Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 10 of 171
Found at i:4623081 original size:34 final size:33
Alignment explanation
Indices: 4622996--4623081 Score: 77
Period size: 34 Copynumber: 2.6 Consensus size: 33
4622986 GTTAAACTGT
* *
4622996 ATTTTAT-TTTTTAATTCAAAAATAGATAAATTA
1 ATTTTATATTTTTTA-TCAAAAATAAATAAATTA
* ** *
4623029 ATTTTATATATTAAATCAAATAATAAATTAATT-
1 ATTTTATATTTTTTATCAAA-AATAAATAAATTA
4623062 ATTTTAATATTTTTTATCAA
1 ATTTT-ATATTTTTTATCAA
4623082 TTTATATGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
33 17 0.40
34 26 0.60
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.50
Consensus pattern (33 bp):
ATTTTATATTTTTTATCAAAAATAAATAAATTA
Found at i:4628490 original size:62 final size:62
Alignment explanation
Indices: 4628393--4628510 Score: 182
Period size: 62 Copynumber: 1.9 Consensus size: 62
4628383 ATTTAAAGTT
4628393 AGGATACAATGAACCCTAATTCTTATGTGCGTTGGTACGGATAAACGGAAAATGCTTAGGTG
1 AGGATACAATGAACCCTAATTCTTATGTGCGTTGGTACGGATAAACGGAAAATGCTTAGGTG
* * * * * *
4628455 AGGATATAATGAATCCTAATTCTTATTTGCGTTGGTATGGATGAATGGAAAATGCT
1 AGGATACAATGAACCCTAATTCTTATGTGCGTTGGTACGGATAAACGGAAAATGCT
4628511 CAAGGATAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (62 bp):
AGGATACAATGAACCCTAATTCTTATGTGCGTTGGTACGGATAAACGGAAAATGCTTAGGTG
Found at i:4634423 original size:2 final size:2
Alignment explanation
Indices: 4634416--4634442 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4634406 TTCTGTCTGA
4634416 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4634443 AAATGAGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4641635 original size:24 final size:23
Alignment explanation
Indices: 4641603--4641652 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
4641593 AACAACAAAA
4641603 ATATAAAATTATAATATAAAGTAT
1 ATATAAAATTATAATA-AAAGTAT
* * *
4641627 ATATTAAATTATTATAAAATTAT
1 ATATAAAATTATAATAAAAGTAT
4641650 ATA
1 ATA
4641653 AGTGTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATAAAATTATAATAAAAGTAT
Found at i:4648529 original size:19 final size:19
Alignment explanation
Indices: 4648502--4648538 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4648492 AGATAGCAAA
*
4648502 TTATATCAAAATTAAAATT
1 TTATATCAAAAATAAAATT
*
4648521 TTATTTCAAAAATAAAAT
1 TTATATCAAAAATAAAAT
4648539 ATAGAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TTATATCAAAAATAAAATT
Found at i:4651448 original size:22 final size:22
Alignment explanation
Indices: 4651390--4651449 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 22
4651380 TAAAAATGAT
* **
4651390 AAAATTTTAATTTAATATTTTA
1 AAAATTATAATTTAATATCGTA
* * *
4651412 AAAATTACATTTTTATTATCGTA
1 AAAATTATA-ATTTAATATCGTA
4651435 AAAATTATAATTTAA
1 AAAATTATAATTTAA
4651450 CTTTAATCCC
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATTATAATTTAATATCGTA
Found at i:4653013 original size:28 final size:27
Alignment explanation
Indices: 4652978--4653054 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 27
4652968 TAACTTGATA
* *
4652978 TTTTTTTTAAATTT-AGTATTTAAACTT
1 TTTTTTTTTAATTTGA-TACTTAAACTT
4653005 TTTTTTTTTAATTTGATACTTAAACTT
1 TTTTTTTTTAATTTGATACTTAAACTT
4653032 GACACTTTTTTTTTAATTTGATA
1 -----TTTTTTTTTAATTTGATA
4653055 TCAACTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 23 0.55
28 1 0.02
32 18 0.43
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.61
Consensus pattern (27 bp):
TTTTTTTTTAATTTGATACTTAAACTT
Found at i:4653342 original size:20 final size:20
Alignment explanation
Indices: 4653317--4653356 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4653307 TGAATCCAAC
4653317 AAGTAAGTTTCAGTGAAAAA
1 AAGTAAGTTTCAGTGAAAAA
4653337 AAGTAAGTTTCAGTGAAAAA
1 AAGTAAGTTTCAGTGAAAAA
4653357 GAGAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (20 bp):
AAGTAAGTTTCAGTGAAAAA
Found at i:4656573 original size:23 final size:23
Alignment explanation
Indices: 4656547--4656592 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4656537 AATTTCGAAT
**
4656547 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
4656570 TTCGAGTTAAACGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
4656593 ATTTTTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:4656878 original size:58 final size:58
Alignment explanation
Indices: 4656810--4656986 Score: 279
Period size: 58 Copynumber: 3.1 Consensus size: 58
4656800 ACCCATCAAC
4656810 AAACTAAACTCAAATATTTTTAAACCCAAATATAATTTTATTCTTCAAAAATACTCAT
1 AAACTAAACTCAAATATTTTTAAACCCAAATATAATTTTATTCTTCAAAAATACTCAT
* *
4656868 AAACTAAACTCAAATATTTTTTAACCCAAATATAATTTTATTATTCAAAAATACTC-T
1 AAACTAAACTCAAATATTTTTAAACCCAAATATAATTTTATTCTTCAAAAATACTCAT
* *
4656925 AAACTAAAC-CTAAATATTTTTAAACCCAAATATAATTTTATTCCT-AAATAACACTCAT
1 AAACTAAACTC-AAATATTTTTAAACCCAAATATAATTTTATTCTTCAAA-AATACTCAT
4656983 AAAC
1 AAAC
4656987 AATTCCTTTT
Statistics
Matches: 110, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
56 4 0.04
57 47 0.43
58 59 0.54
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.36
Consensus pattern (58 bp):
AAACTAAACTCAAATATTTTTAAACCCAAATATAATTTTATTCTTCAAAAATACTCAT
Found at i:4657342 original size:53 final size:56
Alignment explanation
Indices: 4657279--4657392 Score: 153
Period size: 53 Copynumber: 2.1 Consensus size: 56
4657269 CTTTTGCTTT
* *
4657279 TTTTTTTATAATCTTATTGTGTTATTATTG-TTACTT-GAACTTTT-ATTTATTTA
1 TTTTATTATAATCTTATTGTGTTATTATTGTTTACTTAGAACTTTTCACTTATTTA
* * **
4657332 TTTTATTATAATCTTGTTGTGTTGTTATTGTTTACTTAGATTTTTTCACTTATTTA
1 TTTTATTATAATCTTATTGTGTTATTATTGTTTACTTAGAACTTTTCACTTATTTA
4657388 TTTTA
1 TTTTA
4657393 ATTTTTCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 27 0.52
54 6 0.12
55 6 0.12
56 13 0.25
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.64
Consensus pattern (56 bp):
TTTTATTATAATCTTATTGTGTTATTATTGTTTACTTAGAACTTTTCACTTATTTA
Found at i:4658354 original size:29 final size:29
Alignment explanation
Indices: 4658285--4658354 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
4658275 TTAGTTTCTG
*
4658285 TATAGACTAAATTTTGAAATCATAAAAATA
1 TATAGACTAAATTTTAAAAT-ATAAAAATA
* ** *
4658315 AATAGGTTAAATTTTTAAAAT-TAAAAGTA
1 TATAGACTAAA-TTTTAAAATATAAAAATA
4658344 TATAGACTAAA
1 TATAGACTAAA
4658355 ATCTAAATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
29 15 0.48
30 8 0.26
31 8 0.26
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (29 bp):
TATAGACTAAATTTTAAAATATAAAAATA
Found at i:4658832 original size:19 final size:19
Alignment explanation
Indices: 4658788--4658832 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4658778 TAAATCGAGA
4658788 TTTTTAAATTTTTAAATAT
1 TTTTTAAATTTTTAAATAT
*
4658807 TTATTAAATTTTT-AATAAT
1 TTTTTAAATTTTTAAAT-AT
4658826 TTTTTAA
1 TTTTTAA
4658833 TCGAATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTAAATTTTTAAATAT
Found at i:4659784 original size:10 final size:10
Alignment explanation
Indices: 4659765--4659806 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
4659755 ATTTAATTTT
*
4659765 TTTAACTTAA
1 TTTAAATTAA
4659775 TTTAAATTAA
1 TTTAAATTAA
*
4659785 ATTAAATT-A
1 TTTAAATTAA
*
4659794 CTTAAATTAA
1 TTTAAATTAA
4659804 TTT
1 TTT
4659807 TTAAAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTAAATTAA
Found at i:4659924 original size:13 final size:13
Alignment explanation
Indices: 4659893--4659933 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
4659883 TTTTTTGCAA
*
4659893 TAAATTTAAAATC
1 TAAATCTAAAATC
4659906 TAAAATCTAAAATC
1 T-AAATCTAAAATC
4659920 TAAATCTAAAATC
1 TAAATCTAAAATC
4659933 T
1 T
4659934 CGAACCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATCTAAAATC
Found at i:4659926 original size:6 final size:7
Alignment explanation
Indices: 4659894--4659933 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
4659884 TTTTTGCAAT
*
4659894 AAATTTA
1 AAATCTA
4659901 AAATCTA
1 AAATCTA
4659908 AAATCTA
1 AAATCTA
4659915 AAATCT-
1 AAATCTA
4659921 AAATCTA
1 AAATCTA
4659928 AAATCT
1 AAATCT
4659934 CGAACCTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (7 bp):
AAATCTA
Found at i:4661482 original size:17 final size:19
Alignment explanation
Indices: 4661455--4661493 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
4661445 GATATGGGAC
*
4661455 AAAAATGAGAA-TGATGTG
1 AAAAATGAGAATTGAAGTG
4661473 AAAAAT-AGAATTGAAGTG
1 AAAAATGAGAATTGAAGTG
4661491 AAA
1 AAA
4661494 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (19 bp):
AAAAATGAGAATTGAAGTG
Found at i:4663653 original size:3 final size:3
