Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 17
Found at i:4104 original size:2 final size:2
Alignment explanation
Indices: 4097--4144 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
4087 ATTATTTTAG
4097 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4139 TA TA TA
1 TA TA TA
4145 GACGTACAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6422 original size:21 final size:22
Alignment explanation
Indices: 6398--6438 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6388 AGATTAAATC
6398 TTAAA-TAAAATTTTTAATAAT
1 TTAAATTAAAATTTTTAATAAT
**
6419 TTAAATTAATTTTTTTAATA
1 TTAAATTAAAATTTTTAATA
6439 TTATTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAAATTAAAATTTTTAATAAT
Found at i:8049 original size:19 final size:19
Alignment explanation
Indices: 8025--8062 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8015 CTTGATAATC
8025 CATATATTTGTATCGTATT
1 CATATATTTGTATCGTATT
*
8044 CATATATTTTTATCGTATT
1 CATATATTTGTATCGTATT
8063 ATGATCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (19 bp):
CATATATTTGTATCGTATT
Found at i:8641 original size:26 final size:26
Alignment explanation
Indices: 8593--8642 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8583 TCATATTAAA
*
8593 AAATTCGATTAATTTTTTGTGATTTT
1 AAATTCGATTAATTTATTGTGATTTT
*
8619 AAATTTGATTAATTTGATT-TGATT
1 AAATTCGATTAATTT-ATTGTGATT
8643 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (26 bp):
AAATTCGATTAATTTATTGTGATTTT
Found at i:8980 original size:16 final size:16
Alignment explanation
Indices: 8942--9001 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
8932 TGACTTGCAT
*
8942 TTAAAATGATCTGAAA-
1 TTAAAATGA-CTCAAAC
* *
8958 TTGAAATGACTTAAAC
1 TTAAAATGACTCAAAC
*
8974 TTAAAATAACTCAAAC
1 TTAAAATGACTCAAAC
* *
8990 TTGAAATAACTC
1 TTAAAATGACTC
9002 TAAATTGAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
15 5 0.14
16 32 0.86
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.30
Consensus pattern (16 bp):
TTAAAATGACTCAAAC
Found at i:9009 original size:16 final size:17
Alignment explanation
Indices: 8958--9010 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 17
8948 TGATCTGAAA
*
8958 TTGAAATGACT-TAAAC
1 TTGAAATAACTCTAAAC
*
8974 TTAAAATAACTC-AAAC
1 TTGAAATAACTCTAAAC
8990 TTGAAATAACTCTAAA-
1 TTGAAATAACTCTAAAC
9006 TTGAA
1 TTGAA
9011 GTAGTTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 29 0.91
17 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (17 bp):
TTGAAATAACTCTAAAC
Found at i:10395 original size:2 final size:2
Alignment explanation
Indices: 10388--10431 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
10378 AATGTGTTCA
10388 AT AT AT AT AT 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 AT AT AT AT AT
10430 AT
1 AT
10432 GCATTTTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11135 original size:2 final size:2
Alignment explanation
Indices: 11076--11117 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11066 ACACACACAC
11076 AT AT AT AT AT 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 AT AT AT AT AT
11118 TGCCAACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14199 original size:18 final size:19
Alignment explanation
Indices: 14150--14202 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
14140 TTATATTTTT
14150 ATATAAA-TTTAATTATAAA
1 ATATAAATTTTAA-TATAAA
*
14169 ATATAAATATTAATATAAA
1 ATATAAATTTTAATATAAA
*
14188 A-ATAATTTTTAATAT
1 ATATAAATTTTAATAT
14203 TTTGAATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.40
19 14 0.47
20 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAAATTTTAATATAAA
Found at i:14732 original size:6 final size:6
Alignment explanation
Indices: 14721--14782 Score: 88
Period size: 6 Copynumber: 10.3 Consensus size: 6
14711 AGAAGGATGA
* *
14721 ATATAT ATATAT ATATAT ATATAT ATATAT GTATAT GTATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
14769 ATGTAT ATGTAT AT
1 ATATAT ATATAT AT
14783 GTCTATGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:14738 original size:14 final size:14
Alignment explanation
Indices: 14721--14782 Score: 88
Period size: 14 Copynumber: 4.4 Consensus size: 14
14711 AGAAGGATGA
14721 ATATATATATATAT
1 ATATATATATATAT
14735 ATATATATATATAT
1 ATATATATATATAT
* *
14749 ATGTATATGTATAT
1 ATATATATATATAT
*
14763 ATATATATGTATAT
1 ATATATATATATAT
*
14777 GTATAT
1 ATATAT
14783 GTCTATGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:14746 original size:20 final size:20
Alignment explanation
Indices: 14721--14782 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
14711 AGAAGGATGA
* *
14721 ATATATATATATATATATAT
1 ATATATATATGTATATGTAT
14741 ATATATATATGTATATGTAT
1 ATATATATATGTATATGTAT
14761 ATATATATATGTATATGTAT
1 ATATATATATGTATATGTAT
14781 AT
1 AT
14783 GTCTATGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (20 bp):
ATATATATATGTATATGTAT
Found at i:14783 original size:6 final size:6
Alignment explanation
Indices: 14722--14789 Score: 64
Period size: 6 Copynumber: 11.0 Consensus size: 6
14712 GAAGGATGAA
* * * * *
14722 TATATA TATATA TATATA TATATA TATATG TATATG TATATATA TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG --TATATG TATATG
*
14772 TATATG TATATG TCTATG
1 TATATG TATATG TATATG
14790 AAATATGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
6 51 0.91
8 5 0.09
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:16119 original size:21 final size:21
Alignment explanation
Indices: 16085--16137 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
16075 GTTACTTAAG
* * *
16085 GGTGTAGGTAGAGGAGGAGGC
1 GGTGGAGGTGGAGGAGGAAGC
* *
16106 GGTGGTGGTGGAGGAGGAAGT
1 GGTGGAGGTGGAGGAGGAAGC
16127 GGTGGAGGTGG
1 GGTGGAGGTGG
16138 TGGGAATGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.02, G:0.62, T:0.17
Consensus pattern (21 bp):
GGTGGAGGTGGAGGAGGAAGC
Found at i:16128 original size:18 final size:18
Alignment explanation
Indices: 16097--16131 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16087 TGTAGGTAGA
**
16097 GGAGGAGGCGGTGGTGGT
1 GGAGGAGGAAGTGGTGGT
16115 GGAGGAGGAAGTGGTGG
1 GGAGGAGGAAGTGGTGG
16132 AGGTGGTGGG
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:0.17, C:0.03, G:0.66, T:0.14
Consensus pattern (18 bp):
GGAGGAGGAAGTGGTGGT
Found at i:16239 original size:12 final size:12
Alignment explanation
Indices: 16219--16269 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
16209 CAGGAGCTTA
*
16219 TGGTAGTGGAGG
1 TGGTGGTGGAGG
*
16231 TGGTGGTGGTGG
1 TGGTGGTGGAGG
* **
16243 TGGCGAAGGAGG
1 TGGTGGTGGAGG
16255 TGGTGGTGGAGG
1 TGGTGGTGGAGG
16267 TGG
1 TGG
16270 CGAAGGATCA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.12, C:0.02, G:0.63, T:0.24
Consensus pattern (12 bp):
TGGTGGTGGAGG
Found at i:16253 original size:24 final size:24
Alignment explanation
Indices: 16226--16276 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
16216 TTATGGTAGT
*
16226 GGAGGTGGTGGTGGTGGTGGCGAA
1 GGAGGTGGTGGTGGAGGTGGCGAA
16250 GGAGGTGGTGGTGGAGGTGGCGAA
1 GGAGGTGGTGGTGGAGGTGGCGAA
16274 GGA
1 GGA
16277 TCAGGCAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.04, G:0.63, T:0.18
Consensus pattern (24 bp):
GGAGGTGGTGGTGGAGGTGGCGAA
Found at i:16306 original size:12 final size:12
