Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 323 of 344
Found at i:105681420 original size:46 final size:45
Alignment explanation
Indices: 105681319--105681412 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 45
105681309 TGTAACCCGC
* * *
105681319 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAA
*
105681365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
105681409 CCAT
1 CCAT
105681413 CCTAGTGACA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 9 0.20
46 35 0.80
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
Found at i:105683572 original size:14 final size:14
Alignment explanation
Indices: 105683535--105683565 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
105683525 CCAGAAAAGT
105683535 AAATCATTTTCCAG
1 AAATCATTTTCCAG
105683549 AAATCATTTTCCAG
1 AAATCATTTTCCAG
105683563 AAA
1 AAA
105683566 ATATTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:105686303 original size:14 final size:14
Alignment explanation
Indices: 105686286--105686313 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105686276 TTCATTACTA
105686286 TATTGTTATTATTT
1 TATTGTTATTATTT
105686300 TATTGTTATTATTT
1 TATTGTTATTATTT
105686314 GGATATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
TATTGTTATTATTT
Found at i:105686350 original size:17 final size:19
Alignment explanation
Indices: 105686317--105686351 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
105686307 ATTATTTGGA
105686317 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
105686336 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
105686352 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:105687548 original size:22 final size:22
Alignment explanation
Indices: 105687523--105687567 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
105687513 AGGGACCAAA
105687523 AATGATATTTGACCAATATTGT
1 AATGATATTTGACCAATATTGT
105687545 AATGATATTTGACCAATATTGT
1 AATGATATTTGACCAATATTGT
105687567 A
1 A
105687568 TAAAATGCTA
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:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (22 bp):
AATGATATTTGACCAATATTGT
Found at i:105690668 original size:28 final size:27
Alignment explanation
Indices: 105690636--105690688 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
105690626 CATTGGTAGA
*
105690636 TGAACTAACAAATTAATAAAGAAATTGG
1 TGAACCAACAAATTAATAAA-AAATTGG
*
105690664 TGAACCAACAAATTAATTAAAAATT
1 TGAACCAACAAATTAATAAAAAATT
105690689 AGTGTGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.26
Consensus pattern (27 bp):
TGAACCAACAAATTAATAAAAAATTGG
Found at i:105695757 original size:15 final size:15
Alignment explanation
Indices: 105695737--105695766 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
105695727 AAACCTTTCA
*
105695737 ACATCATCTACAGGG
1 ACATCATCCACAGGG
105695752 ACATCATCCACAGGG
1 ACATCATCCACAGGG
105695767 TTATAAGTTA
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:0.33, C:0.30, G:0.20, T:0.17
Consensus pattern (15 bp):
ACATCATCCACAGGG
Found at i:105711764 original size:16 final size:16
Alignment explanation
Indices: 105711739--105711778 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
105711729 AAAAATTATG
105711739 TTTTCCAT-CCTTCTAA
1 TTTTCCATCCCTTC-AA
*
105711755 TTTTCTATCCCTTCAA
1 TTTTCCATCCCTTCAA
105711771 TTTTCCAT
1 TTTTCCAT
105711779 TGTACCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCCATCCCTTCAA
Found at i:105718005 original size:43 final size:43
Alignment explanation
Indices: 105717970--105718105 Score: 123
Period size: 43 Copynumber: 3.2 Consensus size: 43
105717960 CTTACATGTT
** *
105717970 ATCACATATTGATGCCACTGTCCTAGACAGGGTCTTACACGAA
1 ATCACATAACGATGCCAATGTCCTAGACAGGGTCTTACACGAA
* * * * *
105718013 ATTATATAACGATGCCAATGTCCTAGACATGGTCTTAGACGTA
1 ATCACATAACGATGCCAATGTCCTAGACAGGGTCTTACACGAA
* * * * *
105718056 ATCACA-ATACAATGCCAATGTCAC-AAACATGGTCTTACATGTA
1 ATCACATA-ACGATGCCAATGTC-CTAGACAGGGTCTTACACGAA
105718099 ATCACAT
1 ATCACAT
105718106 CTCGATAACC
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 74 0.97
44 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGTCCTAGACAGGGTCTTACACGAA
Found at i:105720748 original size:22 final size:22
Alignment explanation
Indices: 105720723--105720766 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
105720713 TAGTCATATA
105720723 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
105720745 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
105720767 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:105720811 original size:15 final size:14
Alignment explanation
Indices: 105720786--105720825 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
105720776 TTTCAATTTT
105720786 ATTTT-AATAATAA
1 ATTTTAAATAATAA
105720799 ATTTTAAAATAAT-A
1 ATTTT-AAATAATAA
105720813 ATTTTAAATAATA
1 ATTTTAAATAATA
105720826 TTATTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:105720878 original size:15 final size:15
Alignment explanation
Indices: 105720858--105720914 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
105720848 ATTCAATATT
105720858 AATATTTTAATAATA
1 AATATTTTAATAATA
*
105720873 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
105720892 AATATATTAATAATA
1 AATATTTTAATAATA
*
105720907 AATGTTTT
1 AATATTTT
105720915 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:105720887 original size:19 final size:19
Alignment explanation
Indices: 105720860--105720896 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
105720850 TCAATATTAA
*
105720860 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
105720879 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
105720897 ATTAATAATA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:105721968 original size:40 final size:41
Alignment explanation
Indices: 105721923--105722028 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 41
105721913 ACATTTTGAC
*
105721923 ATACCAAAATTTTTAAAGG-TTTATC-ACTATTTCTAAGGATT
1 ATACCAAAATTTTTAAAGGATTTACCAAC-ATTTCTAAGG-TT
*
105721964 -TACCAAAATTTAT-AAGGATTTACCAACATTTCTAAGGTT
1 ATACCAAAATTTTTAAAGGATTTACCAACATTTCTAAGGTT
* *
105722003 ATACCAAAAATTTT-ATGGATTTACCA
1 ATACCAAAATTTTTAAAGGATTTACCA
105722029 GAATATCTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
39 6 0.11
40 49 0.86
41 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (41 bp):
ATACCAAAATTTTTAAAGGATTTACCAACATTTCTAAGGTT
Found at i:105722007 original size:20 final size:20
Alignment explanation
Indices: 105721924--105722038 Score: 101
Period size: 20 Copynumber: 5.8 Consensus size: 20
105721914 CATTTTGACA
*
105721924 TACCAAAATTTTTAAAGG-TT
1 TACCAAAATTTCT-AAGGATT
* **
105721944 TATCACTATTTCTAAGGATT
1 TACCAAAATTTCTAAGGATT
*
105721964 TACCAAAATTTATAAGGATT
1 TACCAAAATTTCTAAGGATT
*
105721984 TACCAACATTTCTAAGG-TT
1 TACCAAAATTTCTAAGGATT
*
105722003 ATACCAAAAATTT-TATGGATT
1 -TACC-AAAATTTCTAAGGATT
* *
105722024 TACCAGAATATCTAA
1 TACCAAAATTTCTAA
105722039 AGATAATTTG
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
19 11 0.15
20 56 0.75
21 8 0.11
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (20 bp):
TACCAAAATTTCTAAGGATT
Found at i:105722218 original size:20 final size:20
Alignment explanation
Indices: 105722195--105722283 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
105722185 GAAATATTTT
105722195 TAAATCCTTAAAAATTTTGG
1 TAAATCCTTAAAAATTTTGG
* * **
105722215 TAAAGCCCT-AAAATTCAGG
1 TAAATCCTTAAAAATTTTGG
* * *
105722234 TAAATCTTTAGATATTTTGG
1 TAAATCCTTAAAAATTTTGG
**
105722254 TATAA-CCTTAGGAATTTTGG
1 TA-AATCCTTAAAAATTTTGG
105722274 TAAATCCTTA
1 TAAATCCTTA
105722284 GATATAACCA
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
19 16 0.31
20 34 0.65
21 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (20 bp):
TAAATCCTTAAAAATTTTGG
Found at i:105722384 original size:20 final size:20
Alignment explanation
Indices: 105722349--105722415 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