Alignment explanation
Indices: 4663634--4663691 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
4663624 ATATTCGTAT
*
4663634 TTA TTA TGTT TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4663679 TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TT
4663692 TATGTTATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.88
4 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4664148 original size:30 final size:30
Alignment explanation
Indices: 4664112--4664183 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
4664102 AAACTCGTAT
4664112 TTTATATTAAACCCATATTTTAAATTTAGG
1 TTTATATTAAACCCATATTTTAAATTTAGG
4664142 TTTATATTAAACCCATATTTTAAATTTAGG
1 TTTATATTAAACCCATATTTTAAATTTAGG
*
4664172 TTTATACTAAAC
1 TTTATATTAAAC
4664184 GTGCTACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.46
Consensus pattern (30 bp):
TTTATATTAAACCCATATTTTAAATTTAGG
Found at i:4672774 original size:22 final size:22
Alignment explanation
Indices: 4672703--4672828 Score: 173
Period size: 23 Copynumber: 5.6 Consensus size: 22
4672693 TTTCGCACCT
*
4672703 TGTGTGCCTACTGATTTGCGA-TA
1 TGTGTGCCTACTGA-TTGC-ACTG
* *
4672726 TGTGTGCCTACTGATTTGCGCTA
1 TGTGTGCCTACTGA-TTGCACTG
4672749 TGTGTGCCTACTGATTGCACTG
1 TGTGTGCCTACTGATTGCACTG
4672771 TGTGTGCCTACTGATTGCACTG
1 TGTGTGCCTACTGATTGCACTG
4672793 TGTGTGCCTACTGGATTGCACTG
1 TGTGTGCCTACT-GATTGCACTG
*
4672816 TGTGTGCTTACTG
1 TGTGTGCCTACTG
4672829 TTTCCCTAGC
Statistics
Matches: 97, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
22 41 0.42
23 56 0.58
ACGTcount: A:0.13, C:0.21, G:0.28, T:0.38
Consensus pattern (22 bp):
TGTGTGCCTACTGATTGCACTG
Found at i:4672786 original size:45 final size:44
Alignment explanation
Indices: 4672703--4672828 Score: 173
Period size: 45 Copynumber: 2.8 Consensus size: 44
4672693 TTTCGCACCT
* *
4672703 TGTGTGCCTACTGATTTGCGA-TATGTGTGCCTACTGATTTGCGCTA
1 TGTGTGCCTACTGA-TTGC-ACTGTGTGTGCCTACTGA-TTGCACTA
*
4672749 TGTGTGCCTACTGATTGCACTGTGTGTGCCTACTGATTGCACTG
1 TGTGTGCCTACTGATTGCACTGTGTGTGCCTACTGATTGCACTA
*
4672793 TGTGTGCCTACTGGATTGCACTGTGTGTGCTTACTG
1 TGTGTGCCTACT-GATTGCACTGTGTGTGCCTACTG
4672829 TTTCCCTAGC
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 19 0.26
45 41 0.55
46 14 0.19
ACGTcount: A:0.13, C:0.21, G:0.28, T:0.38
Consensus pattern (44 bp):
TGTGTGCCTACTGATTGCACTGTGTGTGCCTACTGATTGCACTA
Found at i:4674247 original size:27 final size:27
Alignment explanation
Indices: 4674173--4674247 Score: 62
Period size: 31 Copynumber: 2.6 Consensus size: 27
4674163 TTTATCATCA
* * *
4674173 AACTATGACTTTTTTAATTAGTAATTC
1 AACTATGATTTTTTTTATTAGCAATTC
*
4674200 AATTATGAATTTATTTATTTATTAGACAATT-
1 AACTATG-A-TT-TTT-TTTATTAG-CAATTC
4674231 AACTATGATTTTTTTTA
1 AACTATGATTTTTTTTA
4674248 AAATTTATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
27 10 0.26
28 4 0.11
29 3 0.08
30 4 0.11
31 13 0.34
32 4 0.11
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (27 bp):
AACTATGATTTTTTTTATTAGCAATTC
Found at i:4676357 original size:23 final size:23
Alignment explanation
Indices: 4676331--4676424 Score: 109
Period size: 23 Copynumber: 4.0 Consensus size: 23
4676321 TAGCGCGGTT
4676331 TCTGATTAGCACTGTGTGTGCTC
1 TCTGATTAGCACTGTGTGTGCTC
* *
4676354 TCTGTTTAGCAC-GTCTCGTGCTC
1 TCTGATTAGCACTGTGT-GTGCTC
**
4676377 TCTGTTATTAGCACTGTGTGTATTC
1 TCTG--ATTAGCACTGTGTGTGCTC
*
4676402 TCTGATTAGCACTTTGTGTGCTC
1 TCTGATTAGCACTGTGTGTGCTC
4676425 AGTACTTTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
22 3 0.05
23 37 0.64
25 15 0.26
26 3 0.05
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
TCTGATTAGCACTGTGTGTGCTC
Found at i:4677367 original size:18 final size:20
Alignment explanation
Indices: 4677344--4677383 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
4677334 AATATTAATA
*
4677344 TTAATATA-ATTTTA-ATTT
1 TTAATATATATGTTATATTT
4677362 TTAATATATATGTTATATTT
1 TTAATATATATGTTATATTT
4677382 TT
1 TT
4677384 TGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTAATATATATGTTATATTT
Found at i:4677695 original size:28 final size:28
Alignment explanation
Indices: 4677605--4677696 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 28
4677595 CAATCTCGAT
* *
4677605 TAATCAAATGATGAATTTAAAAAAATTA
1 TAATTAAATAATGAATTTAAAAAAATTA
* ** *
4677633 TAATTGAAACAGGGAA--AAAAACAAATATA
1 TAATT-AAATAATGAATTTAAAA-AAAT-TA
4677662 TAATTAAATAATGAATTTAAAAAAATTA
1 TAATTAAATAATGAATTTAAAAAAATTA
4677690 TAATTAA
1 TAATTAA
4677697 GTAACAAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
27 4 0.08
28 24 0.49
29 17 0.35
30 4 0.08
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (28 bp):
TAATTAAATAATGAATTTAAAAAAATTA
Found at i:4692968 original size:52 final size:52
Alignment explanation
Indices: 4692891--4692998 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
4692881 TTGGTCCTTT
4692891 CTTTATATCTATCAAATTCAAAAGTGGTAGTTAATTTGGGTGTATCAATGGC
1 CTTTATATCTATCAAATTCAAAAGTGGTAGTTAATTTGGGTGTATCAATGGC
*
4692943 CTTTATATTTATCAAATTCAAAAGTGGTAGTTAATTTGGGTGTATCAATGGC
1 CTTTATATCTATCAAATTCAAAAGTGGTAGTTAATTTGGGTGTATCAATGGC
4692995 CTTT
1 CTTT
4692999 TCAAGTTTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (52 bp):
CTTTATATCTATCAAATTCAAAAGTGGTAGTTAATTTGGGTGTATCAATGGC
Found at i:4698568 original size:18 final size:19
Alignment explanation
Indices: 4698534--4698611 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 19
4698524 TTAAAAAGTT
4698534 ATAATTTTTATATTTTTCT-A
1 ATAA-TTTTATATTTTT-TAA
4698554 ATAATTTTA-ATTTTTTAA
1 ATAATTTTATATTTTTTAA
4698572 ATAATTTTCATA-TTTTT-A
1 ATAATTTT-ATATTTTTTAA
*
4698590 AT--TTTTATA-ATTTTAA
1 ATAATTTTATATTTTTTAA
4698606 ATAATT
1 ATAATT
4698612 AATTAATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 14
0.77 0.02 0.21
Matches are distributed among these distances:
15 7 0.14
16 7 0.14
17 1 0.02
18 20 0.39
19 11 0.22
20 5 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATTTTATATTTTTTAA
Found at i:4700436 original size:17 final size:17
Alignment explanation
Indices: 4700405--4700444 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4700395 TACTGTTTAA
4700405 TAAAA-TTTAATAATTT
1 TAAAATTTTAATAATTT
*
4700421 TAAAATTTTTATAATTT
1 TAAAATTTTAATAATTT
4700438 TATAAAT
1 TA-AAAT
4700445 AAAATCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAAATTTTAATAATTT
Found at i:4701093 original size:2 final size:2
Alignment explanation
Indices: 4701082--4701112 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4701072 ATATTTATGA
4701082 AT AT -T 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
4701113 TGCTTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4705120 original size:69 final size:72
Alignment explanation
Indices: 4705039--4705282 Score: 209
Period size: 75 Copynumber: 3.4 Consensus size: 72
4705029 TAAATTAGTA
* * * *
4705039 TGGGAAGGAAATGACTTTTTATTAG-GA-TTATCA-TTTATTACACCTTTTTATTTATTCTTTAA
1 TGGGAAGCAAATGACTTTTTATTAGAAAGTTATCAGATTATTACACCTTTTTATCTATTCTTTAA
4705101 CTTTAAT
66 CTTTAAT
* *
4705108 TGGGAAGCAAATGACTTTTTA-TAGAAAAATGTTATTAGGATTATTACACCTTTTTATCTATTTT
1 TGGGAAGCAAATGACTTTTTATTAG--AAA-GTTATCA-GATTATTACACCTTTTTATCTATTCT
4705172 TTAACTTTAAT
62 TTAACTTTAAT
* ** * * * *
4705183 TAGGAAGCAAATGACTTTTTA-TAGAAA-AAAT-ATTATTATGATCATCATTTATTA-CTATTTT
1 TGGGAAGCAAATGACTTTTTATTAGAAAGTTATCA-GATTATTA-CA-CCTTT-TTATCTATTCT
4705244 TTAACTTTAAT
62 TTAACTTTAAT
* *
4705255 TGGGAAGGAAATAACTTTTT-TCTAGAAA
1 TGGGAAGCAAATGACTTTTTAT-TAGAAA
4705283 AGTGTTATTA
Statistics
Matches: 147, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
68 3 0.02
69 20 0.14
70 7 0.05
71 5 0.03
72 39 0.27
73 17 0.12
75 56 0.38
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (72 bp):
TGGGAAGCAAATGACTTTTTATTAGAAAGTTATCAGATTATTACACCTTTTTATCTATTCTTTAA
CTTTAAT
Found at i:4705175 original size:75 final size:75
Alignment explanation
Indices: 4705073--4705298 Score: 300
Period size: 75 Copynumber: 3.0 Consensus size: 75
4705063 GGATTATCAT
* *
4705073 TTATTACACCTTTTTATTTATTCTTTAACTTTAATTGGGAAGCAAATGACTTTTTATAGAAAAAT
1 TTATTACACCTTTTTATCTATTTTTTAACTTTAATTGGGAAGCAAATGACTTTTTATAGAAAAAT
4705138 GTTATTAGGA
66 GTTATTAGGA
*
4705148 TTATTACACCTTTTTATCTATTTTTTAACTTTAATTAGGAAGCAAATGACTTTTTATAGAAAAAA
1 TTATTACACCTTTTTATCTATTTTTTAACTTTAATTGGGAAGCAAATGACTTTTTATAG-AAAAA
* *
4705213 TATTATTATGA
65 TGTTATTAGGA
* * * *
4705224 TCA-T-CA--TTTATTA-CTATTTTTTAACTTTAATTGGGAAGGAAATAACTTTTTTCTAGAAAA
1 TTATTACACCTTT-TTATCTATTTTTTAACTTTAATTGGGAAGCAAATGAC-TTTTTATAGAAAA
*