Alignment explanation
Indices: 16289--16335 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
16279 AGGCAATGGG
16289 TATGGGTCTGGA
1 TATGGGTCTGGA
16301 TATGGGTCTGGA
1 TATGGGTCTGGA
* *
16313 TACGGGTCAGGGA
1 TATGGGTC-TGGA
16326 -ATGGGTCTGG
1 TATGGGTCTGG
16336 CAGCGGGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 2 0.07
12 25 0.83
13 3 0.10
ACGTcount: A:0.17, C:0.11, G:0.45, T:0.28
Consensus pattern (12 bp):
TATGGGTCTGGA
Found at i:16388 original size:15 final size:15
Alignment explanation
Indices: 16349--16395 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
16339 CGGGATAGGA
* *
16349 GGTGGTGGAGGCGGG
1 GGTGGTGGAGGTGGT
* *
16364 GGTAGAGGAGGTGGT
1 GGTGGTGGAGGTGGT
16379 GGTGGTGGAGGTGGT
1 GGTGGTGGAGGTGGT
16394 GG
1 GG
16396 CAATGGAGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.11, C:0.02, G:0.68, T:0.19
Consensus pattern (15 bp):
GGTGGTGGAGGTGGT
Found at i:16470 original size:126 final size:126
Alignment explanation
Indices: 16316--16563 Score: 388
Period size: 126 Copynumber: 2.0 Consensus size: 126
16306 GTCTGGATAC
*
16316 GGGTCAGGGAATGGGTCTGGCAGCGGGATAGGAGGTGGTGGAGGCGGGGGTAGAGGAGGTGGTGG
1 GGGTCAGGGAATGGGTCTGGCAACGGGATAGGAGGTGGTGGAGGCGGGGGTAGAGGAGGTGGTGG
* * * *
16381 TGGTGGAGGTGGTGGCAATGGAGGCGGACATGGCTCAGGTTATGGATCCGGATACGGGTCG
66 AGGCGGAGGTGGAGGCAATGGAGGCGGACATGGCTCAGGCTATGGATCCGGATACGGGTCG
* * * * *
16442 GGGTCAGGGTATGGGTCTGGCAATGGGATAGGCGGTGGTGGGGGCGGTGGTAGAGGAGGTGGTGG
1 GGGTCAGGGAATGGGTCTGGCAACGGGATAGGAGGTGGTGGAGGCGGGGGTAGAGGAGGTGGTGG
* *
16507 AGGCGGAGGTGGAGGCAATGGAGGTGGACATGGCTCAGGCTATGGATCTGGATACGG
66 AGGCGGAGGTGGAGGCAATGGAGGCGGACATGGCTCAGGCTATGGATCCGGATACGG
16564 TTACGGAAGC
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.18, C:0.11, G:0.53, T:0.19
Consensus pattern (126 bp):
GGGTCAGGGAATGGGTCTGGCAACGGGATAGGAGGTGGTGGAGGCGGGGGTAGAGGAGGTGGTGG
AGGCGGAGGTGGAGGCAATGGAGGCGGACATGGCTCAGGCTATGGATCCGGATACGGGTCG
Found at i:16487 original size:12 final size:12
Alignment explanation
Indices: 16471--16522 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
16461 GCAATGGGAT
16471 AGGCGGTGGTGG
1 AGGCGGTGGTGG
* *
16483 GGGCGGTGGTAG
1 AGGCGGTGGTGG
*
16495 AGGAGGTGGTGG
1 AGGCGGTGGTGG
*
16507 AGGCGGAGGTGG
1 AGGCGGTGGTGG
16519 AGGC
1 AGGC
16523 AATGGAGGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.13, C:0.08, G:0.65, T:0.13
Consensus pattern (12 bp):
AGGCGGTGGTGG
Found at i:16629 original size:12 final size:12
Alignment explanation
Indices: 16589--16629 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
16579 GGGATATGGA
16589 AGTGGTGGTGGT
1 AGTGGTGGTGGT
* *
16601 AGAGGTGGAGGT
1 AGTGGTGGTGGT
16613 AGTGGTGGTGGT
1 AGTGGTGGTGGT
*
16625 GGTGG
1 AGTGG
16630 AGGAGGAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.61, T:0.27
Consensus pattern (12 bp):
AGTGGTGGTGGT
Found at i:24692 original size:13 final size:13
Alignment explanation
Indices: 24674--24699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24664 ACAAAATATA
24674 AGACAAGCTAACT
1 AGACAAGCTAACT
24687 AGACAAGCTAACT
1 AGACAAGCTAACT
24700 GCTGTACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
AGACAAGCTAACT
Found at i:25857 original size:27 final size:27
Alignment explanation
Indices: 25826--25925 Score: 86
Period size: 25 Copynumber: 3.7 Consensus size: 27
25816 TTATAATATA
*
25826 AAAATAATTTTATTATATAAATATTTT
1 AAAATAATTTTATAATATAAATATTTT
* *
25853 AAAAT--TTATATAATATAAAT-TATT
1 AAAATAATTTTATAATATAAATATTTT
25877 AATAA-AATTTATATAAATATAAAATATTTT
1 AA-AATAATTT-TAT-AATAT-AAATATTTT
25907 AAATATAA--TTATAATATAA
1 AAA-ATAATTTTATAATATAA
25926 TAAAAATATA
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
24 5 0.08
25 15 0.25
26 4 0.07
27 13 0.22
28 8 0.14
29 6 0.10
30 6 0.10
31 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATAATTTTATAATATAAATATTTT
Found at i:25871 original size:16 final size:16
Alignment explanation
Indices: 25852--25914 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
25842 ATAAATATTT
25852 TAAAATTTATATAATA
1 TAAAATTTATATAATA
25868 T-AAA-TTAT-T-A-A
1 TAAAATTTATATAATA
25879 TAAAATTTATATAAATA
1 TAAAATTTATAT-AATA
*
25896 TAAAATATTTTA-AATA
1 TAAAAT-TTATATAATA
25912 TAA
1 TAA
25915 TTATAATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
11 2 0.05
12 4 0.10
13 5 0.13
14 5 0.13
15 3 0.08
16 9 0.23
17 7 0.18
18 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAATTTATATAATA
Found at i:26767 original size:21 final size:21
Alignment explanation
Indices: 26720--26767 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
26710 TTTATTTCAT
*
26720 ATTTAAAAAATTTATAATATA
1 ATTTAAAAAATTTAAAATATA
*
26741 A-ATAAAAATATTTAAAAT-TA
1 ATTTAAAAA-ATTTAAAATATA
26761 ATTTAAA
1 ATTTAAA
26768 TCAAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTAAAAAATTTAAAATATA
Found at i:26774 original size:30 final size:30
Alignment explanation
Indices: 26718--26774 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
26708 CATTTATTTC
*
26718 ATATTTAAAAAATTTATAATATAAATAAAA
1 ATATTTAAAAAATTTATAATACAAATAAAA
26748 ATATTTAAAATTAATTTA-AAT-CAAATA
1 ATATTTAAAA--AATTTATAATACAAATA
26775 TATATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.62
31 3 0.12
32 6 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
ATATTTAAAAAATTTATAATACAAATAAAA
Found at i:27192 original size:30 final size:29
Alignment explanation
Indices: 27156--27233 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 29
27146 ACTTGAAACC
27156 ATATTTTGTTATTTAAAATAATATTAAA-AA
1 ATATTTT-TTATTTAAAATAAT-TTAAATAA
*
27186 ATATTTTTTATATTAATATTAATTTAAATAAA
1 ATATTTTTTAT-TTAA-AATAATTTAAAT-AA
*
27218 ATATTTATTATTTAAA
1 ATATTTTTTATTTAAA
27234 TAGTAAGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 4 0.10
30 17 0.40
31 9 0.21
32 12 0.29
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
ATATTTTTTATTTAAAATAATTTAAATAA
Found at i:29660 original size:2 final size:2
Alignment explanation
Indices: 29655--29687 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
29645 TTTTTTCATG
29655 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
29688 GTAGATCATC
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:31662 original size:29 final size:29
Alignment explanation
Indices: 31630--31704 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
31620 TTTACTTTTG
*
31630 ATTTAAAATAATAATTATTATTTTATTAA
1 ATTTAAAATAATAATTATTATTTTAATAA
*
31659 ATTTAAAATAATAATAATTATTTTAATAA
1 ATTTAAAATAATAATTATTATTTTAATAA
*
31688 ATTTAAAATAATTATTA
1 ATTTAAAATAATAATTA
31705 AAATATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTAAAATAATAATTATTATTTTAATAA
Found at i:31845 original size:23 final size:24
Alignment explanation
Indices: 31819--31864 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
31809 TATTTTAAAA
31819 TAAA-ATAAAGAATTA-TTATTAAT
1 TAAATATAAA-AATTATTTATTAAT
*
31842 TAAATATATAAATTATTTATTAA
1 TAAATATAAAAATTATTTATTAA
31865 ATAATACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAATATAAAAATTATTTATTAAT
Found at i:33078 original size:20 final size:20
Alignment explanation
Indices: 33053--33124 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
33043 TACTCAAATG
33053 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
