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 36 of 39
Found at i:5218099 original size:29 final size:28
Alignment explanation
Indices: 5218051--5218124 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
5218041 TATCGACATG
5218051 AATATAATATAATAAAAATAATAAAAATA
1 AATATAATATAATAAAAAT-ATAAAAATA
* * *
5218080 AATATAATATAA-AATTAATATTAATATA
1 AATATAATATAATAA-AAATATAAAAATA
5218108 AATTATTAATATAATAA
1 AA-TA-TAATATAATAA
5218125 TATTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 11 0.29
29 17 0.45
30 8 0.21
31 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
AATATAATATAATAAAAATATAAAAATA
Found at i:5223378 original size:18 final size:18
Alignment explanation
Indices: 5223357--5223391 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5223347 ATTTAATTAT
5223357 AAAATATATATTAATATA
1 AAAATATATATTAATATA
* *
5223375 AAAATATTTTTTAATAT
1 AAAATATATATTAATAT
5223392 TATTTAAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATATATATTAATATA
Found at i:5224124 original size:2 final size:2
Alignment explanation
Indices: 5224117--5224144 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5224107 AAAATCTTCG
5224117 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
5224145 TAATGCATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5225566 original size:5 final size:5
Alignment explanation
Indices: 5225539--5225739 Score: 119
Period size: 5 Copynumber: 41.8 Consensus size: 5
5225529 CTAAAATTTA
*
5225539 ATAAT ATAAAT ATCAT ATAAAT ATAAT ATAAT ATAAT ATAAT ATAA- ATAAGT
1 ATAAT AT-AAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T
* *
5225591 A-ACAT ATAAT ATAAT ATAAA ATTATT ATTAAT ATAAT ATAA- ATAA-
1 ATA-AT ATAAT ATAAT ATAAT A-TAAT A-TAAT ATAAT ATAAT ATAAT
* * * * * *
5225636 ATAA- ATTAAA ATTAT ATAAT ATAA- ATTAT -TAAT ATAAT AAAATT TTAAA
1 ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT
* *
5225685 AT-AT ATAAT AT-TT TTAA- ATAAT AT--T ATAAT ATAA- A-AAT AT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
5225727 A-AAT ATAAT ATAA
1 ATAAT ATAAT ATAA
5225740 ACATGTAAAT
Statistics
Matches: 154, Mismatches: 21, Indels: 42
0.71 0.10 0.19
Matches are distributed among these distances:
3 5 0.03
4 35 0.23
5 90 0.58
6 24 0.16
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:5225598 original size:30 final size:26
Alignment explanation
Indices: 5225539--5225739 Score: 139
Period size: 25 Copynumber: 8.2 Consensus size: 26
5225529 CTAAAATTTA
*
5225539 ATAATATAAATATCATATAAATATAAT
1 ATAATAT-AATATAATATAAATATAAT
*
5225566 ATAATATAATATAATATAAATA-AGT
1 ATAATATAATATAATATAAATATAAT
*
5225591 A-ACATATAATATAATATAAA-ATTATT
1 ATA-ATATAATATAATATAAATA-TAAT
5225617 ATTAATATAATATAA-ATAAATA-AAT
1 A-TAATATAATATAATATAAATATAAT
* *
5225642 -TAAAATTATATAATATAAAT-T-AT
1 ATAATATAATATAATATAAATATAAT
* *
5225665 -TAATATAATAAAATTTTAAA-AT-AT
1 ATAATATAATATAA-TATAAATATAAT
* *
5225689 ATAATAT-TTTTAA-AT-AATAT--T
1 ATAATATAATATAATATAAATATAAT
*
5225710 ATAATATAA-AAATATATAAATATAAT
1 ATAATATAATATA-ATATAAATATAAT
5225736 ATAA
1 ATAA
5225740 ACATGTAAAT
Statistics
Matches: 139, Mismatches: 17, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
21 11 0.08
22 4 0.03
23 25 0.18
24 24 0.17
25 28 0.20
26 27 0.19
27 19 0.14
28 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAATATAATATAATATAAATATAAT
Found at i:5225628 original size:52 final size:51
Alignment explanation
Indices: 5225541--5225674 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 51
5225531 AAAATTTAAT
* *
5225541 AATATAAATATCATATAAA-TATAATATAATATAATATAATATAAAT-AAGTA
1 AATAT-AATATAATATAAATTATTATATAATATAATATAA-ATAAATAAAGTA
*
5225592 ACATATAATATAATATAAAATTATTAT-TAATATAATATAAATAAATAAATTA
1 A-ATATAATATAATAT-AAATTATTATATAATATAATATAAATAAATAAAGTA
*
5225644 AA-ATTATATAATATAAATTATTAATATAATA
1 AATATAATATAATATAAATTATT-ATATAATA
5225675 AAATTTTAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
49 8 0.11
50 13 0.18
51 22 0.30
52 25 0.34
53 5 0.07
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (51 bp):
AATATAATATAATATAAATTATTATATAATATAATATAAATAAATAAAGTA
Found at i:5225641 original size:8 final size:9
Alignment explanation
Indices: 5225538--5225739 Score: 74
Period size: 8 Copynumber: 22.6 Consensus size: 9
5225528 TCTAAAATTT
5225538 AATAATATA
1 AATAATATA
5225547 AATATCATATA
1 AATA--ATATA
5225558 AAT-ATA-A
1 AATAATATA
*
5225565 TATAATATA
1 AATAATATA
5225574 ATATAATATA
1 A-ATAATATA
5225584 AATAAGTA-A
1 AATAA-TATA
5225593 CATATAATAT-
1 -A-ATAATATA
5225603 AAT-ATA-A
1 AATAATATA
*
5225610 AATTATTATTA
1 AA-TAATA-TA
5225621 ATATAATATA
1 A-ATAATATA
5225631 AATAA-ATA
1 AATAATATA
*
5225639 AATTAAAATTA
1 AA-TAATA-TA
*
5225650 TATAATATA
1 AATAATATA
*
5225659 AATTAT-TA
1 AATAATATA
5225667 ATATAATA-A
1 A-ATAATATA
**
5225676 AATTTTA-A
1 AATAATATA
5225684 AAT-ATAT-
1 AATAATATA
* *
5225691 AATATTTTTA
1 AATA-ATATA
5225701 AATAATAT-
1 AATAATATA
*
5225709 TATAATATA
1 AATAATATA
5225718 AA-AATATA
1 AATAATATA
*
5225726 TA-AATATA
1 AATAATATA
5225734 ATATAA
1 A-ATAA
5225740 ACATGTAAAT
Statistics
Matches: 146, Mismatches: 20, Indels: 53
0.67 0.09 0.24
Matches are distributed among these distances:
7 13 0.09
8 45 0.31
9 38 0.26
10 28 0.19
11 21 0.14
12 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (9 bp):
AATAATATA
Found at i:5225652 original size:23 final size:24
Alignment explanation
Indices: 5225555--5225674 Score: 82
Period size: 23 Copynumber: 4.7 Consensus size: 24
5225545 TAAATATCAT
*
5225555 ATAAATATAATATAATATAATATAA
1 ATAAAT-TAAAATAATATAATATAA
5225580 TATAAATAAGTAACATATAATATAATATAAA
1 -ATAAAT---TAA-A-ATAATATAATAT-AA
* *
5225611 ATTATTATTAATATAATATAA-ATAA
1 A-TA-AATTAAAATAATATAATATAA
*
5225636 ATAAATTAAAATTATATAATATAA
1 ATAAATTAAAATAATATAATATAA
* *
5225660 AT-TATTAATATAATA
1 ATAAATTAAAATAATA
5225675 AAATTTTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
23 23 0.30
24 8 0.11
25 3 0.04
26 8 0.11
27 9 0.12
28 3 0.04
29 3 0.04
30 13 0.17
31 4 0.05
32 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
ATAAATTAAAATAATATAATATAA
Found at i:5226512 original size:32 final size:32
Alignment explanation
Indices: 5226471--5226567 Score: 115
Period size: 32 Copynumber: 2.9 Consensus size: 32
5226461 AAAAATTATA
5226471 ATATAATATAAATATATAAATATTTTATATTT
1 ATATAATATAAATATATAAATATTTTATATTT
* *
5226503 ATATAATATAAA-ATATAAATATGTTAAAATTT
1 ATATAATATAAATATATAAATAT-TTTATATTT
*
5226535 ATATAAATATAAATTATTTTAAATATTATTATA
1 ATAT-AATATAAA-TA-TATAAATATT-TTATA
5226568 ATAAAATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
31 10 0.19
32 23 0.43
33 8 0.15
35 2 0.04
36 11 0.20
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (32 bp):
ATATAATATAAATATATAAATATTTTATATTT
Found at i:5226558 original size:26 final size:27
Alignment explanation
Indices: 5226503--5226577 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
5226493 TTTTATATTT
*
5226503 ATATAATATAAAATATAAATATGTTAAA
1 ATATTATAT-AAATATAAATATGTTAAA
*
5226531 AT-TTATATAAATATAAATTATTTTAAA
1 ATATTATATAAATATAAA-TATGTTAAA
5226558 TATTATTATAATAAA-ATAAA
1 -A-TATTAT-ATAAATATAAA
5226578 ATATATGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 9 0.22
27 13 0.32
28 3 0.08
29 1 0.03
30 9 0.22
31 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
ATATTATATAAATATAAATATGTTAAA
Found at i:5226602 original size:57 final size:56
Alignment explanation
Indices: 5226450--5226606 Score: 146
Period size: 57 Copynumber: 2.8 Consensus size: 56
5226440 ATTAGATATG
* *