105722339 TTTAATGAAG
105722349 CCTTA-AAATCTTTGGTAAAT
1 CCTTAGAAAT-TTTGGTAAAT
* *
105722369 CTTTAGATATTTTGGTATAA-
1 CCTTAGAAATTTTGGTA-AAT
105722389 CCTTAGAAATTTTGGTAAAT
1 CCTTAGAAATTTTGGTAAAT
*
105722409 GCTTAGA
1 CCTTAGA
105722416 TTGTTTTGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.05
20 32 0.82
21 5 0.13
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (20 bp):
CCTTAGAAATTTTGGTAAAT
Found at i:105725125 original size:30 final size:30
Alignment explanation
Indices: 105725082--105725172 Score: 166
Period size: 30 Copynumber: 3.1 Consensus size: 30
105725072 CAAGTAGCCG
*
105725082 AAGCTAG-TTAAATCACACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
105725111 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
105725141 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
105725171 AA
1 AA
105725173 ACTTCTGTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 7 0.12
30 53 0.88
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:105733398 original size:13 final size:13
Alignment explanation
Indices: 105733380--105733404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105733370 GCTCAGCAGG
105733380 GACACGCCCGTGC
1 GACACGCCCGTGC
105733393 GACACGCCCGTG
1 GACACGCCCGTG
105733405 TTCGATTACT
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:0.16, C:0.44, G:0.32, T:0.08
Consensus pattern (13 bp):
GACACGCCCGTGC
Found at i:105734153 original size:30 final size:28
Alignment explanation
Indices: 105734119--105734176 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
105734109 TAAATTTTAG
105734119 AAAAAAATATAAAAATTATTGTAAAAAAATA
1 AAAAAAAT-TAAAAATT-TT-TAAAAAAATA
*
105734150 AAAAAAATTGAAAATTTTTAAAAAAAT
1 AAAAAAATTAAAAATTTTTAAAAAAAT
105734177 CGAAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.35
29 2 0.08
30 7 0.27
31 8 0.31
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAAAAATTAAAAATTTTTAAAAAAATA
Found at i:105734159 original size:20 final size:21
Alignment explanation
Indices: 105734118--105734163 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
105734108 TTAAATTTTA
*
105734118 GAAAAAAATATAAAAATTATT
1 GAAAAAAATATAAAAATAATT
105734139 GTAAAAAAATA-AAAAA-AATT
1 G-AAAAAAATATAAAAATAATT
105734159 GAAAA
1 GAAAA
105734164 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 6 0.26
22 9 0.39
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (21 bp):
GAAAAAAATATAAAAATAATT
Found at i:105734202 original size:20 final size:19
Alignment explanation
Indices: 105734150--105734196 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
105734140 TAAAAAAATA
*
105734150 AAAAAAATTGAAAATTTTT
1 AAAAAAATCGAAAATTTTT
105734169 AAAAAAATCGAAAATTTTT
1 AAAAAAATCGAAAATTTTT
105734188 AAAAAAATC
1 AAAAAAATC
105734197 ATAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAAAAATCGAAAATTTTT
Found at i:105734368 original size:23 final size:23
Alignment explanation
Indices: 105734342--105734390 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
105734332 GGCAAGGTTC
105734342 AGTCTAGGTCCTTTGAAAACTTT
1 AGTCTAGGTCCTTTGAAAACTTT
105734365 AGTCTAGGTCCTTTGAAAACTTT
1 AGTCTAGGTCCTTTGAAAACTTT
105734388 AGT
1 AGT
105734391 GAGAACAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (23 bp):
AGTCTAGGTCCTTTGAAAACTTT
Found at i:105734553 original size:7 final size:7
Alignment explanation
Indices: 105734535--105734573 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
105734525 TAATGTTTGC
105734535 AATTATTA
1 AATTA-TA
105734543 AATTATA
1 AATTATA
105734550 AATTATA
1 AATTATA
105734557 AATTATA
1 AATTATA
105734564 AATTATA
1 AATTATA
105734571 AAT
1 AAT
105734574 ATCTTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTATA
Found at i:105734598 original size:10 final size:9
Alignment explanation
Indices: 105734583--105734674 Score: 57
Period size: 10 Copynumber: 9.8 Consensus size: 9
105734573 TATCTTATAA
105734583 TTTAATGATT
1 TTTAAT-ATT
105734593 TTTAATAAATT
1 TTTAAT--ATT
*
105734604 TTTTATATT
1 TTTAATATT
105734613 TTATAATATT
1 TT-TAATATT
105734623 TTT-AT-TCT
1 TTTAATAT-T
105734631 TTTAATATT
1 TTTAATATT
105734640 TTT-ATACTT
1 TTTAATA-TT
* *
105734649 TTGTATTTTT
1 TT-TAATATT
105734659 TTCTAA-ATT
1 TT-TAATATT
105734668 TTTAATA
1 TTTAATA
105734675 AAAATTAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 19
0.71 0.09 0.21
Matches are distributed among these distances:
7 1 0.02
8 12 0.18
9 21 0.32
10 22 0.34
11 9 0.14
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTAATATT
Found at i:105734636 original size:17 final size:17
Alignment explanation
Indices: 105734603--105734662 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
105734593 TTTAATAAAT
105734603 TTTTTATAT-TTTATAATA
1 TTTTTAT-TCTTT-TAATA
105734621 TTTTTATTCTTTTAATA
1 TTTTTATTCTTTTAATA
* *
105734638 TTTTTATACTTTT-GTA
1 TTTTTATTCTTTTAATA
105734654 TTTTT-TTCT
1 TTTTTATTCT
105734663 AAATTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
15 3 0.08
16 7 0.18
17 18 0.47
18 10 0.26
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTTATTCTTTTAATA
Found at i:105734658 original size:8 final size:8
Alignment explanation
Indices: 105734603--105734658 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
105734593 TTTAATAAAT
105734603 TTTTTATA
1 TTTTTATA
105734611 TTTTATAATA
1 TTTT-T-ATA
105734621 TTTTTAT-
1 TTTTTATA
105734628 TCTTTTAATA
1 T-TTTT-ATA
105734638 TTTTTATA
1 TTTTTATA
* *
105734646 CTTTTGTA
1 TTTTTATA
105734654 TTTTT
1 TTTTT
105734659 TTCTAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
7 1 0.03
8 23 0.57
9 8 0.20
10 8 0.20
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTTTATA
Found at i:105734660 original size:27 final size:26
Alignment explanation
Indices: 105734602--105734660 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
105734592 TTTTAATAAA
105734602 TTTTTTATATTTTATAATATTTTTAT
1 TTTTTTATATTTTATAATATTTTTAT
*
105734628 TCTTTTAATATTTT-T-ATACTTTTGTAT
1 T-TTTTTATATTTTATAATA-TTTT-TAT
105734655 TTTTTT
1 TTTTTT
105734661 CTAAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
25 3 0.11
26 10 0.36
27 15 0.54
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (26 bp):
TTTTTTATATTTTATAATATTTTTAT
Found at i:105734717 original size:29 final size:30
Alignment explanation
Indices: 105734685--105734749 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
105734675 AAAATTAAAT
*
105734685 ATTTTTTATT-TTTT-CTATATTTTTTTATC
1 ATTTTTTATTCTTTTAATAT-TTTTTTTATC
105734714 A-TTTTTATTGCTTTTAATATTTTTTTTATC
1 ATTTTTTATT-CTTTTAATATTTTTTTTATC
105734744 -TTTTTT
1 ATTTTTT
105734750 CTATGTGTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 8 0.26
29 1 0.03
30 19 0.61
31 3 0.10
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (30 bp):
ATTTTTTATTCTTTTAATATTTTTTTTATC
Found at i:105734883 original size:22 final size:20
Alignment explanation
Indices: 105734865--105734911 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
105734855 TTTTTTTTCC
105734865 TATACTTTATAATAATTTTTA
1 TATA-TTTATAATAATTTTTA
*
105734886 TATATTTGTAATAATTTTT-
1 TATATTTATAATAATTTTTA
105734905 TATATTT
1 TATATTT
105734912 TCTATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 14 0.56
21 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TATATTTATAATAATTTTTA
Found at i:105734889 original size:21 final size:21
Alignment explanation
Indices: 105734848--105734909 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
105734838 TTTATGATTT
* *
105734848 TTTATAAT-TTTTTTTCCTATA
1 TTTATAATAATTTTTT-ATATA
105734869 CTTTATAATAA-TTTTTATATA
1 -TTTATAATAATTTTTTATATA
*
105734890 TTTGTAATAATTTTTTATAT
1 TTTATAATAATTTTTTATAT
105734910 TTTCTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.26
21 13 0.37
22 13 0.37
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTATAATAATTTTTTATATA
Found at i:105737656 original size:38 final size:38
Alignment explanation
Indices: 105737605--105737680 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
