Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 95 of 127
Found at i:17856501 original size:14 final size:14
Alignment explanation
Indices: 17856484--17856537 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
17856474 CATTTTTTGG
* *
17856484 TAATTTTTTTTATT
1 TAATTTATTTAATT
17856498 TAATTTATTTAATT
1 TAATTTATTTAATT
*
17856512 TAAAATTTATTTATTT
1 T--AATTTATTTAATT
*
17856528 TAATTGATTT
1 TAATTTATTT
17856538 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 21 0.62
16 13 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TAATTTATTTAATT
Found at i:17856520 original size:16 final size:16
Alignment explanation
Indices: 17856499--17856530 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17856489 TTTTTTATTT
17856499 AATTTATTTAATTTAA
1 AATTTATTTAATTTAA
*
17856515 AATTTATTTATTTTAA
1 AATTTATTTAATTTAA
17856531 TTGATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTATTTAATTTAA
Found at i:17858751 original size:15 final size:14
Alignment explanation
Indices: 17858733--17858794 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
17858723 ATGTAATATA
17858733 AAAATATAATAAAAT
1 AAAATATAA-AAAAT
* *
17858748 AAAATGTTTTAAAAAT
1 AAAA--TATAAAAAAT
17858764 AATAA-ATAAATAAAT
1 AA-AATATAAA-AAAT
17858779 AAAATATAAAAAAT
1 AAAATATAAAAAAT
17858793 AA
1 AA
17858795 CAACTTTCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
14 11 0.29
15 15 0.39
16 7 0.18
17 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAATATAAAAAAT
Found at i:17858771 original size:48 final size:46
Alignment explanation
Indices: 17858702--17858794 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 46
17858692 AATAAGTAAT
* **
17858702 ATGTCTTTCAAAATATAAAATATGTAATATAAAAATATAATAAAATAAA
1 ATGTCTTTAAAAATATAAAATAAATAA-AT-AAAATATAA-AAAATAAA
17858751 ATGT-TTTAAAAATA-ATAAATAAATAAATAAAATATAAAAAATAA
1 ATGTCTTTAAAAATATA-AAATAAATAAATAAAATATAAAAAATAA
17858795 CAACTTTCGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 7 0.17
46 9 0.22
47 3 0.08
48 17 0.43
49 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (46 bp):
ATGTCTTTAAAAATATAAAATAAATAAATAAAATATAAAAAATAAA
Found at i:17861045 original size:35 final size:35
Alignment explanation
Indices: 17860997--17861066 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
17860987 AAAAGGAAAG
* * *
17860997 AAAAGAAAGAAAGAGAGAAAAGAG-AAAAGCAAAAA
1 AAAAAAAAAAAAGAGA-AAAAAAGTAAAAGCAAAAA
*
17861032 AAAAAAAAAAAAGAGAAAAAAAGTAAAAGTAAAAA
1 AAAAAAAAAAAAGAGAAAAAAAGTAAAAGCAAAAA
17861067 GTAAAAGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 6 0.20
35 24 0.80
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (35 bp):
AAAAAAAAAAAAGAGAAAAAAAGTAAAAGCAAAAA
Found at i:17861049 original size:33 final size:34
Alignment explanation
Indices: 17860987--17861050 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
17860977 AGTGTTCAAA
* * * *
17860987 AAAAGGAAAGAAAAGAAAGAAAGAGAGAAAAGAG
1 AAAAGCAAAGAAAAAAAAAAAAAAGAGAAAAGAG
17861021 AAAAGCAAA-AAAAAAAAAAAAAAGAGAAAA
1 AAAAGCAAAGAAAAAAAAAAAAAAGAGAAAA
17861051 AAAGTAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 18 0.69
34 8 0.31
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (34 bp):
AAAAGCAAAGAAAAAAAAAAAAAAGAGAAAAGAG
Found at i:17861065 original size:13 final size:13
Alignment explanation
Indices: 17861049--17861073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17861039 AAAAAGAGAA