5226450 ATAATATGAAAA-AAAAT-TATAATATAATATAAATATATAAA-TATTTTATATTTAT
1 ATAATAT-AAAATAAAATATATAATAT-ATATATATATATAAATTATTTTAAATTTAT
* * * *
5226505 ATAATATAAAATATAAATATGTTAAAATTTATATAAATATAAATTATTTTAAATATTAT
1 ATAATATAAAATA-AAATAT-ATAATATATATATATATATAAATTATTTTAAAT-TTAT
5226564 -T-ATAATAAAATAAAATATATGAATATGATAT-TATATATAAATT
1 ATAAT-ATAAAATAAAATATAT-AATAT-ATATATATATATAAATT
5226607 GTAAGTTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
54 4 0.05
55 8 0.10
56 5 0.06
57 36 0.43
58 26 0.31
59 4 0.05
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (56 bp):
ATAATATAAAATAAAATATATAATATATATATATATATAAATTATTTTAAATTTAT
Found at i:5229306 original size:21 final size:21
Alignment explanation
Indices: 5229281--5229322 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5229271 TTGCAGTAAA
*
5229281 TTTTATATAA-ATATATAATAT
1 TTTTAAATAATAT-TATAATAT
5229302 TTTTAAATAATATTATAATAT
1 TTTTAAATAATATTATAATAT
5229323 AAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTAAATAATATTATAATAT
Found at i:5229332 original size:21 final size:20
Alignment explanation
Indices: 5229308--5229358 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
5229298 ATATTTTTAA
5229308 ATAATATTATAATATAAAAAT
1 ATAA-ATTATAATATAAAAAT
* *
5229329 ATAAAAATATAATATAAATAT
1 AT-AAATTATAATATAAAAAT
5229350 ATAAATTAT
1 ATAAATTAT
5229359 TTATTTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 6 0.23
21 18 0.69
22 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAATTATAATATAAAAAT
Found at i:5230202 original size:26 final size:29
Alignment explanation
Indices: 5230160--5230230 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 29
5230150 ATATAATACG
5230160 AAATAT-AAATATATTAAAAT-TTA-TAT
1 AAATATAAAATATATTAAAATATTATTAT
5230186 AAATATAAAATAT-TTAAAATATTATTAT
1 AAATATAAAATATATTAAAATATTATTAT
*
5230214 AACATGATAAACTATAT
1 AA-AT-ATAAAATATAT
5230231 GAGTATGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 13 0.34
27 9 0.24
28 5 0.13
29 2 0.05
30 8 0.21
31 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (29 bp):
AAATATAAAATATATTAAAATATTATTAT
Found at i:5230422 original size:25 final size:25
Alignment explanation
Indices: 5230381--5230432 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
5230371 TAAGTTTAAA
5230381 TTTTAATTTCAATATTAT-AATTCTT
1 TTTTAATTTCAATATTATGAATT-TT
*
5230406 TTTTGATTCTCAA-ATTATGAATTTT
1 TTTTAATT-TCAATATTATGAATTTT
5230431 TT
1 TT
5230433 GTAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTTAATTTCAATATTATGAATTTT
Found at i:5233090 original size:2 final size:2
Alignment explanation
Indices: 5233083--5233109 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5233073 CCATGTAAAC
5233083 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
5233110 ATGATCTTGA
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:5233752 original size:34 final size:35
Alignment explanation
Indices: 5233675--5233755 Score: 87
Period size: 34 Copynumber: 2.3 Consensus size: 35
5233665 AAATTAAATT
* * *
5233675 TTTAAAAAATAATTATTATTTTAATATTATTTAAA
1 TTTAAAAATTAATTAATATATTAATATTATTTAAA
*
5233710 -TAATAAAATTAATTAATA-ATTAAT-TTAATTTAAA
1 TTTA-AAAATTAATTAATATATTAATATT-ATTTAAA
5233744 TTTAAAAATTAA
1 TTTAAAAATTAA
5233756 AACTGCTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
33 2 0.05
34 22 0.58
35 14 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
TTTAAAAATTAATTAATATATTAATATTATTTAAA
Found at i:5236186 original size:36 final size:33
Alignment explanation
Indices: 5236145--5236233 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
5236135 CTAAGATGCT
* *
5236145 TGAAGAAGAGGAGCAGGAAGGAGCAAGCGAACA
1 TGAAGAAGAGGAGCAGGAAGAAGCAAGCAAACA
*
5236178 TGAAGAAGAGGAGCAGGAAGAAGGAAGCAAACA
1 TGAAGAAGAGGAGCAGGAAGAAGCAAGCAAACA
* *
5236211 TGAAGAAGAGGATCAAGAAGAAG
1 TGAAGAAGAGGAGCAGGAAGAAG
5236234 TGCGGGATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.49, C:0.09, G:0.37, T:0.04
Consensus pattern (33 bp):
TGAAGAAGAGGAGCAGGAAGAAGCAAGCAAACA
Found at i:5236199 original size:15 final size:15
Alignment explanation
Indices: 5236146--5236200 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
5236136 TAAGATGCTT
5236146 GAAGAAGAGGAGCAG
1 GAAGAAGAGGAGCAG
* * *
5236161 GAAGGAGCAAGCGAACAT
1 GAAGAAG--AG-GAGCAG
5236179 GAAGAAGAGGAGCAG
1 GAAGAAGAGGAGCAG
5236194 GAAGAAG
1 GAAGAAG
5236201 GAAGCAAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 17 0.55
16 2 0.06
17 2 0.06
18 10 0.32
ACGTcount: A:0.47, C:0.09, G:0.42, T:0.02
Consensus pattern (15 bp):
GAAGAAGAGGAGCAG
Found at i:5238588 original size:21 final size:22
Alignment explanation
Indices: 5238561--5238620 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
5238551 TATATATTGG
*
5238561 TATTATTTTTATATTTATAATT
1 TATTATTTTTATATTTAAAATT
* *
5238583 TA-TATTATATAAATTTTAAAATT
1 TATTATT-TTTATA-TTTAAAATT
*
5238606 TATTATATTTATATT
1 TATTATTTTTATATT
5238621 ATTTTTTATC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
21 4 0.14
22 8 0.28
23 14 0.48
24 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTTATATTTAAAATT
Found at i:5238628 original size:21 final size:22
Alignment explanation
Indices: 5238603--5238650 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
5238593 AAATTTTAAA
*
5238603 ATTTATTATATTTATATTATTT
1 ATTTATCATATTTATATTATTT
* *
5238625 -TTTATCGTATTTTTATTATTT
1 ATTTATCATATTTATATTATTT
5238646 ATTTA
1 ATTTA
5238651 AAATTATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTATCATATTTATATTATTT
Found at i:5240193 original size:12 final size:15
Alignment explanation
Indices: 5240160--5240194 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5240150 TGTCCAATTT
5240160 TATTTTTATTATCAA
1 TATTTTTATTATCAA
5240175 TATTTTTATT-T-AA
1 TATTTTTATTATCAA
5240188 TATTTTT
1 TATTTTT
5240195 GATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 1 0.05
15 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTATTATCAA
Found at i:5240293 original size:3 final size:3
Alignment explanation
Indices: 5240279--5240316 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
5240269 TTAATTACCA
* *
5240279 AAT AAT AGT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5240317 CATTACTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:5240739 original size:23 final size:24
Alignment explanation
Indices: 5240713--5240768 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
5240703 CATGGATCTA
5240713 AAATTTTAATA-TTTAATAAATTT
1 AAATTTTAATATTTTAATAAATTT
**
5240736 AAATTTTAATATTTTAATATTTTT
1 AAATTTTAATATTTTAATAAATTT
*
5240760 AATTTTTAA
1 AAATTTTAA
5240769 ATTAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AAATTTTAATATTTTAATAAATTT
Found at i:5240743 original size:16 final size:17
Alignment explanation
Indices: 5240713--5240746 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5240703 CATGGATCTA
*
5240713 AAATTTTAATATTTAAT
1 AAATTTAAATATTTAAT
5240730 AAATTTAAAT-TTTAAT
1 AAATTTAAATATTTAAT
5240746 A
1 A
5240747 TTTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTTAAATATTTAAT
Found at i:5240757 original size:16 final size:16
Alignment explanation
Indices: 5240715--5240768 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
5240705 TGGATCTAAA
5240715 ATTTTAATA-TTTAAT
1 ATTTTAATATTTTAAT
*
5240730 AAATTTAA-ATTTTAAT
1 -ATTTTAATATTTTAAT
5240746 ATTTTAATATTTTTAAT
1 ATTTTAATA-TTTTAAT
5240763 -TTTTAA
1 ATTTTAA
5240769 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 7 0.21
16 19 0.58
17 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTAATATTTTAAT
Found at i:5241140 original size:25 final size:25
Alignment explanation
Indices: 5241112--5241159 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
5241102 TTAAATTTAA
5241112 AATATATTAATATTAATTAAAAAAT
1 AATATATTAATATTAATTAAAAAAT
* *
5241137 AATATTTTAATATTATTTAAAAA
1 AATATATTAATATTAATTAAAAA
5241160 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATATATTAATATTAATTAAAAAAT
Found at i:5241161 original size:21 final size:22
Alignment explanation
Indices: 5241105--5241161 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
5241095 AATATTTTTA
5241105 AATTT-AAAATATATTAATATT
1 AATTTAAAAATATATTAATATT
*
5241126 AATTAAAAAATAATATTTTAATATT
1 AATTTAAAAAT-ATA--TTAATATT
5241151 -ATTTAAAAATA
1 AATTTAAAAATA
5241162 AAATAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 4 0.13
24 9 0.30
25 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTAAAAATATATTAATATT
Found at i:5246152 original size:13 final size:13
Alignment explanation
Indices: 5246134--5246160 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5246124 GAGATTAAAG
5246134 ATATATAATATAT
1 ATATATAATATAT
5246147 ATATATAATATAT
1 ATATATAATATAT
5246160 A
1 A
5246161 AACCTTAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATAATATAT
Found at i:5253349 original size:7 final size:6
Alignment explanation
Indices: 5253256--5253345 Score: 51
Period size: 6 Copynumber: 15.2 Consensus size: 6
5253246 ATTTTTTTAA
* * * *
5253256 ATATTC ATATAT ATATAT ATATAT ATATTT AT-TTT AT-TTT AT-TTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
* ** * * *
5253301 TTAAAT ATATTT ACATTT ACTATTT ACATCT ATAATTT ATATTT A
1 ATATTT ATATTT ATATTT A-TATTT ATATTT AT-ATTT ATATTT A
5253346 ATATAATTTC
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
5 14 0.21
6 42 0.64
7 10 0.15
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (6 bp):
ATATTT
Found at i:5256604 original size:17 final size:18
Alignment explanation
Indices: 5256578--5256611 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5256568 TAAACTCAAA
5256578 ATAAAATTT-AAATTAAC
1 ATAAAATTTAAAATTAAC
*
5256595 ATAAATTTTAAAATTAA
1 ATAAAATTTAAAATTAA
5256612 ATAGATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAATTTAAAATTAAC
Found at i:5257724 original size:14 final size:14
Alignment explanation
Indices: 5257696--5257742 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
5257686 TTTAATGATG
5257696 AAAATATTATTTTTA
1 AAAATA-TATTTTTA
5257711 AAAATA-ATTCTTTA
1 AAAATATATT-TTTA
*
5257725 AAATTATATTTTTA
1 AAAATATATTTTTA
5257739 AAAA
1 AAAA
5257743 ATTTAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 3 0.11
14 16 0.57
15 9 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATATATTTTTA
Found at i:5257933 original size:2 final size:2
Alignment explanation
Indices: 5257926--5258017 Score: 59
Period size: 2 Copynumber: 47.5 Consensus size: 2
5257916 TACATTTATG
* * *
5257926 TA TA TA TA TA TA TA TA TA TA TG TA TA -A CCA -A TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * *
5257967 TA CA TA TA TA TA TA TA TG TA TA -A TCA TT TA TA TG TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
*
5258008 T- TT TA TA TA T
1 TA TA TA TA TA T
5258018 GAACTAATCA
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
1 5 0.07
2 62 0.89
3 3 0.04
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5258515 original size:17 final size:17
Alignment explanation
Indices: 5258473--5258518 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
5258463 AATAATTTTA
*
5258473 ATAATTTTAAAAATTAT
1 ATAATTATAAAAATTAT
5258490 ATAATTATAAAAATTTAT
1 ATAATTATAAAAA-TTAT
*
5258508 ATCA-TATAAAA
1 ATAATTATAAAA
5258519 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTATAAAAATTAT
Found at i:5259026 original size:30 final size:31
Alignment explanation
Indices: 5258991--5259048 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
5258981 AATAACTTTT
5258991 AAATTTACGAGT-AAT-TATATTTAATTTATC
1 AAATTTACGA-TCAATATATATTTAATTTATC
*
5259021 AAATTTACGATCAATATCTATTTAATTT
1 AAATTTACGATCAATATATATTTAATTT
5259049 TTTAAAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 13 0.52
31 11 0.44
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (31 bp):
AAATTTACGATCAATATATATTTAATTTATC
Found at i:5259188 original size:25 final size:26
Alignment explanation
Indices: 5259142--5259198 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
5259132 GTACAATTAA
5259142 TATTAAAATTAAAATTGTATTAAAAAT
1 TATTAAAATT-AAATTGTATTAAAAAT
5259169 TATTAAAATT-AATT-TAATTAAAAAT
1 TATTAAAATTAAATTGT-ATTAAAAAT
5259194 TATTA
1 TATTA
5259199 CATATCAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.03
25 18 0.62
27 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
TATTAAAATTAAATTGTATTAAAAAT
Found at i:5259635 original size:32 final size:32
Alignment explanation
Indices: 5259599--5259666 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
5259589 GCATTATTTA
**
5259599 ATTAGGTTACATCATCTTTTAATGGTTAAGAG
1 ATTAGGTTACATCATCTTTTAATGGCCAAGAG
* * * *
5259631 ATTAGTTTAGATTATCTTTTACTGGCCAAGAG
1 ATTAGGTTACATCATCTTTTAATGGCCAAGAG
5259663 ATTA
1 ATTA
5259667 TGATGGTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (32 bp):
ATTAGGTTACATCATCTTTTAATGGCCAAGAG
Found at i:5259778 original size:3 final size:3
Alignment explanation
Indices: 5259772--5259811 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
5259762 TAAAATTATT
*
5259772 ATA ATA ATA ATA ATA ATA ATA AT- GTA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
5259812 TACTGCAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:5259801 original size:17 final size:17
Alignment explanation
Indices: 5259779--5259811 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5259769 ATTATAATAA
5259779 TAATAATAATAATAATG
1 TAATAATAATAATAATG
5259796 TAATAATAATAATAAT
1 TAATAATAATAATAAT
5259812 TACTGCAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TAATAATAATAATAATG
Found at i:5261052 original size:20 final size:19
Alignment explanation
Indices: 5261013--5261052 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
5261003 ATGAATTTTA
**
5261013 AAATTATTTATTAATTATT
1 AAATTATTTATTAAAAATT
5261032 AAATTATTTTATTAAAAATT
1 AAATTA-TTTATTAAAAATT
5261052 A
1 A
5261053 TTAAAAGATA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTATTTATTAAAAATT
Found at i:5263266 original size:30 final size:29
Alignment explanation
Indices: 5263232--5263309 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
5263222 TAACGCACGC
* * *
5263232 TAAAATATTGTTGATTTTTAAATAAATTAT
1 TAAAATATTATT-AATTTAAAATAAATTAT
*
5263262 TAAAAGATTATTAATTTAAAATAAATTAT
1 TAAAATATTATTAATTTAAAATAAATTAT
* * *
5263291 AAAAATATTAATATTTTAA
1 TAAAATATTATTAATTTAA
5263310 TTAGTAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 30 0.75
30 10 0.25
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (29 bp):
TAAAATATTATTAATTTAAAATAAATTAT
Found at i:5263308 original size:29 final size:29
Alignment explanation
Indices: 5263245--5263309 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
5263235 AATATTGTTG
* * *
5263245 ATTTTTAAATAAATTATTAAAAGATTATT
1 ATTTTAAAATAAATTATAAAAAGATTAAT
* *
5263274 AATTTAAAATAAATTATAAAAATATTAAT
1 ATTTTAAAATAAATTATAAAAAGATTAAT
5263303 ATTTTAA
1 ATTTTAA
5263310 TTAGTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTTTAAAATAAATTATAAAAAGATTAAT
Found at i:5263468 original size:8 final size:8
Alignment explanation
Indices: 5263437--5263491 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