105737595 TCTGAAGTAA
105737605 TCATGTATGACACCCAAATTCGAGAATTATATGGAAAC
1 TCATGTATGACACCCAAATTCGAGAATTATATGGAAAC
*
105737643 TCATGTATGACACCCAAATTTGAGAATTATATGGAAAC
1 TCATGTATGACACCCAAATTCGAGAATTATATGGAAAC
105737681 GAGCATAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (38 bp):
TCATGTATGACACCCAAATTCGAGAATTATATGGAAAC
Found at i:105737809 original size:92 final size:92
Alignment explanation
Indices: 105737652--105737836 Score: 343
Period size: 92 Copynumber: 2.0 Consensus size: 92
105737642 CTCATGTATG
*
105737652 ACACCCAAATTTGAGAATTATATGGAAACGAGCATAAAGGCATGATCCTCCAAATATATCAAAAA
1 ACACCCAAATTCGAGAATTATATGGAAACGAGCATAAAGGCATGATCCTCCAAATATATCAAAAA
105737717 ACATACTCATGTTGAACACATTACAGT
66 ACATACTCATGTTGAACACATTACAGT
* *
105737744 ACACCCAAATTCGAGAATTATATGGAAACGAGCATAGAGGCATTATCCTCCAAATATATCAAAAA
1 ACACCCAAATTCGAGAATTATATGGAAACGAGCATAAAGGCATGATCCTCCAAATATATCAAAAA
105737809 ACATACTCATGTTGAACACATTACAGT
66 ACATACTCATGTTGAACACATTACAGT
105737836 A
1 A
105737837 TCTGACACTT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (92 bp):
ACACCCAAATTCGAGAATTATATGGAAACGAGCATAAAGGCATGATCCTCCAAATATATCAAAAA
ACATACTCATGTTGAACACATTACAGT
Found at i:105738301 original size:17 final size:17
Alignment explanation
Indices: 105738279--105738332 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
105738269 AAAGAATTGA
105738279 ACATATCCATGTAGGAC
1 ACATATCCATGTAGGAC
* *
105738296 ACATAT--A-GAATTGA-
1 ACATATCCATGTA-GGAC
105738310 ACATATCCATGTAGGAC
1 ACATATCCATGTAGGAC
105738327 ACATAT
1 ACATAT
105738333 ATGTATCTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
14 8 0.29
15 3 0.11
16 3 0.11
17 14 0.50
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (17 bp):
ACATATCCATGTAGGAC
Found at i:105738309 original size:31 final size:31
Alignment explanation
Indices: 105738271--105738333 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
105738261 AAAACTTTAA
105738271 AGAATTGAACATATCCATGTAGGACACATAT
1 AGAATTGAACATATCCATGTAGGACACATAT
105738302 AGAATTGAACATATCCATGTAGGACACATAT
1 AGAATTGAACATATCCATGTAGGACACATAT
105738333 A
1 A
105738334 TGTATCTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (31 bp):
AGAATTGAACATATCCATGTAGGACACATAT
Found at i:105742357 original size:26 final size:25
Alignment explanation
Indices: 105742328--105742383 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
105742318 TCTTATATCG
*
105742328 ATTTTTTTACTT-TGATATTTAAATA
1 ATTTTTTTA-TTATGATACTTAAATA
*
105742353 TATTTTTTTATTATGATACTTATATA
1 -ATTTTTTTATTATGATACTTAAATA
105742379 ATTTT
1 ATTTT
105742384 ATCAGTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (25 bp):
ATTTTTTTATTATGATACTTAAATA
Found at i:105742377 original size:24 final size:24
Alignment explanation
Indices: 105742319--105742383 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 24
105742309 TTCATATTTT
105742319 CTTATATCGATTTTTTTACTTTGATA
1 CTTATAT--ATTTTTTTACTTTGATA
*
105742345 TTTAAATATATTTTTTTA-TTATGATA
1 CTT--ATATATTTTTTTACTT-TGATA
*
105742371 CTTATATAATTTT
1 CTTATATATTTTT
105742384 ATCAGTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
24 9 0.27
25 2 0.06
26 18 0.55
28 4 0.12
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (24 bp):
CTTATATATTTTTTTACTTTGATA
Found at i:105742509 original size:11 final size:11
Alignment explanation
Indices: 105742493--105742518 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
105742483 TATAACATAT
105742493 AATTAATTTAA
1 AATTAATTTAA
105742504 AATTAATTTAA
1 AATTAATTTAA
105742515 AATT
1 AATT
105742519 TTCTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTAATTTAA
Found at i:105742823 original size:17 final size:17
Alignment explanation
Indices: 105742801--105742839 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
105742791 GTAATTTCTA
* *
105742801 TAAAAATCTTAAAATTT
1 TAAAAATATTAAAAATT
105742818 TAAAAATATTAAAAATT
1 TAAAAATATTAAAAATT
105742835 TAAAA
1 TAAAA
105742840 GAAAATTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAATATTAAAAATT
Found at i:105745650 original size:24 final size:24
Alignment explanation
Indices: 105745618--105745665 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
105745608 CATTTTATTG
105745618 TATATAATATACATAAAT-CATACT
1 TATATAATATACAT-AATCCATACT
105745642 TATATAATATACATAATCCATACT
1 TATATAATATACATAATCCATACT
105745666 AAAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (24 bp):
TATATAATATACATAATCCATACT
Found at i:105755307 original size:24 final size:24
Alignment explanation
Indices: 105755280--105755327 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
105755270 ATATATTTTT
105755280 AGTATGGA-TTATGTATATTATATA
1 AGTAT-GATTTATGTATATTATATA
105755304 AGTATGATTTATGTATATTATATA
1 AGTATGATTTATGTATATTATATA
105755328 CAATAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (24 bp):
AGTATGATTTATGTATATTATATA
Found at i:105767628 original size:58 final size:58
Alignment explanation
Indices: 105767566--105767681 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
105767556 ATATTATATT
105767566 AACCAGGTAGAGTTTCTTGTTATTGATTTTTGGTTGAAACTAGAGAAGAAGAAATGAA
1 AACCAGGTAGAGTTTCTTGTTATTGATTTTTGGTTGAAACTAGAGAAGAAGAAATGAA
105767624 AACCAGGTAGAGTTTCTTGTTATTGATTTTTGGTTGAAACTAGAGAAGAAGAAATGAA
1 AACCAGGTAGAGTTTCTTGTTATTGATTTTTGGTTGAAACTAGAGAAGAAGAAATGAA
105767682 GAAGATGAGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (58 bp):
AACCAGGTAGAGTTTCTTGTTATTGATTTTTGGTTGAAACTAGAGAAGAAGAAATGAA
Found at i:105769245 original size:18 final size:17
Alignment explanation
Indices: 105769218--105769251 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
105769208 TACAAAGAGC
*
105769218 TTTTTTTCTTTTTCTTT
1 TTTTTTTCTTTCTCTTT
105769235 TTTTTTGTCTTTCTCTT
1 TTTTTT-TCTTTCTCTT
105769252 CCTAAAAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTTTCTCTTT
Found at i:105774041 original size:23 final size:21
Alignment explanation
Indices: 105773999--105774043 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
105773989 GAGGTGAGAT
**
105773999 AAAATTTTAAATTTTATATTA
1 AAAATTTTAAATTAAATATTA
105774020 AAAATATTTAAATTAAATTATTA
1 AAAAT-TTTAAATTAAA-TATTA
105774043 A
1 A
105774044 CATAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAATTTTAAATTAAATATTA
Found at i:105774721 original size:6 final size:6
Alignment explanation
Indices: 105774706--105774739 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
105774696 GGATCAAATT
*
105774706 GAAAAA -AAAAA GAAAAA AAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
105774740 CTCACACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:105777289 original size:21 final size:21
Alignment explanation
Indices: 105777227--105777326 Score: 71
Period size: 21 Copynumber: 4.9 Consensus size: 21
105777217 GTACATCGTT
* *
105777227 AACAGAAGCTC-GAA-AGCTA
1 AACAGAAGCTCATAAGAGCTG
* * *
105777246 AACAGAAACCCATAAG-GTTTG
1 AACAGAAGCTCATAAGAG-CTG
**
105777267 AACAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* * *
105777288 AACGGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
*
105777309 AACAAAAGCTCATAAGAG
1 AACAGAAGCTCATAAGAG
105777327 TCGAACTCAT
Statistics
Matches: 59, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
19 9 0.15
20 3 0.05
21 46 0.78
22 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:105777302 original size:42 final size:42
Alignment explanation
Indices: 105777227--105777369 Score: 142
Period size: 42 Copynumber: 3.6 Consensus size: 42
105777217 GTACATCGTT
* * *
105777227 AACAGAAGCTCG-AA-AGCTAAACAGAAACCCATAAGGTTTG
1 AACAAAAGCTCGTAAGAGCTAAACGGAAACTCATAAGGTTTG
* * *
105777267 AACAGAAGCTTGTAAGAGCTGAACGGAAACTCATAAGAG-TTG
1 AACAAAAGCTCGTAAGAGCTAAACGGAAACTCATAAG-GTTTG
* *
105777309 AACAAAAGCTCATAAGAG-T---C-G-AACTCATAAGATTTG
1 AACAAAAGCTCGTAAGAGCTAAACGGAAACTCATAAGGTTTG
105777345 AACAAAAGCTCGTAAGAGCTAAACG
1 AACAAAAGCTCGTAAGAGCTAAACG
105777370 AAAAGTAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
36 30 0.35