17861049 AAAAAGTAAAAGT
1 AAAAAGTAAAAGT
17861062 AAAAAGTAAAAG
1 AAAAAGTAAAAG
17861074 AGAAAGGAAA
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAAAGTAAAAGT
Found at i:17861091 original size:6 final size:6
Alignment explanation
Indices: 17861002--17861093 Score: 53
Period size: 6 Copynumber: 14.7 Consensus size: 6
17860992 GAAAGAAAAG
* * * *
17861002 AAAGAA AGAGAGA AAAGAGA AAAGCAA AAAAAA AAAAAA AAAG-A GAA-AA
1 AAAGAA AAAGA-A AAAGA-A AAAG-AA AAAGAA AAAGAA AAAGAA AAAGAA
* * *
17861051 AAAGTA AAAGTAA AAAGTA AAAGAGA AAGGAAA AAAGAA AAAG
1 AAAGAA AAAG-AA AAAGAA AAAGA-A AAAG-AA AAAGAA AAAG
17861094 GAGAGATTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
5 6 0.09
6 31 0.46
7 28 0.42
8 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:17867952 original size:22 final size:23
Alignment explanation
Indices: 17867910--17867960 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
17867900 TTAAGGCTAG
17867910 TTTAGCTAGCATCCAAACCCA-A
1 TTTAGCTAGCATCCAAACCCAGA
*
17867932 TTTAGCTAGCA-CCTAAGCCCAGA
1 TTTAGCTAGCATCC-AAACCCAGA
17867955 -TTAGCT
1 TTTAGCT
17867961 GTCACCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 23 0.88
23 1 0.04
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (23 bp):
TTTAGCTAGCATCCAAACCCAGA
Found at i:17868102 original size:44 final size:44
Alignment explanation
Indices: 17868007--17868104 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
17867997 GTTTTGTCGA
* *
17868007 CACCAAAGCCTAGATTAGCTGACACTGTAACCCAGATTAACTGG
1 CACCCAAGCCTAGATTAGCTGAAACTGTAACCCAGATTAACTGG
* * **
17868051 CATCCAAGCTTAGATTAGCTGAAACCT-TAACCCAGATTAGTTGG
1 CACCCAAGCCTAGATTAGCTGAAA-CTGTAACCCAGATTAACTGG
*
17868095 TACCCAAGCC
1 CACCCAAGCC
17868105 CAAATTAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (44 bp):
CACCCAAGCCTAGATTAGCTGAAACTGTAACCCAGATTAACTGG
Found at i:17868819 original size:10 final size:9
Alignment explanation
Indices: 17868773--17868829 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
17868763 TTCAAATCTT
17868773 AAAAAA-AA
1 AAAAAACAA
17868781 AAAAAA-AA
1 AAAAAACAA
*
17868789 AAACAACAA
1 AAAAAACAA
*
17868798 CAAACAACAA
1 -AAAAAACAA
*
17868808 AAAAAGCAA
1 AAAAAACAA
*
17868817 AAATAACAA
1 AAAAAACAA
17868826 AAAA
1 AAAA
17868830 TTTTGAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
8 13 0.32
9 19 0.46
10 9 0.22
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (9 bp):
AAAAAACAA
Found at i:17868843 original size:14 final size:15
Alignment explanation
Indices: 17868824--17868852 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17868814 CAAAAATAAC
17868824 AAAAAA-TTTTGAAA
1 AAAAAACTTTTGAAA
17868838 AAAAAACTTTTGAAA
1 AAAAAACTTTTGAAA
17868853 TCTTATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (15 bp):
AAAAAACTTTTGAAA
Found at i:17871409 original size:8 final size:8
Alignment explanation
Indices: 17871398--17871456 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
17871388 TGGAAAATTG
17871398 AAAAAGAA
1 AAAAAGAA
17871406 AAAAAGAA
1 AAAAAGAA
*
17871414 AAAATTG-A
1 AAAA-AGAA
*
17871422 AAAGA-AA
1 AAAAAGAA
*
17871429 AAAAATAA
1 AAAAAGAA
17871437 AAAAAG--
1 AAAAAGAA
17871443 AAAAAGAA
1 AAAAAGAA
17871451 AAAAAG
1 AAAAAG
17871457 TTGTGAAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
6 6 0.15
7 5 0.12
8 29 0.71
