299360--4299414 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
4299350 TTAAATTTAA
*
4299360 TATATTTATATTATAT
1 TATAATTATA-TATAT
4299376 TATAATTATATA-AT
1 TATAATTATATATAT
* *
4299390 TAT-ATTTTATATTT
1 TATAATTATATATAT
4299404 TATAAATTATA
1 TAT-AATTATA
4299415 AATTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.22
14 9 0.28
15 2 0.06
16 14 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATAATTATATATAT
Found at i:4299399 original size:21 final size:21
Alignment explanation
Indices: 4299369--4299414 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
4299359 ATATATTTAT
*
4299369 ATTATATTATA-ATTATAT-A
1 ATTATATTTTATATTATATAA
*
4299388 ATTATATTTTATATTTTATAA
1 ATTATATTTTATATTATATAA
4299409 ATTATA
1 ATTATA
4299415 AATTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 6 0.26
21 7 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATATTTTATATTATATAA
Found at i:4299540 original size:44 final size:47
Alignment explanation
Indices: 4299492--4299618 Score: 112
Period size: 44 Copynumber: 2.9 Consensus size: 47
4299482 TACATTTAAA
*
4299492 TTTATATATTATTATTTATA-ATTATTA-AA-AAATTTAAA-AAATAT
1 TTTATATATTATTATTTATATATT-TTATAATAAATTTAAATAAAAAT
4299536 TTTATATA--A-TATTTATATATTTTATAATTAAATTTAAATAAAAAT
1 TTTATATATTATTATTTATATATTTTATAA-TAAATTTAAATAAAAAT
* ** * *
4299581 TAT-TATATTATTAAATAT-TAATTTATATTAAA-TTAAAT
1 TTTATATATTATTATTTATATATTTTATAATAAATTTAAAT
4299619 TAATATAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
41 11 0.16
42 6 0.09
44 27 0.39
45 11 0.16
46 9 0.13
47 5 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (47 bp):
TTTATATATTATTATTTATATATTTTATAATAAATTTAAATAAAAAT
Found at i:4299552 original size:41 final size:45
Alignment explanation
Indices: 4299504--4299588 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 45
4299494 TATATATTAT
*
4299504 TATTTATA-ATTATTA-AA-AAATTTAAA-AAATATT-TTATATAA
1 TATTTATATATT-TTATAATAAATTTAAATAAAAATTATTATATAA
4299545 TATTTATATATTTTATAATTAAATTTAAATAAAAATTATTATAT
1 TATTTATATATTTTATAA-TAAATTTAAATAAAAATTATTATAT
4299589 TATTAAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
41 11 0.30
42 5 0.14
44 9 0.24
45 6 0.16
46 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (45 bp):
TATTTATATATTTTATAATAAATTTAAATAAAAATTATTATATAA
Found at i:4299615 original size:22 final size:23
Alignment explanation
Indices: 4299554--4299618 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 23
4299544 ATATTTATAT
4299554 ATTTTATAATTAAATTTAAATAAAA
1 ATTTTAT-ATTAAA-TTAAATAAAA
**
4299579 ATTATTATATT--ATTAAATATTA
1 ATT-TTATATTAAATTAAATAAAA
4299601 A-TTTATATTAAATTAAAT
1 ATTTTATATTAAATTAAAT
4299619 TAATATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 7 0.20
21 1 0.03
22 16 0.46
23 1 0.03
25 6 0.17
26 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTTATATTAAATTAAATAAAA
Found at i:4299847 original size:5 final size:5
Alignment explanation
Indices: 4299832--4299947 Score: 59
Period size: 5 Copynumber: 24.2 Consensus size: 5
4299822 TTAAATTTAA
* * * *
4299832 TATATT TATAT TATAT T-TAA TATAT TTTAT TATGT AATAAT TATA- T-TAT
1 TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TAT-AT TATAT TATAT
* * * * *
4299881 TATAT TTTAT TATAT TA-AT AAT-T TATAT TATA- TAAAT TTTAT AATA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
*
4299927 TATATT TATAT TTTAT T-TAT T
1 TATA-T TATAT TATAT TATAT T
4299948 TTAATAAATT
Statistics