4705284 GTGTTATTAGGA
64 ATGTTATTAGGA
4705296 TTA
1 TTA
4705299 GCATTTTCTT
Statistics
Matches: 134, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
72 48 0.36
73 11 0.08
74 2 0.01
75 57 0.43
76 16 0.12
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (75 bp):
TTATTACACCTTTTTATCTATTTTTTAACTTTAATTGGGAAGCAAATGACTTTTTATAGAAAAAT
GTTATTAGGA
Found at i:4705304 original size:72 final size:71
Alignment explanation
Indices: 4705083--4705305 Score: 268
Period size: 72 Copynumber: 3.1 Consensus size: 71
4705073 TTATTACACC
* *
4705083 TTTTTATTTATTCTTTAACTTTAATTGGGAAGCAAATGACTTTTTATAGAAAAATGTTATTAGGA
1 TTTTTATCTATTTTTTAACTTTAATTGGGAAGCAAATGACTTTTTATAGAAAAATGTTATTAGGA
4705148 TTATTACA
66 TTA--ACA
* *
4705156 CCTTTTTATCTATTTTTTAACTTTAATTAGGAAGCAAATGACTTTTTATAGAAAAAATATTATTA
1 --TTTTTATCTATTTTTTAACTTTAATTGGGAAGCAAATGACTTTTTATAG-AAAAATGTTATTA
* * *
4705221 TGATCATCA
63 GGATTAACA
* * * *
4705230 TTTATTA-CTATTTTTTAACTTTAATTGGGAAGGAAATAACTTTTTTCTAGAAAAGTGTTATTAG
1 TTT-TTATCTATTTTTTAACTTTAATTGGGAAGCAAATGAC-TTTTTATAGAAAAATGTTATTAG
*
4705294 GATTAGCA
64 GATTAACA
4705302 TTTT
1 TTTT
4705306 CTTTTTTTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
71 1 0.01
72 53 0.41
73 11 0.09
74 2 0.02
75 46 0.36
76 16 0.12
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (71 bp):
TTTTTATCTATTTTTTAACTTTAATTGGGAAGCAAATGACTTTTTATAGAAAAATGTTATTAGGA
TTAACA
Found at i:4708017 original size:42 final size:42
Alignment explanation
Indices: 4707958--4708040 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
4707948 GATGGCTTGT
4707958 ATCTCCTTACAAAGGCTGTTAAGGAGCTGGAAACAGAGGAAC
1 ATCTCCTTACAAAGGCTGTTAAGGAGCTGGAAACAGAGGAAC
4708000 ATCTCCTTACAAAGGCTGTTAAGGAGCTGGAAACAGAGGAA
1 ATCTCCTTACAAAGGCTGTTAAGGAGCTGGAAACAGAGGAA
4708041 TTGAATTGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (42 bp):
ATCTCCTTACAAAGGCTGTTAAGGAGCTGGAAACAGAGGAAC
Found at i:4717256 original size:15 final size:16
Alignment explanation
Indices: 4717226--4717264 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
4717216 TAATAAAAAT
4717226 ATAATTTTACTATTTTA
1 ATAA-TTTACTATTTTA
*
4717243 ATAATTTA-TATTTTT
1 ATAATTTACTATTTTA
4717258 ATAATTT
1 ATAATTT
4717265 TTATAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTACTATTTTA
Found at i:4728124 original size:10 final size:10
Alignment explanation
Indices: 4728109--4728141 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4728099 ATTATATGAA
4728109 AATATTTTTT
1 AATATTTTTT
4728119 AATATTTTTT
1 AATATTTTTT
*
4728129 TA-ATTTTTT
1 AATATTTTTT
4728138 AATA
1 AATA
4728142 ACATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
AATATTTTTT
Found at i:4730121 original size:19 final size:20
Alignment explanation
Indices: 4730073--4730122 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
4730063 AAAAATTAAA
4730073 AAAATATTAAAAGTAAATAT
1 AAAATATTAAAAGTAAATAT
* *
4730093 AAAGTATTAAAA-TACAT-T
1 AAAATATTAAAAGTAAATAT
4730111 ACAAATATTAAA
1 A-AAATATTAAA
4730123 CCACATGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.08
19 13 0.50
20 11 0.42
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAATATTAAAAGTAAATAT
Found at i:4730401 original size:17 final size:17
Alignment explanation
Indices: 4730379--4730414 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
4730369 TGTTTTATAA
4730379 AATTAATCTAA-AAAAAT
1 AATTAAT-TAATAAAAAT
4730396 AATTAATTAATAAAAAT
1 AATTAATTAATAAAAAT
4730413 AA
1 AA
4730415 CTCATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTAATTAATAAAAAT
Found at i:4731039 original size:17 final size:17
Alignment explanation
Indices: 4731007--4731039 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4730997 TATATAATAT
4731007 TTAAATATATAGTTTAA
1 TTAAATATATAGTTTAA
*
4731024 TTAAATATATATTTTA
1 TTAAATATATAGTTTA
4731040 TTTTTGGTGA
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAAATATATAGTTTAA
Found at i:4733315 original size:42 final size:42
Alignment explanation
Indices: 4733236--4733316 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
4733226 AAAATTTTTA
* * * * *
4733236 ATTTTATTTTCTGTTCACACTATTATATTTTTTGTTTTATTC
1 ATTTTATTTTCTCTTCAAACTATAATAGTTTTAGTTTTATTC
4733278 ATTTTATTTTCTCTT-AAACTAATAATAGTTTTAGTTTTA
1 ATTTTATTTTCTCTTCAAACT-ATAATAGTTTTAGTTTTA
4733317 GTGTTTAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.12
42 29 0.88
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.60
Consensus pattern (42 bp):
ATTTTATTTTCTCTTCAAACTATAATAGTTTTAGTTTTATTC
Found at i:4751751 original size:18 final size:17
Alignment explanation
Indices: 4751730--4751775 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
4751720 ATTATACATG
**
4751730 TAAATTCAATTTAAGTT
1 TAAATTCAATTTAAACT
4751747 ATAAATTCAA-TTAAACT
1 -TAAATTCAATTTAAACT
4751764 TAAATTCAATTT
1 TAAATTCAATTT
4751776 TAGAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTCAATTTAAACT
Found at i:4752288 original size:19 final size:20
Alignment explanation
Indices: 4752264--4752303 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4752254 TTTATTTTAT
* *
4752264 TAAATT-TTTATTTAAGATA
1 TAAATTGTTTAATAAAGATA
4752283 TAAATTGTTTAATAAAGATA
1 TAAATTGTTTAATAAAGATA
4752303 T
1 T
4752304 CATTTCTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
TAAATTGTTTAATAAAGATA
Found at i:4754626 original size:29 final size:28
Alignment explanation
Indices: 4754579--4754634 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
4754569 TTTAAATTAA
* *
4754579 TAAAAATAAAATTTTATTTTATTTTTTT
1 TAAAAATAAAATTTAATTTAATTTTTTT
4754607 TAAATAATAAAATTTAATTTAATTTTTT
1 TAAA-AATAAAATTTAATTTAATTTTTT
4754635 AAAATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TAAAAATAAAATTTAATTTAATTTTTTT
Found at i:4754627 original size:28 final size:29
Alignment explanation
Indices: 4754579--4754639 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
4754569 TTTAAATTAA
* *
4754579 TAAA-AATAAAATTTTATTTTATTTTTTT
1 TAAATAATAAAATTTTAATTTAATTTTTT
4754607 TAAATAATAAAA-TTTAATTTAATTTTTT
1 TAAATAATAAAATTTTAATTTAATTTTTT
*
4754635 AAAAT
1 TAAAT
4754640 TTATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TAAATAATAAAATTTTAATTTAATTTTTT
Found at i:4758366 original size:13 final size:13
Alignment explanation
Indices: 4758348--4758372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4758338 AAATAAAAGT
4758348 TTTTTTATTTTTA
1 TTTTTTATTTTTA
4758361 TTTTTTATTTTT
1 TTTTTTATTTTT
4758373 TTCGAAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:4760367 original size:25 final size:24
Alignment explanation
Indices: 4760330--4760451 Score: 128
Period size: 23 Copynumber: 5.2 Consensus size: 24
4760320 ACACTAGAGC
4760330 GCTCTCTGT-TTAGCAC-GTCTCGT
1 GCTCTCTGTATTAGCACTGTCT-GT
*
4760353 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-TATTAGCACTGTCTGT
* *
4760378 GCTCTCTG-ATTAGCACTTTGTGT
1 GCTCTCTGTATTAGCACTGTCTGT
* *
4760401 GCTCTCTG-ATTAGCACTTTGTGT
1 GCTCTCTGTATTAGCACTGTCTGT
* *
4760424 GCTCTTTGT-TTAGCACTGTGTGT
1 GCTCTCTGTATTAGCACTGTCTGT
4760447 GCTCT
1 GCTCT
4760452 ATGTTGCCCA
Statistics
Matches: 91, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
23 70 0.77
24 1 0.01
25 17 0.19
26 3 0.03
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (24 bp):
GCTCTCTGTATTAGCACTGTCTGT
Found at i:4760437 original size:46 final size:47
Alignment explanation
Indices: 4760330--4760451 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 47
4760320 ACACTAGAGC
* *
4760330 GCTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGT-GTGCTCTCTG-TATTAGCACTGTGTGT
* *
4760378 GCTCTCTGATTAGCACTTTGTGTGCTCTCTG-ATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGT
* *
4760424 GCTCTTTGTTTAGCACTGTGTGTGCTCT
1 GCTCTCTGATTAGCACTGTGTGTGCTCT
4760452 ATGTTGCCCA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 39 0.59
48 25 0.38
49 2 0.03
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (47 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGT
Found at i:4760503 original size:69 final size:69
Alignment explanation
Indices: 4760354--4760503 Score: 173
Period size: 69 Copynumber: 2.1 Consensus size: 69
4760344 ACGTCTCGTG
* *
4760354 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTT
1 CTCTCTG-T-TTAGCACTGTGTGTGCTCTATGATTAGCACTTTATGTGCTCTCTGATTAGCACTT
*
4760419 TGTGTG
64 TGTGTA
* *
4760425 CTCTTTGTTTAGCACTGTGTGTGCTCTATG-TTGCCCAGCAC-TTATGTGCTCTCTG-TTAGTAC
1 CTCTCTGTTTAGCACTGTGTGTGCTCTATGATT----AGCACTTTATGTGCTCTCTGATTAGCAC
4760487 TTTG-GTA
62 TTTGTGTA
4760494 CTCTCTGTTT