5263427 TTATTCGTCA
5263437 ATTATTATT
1 ATTA-TATT
*
5263446 ATTATAAT
1 ATTATATT
5263454 ATTATATT
1 ATTATATT
5263462 ATTATATTT
1 ATTATA-TT
* *
5263471 ATATTTTTT
1 AT-TATATT
5263480 ATTATATT
1 ATTATATT
5263488 ATTA
1 ATTA
5263492 AGAGGTTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 24 0.63
9 12 0.32
10 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTATATT
Found at i:5263556 original size:32 final size:31
Alignment explanation
Indices: 5263517--5263595 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
5263507 TTTTAATTTA
5263517 AATTTTAAATTTAAAATAATTAAATTATT-AT
1 AATTTTAAATTTAAAA-AATTAAATTATTAAT
* * *
5263548 AATTTTTAATTCATATAAAATTATATTATTAAT
1 AATTTTAAATT--TAAAAAATTAAATTATTAAT
*
5263581 AAATTTAAATTTAAA
1 AATTTTAAATTTAAA
5263596 TTAAGGATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
31 13 0.33
32 11 0.28
33 15 0.38
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
AATTTTAAATTTAAAAAATTAAATTATTAAT
Found at i:5263746 original size:77 final size:77
Alignment explanation
Indices: 5263655--5263801 Score: 217
Period size: 77 Copynumber: 1.9 Consensus size: 77
5263645 GAATTTATGG
* * *
5263655 TTAAATTTATTAATAATATAATTTTATATTAATTAAA-AGTTGTAATAACT-TAATTATTTTAAA
1 TTAAATTTATTAATAATATAATTTTACATGAATTAAAGA-TTATAAT-ACTCTAATTATTTTAAA
5263718 TTTAAAAAGTAAAA
64 TTTAAAAAGTAAAA
* *
5263732 TTAAATTTATTAATAATATAATTTTACATGAATTAAGGATTATAATAGTCTAATTATTTTAAATT
1 TTAAATTTATTAATAATATAATTTTACATGAATTAAAGATTATAATACTCTAATTATTTTAAATT
5263797 TAAAA
66 TAAAA
5263802 TTTAAATTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
76 2 0.03
77 60 0.95
78 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (77 bp):
TTAAATTTATTAATAATATAATTTTACATGAATTAAAGATTATAATACTCTAATTATTTTAAATT
TAAAAAGTAAAA
Found at i:5264494 original size:62 final size:61
Alignment explanation
Indices: 5264423--5264567 Score: 209
Period size: 62 Copynumber: 2.3 Consensus size: 61
5264413 TTTACATTAT
*
5264423 AAATTATTAAATTATCAAAATTTATTATAAAGATATAATATTTTAAATATAATTATAATAAA
1 AAATTATTAAATTATCAAAATTTATTATAAAGATATAATATATTAAATATAATTATAAT-AA
* * * *
5264485 AAATTATTAAATTATCTAAATTTATTATAAATATATGATATATTAAATATAATTATGATAA
1 AAATTATTAAATTATCAAAATTTATTATAAAGATATAATATATTAAATATAATTATAATAA
*
5264546 AAATTATATAAATATAACAAAA
1 AAATTAT-TAAAT-TATCAAAA
5264568 ATAAATAAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
61 9 0.12
62 59 0.80
63 6 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (61 bp):
AAATTATTAAATTATCAAAATTTATTATAAAGATATAATATATTAAATATAATTATAATAA
Found at i:5266899 original size:14 final size:14
Alignment explanation
Indices: 5266873--5266913 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
5266863 TTAAAATATG
*
5266873 TTTAAAAATTTATA
1 TTTAAATATTTATA
**
5266887 TTTTTATATTTATA
1 TTTAAATATTTATA
5266901 TTTAAATATTTAT
1 TTTAAATATTTAT
5266914 TATATATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAAATATTTATA
Found at i:5266926 original size:23 final size:22
Alignment explanation
Indices: 5266884--5266931 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
5266874 TTAAAAATTT
* *
5266884 ATATTTTTATATTTATATTTAA
1 ATATTTTTATATATAAATTTAA
5266906 ATATTTATTATATATAAATTTAA
1 ATATTT-TTATATATAAATTTAA
5266929 ATA
1 ATA
5266932 AAAATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTTTTATATATAAATTTAA
Found at i:5268334 original size:18 final size:20
Alignment explanation
Indices: 5268308--5268347 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5268298 TCAGTACCTC
5268308 TTGACAAA-TT-ATAAAAAA
1 TTGACAAATTTAATAAAAAA
*
5268326 TTGATAAATTTAATAAAAAA
1 TTGACAAATTTAATAAAAAA
5268346 TT
1 TT
5268348 ATTAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (20 bp):
TTGACAAATTTAATAAAAAA
Found at i:5268366 original size:11 final size:11
Alignment explanation
Indices: 5268347--5268489 Score: 98
Period size: 11 Copynumber: 12.9 Consensus size: 11
5268337 AATAAAAAAT
*
5268347 TATTAATATTA
1 TATTTATATTA
*
5268358 TATTTATATAA
1 TATTTATATTA
5268369 TATTTAATATTA
1 TATTT-ATATTA
*
5268381 TAATTATATT-
1 TATTTATATTA
** *
5268391 TAAAATATTTTA
1 T-ATTTATATTA
5268403 TATTTAGATATTA
1 TATTT--ATATTA
*
5268416 AATTT-T-TTA
1 TATTTATATTA
*
5268425 TATTTATATAA
1 TATTTATATTA
5268436 TATTTATATTA
1 TATTTATATTA
*
5268447 TTTTTATATTA
1 TATTTATATTA
5268458 TA-TTATAATTA
1 TATTTAT-ATTA
*
5268469 TTATTT-TAATA
1 -TATTTATATTA
*
5268480 TTTTTATATT
1 TATTTATATT
5268490 TAAATTATCA
Statistics
Matches: 103, Mismatches: 18, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
9 7 0.07
10 11 0.11
11 61 0.59
12 13 0.13
13 11 0.11
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (11 bp):
TATTTATATTA
Found at i:5268495 original size:28 final size:30
Alignment explanation
Indices: 5268417--5268497 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 30
5268407 TAGATATTAA
* * *
5268417 ATTTTTTATATTTATA-TAATATTTATATT
1 ATTTTTTATATTTAAATTATTATTTATAAT
5268446 ATTTTTATATTATATTATAATTATTATTT-TAAT
1 ATTTTT-TA-TAT-TTA-AATTATTATTTATAAT
5268479 A-TTTTTATATTTAAATTAT
1 ATTTTTTATATTTAAATTAT
5268498 CACATTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
28 6 0.14
29 9 0.20
30 5 0.11
31 5 0.11
32 7 0.16
33 5 0.11
34 7 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTTTTTATATTTAAATTATTATTTATAAT
Found at i:5269047 original size:22 final size:22
Alignment explanation
Indices: 5269017--5269070 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
5269007 AACAATGTGG
*
5269017 TATACATTGAATCAATACACATT
1 TATA-ATTGAACCAATACACATT
* *
5269040 TATAATTGAGCCAATACATATT
1 TATAATTGAACCAATACACATT
5269062 TATAATTGA
1 TATAATTGA
5269071 TAGATTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (22 bp):
TATAATTGAACCAATACACATT
Found at i:5269149 original size:14 final size:14
Alignment explanation
Indices: 5269111--5269152 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5269101 TATATATTTT
*
5269111 AATTATATAAATTTA
1 AATTAT-TAAATATA
*
5269126 AA-TATAAAATATA
1 AATTATTAAATATA
5269139 AATTATTAAATATA
1 AATTATTAAATATA
5269153 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 8 0.35
14 13 0.57
15 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTATTAAATATA
Found at i:5269175 original size:24 final size:24
Alignment explanation
Indices: 5269130--5269180 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
5269120 AATTTAAATA
5269130 TAAAATATAAATTATTAAATATAT
1 TAAAATATAAATTATTAAATATAT
* *
5269154 TAAAATAATAAATATAATATATATAT
1 TAAAAT-ATAAAT-TATTAAATATAT
5269180 T
1 T
5269181 TAATTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 6 0.26
26 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAATATAAATTATTAAATATAT
Found at i:5270084 original size:2 final size:2
Alignment explanation
Indices: 5270077--5270108 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5270067 TACCATCTAC
5270077 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
5270109 TAATTAGTAG
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:5274807 original size:10 final size:10
Alignment explanation
Indices: 5274789--5274849 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
5274779 ATTATGTCTT
5274789 TTTTA-TATA
1 TTTTATTATA
5274798 TTTTATTATA
1 TTTTATTATA
5274808 TTTTAATTATA
1 TTTT-ATTATA
**
5274819 -TTTAAAATA
1 TTTTATTATA
5274828 TTTTA-TAT-
1 TTTTATTATA
*
5274836 TTATATTA-A
1 TTTTATTATA
5274845 TTTTA
1 TTTTA
5274850 ATTTATTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
8 4 0.10
9 17 0.40
10 15 0.36
11 6 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATTATA
Found at i:5274816 original size:11 final size:11
Alignment explanation
Indices: 5274794--5274846 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
5274784 GTCTTTTTTA
5274794 TATATTTT-AT
1 TATATTTTAAT
5274804 TATATTTTAAT
1 TATATTTTAAT
5274815 TATA-TTTAA-
1 TATATTTTAAT
*
5274824 AATATTTTATAT
1 TATATTTTA-AT
*
5274836 T-TATATTAAT
1 TATATTTTAAT
5274846 T
1 T
5274847 TTAATTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 3 0.08
10 20 0.56
11 13 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTTTAAT
Found at i:5274843 original size:27 final size:26
Alignment explanation
Indices: 5274799--5274881 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
5274789 TTTTATATAT
5274799 TTTATTATATTT-TAATTATATTTAAAA
1 TTTATTATATTTAT-ATTATATTT-AAA
*
5274826 TATT-TTATATTTATATTA-ATTTTAA
1 T-TTATTATATTTATATTATATTTAAA
*
5274851 TTTATTAATCATTTATATTATA-TAAAA
1 TTTATT-AT-ATTTATATTATATTTAAA
5274878 TTTA
1 TTTA
5274882 AAATATATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
24 2 0.04
25 5 0.11
26 6 0.13
27 30 0.64
28 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTATTATATTTATATTATATTTAAA
Found at i:5278205 original size:4 final size:4
Alignment explanation
Indices: 5278198--5278227 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
5278188 GTAAATAAAA
5278198 AAAG AAAG AAAG AAAG AAAG -AAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
5278228 AAATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:5278670 original size:12 final size:11
Alignment explanation
Indices: 5278645--5278695 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
5278635 GGACATAAGT
*
5278645 GAAAAAAGAGA
1 GAAAAAAGAAA
5278656 GAAAGAAAGAAA
1 GAAA-AAAGAAA
5278668 G-AAAAAGAAA
1 GAAAAAAGAAA
*
5278678 -AAAAAGGACAA
1 GAAAAAAGA-AA
5278689 GAAAAAA
1 GAAAAAA
5278696 TTTATGTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 13 0.39
11 8 0.24
12 12 0.36
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:5279083 original size:22 final size:22
Alignment explanation
Indices: 5279055--5279111 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
5279045 CATGTCATAT
5279055 TTATTTTCT-TATTATATTTTAA
1 TTATTTT-TATATTATATTTTAA
* *
5279077 TTATTTTTATGTTATATTTTTA
1 TTATTTTTATATTATATTTTAA
5279099 TT-TTTTGTATATT
1 TTATTTT-TATATT
5279112 TAAAGTGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTATTTTTATATTATATTTTAA
Found at i:5279111 original size:17 final size:19
Alignment explanation
Indices: 5279077--5279112 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5279067 TATATTTTAA
5279077 TTATTTTTATGTTATATTT
1 TTATTTTTATGTTATATTT
5279096 TTATTTTT-TG-TATATTT
1 TTATTTTTATGTTATATTT
5279113 AAAGTGGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (19 bp):
TTATTTTTATGTTATATTT
Found at i:5279625 original size:37 final size:38
Alignment explanation
Indices: 5279543--5279626 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 38
5279533 TATTCATATT
*
5279543 TATATTTTTTCATATTTAAAATATTATATTTTTGCATA
1 TATATTTTTACATATTTAAAATATTATATTTTTGCATA
* * * *
5279581 AAT-TTTTTACATATTTATAAT-TTAT-TTTATTTCATG
1 TATATTTTTACATATTTAAAATATTATATTT-TTGCATA
5279617 TATATTTTTA
1 TATATTTTTA
5279627 TATGTAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
35 3 0.08
36 11 0.29
37 22 0.58
38 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (38 bp):
TATATTTTTACATATTTAAAATATTATATTTTTGCATA
Found at i:5280043 original size:15 final size:16
Alignment explanation
Indices: 5280023--5280052 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5280013 TTTTTGAATA
5280023 AATTTTA-TTAATTAT
1 AATTTTATTTAATTAT
5280038 AATTTTATTTAATTA
1 AATTTTATTTAATTA
5280053 AAAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTATTTAATTAT
Found at i:5280537 original size:17 final size:19
Alignment explanation
Indices: 5280515--5280552 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
5280505 TAATTTTATT
5280515 TTAATA-AAAA-TAATATA
1 TTAATACAAAATTAATATA
5280532 TTAATATCAAAATTAATATA
1 TTAATA-CAAAATTAATATA
5280552 T
1 T
5280553 AAAATAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAATACAAAATTAATATA
Found at i:5284369 original size:23 final size:24
Alignment explanation
Indices: 5284321--5284377 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
5284311 TTTAAAAAAT
* *
5284321 AAATTATT-TATATTATTATATAA
1 AAATTATTATATAATATAATATAA
*
5284344 AAATTATTATATAATATAAT-TTA
1 AAATTATTATATAATATAATATAA
*
5284367 AAACTATTATA
1 AAATTATTATA
5284378 AAAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTATTATATAATATAATATAA
Found at i:5284482 original size:15 final size:15
Alignment explanation
Indices: 5284462--5284491 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5284452 TTTAGTTATC
5284462 AATTTAAAAATTAAT
1 AATTTAAAAATTAAT
*
5284477 AATTTAATAATTAAT
1 AATTTAAAAATTAAT
5284492 CAAATTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTAAAAATTAAT
Found at i:5285922 original size:1 final size:1
Alignment explanation
Indices: 5285858--5285910 Score: 106
Period size: 1 Copynumber: 53.0 Consensus size: 1
5285848 TTTTTTATTT
5285858 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5285911 GTTTCATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5289611 original size:20 final size:21
Alignment explanation
Indices: 5289556--5289612 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
5289546 TTTTAATTAT
*
5289556 ATAAATTTAA-ATATAAAATA
1 ATAAATATAATATATAAAATA
*
5289576 ATAAATGATTATATATTAAAATA
1 ATAAAT-ATAATATA-TAAAATA
5289599 ATAAATATAATATA
1 ATAAATATAATATA
5289613 GCTTTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 6 0.19
21 2 0.06
22 10 0.32
23 13 0.42
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAAATATAATATATAAAATA
Found at i:5299062 original size:8 final size:8
Alignment explanation
Indices: 5299036--5299088 Score: 54
Period size: 8 Copynumber: 6.2 Consensus size: 8
5299026 GGACATAAGT
5299036 GAAAAAGAG
1 GAAAAA-AG
5299045 AGAAAGAAAG
1 -GAAA-AAAG
5299055 GAAAAAAG
1 GAAAAAAG
5299063 AGAAAAAA-
1 -GAAAAAAG
*
5299071 GAGAAAAG
1 GAAAAAAG
5299079 GAAAAAAG
1 GAAAAAAG
5299087 GA
1 GA
5299089 CAAAGAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 6 0.16
8 13 0.34
9 11 0.29
10 6 0.16
11 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (8 bp):
GAAAAAAG
Found at i:5299064 original size:18 final size:17
Alignment explanation
Indices: 5299036--5299088 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 17
5299026 GGACATAAGT
5299036 GAAAAAGAGAGAAAGAAAG
1 GAAAAA-AGAGAAA-AAAG
5299055 GAAAAAAGAGAAAAAA-
1 GAAAAAAGAGAAAAAAG
*
5299071 GAGAAAAG-GAAAAAAG
1 GAAAAAAGAGAAAAAAG
5299087 GA
1 GA
5299089 CAAAGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 7 0.22
16 9 0.28
17 3 0.09
18 7 0.22
19 6 0.19
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAGAAAAAAG
Found at i:5299067 original size:9 final size:9
Alignment explanation
Indices: 5299036--5299077 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
5299026 GGACATAAGT
5299036 GAAAAAGAGA
1 GAAAAA-AGA
5299046 GAAAGAAAG-
1 GAAA-AAAGA
5299055 GAAAAAAGA
1 GAAAAAAGA
5299064 GAAAAAAGA
1 GAAAAAAGA
5299073 GAAAA
1 GAAAA
5299078 GGAAAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.13
9 18 0.60
10 6 0.20
11 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
GAAAAAAGA
Found at i:5299714 original size:17 final size:18
Alignment explanation
Indices: 5299667--5299714 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
5299657 CAATTTTGAC