9 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (8 bp):
AAAAAGAA
Found at i:17871414 original size:14 final size:14
Alignment explanation
Indices: 17871397--17871456 Score: 68
Period size: 14 Copynumber: 4.1 Consensus size: 14
17871387 TTGGAAAATT
17871397 GAAAAAGAAAAAAA
1 GAAAAAGAAAAAAA
17871411 GAAAAAATTGAAAAGAAA
1 G-AAAAA--GAAAA-AAA
*
17871429 -AAAAATAAAAAAA
1 GAAAAAGAAAAAAA
17871442 GAAAAAGAAAAAAA
1 GAAAAAGAAAAAAA
17871456 G
1 G
17871457 TTGTGAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 3 0.08
14 18 0.46
15 5 0.13
16 5 0.13
17 5 0.13
18 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (14 bp):
GAAAAAGAAAAAAA
Found at i:17871421 original size:23 final size:24
Alignment explanation
Indices: 17871391--17871456 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 24
17871381 GAAGGTTTGG
17871391 AAAATTGAAAAAGAAAAAAAGA-A
1 AAAATTGAAAAAGAAAAAAAGATA
17871414 AAAATTG-AAAAGAAAAAAA-ATA
1 AAAATTGAAAAAGAAAAAAAGATA
**
17871436 AAAAAAGAAAAAGAAAAAAAG
1 AAAATTGAAAAAGAAAAAAAG
17871457 TTGTGAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 1 0.03
22 18 0.47
23 19 0.50
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (24 bp):
AAAATTGAAAAAGAAAAAAAGATA
Found at i:17871465 original size:36 final size:35
Alignment explanation
Indices: 17871425--17871528 Score: 86
Period size: 36 Copynumber: 2.9 Consensus size: 35
17871415 AAATTGAAAA
*
17871425 GAAAAAAAATAAAAAAAGAAAAAGAAAAAAAGTTGT
1 GAAAAAAAA-AAAAAAAGAAAAAGAAAAAAAGTGGT
* * *
17871461 GAAAACAAAAGAAAAAACAAAAA-AAATAAAGTGGT
1 GAAAA-AAAAAAAAAAAGAAAAAGAAAAAAAGTGGT
* *
17871496 TAAAAAGCAAAGAAAAGAAG-AAAAGAAAGAAAA
1 GAAAAA--AAA-AAAAAAAGAAAAAGAAA-AAAA
17871529 ATGGGCACAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
34 1 0.02
35 14 0.26
36 23 0.43
37 12 0.23
38 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.08
Consensus pattern (35 bp):
GAAAAAAAAAAAAAAAGAAAAAGAAAAAAAGTGGT
Found at i:17872010 original size:25 final size:25
Alignment explanation
Indices: 17871982--17872041 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 25
17871972 TTGGGAGGAT
17871982 TTTTTAAATTT-TTCAATAAAAGTAA
1 TTTTT-AATTTATTCAATAAAAGTAA
17872007 TTTTT-ATTTATTCAATAAAAGTAA
1 TTTTTAATTTATTCAATAAAAGTAA
17872031 TTTTT-ATTTAT
1 TTTTTAATTTAT
17872042 ATTTTCATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.12
24 25 0.74
25 5 0.15
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (25 bp):
TTTTTAATTTATTCAATAAAAGTAA
Found at i:17884814 original size:21 final size:21
Alignment explanation
Indices: 17884788--17884862 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
17884778 CATCAGCATA
*
17884788 AAAAATTTCAAAAAATTCTAC
1 AAAAATTTAAAAAAATTCTAC
* *
17884809 AAAAATTTAAAAAAATTTTAT
1 AAAAATTTAAAAAAATTCTAC
* *
17884830 AAAAAATT--AAGAATT-T--
1 AAAAATTTAAAAAAATTCTAC
17884846 AAAAATTTAAAAAAATT
1 AAAAATTTAAAAAAATT
17884863 AAAAAAATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.16
18 7 0.16
19 6 0.13
21 25 0.56
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAAATTTAAAAAAATTCTAC
Found at i:17884833 original size:10 final size:10
Alignment explanation
Indices: 17884787--17884870 Score: 72
Period size: 10 Copynumber: 8.7 Consensus size: 10
17884777 ACATCAGCAT
*
17884787 AAAAAATTTC
1 AAAAAATTTA
17884797 AAAAAATTCTA
1 AAAAAATT-TA
*
17884808 CAAAAATTTA
1 AAAAAATTTA
17884818 AAAAAATTTTA
1 AAAAAA-TTTA