33073 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* * * *
33093 TATCGATATATTCTGCAATT
1 TATCGATACATTTTTCAATA
33113 TATCGATACATT
1 TATCGATACATT
33125 ATGTCTTTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:33094 original size:40 final size:39
Alignment explanation
Indices: 33049--33127 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
33039 TTTTTACTCA
* *
33049 AATGTATCGATACATTTTTCAATATATCGATACATGTATG
1 AATGTATCGATACATTCTGCAATATATCGATACAT-TATG
* *
33089 AATGTATCGATATATTCTGCAATTTATCGATACATTATG
1 AATGTATCGATACATTCTGCAATATATCGATACATTATG
33128 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
AATGTATCGATACATTCTGCAATATATCGATACATTATG
Found at i:37016 original size:18 final size:18
Alignment explanation
Indices: 36975--37025 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
36965 CATTAATCAC
* * *
36975 AAATTTTTTAGAAATCAT
1 AAATTTTCTAGAAATAAA
*
36993 AGATTTTCTAGAAATAAA
1 AAATTTTCTAGAAATAAA
*
37011 AAATTTTCTAAAAAT
1 AAATTTTCTAGAAAT
37026 CATGAATTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
AAATTTTCTAGAAATAAA
Found at i:37033 original size:18 final size:17
Alignment explanation
Indices: 36976--37034 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
36966 ATTAATCACA
*
36976 AATTTTTTAGAAATCAT
1 AATTTTCTAGAAATCAT
* *
36993 AGATTTTCTAGAAATAAAA
1 A-ATTTTCTAGAAAT-CAT
*
37012 AATTTTCTAAAAATCAT
1 AATTTTCTAGAAATCAT
37029 GAATTT
1 -AATTT
37035 GAGTTCTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 2 0.06
18 29 0.88
19 2 0.06
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (17 bp):
AATTTTCTAGAAATCAT
Found at i:38511 original size:17 final size:17
Alignment explanation
Indices: 38489--38524 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38479 ATTAACATCA
*
38489 ATATTTGATATTTAAAT
1 ATATTTCATATTTAAAT
*
38506 ATATTTCATATTTTAAT
1 ATATTTCATATTTAAAT
38523 AT
1 AT
38525 GTACAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
ATATTTCATATTTAAAT
Found at i:43918 original size:58 final size:58
Alignment explanation
Indices: 43850--43959 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
43840 GTTCGTGTCG
*
43850 TATCTCAATTCATGACATATTTTGT-ATAATTTATCATAATAATTTATTTAAAGTATCA
1 TATCTCAATTCATGACAT-TTTTGTCATAATTTATCATAATAATTTAATTAAAGTATCA
* * * * *
43908 TATCTCAATTCATGATATTTTTTTCATAATTTATTATAGTGATTTAATTAAA
1 TATCTCAATTCATGACATTTTTGTCATAATTTATCATAATAATTTAATTAAA
43960 AAAATTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 5 0.11
58 40 0.89
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (58 bp):
TATCTCAATTCATGACATTTTTGTCATAATTTATCATAATAATTTAATTAAAGTATCA
Found at i:44228 original size:9 final size:8
Alignment explanation
Indices: 44200--44236 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
44190 TAGGTGATTA
44200 TATTTT-T
1 TATTTTCT
44207 TATTTTCT
1 TATTTTCT
44215 TATTTTCT
1 TATTTTCT
44223 TGATTTT-T
1 T-ATTTTCT
44231 TATTTT
1 TATTTT
44237 GTAGTAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 11 0.39
8 12 0.43
9 5 0.18
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (8 bp):
TATTTTCT
Found at i:44849 original size:16 final size:13
Alignment explanation
Indices: 44818--44842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44808 GTTTTCATGG
44818 CTTAATAATATGA
1 CTTAATAATATGA
44831 CTTAATAATATG
1 CTTAATAATATG
44843 GACACTTCCA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
CTTAATAATATGA
Found at i:45085 original size:21 final size:21
Alignment explanation
Indices: 45061--45100 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
45051 ATTAAAAAAT
45061 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
45082 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
45101 AATTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:45132 original size:28 final size:28
Alignment explanation
Indices: 45067--45132 Score: 64
Period size: 28 Copynumber: 2.3 Consensus size: 28
45057 AAATTATTTT
*
45067 ATATTAATATTTATATATTTTATAATTAA
1 ATATTAAT-TTAATATATTTTATAATTAA
* *
45096 AT-TTAAATTTAATATTTTTTATTGA-TAA
1 ATATT-AATTTAATATATTTTA-TAATTAA
45124 ATATTAATT
1 ATATTAATT
45133 CAAATCAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
ATATTAATTTAATATATTTTATAATTAA
Found at i:45711 original size:17 final size:17
Alignment explanation
Indices: 45689--45737 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
45679 TAATAAGATT
45689 TAAAA-TAATAATAATAG
1 TAAAATTAATAATAA-AG
*
45706 TAAAATTAATTAA-AAAT
1 TAAAATTAA-TAATAAAG
45723 TAAAATTAATAATAA
1 TAAAATTAATAATAA
45738 GACGTGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.11
17 17 0.61
18 5 0.18
19 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAATTAATAATAAAG
Found at i:46158 original size:3 final size:3
Alignment explanation
Indices: 46150--46180 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
46140 TTTAGATTAA
46150 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
46181 ATAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:46185 original size:3 final size:3
Alignment explanation
Indices: 46179--46205 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46169 CTACTACTAC
46179 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
46206 CAATTCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46882 original size:25 final size:24
Alignment explanation
Indices: 46820--46884 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
46810 TATTATAACA
* *
46820 AATATAA-GAATATATTTATATTT
1 AATATAATAAATATATATATATTT
*
46843 AATGTAATAATATATATATATATTT
1 AATATAATAA-ATATATATATATTT
* *
46868 ATATATTATTAATATAT
1 A-ATATAATAAATATAT
46885 CAAATAATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 6 0.18
24 1 0.03
25 20 0.61
26 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
AATATAATAAATATATATATATTT
Found at i:47618 original size:21 final size:22
Alignment explanation
Indices: 47592--47636 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
47582 AAAATATTTT
47592 TATTTAAAT-TTAATTAAAAAA
1 TATTTAAATATTAATTAAAAAA
*
47613 TATTTAAATATTAATTTAAAAA
1 TATTTAAATATTAATTAAAAAA
47635 TA
1 TA
47637 AATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTTAAATATTAATTAAAAAA
Found at i:47618 original size:25 final size:23
Alignment explanation
Indices: 47568--47618 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
47558 ATTTAAATTA
*
47568 TTATTTAATTAATAAAAATATTT
1 TTATTTAATTAATAAAAATATAT
47591 TTATTTAAATTTAATTAAAAA-ATAT
1 TTATTT-AA-TTAA-TAAAAATATAT
47616 TTA
1 TTA
47619 AATATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 2 0.08
25 10 0.42
26 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATTTAATTAATAAAAATATAT
Found at i:47628 original size:27 final size:27
Alignment explanation
Indices: 47558--47643 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 27
47548 TATCAACTTA
47558 ATTTAAATTATT-ATTTAATTAATAAAAAT
1 ATTTAAA-TATTAATTTAATT-A-AAAAAT
**
47587 ATTTTTAT-TTAAATTTAATTAAAAAAT
1 ATTTAAATATT-AATTTAATTAAAAAAT
47614 ATTTAAATATTAATTTAA--AAATAAAT
1 ATTTAAATATTAATTTAATTAAA-AAAT
47640 ATTT
1 ATTT
47644 TAATTTTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
25 3 0.06
26 8 0.16
27 21 0.43
28 4 0.08