37 2 0.02
38 1 0.01
40 12 0.14
41 3 0.04
42 36 0.42
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAAAAGCTCGTAAGAGCTAAACGGAAACTCATAAGGTTTG
Found at i:105777327 original size:21 final size:21
Alignment explanation
Indices: 105777256--105777362 Score: 68
Period size: 21 Copynumber: 5.4 Consensus size: 21
105777246 AACAGAAACC
*
105777256 CATAAG-GTTTGAACAGAAGCT
1 CATAAGAG-TTGAACAAAAGCT
** * *
105777277 TGTAAGAGCTGAACGGAAA-CT
1 CATAAGAGTTGAAC-AAAAGCT
105777298 CATAAGAGTTGAACAAAAGCT
1 CATAAGAGTTGAACAAAAGCT
*
105777319 CATAAGAG-T---C-GAA-CT
1 CATAAGAGTTGAACAAAAGCT
*
105777334 CATAAGATTTGAACAAAAGCT
1 CATAAGAGTTGAACAAAAGCT
*
105777355 CGTAAGAG
1 CATAAGAG
105777363 CTAAACGAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 18
0.66 0.15 0.19
Matches are distributed among these distances:
15 9 0.14
16 3 0.05
17 1 0.02
19 1 0.02
20 6 0.10
21 40 0.63
22 3 0.05
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (21 bp):
CATAAGAGTTGAACAAAAGCT
Found at i:105777346 original size:36 final size:36
Alignment explanation
Indices: 105777294--105777362 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
105777284 GCTGAACGGA
105777294 AACTCATAAGAGTTGAACAAAAGCTCATAAGAGTCG
1 AACTCATAAGAGTTGAACAAAAGCTCATAAGAGTCG
* *
105777330 AACTCATAAGATTTGAACAAAAGCTCGTAAGAG
1 AACTCATAAGAGTTGAACAAAAGCTCATAAGAG
105777363 CTAAACGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (36 bp):
AACTCATAAGAGTTGAACAAAAGCTCATAAGAGTCG
Found at i:105782568 original size:29 final size:30
Alignment explanation
Indices: 105782524--105782581 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
105782514 CGAAACTTAT
* *
105782524 TTGATTCTTTTTAATAGTATAAA-AATTAAA
1 TTGATTCTATTTAATAATA-AAATAATTAAA
105782554 TTGATTC-ATTTAATAATAAAATAATTAA
1 TTGATTCTATTTAATAATAAAATAATTAA
105782582 TTTAATCCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.60
30 7 0.28
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (30 bp):
TTGATTCTATTTAATAATAAAATAATTAAA
Found at i:105784797 original size:24 final size:24
Alignment explanation
Indices: 105784761--105784808 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
105784751 GATTTTCTAG
105784761 AAAAGCTGATATTTTCTAATGTTT
1 AAAAGCTGATATTTTCTAATGTTT
*
105784785 AAAAGCTGTTATTTTCTAATGTTT
1 AAAAGCTGATATTTTCTAATGTTT
105784809 GAATTATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (24 bp):
AAAAGCTGATATTTTCTAATGTTT
Found at i:105787226 original size:21 final size:21
Alignment explanation
Indices: 105787196--105787237 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
105787186 TACAGTCTAC
*
105787196 CCATACGGCCGTGTTTCTCAG
1 CCATACGGCCGTGTCTCTCAG
*
105787217 CCATATGGCCGTGTCTCTCAG
1 CCATACGGCCGTGTCTCTCAG
105787238 GCACATGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.33, G:0.24, T:0.29
Consensus pattern (21 bp):
CCATACGGCCGTGTCTCTCAG
Found at i:105787245 original size:21 final size:21
Alignment explanation
Indices: 105787202--105787245 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
105787192 CTACCCATAC
* *
105787202 GGCCGTGTTTCTCAGCCATAT
1 GGCCGTGTCTCTCAGCCACAT
*
105787223 GGCCGTGTCTCTCAGGCACAT
1 GGCCGTGTCTCTCAGCCACAT
105787244 GG
1 GG
105787246 TTGTGTATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.27
Consensus pattern (21 bp):
GGCCGTGTCTCTCAGCCACAT
Found at i:105789406 original size:47 final size:45
Alignment explanation
Indices: 105789305--105789406 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 45
105789295 ATCATTTTCA
*
105789305 GATACAGAATCAATACAGATATACAGAATCAGACATAATTATTTTG
1 GATACA-AATCAATACAGATATACAGAATCAGACATAAGTATTTTG
* *
105789351 AATAACAAATTCAATACGGATATACAGAATCGAAGACACT-AGTA-TTTG
1 GAT-ACAAA-TCAATACAGATATACAGAATC--AGACA-TAAGTATTTTG
105789399 GATACAAA
1 GATACAAA
105789407 ATAACGGAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
46 4 0.09
47 28 0.60
48 6 0.13
49 8 0.17
50 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (45 bp):
GATACAAATCAATACAGATATACAGAATCAGACATAAGTATTTTG
Found at i:105789717 original size:30 final size:30
Alignment explanation
Indices: 105789683--105789740 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
105789673 TATCTAAGTA
*
105789683 GCACAT-GAACATGTGAACCGCCCGTGTGCG
1 GCACATAG-ACATGTCAACCGCCCGTGTGCG
* *
105789713 GCACATAGCCATGTCAACCGCTCGTGTG
1 GCACATAGACATGTCAACCGCCCGTGTG
105789741 ATCCAAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (30 bp):
GCACATAGACATGTCAACCGCCCGTGTGCG
Found at i:105794250 original size:5 final size:5
Alignment explanation
Indices: 105794232--105794264 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
105794222 AAATAGGCTA
*
105794232 CATA- CATAC TATAC CATAC CATAC CATAC CATA
1 CATAC CATAC CATAC CATAC CATAC CATAC CATA
105794265 TATACATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (5 bp):
CATAC
Found at i:105798361 original size:47 final size:49
Alignment explanation
Indices: 105798272--105798367 Score: 162
Period size: 47 Copynumber: 2.0 Consensus size: 49
105798262 AGAACAAGGA
105798272 AGAGGTACGACCTCATCAGTTTTTTTTTAGAATGTCTTGATTGCGTTTT
1 AGAGGTACGACCTCATCAGTTTTTTTTTAGAATGTCTTGATTGCGTTTT
105798321 AGAGGTACGA-C-C-TCAGTTTGTTTTTTAGAATGTCTTGATTGCGTTTT
1 AGAGGTACGACCTCATCAGTTT-TTTTTTAGAATGTCTTGATTGCGTTTT
105798368 CATTAATTGG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
46 7 0.15
47 28 0.61
48 1 0.02
49 10 0.22
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.45
Consensus pattern (49 bp):
AGAGGTACGACCTCATCAGTTTTTTTTTAGAATGTCTTGATTGCGTTTT
Found at i:105811822 original size:19 final size:19
Alignment explanation
Indices: 105811798--105811838 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
105811788 TTACTTTAGT
*
105811798 TTCCTTATTAGGAACTCTA
1 TTCCTTATTAGAAACTCTA
105811817 TTCCTTATTAGAAACTCTA
1 TTCCTTATTAGAAACTCTA
105811836 TTC
1 TTC
105811839 AATATATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (19 bp):
TTCCTTATTAGAAACTCTA
Found at i:105821559 original size:20 final size:19
Alignment explanation
Indices: 105821517--105821559 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
105821507 GGTCACCTAA
* * *
105821517 TAAAACATTTTGTTTCACT
1 TAAAACATTTTGGTCCACG
105821536 TAAAACAATTTTGGTCCACG
1 TAAAAC-ATTTTGGTCCACG
105821556 TAAA
1 TAAA
105821560 TTTAAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TAAAACATTTTGGTCCACG
Found at i:105825983 original size:31 final size:31
Alignment explanation
Indices: 105825948--105826014 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
105825938 AAAAAACCTT
*
105825948 AATAGC-CTAATGACTTAAATAAAAACTTTTA
1 AATAGCTC-AATGACTTAAATAAAAAATTTTA
* * *
105825979 AATAGTTCAGTGACTTAAATAAAAAATTTTG
1 AATAGCTCAATGACTTAAATAAAAAATTTTA
105826010 AATAG
1 AATAG
105826015 TTCACTGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (31 bp):
AATAGCTCAATGACTTAAATAAAAAATTTTA
Found at i:105826015 original size:31 final size:31
Alignment explanation
Indices: 105825958--105826018 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
105825948 AATAGCCTAA
*
105825958 TGACTTAAATAAAAACTTTTAAATAGTTCAG
1 TGACTTAAATAAAAAATTTTAAATAGTTCAG
*
105825989 TGACTTAAATAAAAAATTTTGAATAGTTCA
1 TGACTTAAATAAAAAATTTTAAATAGTTCA
105826019 CTGATCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAAATTTTAAATAGTTCAG
Found at i:105831219 original size:19 final size:19
Alignment explanation
Indices: 105831184--105831223 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
105831174 TACATTTAAC
*
105831184 AAAATTAAATTACATAAAA
1 AAAATTAAATGACATAAAA
105831203 AAAATTAAAATGA-ATAAAA
1 AAAATT-AAATGACATAAAA
105831222 AA
1 AA
105831224 TAAAATTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATTAAATGACATAAAA
Found at i:105835134 original size:27 final size:27
Alignment explanation
Indices: 105835086--105835190 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
105835076 ACGAGGCTGC
* *
105835086 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