5299667 ATAAATAAATAATTATTTA
1 ATAAA-AAATAATTATTTA
**
5299686 ATAAAATTTAATT-TTTA
1 ATAAAAAATAATTATTTA
*
5299703 TTAAAAAATAAT
1 ATAAAAAATAAT
5299715 AAAAATATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 13 0.54
18 6 0.25
19 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAAAAATAATTATTTA
Found at i:5303996 original size:30 final size:29
Alignment explanation
Indices: 5303962--5304039 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
5303952 TAACGCACGC
* * *
5303962 TAAAATATTGTTGATTTTTAAATAAATTAT
1 TAAAATATTATT-AATTTAAAATAAATTAT
*
5303992 TAAAAGATTATTAATTTAAAATAAATTAT
1 TAAAATATTATTAATTTAAAATAAATTAT
* * *
5304021 AAAAATATTAATATTTTAA
1 TAAAATATTATTAATTTAA
5304040 TTAGTAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 30 0.75
30 10 0.25
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (29 bp):
TAAAATATTATTAATTTAAAATAAATTAT
Found at i:5304038 original size:29 final size:29
Alignment explanation
Indices: 5303975--5304039 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
5303965 AATATTGTTG
* * *
5303975 ATTTTTAAATAAATTATTAAAAGATTATT
1 ATTTTAAAATAAATTATAAAAAGATTAAT
* *
5304004 AATTTAAAATAAATTATAAAAATATTAAT
1 ATTTTAAAATAAATTATAAAAAGATTAAT
5304033 ATTTTAA
1 ATTTTAA
5304040 TTAGTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTTTAAAATAAATTATAAAAAGATTAAT
Found at i:5304219 original size:8 final size:8
Alignment explanation
Indices: 5304167--5304220 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
5304157 TTATTCGTCA
5304167 ATTATTATT
1 ATTA-TATT
*
5304176 ATTATAAT
1 ATTATATT
5304184 ATTATATT
1 ATTATATT
5304192 ATTATATT
1 ATTATATT
*
5304200 -TATATTTTT
1 AT-TA-TATT
5304209 ATTATATT
1 ATTATATT
5304217 ATTA
1 ATTA
5304221 AGAGGTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 1 0.03
8 27 0.71
9 9 0.24
10 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTATATT
Found at i:5304285 original size:32 final size:31
Alignment explanation
Indices: 5304246--5304324 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
5304236 TTTTAATTTA
5304246 AATTTTAAATTTAAAATAATTAAATTATT-AT
1 AATTTTAAATTTAAAA-AATTAAATTATTAAT
* * *
5304277 AATTTTTAATTCATATAAAATTATATTATTAAT
1 AATTTTAAATT--TAAAAAATTAAATTATTAAT
*
5304310 AAATTTAAATTTAAA
1 AATTTTAAATTTAAA
5304325 TTAAGGATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
31 13 0.33
32 11 0.28
33 15 0.38
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
AATTTTAAATTTAAAAAATTAAATTATTAAT
Found at i:5305219 original size:62 final size:61
Alignment explanation
Indices: 5305148--5305292 Score: 209
Period size: 62 Copynumber: 2.3 Consensus size: 61
5305138 TTTACATTAT
* *
5305148 AAATTATTAAATTATCAAAATTTATTATAAAGATATAATATTTTAAATATAATTATAATAAA
1 AAATTATTAAATTATCAAAATTTATTATAAAAATATAATATATTAAATATAATTATAAT-AA
* * *
5305210 AAATTATTAAATTATCTAAATTTATTATAAAAATATGATATATTAAATATAATTATGATAA
1 AAATTATTAAATTATCAAAATTTATTATAAAAATATAATATATTAAATATAATTATAATAA
*
5305271 AAATTATATAAATATAACAAAA
1 AAATTAT-TAAAT-TATCAAAA
5305293 ATAAATAAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
61 9 0.12
62 59 0.80
63 6 0.08
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (61 bp):
AAATTATTAAATTATCAAAATTTATTATAAAAATATAATATATTAAATATAATTATAATAA
Found at i:5305242 original size:31 final size:31
Alignment explanation
Indices: 5305148--5305242 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
5305138 TTTACATTAT
*
5305148 AAATTATTAAATTATCAAAATTTATTAT-AA
1 AAATTATTAAATTATCTAAATTTATTATAAA
* * ** ** *
5305178 AGATATAATATTTTAAATATAA-TTATAATAAA
1 AAAT-TATTAAATTATCTA-AATTTATTATAAA
5305210 AAATTATTAAATTATCTAAATTTATTATAAA
1 AAATTATTAAATTATCTAAATTTATTATAAA
5305241 AA
1 AA
5305243 TATGATATAT
Statistics
Matches: 46, Mismatches: 15, Indels: 7
0.68 0.22 0.10
Matches are distributed among these distances:
30 5 0.11
31 34 0.74
32 7 0.15
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (31 bp):
AAATTATTAAATTATCTAAATTTATTATAAA
Found at i:5305271 original size:31 final size:31
Alignment explanation
Indices: 5305169--5305274 Score: 99
Period size: 31 Copynumber: 3.4 Consensus size: 31
5305159 TTATCAAAAT
* *
5305169 TTATTATAAAGATATAATATTTTAAATATAA
1 TTATTATAAAAATATAATATATTAAATATAA
* * * **
5305200 TTATAATAAAAA-ATTATTAAATTATCTA-AA
1 TTATTATAAAAATA-TAATATATTAAATATAA
*
5305230 TTTATTATAAAAATATGATATATTAAATATAA
1 -TTATTATAAAAATATAATATATTAAATATAA
*
5305262 TTATGATAAAAAT
1 TTATTATAAAAAT
5305275 TATATAAATA
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
30 3 0.05
31 51 0.89
32 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (31 bp):
TTATTATAAAAATATAATATATTAAATATAA
Found at i:5308353 original size:27 final size:27
Alignment explanation
Indices: 5308311--5308378 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
5308301 TAGTTATATC
*
5308311 AAAT-TTATTATAATTATAAATATAAT-
1 AAATATTATTATGATT-TAAATATAATA
*
5308337 AAATATTATTATGA-TTAATTATAATA
1 AAATATTATTATGATTTAAATATAATA
*
5308363 AAATATAAATTATGAT
1 AAATAT-TATTATGAT
5308379 ATCGATAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 9 0.26
26 11 0.31
27 15 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
AAATATTATTATGATTTAAATATAATA
Found at i:5309038 original size:18 final size:20
Alignment explanation
Indices: 5309012--5309050 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5309002 TCAGTACCTC
5309012 TTGACAAA-TT-ATAAAAAA
1 TTGACAAATTTAATAAAAAA
*
5309030 TTGATAAATTTAATAAAAAA
1 TTGACAAATTTAATAAAAAA
5309050 T
1 T
5309051 CATTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
TTGACAAATTTAATAAAAAA
Found at i:5309131 original size:22 final size:22
Alignment explanation
Indices: 5309102--5309156 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
5309092 ATATTTAAAA
5309102 TATTTTATATTTAAATATTAATT
1 TATTTTATATTTAAATATT-ATT
*
5309125 T-TTTTATATTTATATATTATT
1 TATTTTATATTTAAATATTATT
*
5309146 TATATTATATT
1 TATTTTATATT
5309157 ATATTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 24 0.83
23 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTATATTTAAATATTATT
Found at i:5309156 original size:14 final size:14
Alignment explanation
Indices: 5309137--5309180 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
5309127 TTTATATTTA
5309137 TATATTATTTATAT
1 TATATTATTTATAT
*
5309151 TATATTATATTATAA
1 TATATTAT-TTATAT
5309166 T-TATTATTTAATAT
1 TATATTATTT-ATAT
5309180 T
1 T
5309181 TTTATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 2 0.08
14 18 0.69
15 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATTATTTATAT
Found at i:5309161 original size:19 final size:19
Alignment explanation
Indices: 5309127--5309188 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
5309117 TATTAATTTT
5309127 TTTATATT-TA-TATATTA
1 TTTATATTATATTATATTA
5309144 TTTATATTATATTATATTA
1 TTTATATTATATTATATTA
*
5309163 -TAATTATTAT-TTAATATT-
1 TTTA-TATTATATT-ATATTA
5309181 TTTATATT
1 TTTATATT
5309189 TTAAATTATC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 8 0.21
18 10 0.26
19 20 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATATTATATTATATTA
Found at i:5309191 original size:16 final size:17
Alignment explanation
Indices: 5309109--5309197 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 17
5309099 AAATATTTTA
* *
5309109 TATTTAAATATTAAT-T
1 TATTTATATTTTAATAT
*
5309125 TTTTTATA-TTTATATAT
1 TATTTATATTTTA-ATAT
*
5309142 TATTTATATTATATTATAT
1 TATTTATATT-T-TAATAT
5309161 TATAATTAT-TATTTAATAT
1 TAT--TTATAT-TTTAATAT
5309180 T-TTTATATTTTAA-AT
1 TATTTATATTTTAATAT
5309195 TAT