29 13 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTTAAATATTAATTTAATTAAAAAAT
Found at i:47888 original size:2 final size:2
Alignment explanation
Indices: 47875--47914 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
47865 AGTAGTCTTA
*
47875 AT AT AA AT 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 AT AT AT AT
47915 GCTCTACTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:49120 original size:18 final size:19
Alignment explanation
Indices: 49097--49142 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
49087 TATTTCTATT
49097 TTTCTTAAATTTTTTT-TA
1 TTTCTTAAATTTTTTTATA
*
49115 TTTCTTAAATTTTTTTATC
1 TTTCTTAAATTTTTTTATA
49134 TTTCTTAAA
1 TTTCTTAAA
49143 AATTTAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTCTTAAATTTTTTTATA
Found at i:49130 original size:19 final size:18
Alignment explanation
Indices: 49097--49142 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
49087 TATTTCTATT
*
49097 TTTCTTAAATTTTTTTTA
1 TTTCTTAAATTTTTTATA
*
49115 TTTCTTAAATTTTTTTATC
1 TTTCTTAAA-TTTTTTATA
49134 TTTCTTAAA
1 TTTCTTAAA
49143 AATTTAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTAAATTTTTTATA
Found at i:49376 original size:69 final size:69
Alignment explanation
Indices: 49265--49405 Score: 246
Period size: 69 Copynumber: 2.0 Consensus size: 69
49255 AATCAATCAA
* * *
49265 TTTACTTAATTGATAAAACTGATTGAACTAAGGATCGAAGTTATTGTCGATTTGATTTTCTGATT
1 TTTACTTAACTGATAAAACTGATTGAACTAAAGATCGAAGTTATTGTCGATTTGATTTTCTAATT
49330 TAGT
66 TAGT
*
49334 TTTACTTAACTGATAAAACTGATTGAATTAAAGATCGAAGTTATTGTCGATTTGATTTTCTAATT
1 TTTACTTAACTGATAAAACTGATTGAACTAAAGATCGAAGTTATTGTCGATTTGATTTTCTAATT
49399 TAGT
66 TAGT
49403 TTT
1 TTT
49406 TTAAATTATA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.45
Consensus pattern (69 bp):
TTTACTTAACTGATAAAACTGATTGAACTAAAGATCGAAGTTATTGTCGATTTGATTTTCTAATT
TAGT
Found at i:49811 original size:2 final size:2
Alignment explanation
Indices: 49804--49831 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
49794 CTCCCTAGTC
49804 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
49832 GGATTCAATC
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:50211 original size:15 final size:14
Alignment explanation
Indices: 50186--50227 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
50176 ACTTTTAAGT
50186 ATAAAAATAATAAA
1 ATAAAAATAATAAA
50200 ATAAAAATTAATTAAA
1 ATAAAAA-TAA-TAAA
*
50216 ATTAAAATAATA
1 ATAAAAATAATA
50228 TACTTGATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 9 0.36
15 6 0.24
16 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAAATAATAAA
Found at i:52406 original size:27 final size:26
Alignment explanation
Indices: 52369--52437 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
52359 AAATTTTATT
*
52369 TTTTATTTTAAATAATATTAAAAATAA
1 TTTTATATTAAATAATATTAAAAA-AA
*
52396 TTTTATATTAAAT--T-TTAATAAAA
1 TTTTATATTAAATAATATTAAAAAAA
52419 TTTTATTTATTAAATAATA
1 TTTTA--TATTAAATAATA
52438 ATTTAAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
23 7 0.20
24 6 0.17
25 9 0.26
27 13 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTATATTAAATAATATTAAAAAAA
Found at i:52439 original size:25 final size:23
Alignment explanation
Indices: 52394--52439 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
52384 TATTAAAAAT
**
52394 AATTTTATATTAAATTTTAATAA
1 AATTTTATATTAAATAATAATAA
52417 AATTTTATTTATTAAATAATAAT
1 AATTTTA--TATTAAATAATAAT
52440 TTAAATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
25 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTATATTAAATAATAATAA
Found at i:52451 original size:42 final size:41
Alignment explanation
Indices: 52384--52468 Score: 100
Period size: 41 Copynumber: 2.0 Consensus size: 41
52374 TTTTAAATAA
* * *
52384 TATTAAAAATAATTTTATATTAAATTTTAATAAAATTTTATT
1 TATTAAAAATAATTTTAAATCAAA-TTAAATAAAATTTTATT
* *
52426 TATTAAATAATAA-TTTAAATCAAATTAAATTAATTTTTATT
1 TATTAAA-AATAATTTTAAATCAAATTAAATAAAATTTTATT
52467 TA
1 TA
52469 AATTATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
41 16 0.43
42 16 0.43
43 5 0.14
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (41 bp):
TATTAAAAATAATTTTAAATCAAATTAAATAAAATTTTATT
Found at i:52469 original size:16 final size:17
Alignment explanation
Indices: 52450--52493 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
52440 TTAAATCAAA
52450 TTAAATTAATTTTTA-T
1 TTAAATTAATTTTTATT
52466 TTAAATT-A-TTTTATT
1 TTAAATTAATTTTTATT
52481 TTAAATTTAATTT
1 TTAAA-TTAATTT
52494 AATTTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 7 0.29
16 9 0.38
17 1 0.04
18 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAAATTAATTTTTATT
Found at i:52476 original size:15 final size:16
Alignment explanation
Indices: 52450--52501 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 16
52440 TTAAATCAAA
52450 TTAAATTAATTTT-TAT
1 TTAAATTAATTTTAT-T
52466 TTAAATT-ATTTTATT
1 TTAAATTAATTTTATT
*
52481 TTAAATTTAATTTAATT
1 TTAAA-TTAATTTTATT
52498 TTAA
1 TTAA
52502 TCAAATCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 11 0.34
16 10 0.31
17 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAAATTAATTTTATT
Found at i:53168 original size:31 final size:33
Alignment explanation
Indices: 53111--53190 Score: 110
Period size: 31 Copynumber: 2.5 Consensus size: 33
53101 ATTTTTAAAA
53111 TTTTAAATTATTTTAAGATTTGAGTTATTTTAT
1 TTTTAAATTATTTTAAGATTTGAGTTATTTTAT
* *
53144 TTTTAAGTTATTTTAA-A-TTGAGTTATTTTAG
1 TTTTAAATTATTTTAAGATTTGAGTTATTTTAT
* *
53175 ATTTAAATCATTTTAA
1 TTTTAAATTATTTTAA
53191 TTTTAGATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 26 0.62
32 1 0.02
33 15 0.36
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (33 bp):
TTTTAAATTATTTTAAGATTTGAGTTATTTTAT
Found at i:53262 original size:22 final size:21
Alignment explanation
Indices: 53237--53286 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
53227 GATTTAAGTC
53237 ATTTTAGATTTGAA-TTAATTAG
1 ATTTTAGATTT-AAGTTAATT-G
* *
53259 ATTTAATATTTAAGTTAATTG
1 ATTTTAGATTTAAGTTAATTG
53280 ATTTTAG
1 ATTTTAG
53287 GTCTATTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (21 bp):
ATTTTAGATTTAAGTTAATTG
Found at i:55562 original size:16 final size:16
Alignment explanation
Indices: 55554--55628 Score: 52
Period size: 16 Copynumber: 4.6 Consensus size: 16
55544 GGGCAAGGGG
55554 GAGGAGGGGAAGAGGA
1 GAGGAGGGGAAGAGGA
*
55570 GAGGAGAGGGGAG-GGA
1 GAGGAG-GGGAAGAGGA
55586 GAAAGAGAAGGGG-AGAGG-
1 G--AG-G-AGGGGAAGAGGA
55604 GAGGA-GGGAAGAGGA
1 GAGGAGGGGAAGAGGA
55619 -AGAGAGGGGA
1 GAG-GAGGGGA
55629 GAAAGGCGAG
Statistics
Matches: 48, Mismatches: 1, Indels: 20
0.70 0.01 0.29
Matches are distributed among these distances:
13 3 0.06
14 8 0.17
15 3 0.06
16 16 0.33
17 5 0.10
18 5 0.10
19 6 0.12
20 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (16 bp):
GAGGAGGGGAAGAGGA
Found at i:55622 original size:30 final size:26
Alignment explanation
Indices: 55551--55630 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 26
55541 GGGGGGCAAG
* *
55551 GGGGA-GGAGGGGAAGAGGAGAGGAGA
1 GGGGAGGGAGAGGAAGA-GAGGGGAGA
55577 GGGGAGGGAGA--AAGAGAAGGGGAGA
1 GGGGAGGGAGAGGAAGAG-AGGGGAGA
55602 GGGAGGAGGGAAGAGGAAGAGAGGGGAGA
1 -GG-GGAGGG-AGAGGAAGAGAGGGGAGA
55631 AAGGCGAGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.02