105835113 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
105835139 CAGATATATGTGGCAGAGCCACCGGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
105835166 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
105835191 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.12
27 58 0.84
28 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:105836773 original size:26 final size:26
Alignment explanation
Indices: 105836742--105836849 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
105836732 TGAAATGCCC
105836742 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
105836768 ATCATGGAATATTTACC-AAACCCATT
1 ATCATGGAACATTTACCTAAA-CCATT
* * *
105836794 ACCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
105836820 ATCATGGACCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
105836846 ATCA
1 ATCA
105836850 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 3 0.04
26 68 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:105836819 original size:52 final size:52
Alignment explanation
Indices: 105836744--105836846 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
105836734 AAATGCCCAT
*
105836744 CATGGAACATTTACCTAAACCATTATCATGGAATATTTACCAAACCCATTAC
1 CATGGAACATTTACCTAAACCATTATCATGGAACATTTACCAAACCCATTAC
* * * *
105836796 CATGGAATATTTACCTAATCCATTATCATGGACCATTTACCTAACCCATTA
1 CATGGAACATTTACCTAAACCATTATCATGGAACATTTACCAAACCCATTA
105836847 TCAATTTGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (52 bp):
CATGGAACATTTACCTAAACCATTATCATGGAACATTTACCAAACCCATTAC
Found at i:105845411 original size:26 final size:26
Alignment explanation
Indices: 105845380--105845487 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
105845370 TGAAATGCCC
*
105845380 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
105845406 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* ** *
105845432 ACCATGGAATGTTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
105845458 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105845484 ATCA
1 ATCA
105845488 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105854642 original size:40 final size:40
Alignment explanation
Indices: 105854587--105854667 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
105854577 CGGGATTTGA
*
105854587 AAGATATCATGCATTAGCATATCCCATCAATTCTAACTTT
1 AAGATATCATGCATTAGCATATCCCATCAAGTCTAACTTT
105854627 AAGATATCATGCATTAGCATATCCCATCAAGTCTAACTTT
1 AAGATATCATGCATTAGCATATCCCATCAAGTCTAACTTT
105854667 A
1 A
105854668 CTCCATTTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (40 bp):
AAGATATCATGCATTAGCATATCCCATCAAGTCTAACTTT
Found at i:105858679 original size:7 final size:7
Alignment explanation
Indices: 105858669--105858695 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
105858659 ACTCCAAACT
105858669 CAAAATA
1 CAAAATA
105858676 CAAAATA
1 CAAAATA
105858683 CAAAATA
1 CAAAATA
105858690 CAAAAT
1 CAAAAT
105858696 TTTCCTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (7 bp):
CAAAATA
Found at i:105865719 original size:156 final size:156
Alignment explanation
Indices: 105865435--105865746 Score: 606
Period size: 156 Copynumber: 2.0 Consensus size: 156
105865425 ACAATATGGG
105865435 CTGCGATAAAGGCTTAAAAGTGTTCGAAAATACGAGGCATACTCCACAGTTAACATATTCAATTT
1 CTGCGATAAAGGCTTAAAAGTGTTCGAAAATACGAGGCATACTCCACAGTTAACATATTCAATTT
105865500 TTGATCTTATGTTTTTTGAAATAAAAGAGTAAAAGTAAGACAAAAATAAAATAAAATATTACGAA
66 TTGATCTTATGTTTTTTGAAATAAAAGAGTAAAAGTAAGACAAAAATAAAATAAAATATTACGAA
105865565 AGGAAACAACAAATAAATTTAGAAAA
131 AGGAAACAACAAATAAATTTAGAAAA
*
105865591 CTGCGATAAAGGCTTAAAAGTGTTCGAAAATACGATGCATACTCCACAGTTAACATATTCAATTT
1 CTGCGATAAAGGCTTAAAAGTGTTCGAAAATACGAGGCATACTCCACAGTTAACATATTCAATTT
105865656 TTGATCTTATGTTTTTTGAAATAAAAGAGTAAAAGTAAGACAAAAATAAAATAAAATATTACGAA
66 TTGATCTTATGTTTTTTGAAATAAAAGAGTAAAAGTAAGACAAAAATAAAATAAAATATTACGAA
*
105865721 AGGAAACAACAATTAAATTTAGAAAA
131 AGGAAACAACAAATAAATTTAGAAAA
105865747 TATAATGAAA
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.28
Consensus pattern (156 bp):
CTGCGATAAAGGCTTAAAAGTGTTCGAAAATACGAGGCATACTCCACAGTTAACATATTCAATTT
TTGATCTTATGTTTTTTGAAATAAAAGAGTAAAAGTAAGACAAAAATAAAATAAAATATTACGAA
AGGAAACAACAAATAAATTTAGAAAA
Found at i:105865985 original size:24 final size:24
Alignment explanation
Indices: 105865939--105865987 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
105865929 TTTGATATGG
*
105865939 AATTTTTTAAATTATAAGGATTTT
1 AATTTTTTAAATTATAAGAATTTT
* * *
105865963 AATTTTTTTAATTTTAATAATTTT
1 AATTTTTTAAATTATAAGAATTTT
105865987 A
1 A
105865988 TGCTTTTTTA
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:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AATTTTTTAAATTATAAGAATTTT
Found at i:105866135 original size:21 final size:23
Alignment explanation
Indices: 105866110--105866153 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
105866100 TTTCACCTAA
*
105866110 TTATAATTT-TA-AAAATAATTT
1 TTATAATTTCTAGAAAAAAATTT
105866131 TTATAATTTCTAGAAAAAAATTT
1 TTATAATTTCTAGAAAAAAATTT
105866154 ATGAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATAATTTCTAGAAAAAAATTT
Found at i:105867813 original size:56 final size:56
Alignment explanation
Indices: 105867751--105867865 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
105867741 CTATACTATC
*
105867751 AAATATGATATAAAAAATTAAAATGTAATTGCACTCAATTAACTTAACGCGATTAA
1 AAATATGATATAAAAAATTAAAATATAATTGCACTCAATTAACTTAACGCGATTAA
105867807 AAATATGATATAAAAAATTAAAATATAATTGCACTCAATTAACTTAACGCGATTAA
1 AAATATGATATAAAAAATTAAAATATAATTGCACTCAATTAACTTAACGCGATTAA
105867863 AAA
1 AAA
105867866 ATTAGAGTTC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (56 bp):
AAATATGATATAAAAAATTAAAATATAATTGCACTCAATTAACTTAACGCGATTAA
Found at i:105871640 original size:38 final size:38
Alignment explanation
Indices: 105871550--105871699 Score: 246
Period size: 38 Copynumber: 3.9 Consensus size: 38
105871540 GATTCCACTC
* * *
105871550 CCCCATGCTACTTTGTTTTATTATTAATTAAAACTACTC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
105871589 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
*
105871627 CCCCATACTATTTTGTTTTATTATTAATTAAAACCATT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
105871665 CCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 CCCCATACTATTTTG-TTTTATTATTAATTAAAAC
105871700 CATACTTTAT
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
38 53 0.50
39 53 0.50
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
Found at i:105871643 original size:77 final size:77
Alignment explanation
Indices: 105871550--105871699 Score: 248
Period size: 77 Copynumber: 1.9 Consensus size: 77
105871540 GATTCCACTC
* *
105871550 CCCCATGCTACTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTATTTTG-TTTTATTATT
1 CCCCATACTACTTTGTTTTATTATTAATTAAAACCA-TCCCCCATACTATTTTGTTTTTATTATT
105871614 AATTAAAACTATT
65 AATTAAAACTATT
* *
105871627 CCCCATACTATTTTGTTTTATTATTAATTAAAACCATTCCCCATACTATTTTGTTTTTATTATTA
1 CCCCATACTACTTTGTTTTATTATTAATTAAAACCATCCCCCATACTATTTTGTTTTTATTATTA
105871692 ATTAAAAC
66 ATTAAAAC
105871700 CATACTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 16 0.24
77 52 0.76
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (77 bp):
CCCCATACTACTTTGTTTTATTATTAATTAAAACCATCCCCCATACTATTTTGTTTTTATTATTA
ATTAAAACTATT
Found at i:105871700 original size:39 final size:38
Alignment explanation
Indices: 105871550--105871702 Score: 243
Period size: 39 Copynumber: 4.0 Consensus size: 38
105871540 GATTCCACTC
* * * *
105871550 CCCCATGCTACTTTGTTTTATTATTAATTAAAACTACTC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACCA-TT
*
105871589 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACCATT
105871627 CCCCATACTATTTTGTTTTATTATTAATTAAAACCATT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACCATT
105871665 CCCCATACTATTTTGTTTTTATTATTAATTAAAACCAT
1 CCCCATACTATTTTG-TTTTATTATTAATTAAAACCAT
105871703 ACTTTATTTT
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