1 CTCTCTGTTT
4760504 GTTCCGTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
68 2 0.03
69 32 0.46
70 11 0.16
71 19 0.28
72 5 0.07
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (69 bp):
CTCTCTGTTTAGCACTGTGTGTGCTCTATGATTAGCACTTTATGTGCTCTCTGATTAGCACTTTG
TGTA
Found at i:4761710 original size:23 final size:23
Alignment explanation
Indices: 4761645--4761722 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
4761635 TGGGCAACAT
* *
4761645 AGAGCACACACAGTGCTAAACAA
1 AGAGCACACACAGTGCTAATCAG
* * *
4761668 AGAGTACACAAAGTACTAATCAG
1 AGAGCACACACAGTGCTAATCAG
4761691 AGAGCACACACAGTGCTAATAACAG
1 AGAGCACACACAGTGCTAAT--CAG
4761716 AGAGCAC
1 AGAGCAC
4761723 GAGATGTGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
23 35 0.78
25 10 0.22
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (23 bp):
AGAGCACACACAGTGCTAATCAG
Found at i:4763690 original size:2 final size:2
Alignment explanation
Indices: 4763677--4763713 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4763667 ATCGCCACTT
* *
4763677 TA TA TT TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4763714 TATTTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4765231 original size:31 final size:31
Alignment explanation
Indices: 4765196--4765257 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4765186 GATGATATTG
4765196 TAGGCATCATAAGTAATAGCTATTATTTCTC
1 TAGGCATCATAAGTAATAGCTATTATTTCTC
4765227 TAGGCATCATAAGTAATAGCTATTATTTCTC
1 TAGGCATCATAAGTAATAGCTATTATTTCTC
4765258 AAATTTACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (31 bp):
TAGGCATCATAAGTAATAGCTATTATTTCTC
Found at i:4766990 original size:36 final size:36
Alignment explanation
Indices: 4766943--4767014 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
4766933 AGATCATGCA
4766943 TAAATGAAATCTATCATGACATTCATGATCCATGTT
1 TAAATGAAATCTATCATGACATTCATGATCCATGTT
4766979 TAAATGAAATCTATCATGACATTCATGATCCATGTT
1 TAAATGAAATCTATCATGACATTCATGATCCATGTT
4767015 CTTTCTCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (36 bp):
TAAATGAAATCTATCATGACATTCATGATCCATGTT
Found at i:4790372 original size:5 final size:5
Alignment explanation
Indices: 4790343--4790385 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
4790333 TGCACGCTAG
* * *
4790343 GTTTG GTTTG GTTTT GTTTT GTTTT GTTTT GTATT GTTTT GTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTT
4790386 GGGTTTTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.02, C:0.00, G:0.26, T:0.72
Consensus pattern (5 bp):
GTTTT
Found at i:4803810 original size:57 final size:57
Alignment explanation
Indices: 4803749--4803870 Score: 174
Period size: 57 Copynumber: 2.1 Consensus size: 57
4803739 TTTCTCCATC
*
4803749 AAAACTTTCAACCA-CCAAACCCAACATCATTAAATTAAAACCGGTTGATTGCAGATA
1 AAAACTTT-AACCATACAAACCCAACATCATTAAATTAAAACCGGTTGATTGCAGATA
* * * * *
4803806 AAAACTTTTATCATACTAACCCAACATCATTAAATTAAAACTGGTTGATTGCATATA
1 AAAACTTTAACCATACAAACCCAACATCATTAAATTAAAACCGGTTGATTGCAGATA
4803863 AAAACTTT
1 AAAACTTT
4803871 TATCATACTG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 3 0.05
57 55 0.95
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (57 bp):
AAAACTTTAACCATACAAACCCAACATCATTAAATTAAAACCGGTTGATTGCAGATA
Found at i:4803871 original size:57 final size:57
Alignment explanation
Indices: 4803766--4803879 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
4803756 TCAACCACCA
4803766 AACCCAACATCATTAAATTAAAACCGGTTGATTGCAGATAAAAACTTTTATCATACT
1 AACCCAACATCATTAAATTAAAACCGGTTGATTGCAGATAAAAACTTTTATCATACT
* *
4803823 AACCCAACATCATTAAATTAAAACTGGTTGATTGCATATAAAAACTTTTATCATACT
1 AACCCAACATCATTAAATTAAAACCGGTTGATTGCAGATAAAAACTTTTATCATACT
4803880 GAGTTTGAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (57 bp):
AACCCAACATCATTAAATTAAAACCGGTTGATTGCAGATAAAAACTTTTATCATACT
Found at i:4805380 original size:21 final size:21
Alignment explanation
Indices: 4805355--4805431 Score: 57
Period size: 24 Copynumber: 3.4 Consensus size: 21
4805345 CCTAGTCCCC
4805355 CACCACCATACTACTACAAGT
1 CACCACCATACTACTACAAGT
* * *
4805376 CACCACC-TCCACCATCTCCTAGT
1 CACCACCAT--ACTA-CTACAAGT
4805399 CCACCACCACCGTACTACTACAAGT
1 -CACCACCA---TACTACTACAAGT
4805424 CACCACCA
1 CACCACCA
4805432 CCCCCTTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
20 1 0.02
21 7 0.17
22 3 0.07
23 6 0.14
24 15 0.36
25 6 0.14
26 3 0.07
28 1 0.02
ACGTcount: A:0.31, C:0.47, G:0.05, T:0.17
Consensus pattern (21 bp):
CACCACCATACTACTACAAGT
Found at i:4805532 original size:48 final size:48
Alignment explanation
Indices: 4804769--4805574 Score: 668
Period size: 48 Copynumber: 16.8 Consensus size: 48
4804759 ACCGCCTTCA
* * *
4804769 CCTAGTCCTCCACCACCTTACTACTACAAGTCTCCACCTCCACCATCTC
1 CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * * * * *
4804818 CCTCA-CCACCTCCTCCTTACTACTACAAATCACCACCACC-CCCT-TC
1 CCT-AGCCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* *
4804864 ACCTAGTCCCCCACCACCATACTACTACAAGTCTCCACCTCCACCATCTC
1 -CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * * * * *
4804914 CCTCA-CAACCTCCTCCTTACTACTACAAATCACCACCACCACC--CTC
1 CCT-AGCCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* *
4804960 ACCTAGTCCCCCACCACCATACTACTACAAGTCTCCACCTCCACCATCTC
1 -CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * * * * *
4805010 CCTCA-CCTCCTCCTCCTTACTACTACAAATCACCACCACCACC-T-TC
1 CCT-AGCCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * *
4805056 ACCTAGTCCGCCACCACCATACTACTACAAATCTCCACCTCCACCATCTC
1 -CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * * * * *
4805106 CCTCA-CCTCCTCCTCCTTACTACTACAAATCACCACCACCACC-T-TC
1 CCT-AGCCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * *
4805152 ACCAAGTCCTCCACCACCATACTACTACAAGTCTCCACCTCCACCATCT-
1 -CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * *
4805201 CCTAGTCCCCCACCACCATACTACTACAAATCACCACCCCCACCATCT-
1 CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* *
4805249 CCTAGCCCTCCACCACCATATTACTACAAGTCACCACCTCCACCATCTC
1 CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * * * *
4805298 CATCA-CCACCACCTCCTTACTATTACAAGTCTCCACC-CCTACC--CTC
1 CCT-AGCCACCACCACCATACTACTACAAGTCACCACCTCC-ACCATCTC
*
4805344 ACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCACCATCT-
1 -CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * *
4805393 CCTAGTCCACCACCACCGTACTACTACAAGTCACCACCACC-CCCT-TC
1 CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* *
4805440 ACCTAGTCCACCACCACCATACTATTACAAGTCACCACCACCACCATCTC
1 -CCTAG-CCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * * *
4805490 CCTCA-CCACCACCTCCATACTACTACAAGTCTCCTCCTCCACCGTCTC
1 CCT-AGCCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
* * * * * *
4805538 CTTCA-CCCCCTCCTCCTTACTACTACAAATCACCACC
1 CCT-AGCCACCACCACCATACTACTACAAGTCACCACC
4805575 ACCCCCGCCA
Statistics
Matches: 619, Mismatches: 100, Indels: 77
0.78 0.13 0.10
Matches are distributed among these distances:
46 18 0.03
47 23 0.04
48 533 0.86
49 27 0.04
50 18 0.03
ACGTcount: A:0.26, C:0.50, G:0.03, T:0.21
Consensus pattern (48 bp):
CCTAGCCACCACCACCATACTACTACAAGTCACCACCTCCACCATCTC
Found at i:4805577 original size:96 final size:96
Alignment explanation
Indices: 4804734--4805517 Score: 1094
Period size: 96 Copynumber: 8.2 Consensus size: 96
4804724 AAACACTATT
* * * * * *
4804734 CTCCTTACCATTACAATTCACCACCACCGCCTTCACCTAGTCCTCCACCACCTTACTACTACAAG
1 CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCCCCACCACCATACTACTACAAG
*
4804799 TCTCCACCTCCACCATCTCCCTCACCACCTC
66 TCTCCACCTCCACCATCTCCCTCACCACCAC
*
4804830 CTCCTTACTACTACAAATCACCACCACCCCCTTCACCTAGTCCCCCACCACCATACTACTACAAG
1 CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCCCCACCACCATACTACTACAAG
* *
4804895 TCTCCACCTCCACCATCTCCCTCACAACCTC
66 TCTCCACCTCCACCATCTCCCTCACCACCAC
*
4804926 CTCCTTACTACTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAG
1 CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCCCCACCACCATACTACTACAAG
* *
4804991 TCTCCACCTCCACCATCTCCCTCACCTCCTC
66 TCTCCACCTCCACCATCTCCCTCACCACCAC
* *
4805022 CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCGCCACCACCATACTACTACAAA
1 CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCCCCACCACCATACTACTACAAG
* *
4805087 TCTCCACCTCCACCATCTCCCTCACCTCCTC
66 TCTCCACCTCCACCATCTCCCTCACCACCAC
* *
4805118 CTCCTTACTACTACAAATCACCACCACCACCTTCACCAAGTCCTCCACCACCATACTACTACAAG
1 CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCCCCACCACCATACTACTACAAG
*