25 11 0.24
26 7 0.16
27 10 0.22
28 3 0.07
29 8 0.18
30 5 0.11
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (26 bp):
GGGGAGGGAGAGGAAGAGAGGGGAGA
Found at i:55731 original size:24 final size:25
Alignment explanation
Indices: 55695--55741 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
55685 GGGTGAGGAA
55695 GAAAGGAAGACAGCA-AGAGAGGGGG
1 GAAAGGAAGACAG-AGAGAGAGGGGG
*
55720 GAAAGGGA-ACAGAGAGAGAGGG
1 GAAAGGAAGACAGAGAGAGAGGG
55742 CACGAGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 12 0.60
25 7 0.35
ACGTcount: A:0.45, C:0.06, G:0.49, T:0.00
Consensus pattern (25 bp):
GAAAGGAAGACAGAGAGAGAGGGGG
Found at i:59474 original size:2 final size:2
Alignment explanation
Indices: 59467--59509 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
59457 GATTCGCAGA
59467 AT AT AT AT AT 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 AT AT AT AT AT
59509 A
1 A
59510 AAGCTTTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60182 original size:11 final size:11
Alignment explanation
Indices: 60166--60310 Score: 64
Period size: 11 Copynumber: 14.1 Consensus size: 11
60156 TTGCATAGTA
60166 TTTATATTATT
1 TTTATATTATT
*
60177 TTTATATTATA
1 TTTATATTATT
60188 TTTATATTA--
1 TTTATATTATT
***
60197 AAAATATTATAT
1 TTTATATTAT-T
* * *
60209 ATTATATAAAT
1 TTTATATTATT
60220 TTTA-ATTCA--
1 TTTATATT-ATT
60229 TTTATA-TATT
1 TTTATATTATT
* **
60239 TATATCGTA-T
1 TTTATATTATT
60249 -TTATATTATT
1 TTTATATTATT
60259 TTTATATTA-T
1 TTTATATTATT
*
60269 ATTATA-T-TT
1 TTTATATTATT
*
60278 TTTATTTTA-T
1 TTTATATTATT
60288 TTTA-ATTAATT
1 TTTATATT-ATT
60299 TTTATATTATT
1 TTTATATTATT
60310 T
1 T
60311 AAACACGTTG
Statistics
Matches: 99, Mismatches: 19, Indels: 32
0.66 0.13 0.21
Matches are distributed among these distances:
8 1 0.01
9 24 0.24
10 22 0.22
11 43 0.43
12 9 0.09
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (11 bp):
TTTATATTATT
Found at i:60189 original size:22 final size:22
Alignment explanation
Indices: 60164--60308 Score: 107
Period size: 21 Copynumber: 7.0 Consensus size: 22
60154 TATTGCATAG
60164 TATTTATATTATTTTTATATTA
1 TATTTATATTATTTTTATATTA
***
60186 TATTTATATTA--AAAATATTA
1 TATTTATATTATTTTTATATTA
* *
60206 TATATTATATAAATTTTA-ATT-
1 TAT-TTATATTATTTTTATATTA
* **
60227 CATTTATA-TA--TTTATATCG
1 TATTTATATTATTTTTATATTA
60246 TATTTATATTATTTTTATATTA
1 TATTTATATTATTTTTATATTA
*
60268 TA-TTATA-T-TTTTTATTTTA
1 TATTTATATTATTTTTATATTA
60287 T-TTTA-ATTAATTTTTATATTA
1 TATTTATATT-ATTTTTATATTA
60308 T
1 T
60309 TTAAACACGT
Statistics
Matches: 96, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
17 4 0.04
18 3 0.03
19 23 0.24
20 17 0.18
21 25 0.26
22 23 0.24
23 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (22 bp):
TATTTATATTATTTTTATATTA
Found at i:61106 original size:19 final size:21
Alignment explanation
Indices: 61075--61113 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
61065 AATTTAATTT
61075 AAATAATTATTTA-TAAAATA
1 AAATAATTATTTATTAAAATA
61095 AAATAATT-TTTATTAAAAT
1 AAATAATTATTTATTAAAAT
61114 TTAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATTATTTATTAAAATA
Found at i:61836 original size:30 final size:30
Alignment explanation
Indices: 61795--61853 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
61785 AATTAGTATA
* *
61795 AATGATTTAATTTATTAATAA-TAAAAATTC
1 AATGATATAATTTAATAA-AATTAAAAATTC
61825 AATGATATAATTTAATAAAATTAAAAATT
1 AATGATATAATTTAATAAAATTAAAAATT
61854 TATAACTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (30 bp):
AATGATATAATTTAATAAAATTAAAAATTC
Found at i:63689 original size:13 final size:13
Alignment explanation
Indices: 63671--63695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63661 AAATAATTTT
63671 TATTTTATTTATC
1 TATTTTATTTATC
63684 TATTTTATTTAT
1 TATTTTATTTAT
63696 TATAATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTATTTATC
Found at i:63715 original size:22 final size:22
Alignment explanation
Indices: 63690--63746 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
63680 TATCTATTTT
*
63690 ATTTATTATAATTATATTTAAA
1 ATTTATTATAATTATATATAAA
63712 ATTTATTATATATT-TATATAAA
1 ATTTATTATA-ATTATATATAAA
* *
63734 TTTTAATA-AATTA
1 ATTTATTATAATTA
63747 ATAATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 1 0.03
22 23 0.77
23 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTATTATAATTATATATAAA
Found at i:63818 original size:25 final size:26
Alignment explanation
Indices: 63783--63889 Score: 76
Period size: 25 Copynumber: 3.9 Consensus size: 26
63773 TGCATTCATA
* * *
63783 TAATTTTATATTT-TAATTATTTTATT
1 TAATATTATATTTAT-ATAATTATATT
63809 T-ATATTATATTTATATAATTATATT
1 TAATATTATATTTATATAATTATATT
* *
63834 TAATATTATTAAATTTATTTTATTATAAATT
1 TAATATTA-T--ATTTATATAATTAT--ATT
63865 T-ATATATATATTTATTATAATTATA
1 TAATAT-TATATTTA-TATAATTATA
63890 AAAAATTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
25 20 0.31
26 8 0.12
27 2 0.03
28 5 0.08
29 19 0.29
30 5 0.08
31 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TAATATTATATTTATATAATTATATT
Found at i:63843 original size:10 final size:9
Alignment explanation
Indices: 63794--63853 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
63784 AATTTTATAT
63794 TTTAA-TTA
1 TTTAATTTA
*
63802 TTTTATTTA
1 TTTAATTTA
63811 TATTATATTTA
1 T-TTA-ATTTA
*
63822 TATAATTATA
1 TTTAATT-TA
63832 TTTAATATTA
1 TTTAAT-TTA
*
63842 TTAAATTTA
1 TTTAATTTA
63851 TTT
1 TTT
63854 TATTATAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 4 0.10
9 12 0.29
10 18 0.44
11 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTAATTTA
Found at i:63843 original size:29 final size:27
Alignment explanation
Indices: 63796--63889 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 27
63786 TTTTATATTT
63796 TAATTAT-TTTATTTATATTATATTTATA
1 TAATTATATTTA--TATATTATATTTATA
* *
63824 TAATTATATTTAATATTATTAAATTTATT
1 TAATTATATTT-ATA-TATTATATTTATA
*
63853 TTATTATAAATTTATATA-TATATTTATTA
1 TAATTAT--ATTTATATATTATATTTA-TA
63882 TAATTATA
1 TAATTATA
63890 AAAAATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
27 1 0.02
28 16 0.30
29 29 0.54
30 4 0.07
31 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TAATTATATTTATATATTATATTTATA
Found at i:63875 original size:43 final size:44
Alignment explanation
Indices: 63803--63887 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
63793 TTTTAATTAT
*
63803 TTTATTTATATTATATTTATATAATTATATTTAATATTATTAAA
1 TTTATTTATATTATATTTATATAATTATATTTAATATAATTAAA
*
63847 TTTATTT-TATTATAAATTTATAT-A-TATATTTATTATAATTA
1 TTTATTTATATTAT--ATTTATATAATTATATTTAATATAATTA
63888 TAAAAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
43 21 0.57
44 8 0.22
45 8 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (44 bp):
TTTATTTATATTATATTTATATAATTATATTTAATATAATTAAA
Found at i:64028 original size:27 final size:27
Alignment explanation
Indices: 63986--64055 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
63976 AAATTTTCAT
63986 AAAT-AAAAATTTATTTAAATAATAA-A
1 AAATAAAAAATTTATTTAAAT-ATAATA
**
64012 AAATAAAAAATTTATTTATGTATAATA
1 AAATAAAAAATTTATTTAAATATAATA
*
64039 AATTATAAAAATTTATT
1 AAATA-AAAAATTTATT
64056 CAAAATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 8 0.21