Matches: 82, Mismatches: 19, Indels: 20
0.68 0.16 0.17
Matches are distributed among these distances:
3 2 0.02
4 21 0.26
5 48 0.59
6 11 0.13
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:4299894 original size:18 final size:17
Alignment explanation
Indices: 4299871--4299952 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 17
4299861 TTATGTAATA
4299871 ATTATATTATTATATTTT
1 ATTATATTATTA-ATTTT
*
4299889 ATTATATTAATAATTTAT
1 ATTATATTATTAATTT-T
4299907 ATTATA-TA--AATTTT
1 ATTATATTATTAATTTT
*
4299921 ATAATATATATTTATATTTT
1 ATTATAT-TA-TTA-ATTTT
4299941 ATT-TATT-TTAAT
1 ATTATATTATTAAT
4299953 AAATTAATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
14 6 0.11
15 7 0.13
16 5 0.09
17 6 0.11
18 19 0.35
19 4 0.07
20 7 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATATTATTAATTTT
Found at i:4299921 original size:16 final size:15
Alignment explanation
Indices: 4299835--4299938 Score: 61
Period size: 14 Copynumber: 6.6 Consensus size: 15
4299825 AATTTAATAT
4299835 ATTTATATTATATTTAA
1 ATTTATATTATA--TAA
* *
4299852 TATATTTTATTATGTAA
1 -AT-TTATATTATATAA
* *
4299869 TAATTATATTAT-TAT
1 -ATTTATATTATATAA
4299884 ATTT-TATTATATTAATA
1 ATTTATATTATA-T-A-A
4299901 ATTTATATTATATAA
1 ATTTATATTATATAA
* *
4299916 ATTT-TATAATATAT
1 ATTTATATTATATAA
4299930 ATTTATATT
1 ATTTATATT
4299939 TTATTTATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
13 6 0.09
14 15 0.22
15 11 0.16
16 10 0.14
17 10 0.14
18 9 0.13
19 8 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (15 bp):
ATTTATATTATATAA
Found at i:4299921 original size:61 final size:60
Alignment explanation
Indices: 4299842--4299962 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 60
4299832 TATATTTATA
* * * * *
4299842 TTATATTTAATATATTTTATTATGTAATAATTATATTATTA-TATTTTATTATATTAATAAT
1 TTATATTTAATAAATTTTATAATAT-ATAATTATATT-TTATTATTTTAATAAATTAATAAT
*
4299903 TTATA-TTATATAAATTTTATAATATATATTTATATTTTATTTATTTTAATAAATTAATAA
1 TTATATTTA-ATAAATTTTATAATATATAATTATATTTTA-TTATTTTAATAAATTAATAA
4299963 ATTAAAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
59 3 0.06
60 13 0.25
61 35 0.69
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (60 bp):
TTATATTTAATAAATTTTATAATATATAATTATATTTTATTATTTTAATAAATTAATAAT
Found at i:4299923 original size:47 final size:47
Alignment explanation
Indices: 4299831--4299943 Score: 133
Period size: 47 Copynumber: 2.4 Consensus size: 47
4299821 TTTAAATTTA
* *
4299831 ATATATTTATATTATATTTAATATATTTTATTATGTAATAATTATATT
1 ATATATTTATATTATA-TTAATATATTTTATTATATAATAATTATAAT
*
4299879 ATTATATTT-TATTATATTAATA-ATTTATATTATATAA-ATTTTATAAT
1 A-TATATTTATATTATATTAATATATTT-TATTATATAATA-ATTATAAT
*
4299926 ATATATTTATATTTTATT
1 ATATATTTATATTATATT
4299944 TATTTTAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
46 12 0.21
47 30 0.53
48 8 0.14
49 7 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (47 bp):
ATATATTTATATTATATTAATATATTTTATTATATAATAATTATAAT
Found at i:4299948 original size:29 final size:30
Alignment explanation
Indices: 4299842--4299950 Score: 114
Period size: 29 Copynumber: 3.6 Consensus size: 30
4299832 TATATTTATA
* * *
4299842 TTATATTTAATATATTTTATTATGTAATAA
1 TTATATTTTATATATTTTATTATATAATAT
*
4299872 TTATATTAT-TATATTTTATTATATTAATAAT
1 TTATATTTTATATATTTTATTATA-TAAT-AT
* * *
4299903 TTATATTATATAAATTTTATAATAT-ATAT
1 TTATATTTTATATATTTTATTATATAATAT
*
4299932 TTATATTTTATTTATTTTA