4805183 TCTCCACCTCCACCATCT-CCT-AGTCCCCCAC
66 TCTCCACCTCCACCATCTCCCTCA--CCACCAC
* * * * * *
4805214 CACCATACTACTACAAATCACCACCCCCACCATCTCCTAG-CCCTCCACCACCATATTACTACAA
1 CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCC-CCACCACCATACTACTACAA
* *
4805278 GTCACCACCTCCACCATCTCCATCACCACCAC
65 GTCTCCACCTCCACCATCTCCCTCACCACCAC
* * * *
4805310 CTCCTTACTATTACAAGTCTCCACC-CCTACCCTCACCTAGTCCCCCACCACCATACTACTACAA
1 CTCCTTACTACTACAAATCACCACCACC-ACCTTCACCTAGTCCCCCACCACCATACTACTACAA
*
4805374 GTCACCACCTCCACCATCT-CCT-AGTCCACCAC
65 GTCTCCACCTCCACCATCTCCCTCA--CCACCAC
* * * * * *
4805406 CACCGTACTACTACAAGTCACCACCACCCCCTTCACCTAGTCCACCACCACCATACTATTACAAG
1 CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCCCCACCACCATACTACTACAAG
* *
4805471 TCACCACCACCACCATCTCCCTCACCACCAC
66 TCTCCACCTCCACCATCTCCCTCACCACCAC
*
4805502 CTCCATACTACTACAA
1 CTCCTTACTACTACAA
4805518 GTCTCCTCCT
Statistics
Matches: 626, Mismatches: 50, Indels: 24
0.89 0.07 0.03
Matches are distributed among these distances:
94 2 0.00
95 9 0.01
96 603 0.96
97 10 0.02
98 2 0.00
ACGTcount: A:0.27, C:0.50, G:0.03, T:0.21
Consensus pattern (96 bp):
CTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCCCCACCACCATACTACTACAAG
TCTCCACCTCCACCATCTCCCTCACCACCAC
Found at i:4815718 original size:31 final size:30
Alignment explanation
Indices: 4815654--4815728 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
4815644 AATTTATATA
* * * **
4815654 TTTATAATTTTTAAAAGATTAAATTATTCT
1 TTTATTATTTTTAAAAAATTAAAATATAAT
4815684 TTTATTATTTTTAAAAAAGTTAAAATATAAT
1 TTTATTATTTTTAAAAAA-TTAAAATATAAT
4815715 TTTA-TATTTATTAA
1 TTTATTATTT-TTAA
4815729 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 21 0.55
31 17 0.45
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTATTATTTTTAAAAAATTAAAATATAAT
Found at i:4815749 original size:8 final size:8
Alignment explanation
Indices: 4815729--4815759 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
4815719 TATTTATTAA
4815729 TTTAAAAT
1 TTTAAAAT
4815737 TTTAAAAT
1 TTTAAAAT
4815745 TTTAAAAAT
1 TTT-AAAAT
4815754 TTTAAA
1 TTTAAA
4815760 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTTAAAAT
Found at i:4819478 original size:30 final size:30
Alignment explanation
Indices: 4819423--4819479 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4819413 TAAAAAATTC
*
4819423 AAAAATATAAAAAACATTTCGAAAATAGAA
1 AAAAATATAAAAAACATTTCAAAAATAGAA
4819453 AAAAATATTATAAAAA-ATTT-AAAAATA
1 AAAAATA-TA-AAAAACATTTCAAAAATA
4819480 TATCTTACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 13 0.54
31 6 0.25
32 5 0.21
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (30 bp):
AAAAATATAAAAAACATTTCAAAAATAGAA
Found at i:4822461 original size:58 final size:59
Alignment explanation
Indices: 4822362--4822741 Score: 264
Period size: 60 Copynumber: 6.5 Consensus size: 59
4822352 GAGAAAGTTG
* * * * * *
4822362 GTGTCGACTATTGCATGACCAACACAAAAAAATCG-ATTTTTTACCAGATAAAAAAGGA
1 GTGTCGGCCATTGCATGACCAACACCAAAAATTTGAATTTTTTATCAGATAAAAAAGGA
* * *
4822420 GTGTCGGCCA-TGCAATGACAAACACCAAAAATTTGAATTTTTTATCTGA-CAAAAA-GA
1 GTGTCGGCCATTGC-ATGACCAACACCAAAAATTTGAATTTTTTATCAGATAAAAAAGGA
* * * * *
4822477 GGTGCCGGCCATTGCATAACCAACACCAAAAAAATTTAAATTTTTTTATCTGACAAAAAGAGG-
1 -GTGTCGGCCATTGCATGACCAACACC--AAAAATTTGAA-TTTTTTATCAGATAAAAA-AGGA
** * * * * *
4822540 GTGTCGGTGATTGCATGGCCAACACCAAAAAAATTAAATTTTTTATCTGACAAAAAAGGA
1 GTGTCGGCCATTGCATGACCAACACC-AAAAATTTGAATTTTTTATCAGATAAAAAAGGA
* * * * * *
4822600 GTGTCAGTCATTGCATGAACAACACTCAAAAATTTGATTTTTTTATCAGAT-TAAAAGGG
1 GTGTCGGCCATTGCATGACCAACAC-CAAAAATTTGAATTTTTTATCAGATAAAAAAGGA
* * * * *
4822659 GTGTCAGCCA-TGCAATGGCCAACACC--AAATTT--TTTTTTTGTCAAATAAAAAAGG-
1 GTGTCGGCCATTGC-ATGACCAACACCAAAAATTTGAATTTTTTATCAGATAAAAAAGGA
* *
4822713 GATGTCGGCCA-TGCAATGACTACCACCAA
1 G-TGTCGGCCATTGC-ATGACCAACACCAA
4822742 TTTTTTTTTC
Statistics
Matches: 264, Mismatches: 41, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
54 13 0.05
55 27 0.10
56 6 0.02
57 5 0.02
58 53 0.20
59 41 0.16
60 68 0.26
61 24 0.09
62 25 0.09
63 1 0.00
64 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (59 bp):
GTGTCGGCCATTGCATGACCAACACCAAAAATTTGAATTTTTTATCAGATAAAAAAGGA
Found at i:4822565 original size:62 final size:61
Alignment explanation
Indices: 4822371--4822687 Score: 275
Period size: 60 Copynumber: 5.3 Consensus size: 61
4822361 GGTGTCGACT
** * * * *
4822371 ATTGCATGACCAACA-CAAAAAAA--TCGATTTTTTACCAGATAAAAA-AGGAGTGTCGGCC
1 ATTGCATGACCAACACCAAAAAAATTTAAATTTTTTATCTGACAAAAAGAGG-GTGTCAGCC
* * * *
4822429 A-TGCAATGACAAACACC--AAAAATTTGAATTTTTTATCTGACAAAAAGA-GGTGCCGGCC
1 ATTGC-ATGACCAACACCAAAAAAATTTAAATTTTTTATCTGACAAAAAGAGGGTGTCAGCC
* * **
4822487 ATTGCATAACCAACACCAAAAAAATTTAAATTTTTTTATCTGACAAAAAGAGGGTGTCGGTG
1 ATTGCATGACCAACACCAAAAAAATTTAAA-TTTTTTATCTGACAAAAAGAGGGTGTCAGCC
* *
4822549 ATTGCATGGCCAACACCAAAAAAA-TTAAATTTTTTATCTGACAAAAA-AGGAGTGTCAGTC
1 ATTGCATGACCAACACCAAAAAAATTTAAATTTTTTATCTGACAAAAAGAGG-GTGTCAGCC
* * * * **
4822609 ATTGCATGAACAACACTC--AAAAATTTGATTTTTTTATCAGATTAAAAG-GGGTGTCAGCC
1 ATTGCATGACCAACAC-CAAAAAAATTTAAATTTTTTATCTGACAAAAAGAGGGTGTCAGCC
*
4822668 A-TGCAATGGCCAACACCAAA
1 ATTGC-ATGACCAACACCAAA
4822688 TTTTTTTTTT
Statistics
Matches: 215, Mismatches: 27, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
57 8 0.04
58 33 0.15
59 48 0.22
60 71 0.33
61 26 0.12
62 29 0.13
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (61 bp):
ATTGCATGACCAACACCAAAAAAATTTAAATTTTTTATCTGACAAAAAGAGGGTGTCAGCC
Found at i:4822945 original size:29 final size:29
Alignment explanation
Indices: 4822900--4822958 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4822890 CAATTTTTAC
* * *
4822900 TTTTTATTTTAATTTATTTTAGTATATAA
1 TTTTTAATTTAAATTATTTTAGTAAATAA
*
4822929 TTTTTAATTTAAATTATTTTCGTAAATAA
1 TTTTTAATTTAAATTATTTTAGTAAATAA
4822958 T
1 T
4822959 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTTTAATTTAAATTATTTTAGTAAATAA
Found at i:4823267 original size:7 final size:7
Alignment explanation
Indices: 4823255--4823282 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4823245 AAAGAAGCAC
4823255 CTCTCCT
1 CTCTCCT
4823262 CTCTCCT
1 CTCTCCT
4823269 CTCTCCT
1 CTCTCCT
4823276 CTCTCCT
1 CTCTCCT
4823283 AAAATGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (7 bp):
CTCTCCT
Found at i:4823635 original size:30 final size:30
Alignment explanation
Indices: 4823556--4823641 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
4823546 TTTCAAATGA
*
4823556 ATATAATTAAATTAAAATTAAAATTTTAAAT
1 ATATAATTAAATT-AAATCAAAATTTTAAAT
* *
4823587 ATAT-TTTAAATCACAATCAAAATTTTAAAT
1 ATATAATTAAATTA-AATCAAAATTTTAAAT
* *
4823617 ATATAATTATATTAAATCAAGATTT
1 ATATAATTAAATTAAATCAAAATTT
4823642 GCATTAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 1 0.02
30 35 0.76
31 10 0.22
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (30 bp):
ATATAATTAAATTAAATCAAAATTTTAAAT
Found at i:4823763 original size:115 final size:115
Alignment explanation
Indices: 4823627--4823853 Score: 454
Period size: 115 Copynumber: 2.0 Consensus size: 115
4823617 ATATAATTAT
4823627 ATTAAATCAAGATTTGCATTAAAATTAATGAGATTTGTCTGTATCTATAAATTAGGTTGAGGCTG
1 ATTAAATCAAGATTTGCATTAAAATTAATGAGATTTGTCTGTATCTATAAATTAGGTTGAGGCTG
4823692 TTTTGCCAATGTAGCTGCCAACTGACTTTCTGCTCCATCATTACTCCATC
66 TTTTGCCAATGTAGCTGCCAACTGACTTTCTGCTCCATCATTACTCCATC
4823742 ATTAAATCAAGATTTGCATTAAAATTAATGAGATTTGTCTGTATCTATAAATTAGGTTGAGGCTG
1 ATTAAATCAAGATTTGCATTAAAATTAATGAGATTTGTCTGTATCTATAAATTAGGTTGAGGCTG
4823807 TTTTGCCAATGTAGCTGCCAACTGACTTTCTGCTCCATCATTACTCC
66 TTTTGCCAATGTAGCTGCCAACTGACTTTCTGCTCCATCATTACTCC
4823854 TCTGTGCCTT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (115 bp):
ATTAAATCAAGATTTGCATTAAAATTAATGAGATTTGTCTGTATCTATAAATTAGGTTGAGGCTG
TTTTGCCAATGTAGCTGCCAACTGACTTTCTGCTCCATCATTACTCCATC
Found at i:4841079 original size:22 final size:23
Alignment explanation
Indices: 4841032--4841081 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
4841022 GTTAAAATGA
*
4841032 ATAAATTAATAATAACTTTTTTAAT
1 ATAAATTAATAATAAC--TTTAAAT
4841057 ATAAATTAATAATAAC-TTAAAT
1 ATAAATTAATAATAACTTTAAAT
4841079 ATA
1 ATA
4841082 TTATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
25 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAATTAATAATAACTTTAAAT
Found at i:4843495 original size:9 final size:9
Alignment explanation
Indices: 4843481--4843507 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4843471 CTACTTCTTA