27 19 0.50
28 11 0.29
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (27 bp):
AAATAAAAAATTTATTTAAATATAATA
Found at i:64194 original size:6 final size:6
Alignment explanation
Indices: 64183--64209 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64173 TTGAAAAAAT
64183 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
64210 ATATTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:68106 original size:24 final size:24
Alignment explanation
Indices: 68079--68132 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
68069 GCCTTTTTTT
68079 TATATACATATATACATGTACATG
1 TATATACATATATACATGTACATG
*
68103 TATATACGTATATACATGTACATG
1 TATATACATATATACATGTACATG
68127 TATATA
1 TATATA
68133 TATACATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (24 bp):
TATATACATATATACATGTACATG
Found at i:68145 original size:14 final size:14
Alignment explanation
Indices: 68086--68164 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 14
68076 TTTTATATAC
68086 ATATATACATGTACAT
1 ATATATACATGT--AT
* * *
68102 GTATATACGTATAT
1 ATATATACATGTAT
* *
68116 ACATGTACATGTAT
1 ATATATACATGTAT
68130 ATATATACATGTAT
1 ATATATACATGTAT
* * * *
68144 ATTTGTATATATAT
1 ATATATACATGTAT
68158 ATATATA
1 ATATATA
68165 TAAATAAATA
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
14 38 0.81
16 9 0.19
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (14 bp):
ATATATACATGTAT
Found at i:68154 original size:24 final size:22
Alignment explanation
Indices: 68081--68160 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 22
68071 CTTTTTTTTA
*
68081 TATACATATATACATGTACATG
1 TATATATATATACATGTACATG
68103 TATATACGTATATACATGTACATG
1 TATATA--TATATACATGTACATG
*
68127 --TATATATATACATGTATATTTG
1 TATATATATATACATGTACA--TG
68149 TATATATATATA
1 TATATATATATA
68161 TATATAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
20 13 0.26
22 11 0.22
24 26 0.52
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (22 bp):
TATATATATATACATGTACATG
Found at i:72288 original size:19 final size:19
Alignment explanation
Indices: 72264--72323 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
72254 AATTTATAAT
72264 ATTAATTATTATGTCTTTG
1 ATTAATTATTATGTCTTTG
* * **
72283 ATTAATAATT-TAT-AAT-
1 ATTAATTATTATGTCTTTG
72299 ATTAATTATTATGTCTTTG
1 ATTAATTATTATGTCTTTG
72318 ATTAAT
1 ATTAAT
72324 AATTTATAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 9 0.30
17 3 0.10
18 3 0.10
19 15 0.50
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTATTATGTCTTTG
Found at i:72291 original size:35 final size:35
Alignment explanation
Indices: 72252--72334 Score: 166
Period size: 35 Copynumber: 2.4 Consensus size: 35
72242 TCATACGTGG
72252 ATAATTTATAATATTAATTATTATGTCTTTGATTA
1 ATAATTTATAATATTAATTATTATGTCTTTGATTA
72287 ATAATTTATAATATTAATTATTATGTCTTTGATTA
1 ATAATTTATAATATTAATTATTATGTCTTTGATTA
72322 ATAATTTATAATA
1 ATAATTTATAATA
72335 GTGAATGACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (35 bp):
ATAATTTATAATATTAATTATTATGTCTTTGATTA
Found at i:72747 original size:20 final size:20
Alignment explanation
Indices: 72704--72743 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
72694 GATATGAAAA
72704 TATTAGTTGAAATAAATTTT
1 TATTAGTTGAAATAAATTTT
*
72724 TATTAGTT-CAATAAATTTT
1 TATTAGTTGAAATAAATTTT
72743 T
1 T
72744 TATTCTATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (20 bp):
TATTAGTTGAAATAAATTTT
Found at i:75046 original size:26 final size:24
Alignment explanation
Indices: 74987--75078 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
74977 AAATATTTAT
* *
74987 TTAAAT-T-TAAATTAATTAAATAT
1 TTAAATATATAAATTAA-TAAAAAA
* *
75010 TTAAATTTATAAATTATTTTTAAAAAA
1 TTAAATATATAAATTA---ATAAAAAA
75037 -TAAATATATAAATTAATAAAAAA
1 TTAAATATATAAATTAATAAAAAA
*
75060 TTAAATATATAAATAAATA
1 TTAAATATATAAATTAATA
75079 TCAGATTCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
23 13 0.23
24 18 0.32
25 7 0.12
26 14 0.25
27 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TTAAATATATAAATTAATAAAAAA
Found at i:75415 original size:2 final size:2
Alignment explanation
Indices: 75408--75514 Score: 93
Period size: 2 Copynumber: 56.5 Consensus size: 2
75398 GATGATGGAG
* *
75408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT -T AT TT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
75447 AT -T GA- AT AT -T TT CT TT AA AT TT A- AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75486 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 A
75515 AACATGTTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
1 7 0.08
2 81 0.92
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (2 bp):
AT
Found at i:76745 original size:20 final size:20
Alignment explanation
Indices: 76712--76751 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
76702 AATTATTATT
76712 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
76732 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
76752 ACTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:77742 original size:78 final size:78
Alignment explanation
Indices: 77613--77839 Score: 373
Period size: 78 Copynumber: 2.9 Consensus size: 78
77603 TTTTATGATT
* * *
77613 TTAAGAAGATTTGTTGAAGATTCTGAAGATATGATCTACACGCTTACATATACATACATACATAT
1 TTAAGAAGATTTGTTGAAGATTGTGAAGATATGATCTACATGCTTACATATACATACATAAATAT
77678 ATATATATATATA
66 ATATATATATATA
* * *
77691 TTAAGAAGATTTGTTGAAGATTGTGAAGATATGATCTACATGCCTGCATATACATACATAAATAG
1 TTAAGAAGATTTGTTGAAGATTGTGAAGATATGATCTACATGCTTACATATACATACATAAATAT
*
77756 ATATATATATATT
66 ATATATATATATA
**
77769 TTAAGAAGATTTGTTGAAGATTGTGAAGATATGATCTACATGCTTACATATACATACATGTATAT
1 TTAAGAAGATTTGTTGAAGATTGTGAAGATATGATCTACATGCTTACATATACATACATAAATAT
77834 ATATAT
66 ATATAT
77840 GGGGATGGAT
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 137 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (78 bp):
TTAAGAAGATTTGTTGAAGATTGTGAAGATATGATCTACATGCTTACATATACATACATAAATAT
ATATATATATATA
Found at i:78710 original size:3 final size:3
Alignment explanation
Indices: 78704--78750 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
78694 TTTTTTTTCA
*
78704 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
78751 GATGATGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:80900 original size:21 final size:21
Alignment explanation
Indices: 80859--80901 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
80849 ATAATTTTTA
* *
80859 CTTTAATTAATCCAATATATG
1 CTTTAATTAATACAAGATATG
80880 CTTTAATTAA-ACAAGAGTATG
1 CTTTAATTAATACAAGA-TATG
80901 C
1 C
80902 AAGTTCAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (21 bp):
CTTTAATTAATACAAGATATG
Found at i:81049 original size:17 final size:16
Alignment explanation
Indices: 80996--81051 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 16
80986 GATATTTTAA
80996 AATTATAATAATAAATATT
1 AATTATAAT-A-AAATA-T
*
81015 AATTAAAATAAAATAT
1 AATTATAATAAAATAT
81031 AATTATAATAAAATGAT
1 AATTATAATAAAAT-AT
81048 AATT
1 AATT
81052 TTTAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 14 0.41
17 11 0.32
18 1 0.03
19 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AATTATAATAAAATAT
Found at i:81260 original size:10 final size:10
Alignment explanation