1 TAT
5309198 CACACATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
15 6 0.11
16 18 0.32
17 9 0.16
18 2 0.04
19 14 0.25
20 3 0.05
21 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTATATTTTAATAT
Found at i:5309746 original size:22 final size:22
Alignment explanation
Indices: 5309716--5309769 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
5309706 AACAATGTGG
*
5309716 TATACATTGAATCAATACACATT
1 TATA-ATTGAACCAATACACATT
* *
5309739 TATAATTGAGCCAATACATATT
1 TATAATTGAACCAATACACATT
5309761 TATAATTGA
1 TATAATTGA
5309770 TAGATTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (22 bp):
TATAATTGAACCAATACACATT
Found at i:5309848 original size:14 final size:14
Alignment explanation
Indices: 5309810--5309851 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5309800 TATATATTTT
*
5309810 AATTATATAAATTTA
1 AATTAT-TAAATATA
*
5309825 AA-TATAAAATATA
1 AATTATTAAATATA
5309838 AATTATTAAATATA
1 AATTATTAAATATA
5309852 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 8 0.35
14 13 0.57
15 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTATTAAATATA
Found at i:5309874 original size:24 final size:24
Alignment explanation
Indices: 5309829--5309877 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
5309819 AATTTAAATA
5309829 TAAAATATAAATTATTAAATATAT
1 TAAAATATAAATTATTAAATATAT
5309853 TAAAATAATAAA-TA-TAATATATAT
1 TAAAAT-ATAAATTATTAA-ATATAT
5309877 T
1 T
5309878 TAATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.13
24 15 0.65
25 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAATATAAATTATTAAATATAT
Found at i:5309894 original size:24 final size:24
Alignment explanation
Indices: 5309867--5309915 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
5309857 ATAATAAATA
*
5309867 TAATATATATTT-AATTTATTATAT
1 TAATA-ATATTTAAATGTATTATAT
5309891 TAATAATATTTAAATGTATTATAT
1 TAATAATATTTAAATGTATTATAT
5309915 T
1 T
5309916 TATTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TAATAATATTTAAATGTATTATAT
Found at i:5309901 original size:18 final size:18
Alignment explanation
Indices: 5309880--5309939 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
5309870 TATATATTTA
5309880 ATTTATTATATTAATAAT
1 ATTTATTATATTAATAAT
* * *
5309898 ATTTAAATGTATT-ATATTT
1 ATTT-ATTATATTAATA-AT
5309917 ATTTATTATATTAATAAT
1 ATTTATTATATTAATAAT
5309935 ATTTA
1 ATTTA
5309940 AATGTATTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 19 0.58
19 14 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTATTATATTAATAAT
Found at i:5309916 original size:15 final size:15
Alignment explanation
Indices: 5309896--5309954 Score: 53
Period size: 15 Copynumber: 4.5 Consensus size: 15
5309886 TATATTAATA
5309896 ATATTTAAATGTATT
1 ATATTTAAATGTATT
*
5309911 ATATTT--ATTTATT
1 ATATTTAAATGTATT
5309924 ATA-TT-AA--TA--
1 ATATTTAAATGTATT
5309933 ATATTTAAATGTATT
1 ATATTTAAATGTATT
5309948 ATATTTA
1 ATATTTA
5309955 TTTATTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
9 3 0.08
10 2 0.06
11 4 0.11
12 2 0.06
13 12 0.33
15 13 0.36
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
ATATTTAAATGTATT
Found at i:5309925 original size:13 final size:13
Alignment explanation
Indices: 5309907--5309964 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
5309897 TATTTAAATG
5309907 TATTATATTTATT
1 TATTATATTTATT
5309920 TATTATA-TTA--
1 TATTATATTTATT
* *
5309930 -ATAATATTTAAATG
1 TATTATATTT--ATT
5309944 TATTATATTTATT
1 TATTATATTTATT
5309957 TATTATAT
1 TATTATAT
5309965 ATTTAGTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
9 5 0.14
10 2 0.06
12 4 0.11
13 17 0.47
15 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTATATTTATT
Found at i:5309930 original size:37 final size:37
Alignment explanation
Indices: 5309872--5309964 Score: 177
Period size: 37 Copynumber: 2.5 Consensus size: 37
5309862 AAATATAATA
5309872 TATATTTAATTTATTATATTAATAATATTTAAATGTAT
1 TATATTT-ATTTATTATATTAATAATATTTAAATGTAT
5309910 TATATTTATTTATTATATTAATAATATTTAAATGTAT
1 TATATTTATTTATTATATTAATAATATTTAAATGTAT
5309947 TATATTTATTTATTATAT
1 TATATTTATTTATTATAT
5309965 ATTTAGTTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 48 0.87
38 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (37 bp):
TATATTTATTTATTATATTAATAATATTTAAATGTAT
Found at i:5310819 original size:2 final size:2
Alignment explanation
Indices: 5310812--5310843 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5310802 TACCATCTAC
5310812 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
5310844 TAATTAGTAG
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:5315541 original size:10 final size:9
Alignment explanation
Indices: 5315523--5315558 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
5315513 ATTATGTCTT
5315523 TTTTATATA
1 TTTTATATA
5315532 TTTTATTATA
1 TTTTA-TATA
*
5315542 TTTTAAATA
1 TTTTATATA
5315551 TTTTATAT
1 TTTTATAT
5315559 TTATATTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATATA
Found at i:5315579 original size:27 final size:26
Alignment explanation
Indices: 5315528--5315595 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
5315518 GTCTTTTTTA
*
5315528 TATATTT-TATTATATTTTAAATATTT
1 TATATTTATATTATAGTTTAAATA-TT
*
5315554 TATATTTATATTA-AGTTTAATTTATT
1 TATATTTATATTATAGTTTAA-ATATT
*
5315580 AATAATTTATATTATA
1 TAT-ATTTATATTATA
5315596 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 17 0.49
27 17 0.49
28 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (26 bp):
TATATTTATATTATAGTTTAAATATT
Found at i:5315662 original size:15 final size:16
Alignment explanation
Indices: 5315633--5315677 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
5315623 ATTTTAATTA
5315633 TTATATATATAATATT
1 TTATATATATAATATT
*
5315649 TTATATA-ATTATATT
1 TTATATATATAATATT
*
5315664 TAATAT-TATAATAT
1 TTATATATATAATAT
5315678 CTAATTTACG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATATATAATATT
Found at i:5315667 original size:22 final size:23
Alignment explanation
Indices: 5315622--5315676 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
5315612 TATTCGTATC
*
5315622 TATTTTAATTATTATATATATAA
1 TATTTTAATAATTATATATATAA
5315645 TATTTTATATAATTATAT-T-TAA
1 TATTTTA-ATAATTATATATATAA
*
5315667 TATTATAATA
1 TATTTTAATA
5315677 TCTAATTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.10
22 9 0.31
23 8 0.28
24 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTTAATAATTATATATATAA
Found at i:5315682 original size:15 final size:15
Alignment explanation
Indices: 5315635--5315682 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
5315625 TTTAATTATT
*
5315635 ATATATATAATATTTT
1 ATAT-TATAATATTTA
* *
5315651 ATATAATTATATTTA
1 ATATTATAATATTTA
*
5315666 ATATTATAATATCTA
1 ATATTATAATATTTA
5315681 AT
1 AT
5315683 TTACGGTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATAATATTTA
Found at i:5319099 original size:4 final size:4
Alignment explanation
Indices: 5319079--5319130 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
5319069 GGACATAAGT
* * *
5319079 GAAA AAAA GAGA GAAA GAAA GAAA GAAA GAGAA AAAA GAAAA GGAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA G-AAA -GAAA GAAA
5319130 G
1 G
5319131 GACAAGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 29 0.74
5 9 0.23
6 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:5319121 original size:18 final size:19
Alignment explanation
Indices: 5319088--5319127 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
5319078 TGAAAAAAAG
5319088 AGAGAAAGAAAGAAA-GAA