1 TTATATTTTATATATTTTA
4299951 ATAAATTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 31 0.46
30 13 0.19
31 11 0.16
32 12 0.18
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
TTATATTTTATATATTTTATTATATAATAT
Found at i:4300583 original size:34 final size:34
Alignment explanation
Indices: 4300537--4300756 Score: 214
Period size: 34 Copynumber: 6.5 Consensus size: 34
4300527 GTAAAAACCA
4300537 CCATTTAATCAACAAT-ATCAACCTACCAAATCTC
1 CCATTTAATCAACAATGAT-AACCTACCAAATCTC
* * *
4300571 CCATTTAGTCAACAATGTTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGAT-AACCTACCAAATCTC
* * *
4300605 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGATAACCTACCAAATCTC
* * * *
4300639 TCATTTAATCAACAATGGTAAGCTACCACATCTC
1 CCATTTAATCAACAATGATAACCTACCAAATCTC
* * * *
4300673 CCATTTAGTCAACAATGGACAAACC-ACTAAATCAC
1 CCATTTAATCAACAAT-GA-TAACCTACCAAATCTC
* * * *
4300708 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGATAACCTACCAAATCTC
4300741 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
4300757 TCTCTCACTT
Statistics
Matches: 156, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
33 22 0.14
34 103 0.66
35 28 0.18
36 3 0.02
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGATAACCTACCAAATCTC
Found at i:4300617 original size:68 final size:69
Alignment explanation
Indices: 4300537--4300756 Score: 261
Period size: 68 Copynumber: 3.2 Consensus size: 69
4300527 GTAAAAACCA
* * *
4300537 CCATTTAATCAACAAT-ATCAACCTACCAAATCTCCCATTTAGTCAACAATGTTAAACCACCAAA
1 CCATTTAATCAACAATGATCAACCTACCAAATCTCCCATTTAATCAACAATGGTAAACTACCAAA
4300601 TCAC
66 TCAC
* * * * * *
4300605 CCATTTAATCAACAATGGT-AAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCACA
1 CCATTTAATCAACAATGATCAACCTACCAAATCTCCCATTTAATCAACAATGGTAAACTACCAAA
*
4300669 TCTC
66 TCAC
* * * *
4300673 CCATTTAGTCAACAATGGA-CAAACC-ACTAAATCACCCATTTAATCAACAATGGTAAACTACTA
1 CCATTTAATCAACAAT-GATC-AACCTACCAAATCTCCCATTTAATCAACAATGGTAAACTACCA
4300736 AATCA-
64 AATCAC
4300741 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
4300757 TCTCTCACTT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
68 86 0.68
69 37 0.29
70 3 0.02
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.26
Consensus pattern (69 bp):
CCATTTAATCAACAATGATCAACCTACCAAATCTCCCATTTAATCAACAATGGTAAACTACCAAA
TCAC
Found at i:4300746 original size:102 final size:101
Alignment explanation
Indices: 4300535--4300756 Score: 320
Period size: 102 Copynumber: 2.2 Consensus size: 101
4300525 TGGTAAAAAC
**
4300535 CACCATTTAATCAACAATATCAACCTACCAAATCTCCCATTTAGTCAACAATGTTAAACCACCAA
1 CACCATTTAATCAACAATATCAACCTACCAAATCTCCCATTTAGTCAACAATGACAAACCACCAA
*
4300600 ATCACCCATTTAATCAACAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * *
4300636 TTCTCATTTAATCAACAATGGT-AAGCTACCACATCTCCCATTTAGTCAACAATGGACAAACCAC
1 CAC-CATTTAATCAACAAT-ATCAACCTACCAAATCTCCCATTTAGTCAACAAT-GACAAACCAC
* *
4300700 TAAATCACCCATTTAATCAACAATGGTAAACTACTAAAT
63 CAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
4300739 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
4300757 TCTCTCACTT
Statistics
Matches: 106, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
101 1 0.01
102 59 0.56
103 46 0.43
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.26
Consensus pattern (101 bp):
CACCATTTAATCAACAATATCAACCTACCAAATCTCCCATTTAGTCAACAATGACAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Done.