4843481 ATTATTTTT
1 ATTATTTTT
4843490 ATTATTTTT
1 ATTATTTTT
4843499 ATTATTTTT
1 ATTATTTTT
4843508 TTACACTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
ATTATTTTT
Found at i:4843732 original size:42 final size:42
Alignment explanation
Indices: 4843684--4843766 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
4843674 AGAGGCTGAA
*
4843684 TTCGTATAGAATATTTCGGAAGTTCTAGAATACTCGACTATC
1 TTCGTATAGAATATTTCGGAAGTTCTAGAATACTCCACTATC
4843726 TTCGTATAGAATATTTCGGAAGTTCTAGAATACTCCACTAT
1 TTCGTATAGAATATTTCGGAAGTTCTAGAATACTCCACTAT
4843767 GTATAACATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (42 bp):
TTCGTATAGAATATTTCGGAAGTTCTAGAATACTCCACTATC
Found at i:4847928 original size:3 final size:3
Alignment explanation
Indices: 4847920--4847944 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4847910 TAATATATAT
4847920 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
4847945 AGAAGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:4857063 original size:23 final size:24
Alignment explanation
Indices: 4857037--4857082 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
4857027 GGTGTTCTCT
*
4857037 TACAAAACTGGTTGTA-AAATTAG
1 TACAAAACCGGTTGTATAAATTAG
**
4857060 TACATGACCGGTTGTATAAATTA
1 TACAAAACCGGTTGTATAAATTA
4857083 ACTATGCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (24 bp):
TACAAAACCGGTTGTATAAATTAG
Found at i:4857171 original size:15 final size:16
Alignment explanation
Indices: 4857150--4857187 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4857140 TTATAAATTA
*
4857150 AAAAAAT-AATTATAT
1 AAAAAATAAATCATAT
*
4857165 TAAAAATAAATCATAT
1 AAAAAATAAATCATAT
4857181 AAAAAAT
1 AAAAAAT
4857188 TCAATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAATAAATCATAT
Found at i:4858020 original size:31 final size:30
Alignment explanation
Indices: 4857943--4858022 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
4857933 AATTTAAAAA
* **
4857943 AAAAAATTT-AATAATCCAATGACTTAAAT
1 AAAAATTTTAAATAATTTAATGACTTAAAT
4857972 AAAAACTTTTAAATAATTTAATGACTTAAAT
1 AAAAA-TTTTAAATAATTTAATGACTTAAAT
4858003 GAAAAATTTTAAATAATTTA
1 -AAAAATTTTAAATAATTTA
4858023 TTGATCAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 5 0.11
30 3 0.07
31 32 0.71
32 5 0.11
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAAATTTTAAATAATTTAATGACTTAAAT
Found at i:4871461 original size:151 final size:151
Alignment explanation
Indices: 4871187--4871488 Score: 604
Period size: 151 Copynumber: 2.0 Consensus size: 151
4871177 ATCCTCATCC
4871187 ACTGTTATGTTTCCATAACATCATTTATAAGGACATTAGAAACAGAGAACTTCATGCAATAGAAA
1 ACTGTTATGTTTCCATAACATCATTTATAAGGACATTAGAAACAGAGAACTTCATGCAATAGAAA
4871252 ACCTTCTAGAGCTCACAAGTCCTTCTAAGTGTGTTCAAGTAACTACAGCAGCCAACTCATGCAAA
66 ACCTTCTAGAGCTCACAAGTCCTTCTAAGTGTGTTCAAGTAACTACAGCAGCCAACTCATGCAAA
4871317 AGTGTAATAGACCAATCATGA
131 AGTGTAATAGACCAATCATGA
4871338 ACTGTTATGTTTCCATAACATCATTTATAAGGACATTAGAAACAGAGAACTTCATGCAATAGAAA
1 ACTGTTATGTTTCCATAACATCATTTATAAGGACATTAGAAACAGAGAACTTCATGCAATAGAAA
4871403 ACCTTCTAGAGCTCACAAGTCCTTCTAAGTGTGTTCAAGTAACTACAGCAGCCAACTCATGCAAA
66 ACCTTCTAGAGCTCACAAGTCCTTCTAAGTGTGTTCAAGTAACTACAGCAGCCAACTCATGCAAA
4871468 AGTGTAATAGACCAATCATGA
131 AGTGTAATAGACCAATCATGA
4871489 GGTAAAAAAT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (151 bp):
ACTGTTATGTTTCCATAACATCATTTATAAGGACATTAGAAACAGAGAACTTCATGCAATAGAAA
ACCTTCTAGAGCTCACAAGTCCTTCTAAGTGTGTTCAAGTAACTACAGCAGCCAACTCATGCAAA
AGTGTAATAGACCAATCATGA
Found at i:4874846 original size:2 final size:2
Alignment explanation
Indices: 4874839--4874868 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4874829 AATACGGTGA
4874839 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
4874869 TTAAATGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4889448 original size:4 final size:4
Alignment explanation
Indices: 4889439--4889476 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
4889429 AGACTCATCT
4889439 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
4889477 CATGCATCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:4899612 original size:63 final size:62
Alignment explanation
Indices: 4899529--4899680 Score: 177
Period size: 63 Copynumber: 2.4 Consensus size: 62
4899519 TTGCACTTAA
*
4899529 TTTTTTT-TACCCAATTTGGTATCTAATCTTGACAATT-TTTTTTCTAATTTGGTACCTAA-ACT
1 TTTTTTTATACCCAATTTGGTATCTAA-CTTGAC-ATTCTTTTTCCTAATTTGGTACCTAAGA-T
*
4899591 TTTTTTTATACCCAATTTGGTA-CTTGAACTTGGCATTCTTTTTCCTAATTTGGTACCTAAGAT
1 TTTTTTTATACCCAATTTGGTATC-T-AACTTGACATTCTTTTTCCTAATTTGGTACCTAAGAT
* * **
4899654 TCTTTTTAGATTCAATTTGGTATCTAA
1 TTTTTTTATACCCAATTTGGTATCTAA
4899681 ATTTATTAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
62 13 0.17
63 61 0.78
64 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.50
Consensus pattern (62 bp):
TTTTTTTATACCCAATTTGGTATCTAACTTGACATTCTTTTTCCTAATTTGGTACCTAAGAT
Found at i:4904986 original size:17 final size:17
Alignment explanation
Indices: 4904958--4904997 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
4904948 AAATAGATTA
4904958 AATTTTAAATAAA-AAT
1 AATTTTAAATAAATAAT
4904974 AATTTTAAAATAAATAAT
1 AATTTT-AAATAAATAAT
*
4904992 TATTTT
1 AATTTT
4904998 TAATCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
18 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTTAAATAAATAAT
Found at i:4904990 original size:15 final size:16
Alignment explanation
Indices: 4904958--4904992 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4904948 AAATAGATTA
4904958 AATTTTAAATAAAAAT
1 AATTTTAAATAAAAAT
*
4904974 AATTTTAAA-ATAAAT
1 AATTTTAAATAAAAAT
4904989 AATT
1 AATT
4904993 ATTTTTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTTTAAATAAAAAT
Found at i:4915040 original size:27 final size:27
Alignment explanation
Indices: 4915009--4915062 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4914999 AAGGTACAGT
4915009 TTCAATC-AAATTCATACAAATTTTCAG
1 TTCAATCAAAATT-ATACAAATTTTCAG
* *
4915036 TTCAATCAAAATTATGCAACTTTTCAG
1 TTCAATCAAAATTATACAAATTTTCAG
4915063 CTGATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.37
Consensus pattern (27 bp):
TTCAATCAAAATTATACAAATTTTCAG
Found at i:4917619 original size:6 final size:6
Alignment explanation
Indices: 4917608--4917642 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
4917598 TTTACTTGTG
* *
4917608 TGGCAC TGGCAC TGGCAC TGGCAC CGGCAC CGGCA
1 TGGCAC TGGCAC TGGCAC TGGCAC TGGCAC TGGCA
4917643 GTGATTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.37, G:0.34, T:0.11
Consensus pattern (6 bp):
TGGCAC
Found at i:4919060 original size:30 final size:30
Alignment explanation
Indices: 4918988--4919063 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
4918978 ATTATCATAT
* * *
4918988 CCATTTCCTATGGTACACGGCCTCTAGTAC
1 CCATGTCCTATGTTACACAGCCTCTAGTAC
*
4919018 CCATGTCCTATGTTACACATCCTCTAGTAC
1 CCATGTCCTATGTTACACAGCCTCTAGTAC
4919048 CCATGTCCTATGTTAC
1 CCATGTCCTATGTTAC
4919064 TGTTTCATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (30 bp):
CCATGTCCTATGTTACACAGCCTCTAGTAC
Found at i:4932552 original size:19 final size:19
Alignment explanation
Indices: 4932511--4932552 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4932501 TTGCTAGCAT
*
4932511 ATTTGCATCTTTATCATTT
1 ATTTGCATCTTTATCATTG
*
4932530 ATTTGACATTTTTATC-TTG
1 ATTTG-CATCTTTATCATTG
4932549 ATTT
1 ATTT
4932553 TAATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTTGCATCTTTATCATTG
Found at i:4947949 original size:6 final size:6
Alignment explanation
Indices: 4947938--4947962 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4947928 ACAGTACATC
4947938 TGCCTT TGCCTT TGCCTT TGCCTT T
1 TGCCTT TGCCTT TGCCTT TGCCTT T
4947963 TTGCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.16, T:0.52
Consensus pattern (6 bp):
TGCCTT
Found at i:4960380 original size:23 final size:24
Alignment explanation
Indices: 4960331--4960378 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
4960321 TGAATAATAA
4960331 TAATTAAAGAATAAAAGTTTTTTT
1 TAATTAAAGAATAAAAGTTTTTTT
*
4960355 TAATATAAA-AATAAGAGTTTTTTT
1 TAAT-TAAAGAATAAAAGTTTTTTT
4960379 AAAAACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (24 bp):
TAATTAAAGAATAAAAGTTTTTTT
Found at i:4960388 original size:24 final size:24
Alignment explanation
Indices: 4960340--4960388 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4960330 ATAATTAAAG
* * *
4960340 AATAAAAGTTTTTTTTAATATAAA
1 AATAAAAGTTTTTTTAAAAACAAA
*
4960364 AATAAGAGTTTTTTTAAAAACAAA