1 AGAGAAAGAAAGAAAGGAA
5319106 AGAGAAA-AAAGAAAAGGAA
1 AGAGAAAGAAAG-AAAGGAA
5319125 AGA
1 AGA
5319128 AAGGACAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
AGAGAAAGAAAGAAAGGAA
Found at i:5319558 original size:17 final size:19
Alignment explanation
Indices: 5319524--5319559 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5319514 TATGTTTTAA
5319524 TTATTTTTATGTTATATTT
1 TTATTTTTATGTTATATTT
5319543 TTATTTTT-TG-TATATTT
1 TTATTTTTATGTTATATTT
5319560 AAAGTGGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (19 bp):
TTATTTTTATGTTATATTT
Found at i:5320462 original size:15 final size:16
Alignment explanation
Indices: 5320442--5320471 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5320432 TTTTTGAATA
5320442 AATTTTA-TTAATTAT
1 AATTTTATTTAATTAT
5320457 AATTTTATTTAATTA
1 AATTTTATTTAATTA
5320472 AAAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTATTTAATTAT
Found at i:5324781 original size:23 final size:24
Alignment explanation
Indices: 5324733--5324789 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
5324723 TTTAAAAAAT
* *
5324733 AAATTATT-TATATTATTATATAA
1 AAATTATTATATAATATAATATAA
*
5324756 AAATTATTATATAATATAAT-TTA
1 AAATTATTATATAATATAATATAA
*
5324779 AAACTATTATA
1 AAATTATTATA
5324790 AAAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTATTATATAATATAATATAA
Found at i:5324895 original size:15 final size:15
Alignment explanation
Indices: 5324875--5324904 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5324865 TTAGTTATCA
5324875 AATTTAAAAATTAAT
1 AATTTAAAAATTAAT
*
5324890 AATTTAATAATTAAT
1 AATTTAAAAATTAAT
5324905 CAAATTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTAAAAATTAAT
Found at i:5328053 original size:19 final size:18
Alignment explanation
Indices: 5328021--5328059 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
5328011 TAAAATATAA
*
5328021 ATATTTTTATATTTTAAT
1 ATATTTTTAAATTTTAAT
*
5328039 ATATATTTTAAATTTTGAT
1 ATAT-TTTTAAATTTTAAT
5328058 AT
1 AT
5328060 TTGACGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATATTTTTAAATTTTAAT
Found at i:5328231 original size:5 final size:5
Alignment explanation
Indices: 5328223--5328247 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5328213 TGATTTTTTT
5328223 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
5328248 TTATTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:5329093 original size:22 final size:22
Alignment explanation
Indices: 5329068--5329114 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
5329058 AAATATTAAA
*
5329068 ATATATCAAAATATATATATAT
1 ATATATCAAAATATATAAATAT
* *
5329090 ATATATTAAAATTTATAAATAT
1 ATATATCAAAATATATAAATAT
5329112 ATA
1 ATA
5329115 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATATCAAAATATATAAATAT
Found at i:5329106 original size:20 final size:22
Alignment explanation
Indices: 5329060--5329114 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
5329050 CGTAACATAA
5329060 ATAT-TAAA-ATATATCAAAAT
1 ATATATAAATATATATCAAAAT
* *
5329080 ATATATATATATATATTAAAAT
1 ATATATAAATATATATCAAAAT
5329102 -T-TATAAATATATA
1 ATATATAAATATATA
5329115 ATAATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 15 0.50
21 4 0.13
22 11 0.37
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATATAAATATATATCAAAAT
Found at i:5329120 original size:18 final size:18
Alignment explanation
Indices: 5329066--5329122 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 18
5329056 ATAAATATTA
*
5329066 AAATATATCAAAATATATAT
1 AAATATATTAAAAT-T-TAT
5329086 ATATATATATTAAAATTTAT
1 A-A-ATATATTAAAATTTAT
5329106 AAATATA-TAATAATTTA
1 AAATATATTAA-AATTTA
5329123 AATAAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 3 0.09
18 11 0.33
19 1 0.03
20 5 0.15
21 2 0.06
22 11 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATTAAAATTTAT
Found at i:5333374 original size:20 final size:20
Alignment explanation
Indices: 5333349--5333388 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5333339 TTTTTATTAT
5333349 AAAAAAATTATAAT-TTAAAA
1 AAAAAAATTA-AATATTAAAA
*
5333369 AAAAAATTTAAATATTAAAA
1 AAAAAAATTAAATATTAAAA
5333389 TTTGAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAAATTAAATATTAAAA
Found at i:5333388 original size:19 final size:19
Alignment explanation
Indices: 5333343--5333388 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
5333333 ACATTTTTTT
*
5333343 TATTATAAAAAAATTATAA
1 TATTAAAAAAAAATTATAA
5333362 T-TTAAAAAAAAAATT-TAAA
1 TATT-AAAAAAAAATTAT-AA
5333381 TATTAAAA
1 TATTAAAA
5333389 TTTGAATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 3 0.13
19 18 0.78
20 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TATTAAAAAAAAATTATAA
Found at i:5334375 original size:18 final size:18
Alignment explanation
Indices: 5334343--5334384 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5334333 CAAACTCATA
*
5334343 TATTT-TAAAT-TTTTAT
1 TATTTATAAATATTTAAT
5334359 TAATTTATAAATATTTAAT
1 T-ATTTATAAATATTTAAT
5334378 TATTTAT
1 TATTTAT
5334385 TAGAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 4 0.18
18 11 0.50
19 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATAAATATTTAAT
Found at i:5334407 original size:30 final size:30
Alignment explanation
Indices: 5334365--5334438 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
5334355 TTATTAATTT
* *
5334365 ATAAATATTTAATTATTTATTAGAAATATAAA
1 ATAAAT-TTTAATTATTAAATAGAAATA-AAA
*
5334397 A-AAATTTTAATTATTAAATATAAATAAAA
1 ATAAATTTTAATTATTAAATAGAAATAAAA
5334426 ATAATATTTTAAT
1 ATAA-ATTTTAAT
5334439 CGATATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 4 0.11
30 20 0.54
31 12 0.32
32 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAATTTTAATTATTAAATAGAAATAAAA
Found at i:5334681 original size:27 final size:23
Alignment explanation
Indices: 5334652--5334699 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
5334642 TTTCAAAGTA
5334652 AACAAACATATGTAAGCAATTTG
1 AACAAACATATGTAAGCAATTTG
5334675 AACAAACATATGTAAGCAATTTG
1 AACAAACATATGTAAGCAATTTG
5334698 AA
1 AA
5334700 TCTTAGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (23 bp):
AACAAACATATGTAAGCAATTTG
Found at i:5336170 original size:2 final size:2
Alignment explanation
Indices: 5336165--5336197 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5336155 CCACACACAC
5336165 AT AT AT 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 AT AT AT A
5336198 ATAACTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5337313 original size:25 final size:26
Alignment explanation
Indices: 5337275--5337323 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
5337265 TTTGATCCGG
5337275 TTAAGATCAGATTT-TGATAAATTTT
1 TTAAGATCAGATTTATGATAAATTTT
* * *
5337300 TTAAGTTCATATTTATTATAAATT
1 TTAAGATCAGATTTATGATAAATT
5337324 AAGAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (26 bp):
TTAAGATCAGATTTATGATAAATTTT
Found at i:5339298 original size:2 final size:2
Alignment explanation
Indices: 5339291--5339317 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5339281 AAACAAAGCA
5339291 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
5339318 GCGCCAACAT
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:5345713 original size:5 final size:6
Alignment explanation
Indices: 5345687--5345712 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5345677 ATATATTGAA
5345687 TTTAAT TTTAAT TTTAAT TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TT
5345713 AAAATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTAAT
Done.