Indices: 81216--81260 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
81206 TTGGACCAAG
81216 CTCTCACTTT
1 CTCTCACTTT
*
81226 CTTTCACTTT
1 CTCTCACTTT
*
81236 CTCTTCCATTTT
1 CTC-T-CACTTT
81248 CTCTCACTTT
1 CTCTCACTTT
81258 CTC
1 CTC
81261 GCAGAAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.09, C:0.38, G:0.00, T:0.53
Consensus pattern (10 bp):
CTCTCACTTT
Found at i:82595 original size:2 final size:2
Alignment explanation
Indices: 82588--82613 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
82578 ATACTAAGTT
82588 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
82614 AAGTTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:84087 original size:18 final size:17
Alignment explanation
Indices: 84064--84098 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
84054 TTATTTAACT
*
84064 AATTTTAATTTTAAAATA
1 AATTTTAA-ATTAAAATA
84082 AATTTTAAATTAAAATA
1 AATTTTAAATTAAAATA
84099 TTAATCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTAAATTAAAATA
Found at i:84465 original size:14 final size:15
Alignment explanation
Indices: 84434--84498 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 15
84424 TATTAAAAAA
**
84434 ATATTAATAAATAAAT
1 ATATT-ATAAATTTAT
84450 AT-TTATAAATTTAT
1 ATATTATAAATTTAT
*
84464 ATAATATAAATTATTAAT
1 ATATTATAAA-T-TT-AT
84482 ATATTA-AAATTTAT
1 ATATTATAAATTTAT
84496 ATA
1 ATA
84499 AATATAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 15 0.37
15 10 0.24
16 4 0.10
17 5 0.12
18 7 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATTATAAATTTAT
Found at i:84483 original size:13 final size:15
Alignment explanation
Indices: 84453--84506 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
84443 AATAAATATT
84453 TATAAATTTATATAA
1 TATAAATTTATATAA
*
84468 TATAAATTATTAATATAT
1 TATAAA-T-TT-ATATAA
84486 TA-AAATTTATATAAA
1 TATAAATTTATAT-AA
84501 TATAAA
1 TATAAA
84507 ATATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.12
15 11 0.34
16 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAAATTTATATAA
Found at i:84492 original size:32 final size:33
Alignment explanation
Indices: 84447--84511 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
84437 TTAATAAATA
*
84447 AATATTTATAAATTTATAT-AATATAAATTATT
1 AATATTTATAAATTTATATAAATATAAAATATT
84479 AATATATTA-AAATTTATATAAATATAAAATATT
1 AATAT-TTATAAATTTATATAAATATAAAATATT
84512 TTAAATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
AATATTTATAAATTTATATAAATATAAAATATT
Found at i:84495 original size:18 final size:17
Alignment explanation
Indices: 84456--84521 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 17
84446 AAATATTTAT
84456 AAATTTATAT-AATAT-
1 AAATTTATATAAATATA
84471 AAA-TTAT-TAATATATTA
1 AAATTTATATAA-ATA-TA
84488 AAATTTATATAAATATA
1 AAATTTATATAAATATA
84505 AAATATT-T-TAAATATA
1 AAAT-TTATATAAATATA
84521 A
1 A
84522 TTATAATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.02
14 5 0.11
15 6 0.14
16 10 0.23
17 10 0.23
18 9 0.20
19 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTATATAAATATA
Found at i:84510 original size:40 final size:40
Alignment explanation
Indices: 84435--84510 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
84425 ATTAAAAAAA
* *
84435 TATTAATAAATAAATATTTATAAATTTATATAATATAAAT
1 TATTAATAAATAAATATTTATAAATATATAAAATATAAAT
*
84475 TATTAATATATTAAA-ATTTATATAA-ATATAAAATAT
1 TATTAATA-AATAAATATTTATA-AATATATAAAATAT
84511 TTTAAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
40 24 0.77
41 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (40 bp):
TATTAATAAATAAATATTTATAAATATATAAAATATAAAT
Found at i:86734 original size:2 final size:2
Alignment explanation
Indices: 86727--86751 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
86717 TTGCAAGTTA
86727 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 A
86752 AATACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88210 original size:17 final size:17
Alignment explanation
Indices: 88158--88212 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
88148 ATATTTATTT
*
88158 TAAAACTTATAT-AATA
1 TAAAATTTATATAAATA
88174 T-AAA-TTAT-TAACATA
1 TAAAATTTATATAA-ATA
88189 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
88207 TAAAAT
1 TAAAAT
88213 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 6 0.18
16 2 0.06
17 9 0.27
18 7 0.21
19 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:88226 original size:27 final size:28
Alignment explanation
Indices: 88166--88226 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 28
88156 TTTAAAACTT
* *
88166 ATATAATATAAATTATTAACATATTAAA
1 ATATTATATAAATTATTAAAATATTAAA
*
88194 AT-TTATATAAA-TA-TAAAATATTTTAA
1 ATATTATATAAATTATTAAAATA-TTAAA
88220 ATATTAT
1 ATATTAT
88227 TATGATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 6 0.21
26 8 0.29
27 12 0.43
28 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATTATATAAATTATTAAAATATTAAA
Found at i:88885 original size:20 final size:21
Alignment explanation
Indices: 88848--88886 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88838 AGGGAAAATG
88848 GAAGGAAAAAGAGAAGAAAGA
1 GAAGGAAAAAGAGAAGAAAGA
*
88869 GAAGGAAAAGGAG-AGAAA
1 GAAGGAAAAAGAGAAGAAA
88887 AAGGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (21 bp):
GAAGGAAAAAGAGAAGAAAGA
Found at i:89629 original size:17 final size:17
Alignment explanation
Indices: 89594--89643 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
89584 AGTTGGTTAG
* **
89594 TTAATTTTTTTTAAAAA
1 TTAATTTATTTTATTAA
89611 TTAATTTATTTTATTAA
1 TTAATTTATTTTATTAA
*
89628 TTATTTTTATTTTATT
1 TTA-ATTTATTTTATT
89644 CTTAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTAATTTATTTTATTAA
Found at i:90221 original size:32 final size:32
Alignment explanation
Indices: 90162--90245 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 32
90152 TAAGATGATT
* *
90162 ATTTAATAGCATTCA-AGACAAATGTCATCTT-A
1 ATTTAATAGTATT-AGAGACAAAAGTCAT-TTAA
*
90194 ATTTAATAGTATTAGAGATAAAAGTCATTTCAA
1 ATTTAATAGTATTAGAGACAAAAGTCATTT-AA
* *
90227 ATTTAATAATATTGGAGAC
1 ATTTAATAGTATTAGAGAC
90246 GAATATCGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 3 0.07
32 23 0.53
33 17 0.40
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (32 bp):
ATTTAATAGTATTAGAGACAAAAGTCATTTAA
Found at i:91433 original size:10 final size:10
Alignment explanation
Indices: 91413--91446 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
91403 TAATATTTAT
91413 AATATTATTA
1 AATATTATTA
*
91423 AATATTTTTAA
1 AATATTATT-A
91434 AATATTATTA
1 AATATTATTA
91444 AAT
1 AAT
91447 TTACATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATATTATTA
Found at i:91438 original size:11 final size:11
Alignment explanation
Indices: 91413--91445 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
91403 TAATATTTAT
91413 AATATTATT-A
1 AATATTATTAA
*
91423 AATATTTTTAA
1 AATATTATTAA
91434 AATATTATTAA
1 AATATTATTAA
91445 A
1 A
91446 TTTACATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATATTATTAA
Found at i:91912 original size:19 final size:20
Alignment explanation
Indices: 91887--91960 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 20
91877 GAAAAAATAT
*
91887 TAATTTTATTTATA-ATTTTA
1 TAATTTT-TTTAAATATTTTA
91907 -AATTTTTTTAAATATTTTA