38 53 0.49
39 56 0.51
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACCATT
Found at i:105872337 original size:21 final size:24
Alignment explanation
Indices: 105872302--105872346 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
105872292 TAATACAATC
105872302 TCTTCTCTCCAAAAT-CAATCGAT
1 TCTTCTCTCCAAAATACAATCGAT
*
105872325 TCTTC-CT-CAAAATACCATCGAT
1 TCTTCTCTCCAAAATACAATCGAT
105872347 CCCCCCTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.33
Consensus pattern (24 bp):
TCTTCTCTCCAAAATACAATCGAT
Found at i:105872813 original size:13 final size:13
Alignment explanation
Indices: 105872795--105872819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105872785 GAGTTTTGAG
105872795 TTCTTCGATCTGC
1 TTCTTCGATCTGC
105872808 TTCTTCGATCTG
1 TTCTTCGATCTG
105872820 TTCCCTATAA
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:105872866 original size:44 final size:43
Alignment explanation
Indices: 105872802--105872887 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
105872792 GAGTTCTTCG
*
105872802 ATCTGCTTCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTTCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
105872845 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCA
1 ATCTGCT-TCTTCAATC-TGTTCCCTATAAACACAGGGATGCCA
105872888 TGCTGAAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 8 0.20
44 32 0.80
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (43 bp):
ATCTGCTTCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:105873542 original size:204 final size:203
Alignment explanation
Indices: 105872984--105873763 Score: 1383
Period size: 204 Copynumber: 3.8 Consensus size: 203
105872974 AAATCTATTT
* *
105872984 CTTCGATTTGTTCCCTGAC-ATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAA-CAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
*
105873047 GTGAAAGCCAAATCAGCTATG-CTTCGATTTG-TCCTTGTAAACATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
105873110 GGATCCGCTTCAGTAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
131 GGATCTGCTTCAGTAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
105873175 ATGCCAAA
196 ATGCCAAA
105873183 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
105873248 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
105873313 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
105873378 AGATGCCAAA
194 AGATGCCAAA
105873388 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGC-TTCTCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
105873452 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
105873517 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
105873582 AGATGCCAAA
194 AGATGCCAAA
*
105873592 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCA
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCA
*
105873656 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
* *
105873721 TGGATCTGCTTCAGTATAACATCTGAAGGCCAGATCTGTTATG
130 TGGATCTGCTTCAGTA-AACATCTGAAGGCGAGATCTGCTATG
105873764 CTGCGGCCTA
Statistics
Matches: 564, Mismatches: 9, Indels: 11
0.97 0.02 0.02
Matches are distributed among these distances:
199 17 0.03
200 41 0.07
201 24 0.04
202 10 0.02
203 44 0.08
204 232 0.41
205 196 0.35
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (203 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAA
Found at i:105901402 original size:18 final size:18
Alignment explanation
Indices: 105901375--105901416 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
105901365 AAAATAAAAA
*
105901375 ATTATAAAATAATT-AATT
1 ATTATTAAAT-ATTAAATT
*
105901393 ATTATTAAATTTTAAATT
1 ATTATTAAATATTAAATT
105901411 ATTATT
1 ATTATT
105901417 TTTAGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTATTAAATATTAAATT
Found at i:105901575 original size:25 final size:23
Alignment explanation
Indices: 105901538--105901598 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
105901528 ATTATAAATT
*
105901538 ATAAATTTCATTTTAATAGAAATCAA
1 ATAAATAT-ATTTTAAT-GAAAT-AA
* *
105901564 ATATATATATTTTTATGAAATAA
1 ATAAATATATTTTAATGAAATAA
*
105901587 GTAAATATATTT
1 ATAAATATATTT
105901599 AATTTTAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 12 0.40
24 5 0.17
25 7 0.23
26 6 0.20
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (23 bp):
ATAAATATATTTTAATGAAATAA
Found at i:105901693 original size:18 final size:18
Alignment explanation
Indices: 105901670--105901709 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
105901660 AAAAATCGAC
* *
105901670 AAATAAAAATACATATAT
1 AAATAAAAATAAAGATAT
*
105901688 AAATAATAATAAAGATAT
1 AAATAAAAATAAAGATAT
105901706 AAAT
1 AAAT
105901710 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATAAAAATAAAGATAT
Found at i:105905655 original size:29 final size:29
Alignment explanation
Indices: 105905622--105905679 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
105905612 GGGAATAATG
105905622 CCAAGCTAAAGGGAGAAGTAAACCATTAC
1 CCAAGCTAAAGGGAGAAGTAAACCATTAC
105905651 CCAAGCTAAAGGGAGAAGTAAACCATTAC
1 CCAAGCTAAAGGGAGAAGTAAACCATTAC
105905680 TCATATGTCA
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:0.45, C:0.21, G:0.21, T:0.14
Consensus pattern (29 bp):
CCAAGCTAAAGGGAGAAGTAAACCATTAC
Found at i:105906360 original size:24 final size:24
Alignment explanation
Indices: 105906314--105906360 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
105906304 TGAATTAATT
* *
105906314 TTTTTCTTTTAAAAATTTTATCTA
1 TTTTTATTTTAAAAATTTGATCTA
105906338 TTTTTATTATTAAAAA-TTGATCT
1 TTTTTATT-TTAAAAATTTGATCT
105906361 TTGTGCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTTATTTTAAAAATTTGATCTA
Found at i:105906706 original size:10 final size:10
Alignment explanation
Indices: 105906691--105906732 Score: 57
Period size: 10 Copynumber: 3.9 Consensus size: 10
105906681 TTCATCTCTC
105906691 TATACATATA
1 TATACATATA
105906701 TATACATATA
1 TATACATATA
105906711 TATACATACATGA
1 TATACAT--AT-A
105906724 TATACATAT
1 TATACATAT
105906733 CACTATGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 17 0.59
11 2 0.07
12 2 0.07
13 8 0.28
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (10 bp):
TATACATATA
Found at i:105911256 original size:32 final size:30
Alignment explanation
Indices: 105911195--105911262 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 30
105911185 TGGGGTCTAA
*
105911195 TTAAAATTTTTGTGAGATCAATGAGAATTT
1 TTAAAATTTTTGTGAGATCAATGAAAATTT
* * *
105911225 TTAAAATTTTTAAGTGAGGTTAATTAAAATTT
1 TTAAAATTTTT--GTGAGATCAATGAAAATTT
*
105911257 TCAAAA
1 TTAAAA
105911263 AAAATAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 11 0.35
32 20 0.65
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (30 bp):
TTAAAATTTTTGTGAGATCAATGAAAATTT
Found at i:105913612 original size:15 final size:15
Alignment explanation
Indices: 105913594--105913640 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
105913584 TTTGAAAAAA
105913594 ATATTTATATTATTT
1 ATATTTATATTATTT
105913609 ATATTTAATATT-TTT
1 ATATTT-ATATTATTT
*
105913624 ATATATT-TTTTATTT
1 ATAT-TTATATTATTT
105913639 AT
1 AT
105913641 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.11
15 18 0.64
16 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATATTTATATTATTT
Found at i:105913635 original size:26 final size:25
Alignment explanation
Indices: 105913599--105913653 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
105913589 AAAAAATATT
105913599 TATATTATTTA-TATTTAATATTTTTA
1 TATATTATTTATTATTTAA-A-TTTTA
*
105913625 TATATTTTTTATTTATTTAAATTTTA
1 TATATTATTTA-TTATTTAAATTTTA
105913651 TAT
1 TAT
105913654 TTAAGCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 18 0.69
27 1 0.04
28 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TATATTATTTATTATTTAAATTTTA
Found at i:105913648 original size:17 final size:17
Alignment explanation
Indices: 105913597--105913656 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
105913587 GAAAAAAATA