1 AATAAAAGTTTTTTTAAAAACAAA
4960388 A
1 A
4960389 TCAATTCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (24 bp):
AATAAAAGTTTTTTTAAAAACAAA
Found at i:4971456 original size:15 final size:13
Alignment explanation
Indices: 4971427--4971451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4971417 ACATGGGTCA
4971427 TTAATTTTTTTAT
1 TTAATTTTTTTAT
4971440 TTAATTTTTTTA
1 TTAATTTTTTTA
4971452 CATTTTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTAATTTTTTTAT
Found at i:4975014 original size:31 final size:31
Alignment explanation
Indices: 4974977--4975052 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
4974967 TTTATTATTT
*
4974977 ATTATTAAATTATTCGAAAA-ATTTGATTTAA
1 ATTATTAGATTATTC-AAAAGATTTGATTTAA
* *
4975008 ATTATTAGATTATTCAAAAGTTTTTATTTAA
1 ATTATTAGATTATTCAAAAGATTTGATTTAA
4975039 ATTATTAGATTATT
1 ATTATTAGATTATT
4975053 AAATTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.10
31 37 0.90
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (31 bp):
ATTATTAGATTATTCAAAAGATTTGATTTAA
Found at i:4975075 original size:31 final size:31
Alignment explanation
Indices: 4975006--4975077 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
4974996 AATTTGATTT
***
4975006 AAATTATTAGATTATTCAAAAGTTTTTATTT
1 AAATTATTAGATTATTCAAAAGTTTTTAAAA
**
4975037 AAATTATTAGATTATT-AAATTTTTTTAAAA
1 AAATTATTAGATTATTCAAAAGTTTTTAAAA
4975067 AAATTTATTAG
1 AAA-TTATTAG
4975078 TAAATTTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (31 bp):
AAATTATTAGATTATTCAAAAGTTTTTAAAA
Found at i:4976171 original size:22 final size:22
Alignment explanation
Indices: 4976143--4976187 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4976133 AACACGTACA
4976143 CCTACTTAGATAAATATGGTTG
1 CCTACTTAGATAAATATGGTTG
4976165 CCTACTTAGATAAATATGGTTG
1 CCTACTTAGATAAATATGGTTG
4976187 C
1 C
4976188 GATGCTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (22 bp):
CCTACTTAGATAAATATGGTTG
Found at i:4978036 original size:3 final size:3
Alignment explanation
Indices: 4978028--4978062 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4978018 GAGCTTCACT
4978028 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4978063 CCTCGAGTTT
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:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4998966 original size:25 final size:25
Alignment explanation
Indices: 4998921--4998991 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
4998911 TTTCTTTTTC
* * *
4998921 CCATTTTATTTTTTTAATATTATAT
1 CCATTTTATTATATTAATATTACAT
*
4998946 CCATTTTATTATATTATTATTACAT
1 CCATTTTATTATATTAATATTACAT
* * *
4998971 ACATTTT-TTAAATAAATATTA
1 CCATTTTATTATATTAATATTA
4998992 TGGATTATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 11 0.29
25 27 0.71
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (25 bp):
CCATTTTATTATATTAATATTACAT
Found at i:5001702 original size:2 final size:2
Alignment explanation
Indices: 5001695--5001721 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5001685 TCAAGCCCGG
5001695 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
5001722 GCTTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5006837 original size:12 final size:12
Alignment explanation
Indices: 5006820--5006844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5006810 TAAACACACC
5006820 CTAATATAGTTA
1 CTAATATAGTTA
5006832 CTAATATAGTTA
1 CTAATATAGTTA
5006844 C
1 C
5006845 AGTAAACAAT
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:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (12 bp):
CTAATATAGTTA
Found at i:5013476 original size:13 final size:14
Alignment explanation
Indices: 5013460--5013501 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
5013450 TTTCAATTTT
5013460 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
5013473 ATTTTAAAAATGATA
1 ATTTTAATAAT-ATA
5013488 ATTTTCAATAATAT
1 ATTTT-AATAATAT
5013502 TCTTCGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:5013529 original size:15 final size:15
Alignment explanation
Indices: 5013509--5013565 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 15
5013499 TATTCTTCGA
5013509 AAATATTTTAATAAT
1 AAATATTTTAATAAT
*
5013524 AAATATTATTACAATTAT
1 AAATATT-TT--AATAAT
*
5013542 AAATATATTAATAAT
1 AAATATTTTAATAAT
5013557 AAATATTTT
1 AAATATTTT
5013566 GTAGTATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 20 0.57
16 2 0.06
17 2 0.06
18 11 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:5013749 original size:94 final size:95
Alignment explanation
Indices: 5013647--5013829 Score: 298
Period size: 94 Copynumber: 1.9 Consensus size: 95
5013637 TATTTTCAAG
* *
5013647 AATTTCATCCTTGTACTTTTCAAATTTGAAAATCAAGTCCAATTGTTGAC-CTTGTTAAA-TTTT
1 AATTTCATCCCTCTACTTTTCAAATTTGAAAATCAAGTCCAATTGTTGACAC-TGTTAAATTTTT
*
5013710 TTGTCAATTTTGTTGATGTCACATTTTTGTC
65 TTGTCAATTTTATTGATGTCACATTTTTGTC
* *
5013741 AATTTCATCCCTCTACTTTTCAGATTTGAAAATCAAGTTCAATTGTTGACACTGTTAAATTTTTT
1 AATTTCATCCCTCTACTTTTCAAATTTGAAAATCAAGTCCAATTGTTGACACTGTTAAATTTTTT
5013806 TGTCAATTTTATTGATGTCACATT
66 TGTCAATTTTATTGATGTCACATT
5013830 GGTAGTCATG
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
94 53 0.65
95 29 0.35
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (95 bp):
AATTTCATCCCTCTACTTTTCAAATTTGAAAATCAAGTCCAATTGTTGACACTGTTAAATTTTTT
TGTCAATTTTATTGATGTCACATTTTTGTC
Found at i:5019963 original size:42 final size:42
Alignment explanation
Indices: 5019901--5019985 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
5019891 TATATGGCAG
* *
5019901 TAAAGACACAATAGGGAGTTAAGGCTAGTAAAATACAAGCAA
1 TAAAGACACAACAGGAAGTTAAGGCTAGTAAAATACAAGCAA
5019943 TAAAGACACAACAGGAAGTTAAGGCTAGTAAAATACAAGCAA
1 TAAAGACACAACAGGAAGTTAAGGCTAGTAAAATACAAGCAA
5019985 T
1 T
5019986 GGAAAAACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.13, G:0.20, T:0.16
Consensus pattern (42 bp):
TAAAGACACAACAGGAAGTTAAGGCTAGTAAAATACAAGCAA
Found at i:5024572 original size:36 final size:36
Alignment explanation
Indices: 5024525--5024600 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
5024515 TGGTCAAATC
5024525 ATGAGGAAGGTAATGAAGTTGTACTTCTCAACGAAA
1 ATGAGGAAGGTAATGAAGTTGTACTTCTCAACGAAA
5024561 ATGAGGAAGGTAATGAAGTTGTACTTCTCAACGAAA
1 ATGAGGAAGGTAATGAAGTTGTACTTCTCAACGAAA
5024597 ATGA
1 ATGA
5024601 TGAACCATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (36 bp):
ATGAGGAAGGTAATGAAGTTGTACTTCTCAACGAAA
Found at i:5025979 original size:23 final size:25
Alignment explanation
Indices: 5025952--5025998 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
5025942 TAAATTTTCC
*
5025952 TTAGT-CAAATAT-TTTTATAATAT
1 TTAGTACAAATATAATTTATAATAT
5025975 TTAGTAACAAATATAATTTATAAT
1 TTAGT-ACAAATATAATTTATAAT
5025999 TGACTTGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
25 7 0.35
26 8 0.40
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
TTAGTACAAATATAATTTATAATAT
Found at i:5031900 original size:2 final size:2
Alignment explanation
Indices: 5031893--5031932 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
5031883 TTAGAAAATT
5031893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5031933 ACTCAAGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5033313 original size:18 final size:17
Alignment explanation
Indices: 5033290--5033324 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
5033280 GAATAAATCT
5033290 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
5033308 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
5033325 ACCGTAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:5033683 original size:18 final size:16
Alignment explanation
Indices: 5033652--5033695 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
5033642 GGTTTAAGGT
*
5033652 TTAAAAATTTTAATTAA
1 TTAAAAA-TTTATTTAA
5033669 TT--AAATTTATTTAA
1 TTAAAAATTTATTTAA
5033683 TTAAAAATTTATT
1 TTAAAAATTTATT
5033696 CTTATTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 9 0.38
17 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAATTTATTTAA
Found at i:5045463 original size:80 final size:80
Alignment explanation
Indices: 5045346--5045509 Score: 274
Period size: 80 Copynumber: 2.0 Consensus size: 80
5045336 TGTTAGAATC
* *
5045346 AAAAGGAAAGAAGATAAATATGAAGAAGACACATGTGTGGAAATGGGTTTAGGGTTTTTTCAACT
1 AAAAGGAAAGAAGATAAAGATGAAGAAGACACATGTGTGGAAATGAGTTTAGGGTTTTTTCAACT
5045411 AAGATTTAGGTTTAA
66 AAGATTTAGGTTTAA
* * * *
5045426 AAAAGGGAAGAAGATAAAGATGAAGAAGATACGTGTGTGGAAATGAGTTTAGTGTTTTTTCAACT