1 TAATTTTTTTAAATATTTTA
91926 TAATTAATTAAATTTAAATA-TTT-
1 TAATT--TT---TTTAAATATTTTA
91949 TAATTTTTTTAA
1 TAATTTTTTTAA
91961 TTTTATATTA
Statistics
Matches: 46, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
18 10 0.22
19 12 0.26
20 4 0.09
21 2 0.04
22 2 0.04
23 5 0.11
24 3 0.07
25 8 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATTTTTTTAAATATTTTA
Found at i:92206 original size:24 final size:23
Alignment explanation
Indices: 92167--92280 Score: 70
Period size: 24 Copynumber: 4.7 Consensus size: 23
92157 CCTGTCAATC
*
92167 TAATATATATATATATAATATAAT
1 TAATA-ATATAAATATAATATAAT
* *
92191 TACATAATATAAATATGATATTAT
1 TA-ATAATATAAATATAATATAAT
*
92215 TAATAAGTA-AAATATCATATAAAT
1 TAATAA-TATAAATATAATAT-AAT
* * *
92239 AAAATACGATATAAAAAATAATATAAA
1 -TAATA--ATAT-AAATATAATATAAT
*
92266 T-ATAATATTAATATA
1 TAATAATATAAATATA
92281 TAAATATTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
22 5 0.07
23 18 0.26
24 23 0.33
25 10 0.14
26 2 0.03
27 3 0.04
28 9 0.13
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (23 bp):
TAATAATATAAATATAATATAAT
Found at i:92241 original size:16 final size:15
Alignment explanation
Indices: 92217--92272 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
92207 GATATTATTA
*
92217 ATAAGTAAAATATCAT
1 ATAAATAAAATA-CAT
92233 ATAAATAAAATACGAT
1 ATAAATAAAATAC-AT
92249 AT-AA-AAAATA-AT
1 ATAAATAAAATACAT
*
92261 ATAAATATAATA
1 ATAAATAAAATA
92273 TTAATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 4 0.11
13 2 0.06
14 11 0.31
15 3 0.09
16 15 0.43
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (15 bp):
ATAAATAAAATACAT
Found at i:92286 original size:28 final size:29
Alignment explanation
Indices: 92167--92280 Score: 79
Period size: 28 Copynumber: 3.8 Consensus size: 29
92157 CCTGTCAATC
* * *
92167 TAATATATATAT-ATATAATATAATTACA
1 TAATATAAATATAATATAATATAAGTAAA
* *
92195 TAATATAAATATGATATTATTAATAAGTAAAA
1 TAATATAAATATAATA-TAAT-ATAAGT-AAA
* ** *
92227 TATCATATAAATAAAATACGATATAA-AAAA
1 TA--ATATAAATATAATATAATATAAGTAAA
92257 TAATATAAATATAATATTAATATA
1 TAATATAAATATAATA-TAATATA
92281 TAAATATTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
28 24 0.36
29 8 0.12
30 8 0.12
31 5 0.08
32 8 0.12
33 1 0.02
34 12 0.18
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (29 bp):
TAATATAAATATAATATAATATAAGTAAA
Found at i:92303 original size:34 final size:32
Alignment explanation
Indices: 92265--92336 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
92255 AATAATATAA
* *
92265 ATATAATATTAATATATAAATATTTTAAAAATTT
1 ATATAATATAAAT-TATAAATATATT-AAAATTT
* *
92299 ATATAATATAAATTTTTAATATATTAAAATTT
1 ATATAATATAAATTATAAATATATTAAAATTT
92331 ATATAA
1 ATATAA
92337 AAATAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 13 0.38
33 9 0.26
34 12 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
ATATAATATAAATTATAAATATATTAAAATTT
Found at i:92311 original size:15 final size:17
Alignment explanation
Indices: 92265--92336 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
92255 AATAATATAA
* *
92265 ATATAATATTAATATAT
1 ATATAATATTAAAATTT
* *
92282 AAAT-ATTTTAAAAATTT
1 ATATAATATT-AAAATTT
92299 ATATAATA-T-AAATTT
1 ATATAATATTAAAATTT
*
92314 TTA-ATATATTAAAATTT
1 ATATA-ATATTAAAATTT
92331 ATATAA
1 ATATAA
92337 AAATAAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
14 1 0.02
15 11 0.27
16 5 0.12
17 21 0.51
18 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATATTAAAATTT
Found at i:96432 original size:16 final size:16
Alignment explanation
Indices: 96390--96441 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
96380 TTTTATATGT
*
96390 TATAAT-TATATTTAA
1 TATAATATATATTTTA
* * *
96405 AATATTACATATTTTA
1 TATAATATATATTTTA
*
96421 TATAATATATATTATA
1 TATAATATATATTTTA
96437 TATAA
1 TATAA
96442 CAACAAAACT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TATAATATATATTTTA
Found at i:99113 original size:17 final size:16
Alignment explanation
Indices: 99076--99116 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
99066 AATTTTTTTT
99076 AAAAAAAAAGAAAGAGG
1 AAAAAAAAAGAAAGA-G
*
99093 AAAAGAAAAGAAA-AG
1 AAAAAAAAAGAAAGAG
99108 AAAAAAAAA
1 AAAAAAAAA
99117 ATTTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 1 0.05
17 12 0.55
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAGAG
Found at i:100398 original size:25 final size:24
Alignment explanation
Indices: 100361--100428 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
100351 TTGTTATCAG
*
100361 AATACATTTATATATTTAATTTTT
1 AATAAATTTATATATTTAATTTTT
* * *
100385 ATTTAATATTATAT-TTTTATTTTT
1 AATAAAT-TTATATATTTAATTTTT
*
100409 AATAAATTTAAATATTTAAT
1 AATAAATTTATATATTTAAT
100429 AAATTTAGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 5 0.15
24 23 0.68
25 6 0.18
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (24 bp):
AATAAATTTATATATTTAATTTTT
Found at i:100400 original size:18 final size:19
Alignment explanation
Indices: 100366--100406 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
100356 ATCAGAATAC
100366 ATTTATATATTTAATTTTT
1 ATTTATATATTTAATTTTT
100385 ATTTA-ATA-TTATATTTTT
1 ATTTATATATTTA-ATTTTT
100403 ATTT
1 ATTT
100407 TTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 13 0.62
19 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATATATTTAATTTTT
Found at i:100417 original size:17 final size:17
Alignment explanation
Indices: 100378--100434 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
100368 TTATATATTT
* *
100378 AATTTTTATTTAATATTA
1 AATTTTTATTT-TTAATA
*
100396 TATTTTTATTTTTAATA
1 AATTTTTATTTTTAATA
** *
100413 AATTTAAATATTTAATA
1 AATTTTTATTTTTAATA
100430 AATTT
1 AATTT
100435 AGATATTCGA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 22 0.69
18 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTTTATTTTTAATA
Found at i:100435 original size:17 final size:17
Alignment explanation
Indices: 100406--100441 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
100396 TATTTTTATT
100406 TTTAATAAATTTAAATA
1 TTTAATAAATTTAAATA
*
100423 TTTAATAAATTTAGATA
1 TTTAATAAATTTAAATA
100440 TT
1 TT
100442 CGACAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAATAAATTTAAATA
Found at i:102839 original size:30 final size:30
Alignment explanation
Indices: 102795--102860 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
102785 GTACTACTGC
* * *
102795 CAAATATACTTTTGTTAAAGAGTGTTGTTGT
1 CAAATATACCTTTGTCAAAAAGTGTTG-TGT
102826 CAAA-ATACCTTTGTCAAAAAGTGTTGTGT
1 CAAATATACCTTTGTCAAAAAGTGTTGTGT
102855 CAAATA
1 CAAATA
102861 ACATTACTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 20 0.65
31 4 0.13
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (30 bp):
CAAATATACCTTTGTCAAAAAGTGTTGTGT
Found at i:104139 original size:38 final size:38
Alignment explanation
Indices: 104088--104165 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
104078 TCCATTGTCG
*
104088 AAGAACATTATGGTTCGGCCATTAGGCCCTAATAGAAT
1 AAGAACATTATGGTTCAGCCATTAGGCCCTAATAGAAT
*
104126 AAGAACATTATGGTTCAGCCATTAGGCCGTAATAGAAT
1 AAGAACATTATGGTTCAGCCATTAGGCCCTAATAGAAT
104164 AA
1 AA
104166 ATCTTGCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (38 bp):
AAGAACATTATGGTTCAGCCATTAGGCCCTAATAGAAT
Done.