105913597 TTTATA-TTATTTATAT
1 TTTATATTTATTTATAT
*
105913613 TTAATATTT-TTATATAT
1 TTTATATTTATT-TATAT
* *
105913630 TTTTTATTTATTTAAAT
1 TTTATATTTATTTATAT
105913647 TTTATATTTA
1 TTTATATTTA
105913657 AGCATATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 7 0.19
17 27 0.75
18 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATTTATTTATAT
Found at i:105913745 original size:19 final size:18
Alignment explanation
Indices: 105913681--105913751 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
105913671 TTTTTAACAT
*
105913681 TTACATTATAGTATTATATA
1 TTACA-TATA-TATTATAAA
* *
105913701 TTAC-TATAGATT-TAAT
1 TTACATATATATTATAAA
*
105913717 TTATATATATATTATAAA
1 TTACATATATATTATAAA
*
105913735 TTACATAATATAATATA
1 TTACAT-ATATATTATA
105913752 TCATAAACTT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
16 5 0.12
17 10 0.25
18 12 0.30
19 9 0.22
20 4 0.10
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (18 bp):
TTACATATATATTATAAA
Found at i:105917174 original size:31 final size:30
Alignment explanation
Indices: 105917130--105917208 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
105917120 CAGCTTAGTG
105917130 ACTTAAATAAAAACTTTTAAATAGTT-AAGTA
1 ACTTAAAT-AAAACTTTTAAATAGTTCAA-TA
* * *
105917161 ATTTAAATGAAAACTTTTGAATTGTTCAATA
1 ACTTAAAT-AAAACTTTTAAATAGTTCAATA
*
105917192 ACTTAAATAGAACTTTT
1 ACTTAAATAAAACTTTT
105917209 TGAATAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 8 0.20
31 31 0.76
32 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTAAATAAAACTTTTAAATAGTTCAATA
Found at i:105917596 original size:17 final size:16
Alignment explanation
Indices: 105917555--105917617 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
105917545 GCAAATTATT
105917555 AATTATAAAATTTTAAA
1 AATTA-AAAATTTTAAA
* * *
105917572 AAATAAAATTTTTTAA
1 AATTAAAAATTTTAAA
*
105917588 AATTAAAAA-ATTAAA
1 AATTAAAAATTTTAAA
*
105917603 AATTACAAGATTTTA
1 AATTA-AAAATTTTA
105917618 GCAAGCTAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 9 0.26
16 19 0.54
17 7 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (16 bp):
AATTAAAAATTTTAAA
Found at i:105918869 original size:15 final size:15
Alignment explanation
Indices: 105918851--105918926 Score: 64
Period size: 15 Copynumber: 5.1 Consensus size: 15
105918841 TCGTTTGTTC
*
105918851 CCTTGTCATCTGTGT
1 CCTTGTCATTTGTGT
* * *
105918866 CCTTGCCGTTCAGT-T
1 CCTTGTCATT-TGTGT
*
105918881 CCTTCTCATTTGTGT
1 CCTTGTCATTTGTGT
* * *
105918896 CCTTGCCGTTTGTTT
1 CCTTGTCATTTGTGT
105918911 CCTTGTCATTTGTGT
1 CCTTGTCATTTGTGT
105918926 C
1 C
105918927 TTTCTGCTGG
Statistics
Matches: 44, Mismatches: 15, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
14 2 0.05
15 40 0.91
16 2 0.05
ACGTcount: A:0.05, C:0.28, G:0.18, T:0.49
Consensus pattern (15 bp):
CCTTGTCATTTGTGT
Found at i:105918895 original size:30 final size:30
Alignment explanation
Indices: 105918842--105918926 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
105918832 CCTTCAATGT
* * *
105918842 CGTTTGTTCCCTTGTCATCTGTGTCCTTGC
1 CGTTAGTTTCCTTGTCATTTGTGTCCTTGC
*
105918872 CGTTCAG-TTCCTTCTCATTTGTGTCCTTGC
1 CGTT-AGTTTCCTTGTCATTTGTGTCCTTGC
*
105918902 CGTTTGTTTCCTTGTCATTTGTGTC
1 CGTTAGTTTCCTTGTCATTTGTGTC
105918927 TTTCTGCTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 45 0.96
31 1 0.02
ACGTcount: A:0.05, C:0.27, G:0.19, T:0.49
Consensus pattern (30 bp):
CGTTAGTTTCCTTGTCATTTGTGTCCTTGC
Found at i:105921454 original size:19 final size:19
Alignment explanation
Indices: 105921418--105921456 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
105921408 AATATTTAGC
*
105921418 ATGTTAAAAAGTATTATTA
1 ATGTTAAAAAGTAGTATTA
**
105921437 ATGTTAAAATTTAGTATTA
1 ATGTTAAAAAGTAGTATTA
105921456 A
1 A
105921457 AATAAAATTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (19 bp):
ATGTTAAAAAGTAGTATTA
Found at i:105921569 original size:22 final size:19
Alignment explanation
Indices: 105921523--105921569 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
105921513 ATATTCGATT
*
105921523 TATTATATATTATTTTAAA
1 TATTAAATATTATTTTAAA
105921542 TA-TAAATATTTATTTTAATAA
1 TATTAAATA-TTATTTT-A-AA
105921563 TATTAAA
1 TATTAAA
105921570 AAAATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 1 0.04
21 4 0.17
22 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAAATATTATTTTAAA
Found at i:105927590 original size:16 final size:16
Alignment explanation
Indices: 105927569--105927604 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
105927559 TTTGGTTCGC
105927569 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
105927585 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
105927601 TGTA
1 TGTA
105927605 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:105927669 original size:44 final size:45
Alignment explanation
Indices: 105927585--105927675 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
105927575 GGATTAGAGG
* * *
105927585 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
105927630 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
105927674 TG
1 TG
105927676 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:105927861 original size:18 final size:17
Alignment explanation
Indices: 105927840--105927874 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
105927830 TTATTATTAA
*
105927840 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
105927858 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
105927875 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:105927921 original size:61 final size:61
Alignment explanation
Indices: 105927855--105928042 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
105927845 TTTTAATTAA
105927855 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
105927916 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
105927975 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
105928036 AATATAT
1 AATATAT
105928043 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:105927988 original size:14 final size:15
Alignment explanation
Indices: 105927939--105927990 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
105927929 ATAAAATATA
105927939 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
105927954 TATTAAATATATTAT
1 AATTAAATATATTAT
105927969 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
105927982 AATTTAATA
1 AATTAAATA
105927991 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:105928036 original size:120 final size:121
Alignment explanation
Indices: 105927823--105928115 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
105927813 ATCATATTTA
105927823 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
105927888 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
105927943 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
105928008 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
105928064 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
105928116 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:105928162 original size:101 final size:93
Alignment explanation
Indices: 105928056--105928338 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
105928046 ACTATAAAAG
* * * *
105928056 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
105928120 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
105928157 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
105928220 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
105928248 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
105928311 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
105928339 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:105928185 original size:26 final size:28
Alignment explanation
Indices: 105928156--105928216 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
105928146 TATGAATTTG
*
105928156 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
105928182 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