1 AAAAGGAAAGAAGATAAAGATGAAGAAGACACATGTGTGGAAATGAGTTTAGGGTTTTTTCAACT
5045491 AAGATTTAGGTTTAA
66 AAGATTTAGGTTTAA
5045506 AAAA
1 AAAA
5045510 TTAATTAATT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.29
Consensus pattern (80 bp):
AAAAGGAAAGAAGATAAAGATGAAGAAGACACATGTGTGGAAATGAGTTTAGGGTTTTTTCAACT
AAGATTTAGGTTTAA
Found at i:5050217 original size:19 final size:19
Alignment explanation
Indices: 5050194--5050237 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
5050184 TAAAACTTCA
*
5050194 AAAAATATATATAAAAATT
1 AAAAATAAATATAAAAATT
* *
5050213 GAAAATAAATGTAAAAATT
1 AAAAATAAATATAAAAATT
5050232 AAAAAT
1 AAAAAT
5050238 TTAGTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAAAATAAATATAAAAATT
Found at i:5050529 original size:23 final size:23
Alignment explanation
Indices: 5050503--5050555 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
5050493 AAAATTTGAC
* *
5050503 TATTTTTT-TTATACTTTTTTGTA
1 TATTTTTTATTATA-TTTGTTATA
*
5050526 TATTTTTTATTTTATTTGTTATA
1 TATTTTTTATTATATTTGTTATA
5050549 TATTTTT
1 TATTTTT
5050556 AGATTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (23 bp):
TATTTTTTATTATATTTGTTATA
Found at i:5050533 original size:21 final size:21
Alignment explanation
Indices: 5050507--5050556 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
5050497 TTTGACTATT
5050507 TTTTTTATACTTT-TTTG-TATA
1 TTTTTTAT--TTTATTTGTTATA
5050528 TTTTTTATTTTATTTGTTATA
1 TTTTTTATTTTATTTGTTATA
5050549 TATTTTTA
1 T-TTTTTA
5050557 GATTCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 13 0.50
22 6 0.23
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTTTATTTTATTTGTTATA
Found at i:5050662 original size:45 final size:46
Alignment explanation
Indices: 5050605--5050695 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
5050595 ATTTTAAATG
*
5050605 TTAAATTTTAACTTAAT-TTTTTATTTTTTATATAGTCAATTTTTT
1 TTAAAATTTAACTTAATCTTTTTATTTTTTATATAGTCAATTTTTT
* *
5050650 TTAAAATTTAACTTATTCTTTTTATTTTTTATATATTCAATTTTTT
1 TTAAAATTTAACTTAATCTTTTTATTTTTTATATAGTCAATTTTTT
5050696 GAATTTTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 15 0.36
46 27 0.64
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (46 bp):
TTAAAATTTAACTTAATCTTTTTATTTTTTATATAGTCAATTTTTT
Found at i:5051641 original size:11 final size:12
Alignment explanation
Indices: 5051620--5051651 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
5051610 TCTCACTTTC
5051620 AATTATTTTAAT
1 AATTATTTTAAT
5051632 AATT-TTTTAAT
1 AATTATTTTAAT
5051643 -ATTATTTTA
1 AATTATTTTA
5051652 TCGTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 12 0.63
12 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTATTTTAAT
Found at i:5070406 original size:15 final size:16
Alignment explanation
Indices: 5070388--5070430 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
5070378 TTATTTTTAA
**
5070388 TAAATATTTTTT-GTT
1 TAAATATTTTTTAAAT
5070403 TAAATATATTTTTAAAT
1 TAAATAT-TTTTTAAAT
5070420 TAAATATTTTT
1 TAAATATTTTT
5070431 ATCAAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 9 0.38
17 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TAAATATTTTTTAAAT
Found at i:5070726 original size:3 final size:3
Alignment explanation
Indices: 5070718--5070754 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
5070708 ATTCATTCAT
5070718 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 T
5070755 AAACTCTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5073470 original size:19 final size:18
Alignment explanation
Indices: 5073421--5073470 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
5073411 ATTAATATAT
* *
5073421 AAAGCAATAAAATTTAAA
1 AAAGAAATAAAATATAAA
*
5073439 AAATAAATAAAATATAAA
1 AAAGAAATAAAATATAAA
*
5073457 ATAAGAAGTAAAAT
1 A-AAGAAATAAAAT
5073471 CCGAAAGAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (18 bp):
AAAGAAATAAAATATAAA
Found at i:5084188 original size:6 final size:6
Alignment explanation
Indices: 5084177--5084207 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
5084167 AGCCATGCCA
5084177 GCCTTT GCCTTT GCCTTT GCCTTT GCCTTT G
1 GCCTTT GCCTTT GCCTTT GCCTTT GCCTTT G
5084208 TCTTATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.19, T:0.48
Consensus pattern (6 bp):
GCCTTT
Found at i:5085194 original size:15 final size:16
Alignment explanation
Indices: 5085170--5085203 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5085160 TTTAACTCGG
5085170 TGAATATTAG-TCGAT
1 TGAATATTAGTTCGAT
*
5085185 TGAATCTTAGTTCGAT
1 TGAATATTAGTTCGAT
5085201 TGA
1 TGA
5085204 CATTGATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (16 bp):
TGAATATTAGTTCGAT
Found at i:5095454 original size:21 final size:23
Alignment explanation
Indices: 5095418--5095459 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5095408 ACTATTAAAT
*
5095418 TTTAAGAAAATTGAG-AGAAAAA
1 TTTAAGAAAATAGAGAAGAAAAA
5095440 TTTAA-AAAATAGAGAAGAAA
1 TTTAAGAAAATAGAGAAGAAA
5095460 GGTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (23 bp):
TTTAAGAAAATAGAGAAGAAAAA
Found at i:5097448 original size:29 final size:29
Alignment explanation
Indices: 5097408--5097465 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
5097398 TATGCACATA
5097408 TTTGTATGTCTGTCTTCTTGGTAAACCAT
1 TTTGTATGTCTGTCTTCTTGGTAAACCAT
5097437 TTTGTATGTCTGTCTTCTTGGTAAACCAT
1 TTTGTATGTCTGTCTTCTTGGTAAACCAT
5097466 ATTCAAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (29 bp):
TTTGTATGTCTGTCTTCTTGGTAAACCAT
Found at i:5100779 original size:41 final size:41
Alignment explanation
Indices: 5100722--5100802 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
5100712 TATGTTAAGT
*
5100722 ATTAGTTAACTGTCAAAAGGATAAAGTTCTGTCCCCATAGC
1 ATTAGTTAACTGTCAAAAGCATAAAGTTCTGTCCCCATAGC
5100763 ATTAGTTAACTGTCAAAAGCATAAAGTTCTGTCCCCATAG
1 ATTAGTTAACTGTCAAAAGCATAAAGTTCTGTCCCCATAG
5100803 TTTTTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (41 bp):
ATTAGTTAACTGTCAAAAGCATAAAGTTCTGTCCCCATAGC
Found at i:5103300 original size:117 final size:117
Alignment explanation
Indices: 5103085--5103315 Score: 417
Period size: 117 Copynumber: 2.0 Consensus size: 117
5103075 GTGATTATCT
* *
5103085 ATGAAGATGTGGAAGGGCTTACTATTCATAGAATTTGAGTGATTTCATCTGGAGTGTGTAGTTTT
1 ATGAAGATATGGAAGGGCTTACTATTCATAGAATTTGAGTGATTTCAGCTGGAGTGTGTAGTTTT
*
5103150 TAGATGGCTTTATCATTTGATGATAATTTCAAAGAGGATAAATTGAAAATCC
66 TAGATGGCTCTATCATTTGATGATAATTTCAAAGAGGATAAATTGAAAATCC
* *
5103202 ATGACGATATGGAAGGGCTTACTATTCATAGAATTTGAGTGATTTCAGCTGGATTGTGTAGTTTT
1 ATGAAGATATGGAAGGGCTTACTATTCATAGAATTTGAGTGATTTCAGCTGGAGTGTGTAGTTTT
5103267 TAGATGGCTCTATCATTTGATGATAATTTCAAAGAGGATAAATTGAAAA
66 TAGATGGCTCTATCATTTGATGATAATTTCAAAGAGGATAAATTGAAAA
5103316 AGAAATATCT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 109 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (117 bp):
ATGAAGATATGGAAGGGCTTACTATTCATAGAATTTGAGTGATTTCAGCTGGAGTGTGTAGTTTT
TAGATGGCTCTATCATTTGATGATAATTTCAAAGAGGATAAATTGAAAATCC
Found at i:5107510 original size:134 final size:134
Alignment explanation
Indices: 5107270--5107541 Score: 499
Period size: 134 Copynumber: 2.0 Consensus size: 134
5107260 TGTCTGCTGA
5107270 AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTCGTGCTTAAAATGTGTATATTTCTG
1 AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTCGTGCTTAAAATGTGTATATTTCTG
*
5107335 TAGGAGATTTCTTCAGCAAAATTTTGGTACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
66 TAGGAGATTTCTTCAGCAAAATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
5107400 GAAC
131 GAAC
* * *
5107404 AGAGTTGAAACTCAATAATTTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
1 AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTCGTGCTTAAAATGTGTATATTTCTG
*
5107469 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
66 TAGGAGATTTCTTCAGCAAAATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
5107534 GAAC
131 GAAC
5107538 AGAG
1 AGAG
5107542 GTATGCCTTC
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (134 bp):
AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTCGTGCTTAAAATGTGTATATTTCTG
TAGGAGATTTCTTCAGCAAAATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
GAAC
Found at i:5108370 original size:13 final size:13
Alignment explanation
Indices: 5108352--5108377 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5108342 TGAACTTGTT
5108352 ATGTTTTTCTATC
1 ATGTTTTTCTATC
5108365 ATGTTTTTCTATC
1 ATGTTTTTCTATC
5108378 TCCATGTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
ATGTTTTTCTATC
Done.