105928210 TAAAATT
1 TATAATT
105928217 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:105928214 original size:47 final size:46
Alignment explanation
Indices: 105928163--105928306 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
105928153 TTGTATAATT
105928163 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
105928210 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
105928254 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
105928301 TAAAAT
1 TAAAAT
105928307 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:105928226 original size:91 final size:90
Alignment explanation
Indices: 105928131--105928338 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
105928121 TAATTATAAC
* * * *
105928131 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
105928196 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
105928222 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
105928287 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
105928313 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
105928339 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:105928298 original size:44 final size:43
Alignment explanation
Indices: 105928156--105928298 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
105928146 TATGAATTTG
* *
105928156 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
105928200 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
105928247 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
105928291 TATAATTT
1 TATAATTT
105928299 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:105928313 original size:47 final size:47
Alignment explanation
Indices: 105928181--105928319 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
105928171 TTATTATTAC
* *
105928181 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
105928228 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
105928272 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
105928319 A
1 A
105928320 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:105932212 original size:18 final size:18
Alignment explanation
Indices: 105932189--105932224 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
105932179 GTTAATAAGT
105932189 TAGTATTAAAGTTTCGTC
1 TAGTATTAAAGTTTCGTC
105932207 TAGTATTAAAGTTTCGTC
1 TAGTATTAAAGTTTCGTC
105932225 AAGAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
TAGTATTAAAGTTTCGTC
Found at i:105933924 original size:7 final size:7
Alignment explanation
Indices: 105933909--105933945 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
105933899 TACACTTATC
*
105933909 TGATCAG
1 TGATAAG
105933916 TGATAAG
1 TGATAAG
*
105933923 TGACAAG
1 TGATAAG
105933930 TGATAAG
1 TGATAAG
105933937 TGATAAG
1 TGATAAG
105933944 TG
1 TG
105933946 GTAGCTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (7 bp):
TGATAAG
Found at i:105933960 original size:58 final size:58
Alignment explanation
Indices: 105933870--105933983 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
105933860 ACTTCTGATC
*
105933870 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACA
* * *
105933928 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGA
105933984 TAAATGTGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:105937311 original size:15 final size:15
Alignment explanation
Indices: 105937291--105937332 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
105937281 AATTTTTTTT
105937291 CTTTCTTTCTTCCTC
1 CTTTCTTTCTTCCTC
105937306 CTTTCTTTCTT--TC
1 CTTTCTTTCTTCCTC
*
105937319 CTTT-TTTTTTCCTC
1 CTTTCTTTCTTCCTC
105937333 TTATTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 2 0.08
15 11 0.46
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTCTTTCTTCCTC
Found at i:105945144 original size:11 final size:10
Alignment explanation
Indices: 105945130--105945180 Score: 59
Period size: 11 Copynumber: 5.0 Consensus size: 10
105945120 AAAGAGAATG
105945130 GAAAATAAAGA
1 GAAAATAAA-A
*
105945141 GAAAAAAAAA
1 GAAAATAAAA
105945151 GAAAATTAAAA
1 GAAAA-TAAAA
*
105945162 GAACATAAAA
1 GAAAATAAAA
105945172 GAAAA-AAAA
1 GAAAATAAAA
105945181 TTAAATTGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 4 0.11
10 15 0.43
11 16 0.46
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:105945154 original size:21 final size:21
Alignment explanation
Indices: 105945130--105945176 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
105945120 AAAGAGAATG
105945130 GAAAA-TAAAGAGAAAAAAAAA
1 GAAAATTAAA-AGAAAAAAAAA
* *
105945151 GAAAATTAAAAGAACATAAAA
1 GAAAATTAAAAGAAAAAAAAA
105945172 GAAAA
1 GAAAA
105945177 AAAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.09
Consensus pattern (21 bp):
GAAAATTAAAAGAAAAAAAAA
Found at i:105947397 original size:27 final size:27
Alignment explanation
Indices: 105947344--105947397 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
105947334 ACGATTACTT
*
105947344 AATTATTTAAAATTTAAAAATTCAAAA
1 AATTATTTAAAATTTAAAAACTCAAAA
105947371 AATTATTTAAAAATTTAAAAACT-AAAA
1 AATTATTT-AAAATTTAAAAACTCAAAA
105947398 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (27 bp):
AATTATTTAAAATTTAAAAACTCAAAA
Found at i:105952661 original size:111 final size:111
Alignment explanation
Indices: 105952467--105952690 Score: 412
Period size: 111 Copynumber: 2.0 Consensus size: 111
105952457 CCGTGATTCA
*
105952467 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGACGTGGTCTGCATGCATAT
1 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGACGTAGTCTGCATGCATAT
105952532 CTTATTAAGTAGGCTTTCTTTAATTGGATATGAAATATTTCTCCTG
66 CTTATTAAGTAGGCTTTCTTTAATTGGATATGAAATATTTCTCCTG
* *
105952578 TTGGCTATTGAAATGTAAATAACGTGTTTGACATTGTTTCAGAGTGATGTAGTCTGCATGCATAT
1 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGACGTAGTCTGCATGCATAT
*
105952643 CTTATTAAGTAGGCTTTCTTTAATTTGATATGAAATATTTCTCCTG
66 CTTATTAAGTAGGCTTTCTTTAATTGGATATGAAATATTTCTCCTG
105952689 TT
1 TT
105952691 ATCTTGTTAA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (111 bp):
TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGACGTAGTCTGCATGCATAT
CTTATTAAGTAGGCTTTCTTTAATTGGATATGAAATATTTCTCCTG
Found at i:105963745 original size:17 final size:18
Alignment explanation
Indices: 105963725--105963761 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
105963715 CAAAATTCCT
105963725 TATTTAAAAAAATAA-AA
1 TATTTAAAAAAATAATAA
*
105963742 TATTTAAATAAATAATAA
1 TATTTAAAAAAATAATAA
105963760 TA
1 TA
105963762 ATTACTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TATTTAAAAAAATAATAA
Found at i:105967427 original size:33 final size:34
Alignment explanation
Indices: 105967377--105967444 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
105967367 CATTATGCCA
105967377 AAATATATTTTTTTTGTAATAATCTGAAGTAAAC
1 AAATATATTTTTTTTGTAATAATCTGAAGTAAAC
105967411 AAATATA-TTTTTTTGTAATAATCTGAAGTAAAC
1 AAATATATTTTTTTTGTAATAATCTGAAGTAAAC
105967444 A
1 A
105967445 TTATAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 27 0.79
34 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (34 bp):
AAATATATTTTTTTTGTAATAATCTGAAGTAAAC
Found at i:105968517 original size:31 final size:31
Alignment explanation
Indices: 105968481--105968549 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
105968471 TAACAGCCCA
*
105968481 AATGACTTAAATAAAAACTTTTGAAAAGTTG
1 AATGACTTAAATAAAAACTTTCGAAAAGTTG
* * *
105968512 AATGACTTAAATGAAAACTTTCGAATAGTTT
1 AATGACTTAAATAAAAACTTTCGAAAAGTTG
105968543 AATGACT
1 AATGACT
105968550 ATTTTGTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTCGAAAAGTTG
Found at i:105976141 original size:10 final size:10
Alignment explanation
Indices: 105976126--105976153 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
105976116 CATTTAACCG
105976126 AATTAATCAA
1 AATTAATCAA
105976136 AATTAATCAA
1 AATTAATCAA
105976146 AATTAATC
1 AATTAATC
105976154 GAATTGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (10 bp):
AATTAATCAA
Done.