17884829 TAAAAAA-TT-
1 -AAAAAATTTA
*
17884838 -AAGAATTT-
1 AAAAAATTTA
17884846 -AAAAATTTA
1 AAAAAATTTA
17884855 AAAAAA-TTA
1 AAAAAATTTA
17884864 AAAAAAT
1 AAAAAAT
17884871 ACTAATTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
7 4 0.06
8 9 0.15
9 9 0.15
10 22 0.35
11 12 0.19
12 6 0.10
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:17884884 original size:29 final size:29
Alignment explanation
Indices: 17884851--17884928 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
17884841 AATTTAAAAA
17884851 TTTAAAAAAATTAAAAAAATACT-AATTT
1 TTTAAAAAAATTAAAAAAATACTCAATTT
* * **
17884879 TTTTAAAAAATTCAAAAAGATTTTCAATTT
1 TTTAAAAAAATT-AAAAAAATACTCAATTT
* *
17884909 TTTAAAAAATTTAAGAAAAT
1 TTTAAAAAAATTAAAAAAAT
17884929 TTCATAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 11 0.28
29 14 0.35
30 15 0.38
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTAAAAAAATTAAAAAAATACTCAATTT
Found at i:17884929 original size:10 final size:9
Alignment explanation
Indices: 17884909--17884994 Score: 64
Period size: 9 Copynumber: 9.0 Consensus size: 9
17884899 TTTTCAATTT
17884909 TTTAAAAAA
1 TTTAAAAAA
17884918 TTTAAGAAAA
1 TTTAA-AAAA
*
17884928 TTTCATAAATA
1 TTT-A-AAAAA
*
17884939 TTTTAAAAA
1 TTTAAAAAA
* *
17884948 CTAAAAAAA
1 TTTAAAAAA
*
17884957 TTAAAAACAA
1 TTTAAAA-AA
17884967 TTCTAAAAAA
1 TT-TAAAAAA
*
17884977 TTTTAAAAA
1 TTTAAAAAA
*
17884986 TTCAAAAAA
1 TTTAAAAAA
17884995 ATTCTCCAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
9 34 0.56
10 15 0.25
11 11 0.18
12 1 0.02
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:17884931 original size:28 final size:28
Alignment explanation
Indices: 17884851--17884932 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
17884841 AATTTAAAAA
* * *
17884851 TTTAAAAAAATTAAAAAAATACTAATTTT
1 TTTAAAAAATTTAAAAAATTTC-AATTTT
*
17884880 TTTAAAAAATTCAAAAAGATTTTCAA-TTT
1 TTTAAAAAATTTAAAAA-A-TTTCAATTTT
17884909 TTTAAAAAATTTAAGAAAATTTCA
1 TTTAAAAAATTTAA-AAAATTTCA
17884933 TAAATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.11
29 32 0.71
30 6 0.13
31 2 0.04
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (28 bp):
TTTAAAAAATTTAAAAAATTTCAATTTT
Found at i:17884975 original size:29 final size:29
Alignment explanation
Indices: 17884943--17885008 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
17884933 TAAATATTTT
17884943 AAAAACTAAAAAAATT-AAAAACAATTCTA
1 AAAAACTAAAAAAATTCAAAAA-AATTCTA
* ** *
17884972 AAAAATTTTAAAAATTCAAAAAAATTCTC
1 AAAAACTAAAAAAATTCAAAAAAATTCTA
*
17885001 CAAAACTA
1 AAAAACTA
17885009 CTAAAACTTC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (29 bp):
AAAAACTAAAAAAATTCAAAAAAATTCTA
Found at i:17885082 original size:19 final size:20
Alignment explanation
Indices: 17885055--17885092 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
17885045 AATATTTAAA
*
17885055 ATTTATAAACAA-TAAAAAT
1 ATTTATAAAAAATTAAAAAT
*
17885074 ATTTCTAAAAAATTAAAAA
1 ATTTATAAAAAATTAAAAA
17885093 AAATTCAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTTATAAAAAATTAAAAAT
Found at i:17885195 original size:29 final size:29
Alignment explanation
Indices: 17885131--17885218 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
17885121 AAAATTTCTA
* *
17885131 AAAATTTTTAAAACTAATAAAAAA-TATG
1 AAAATTTTTAAAAATTATAAAAAATTATG
*
17885159 AAATATTTTTAAAAATTATAAAAAATTGTG
1 AAA-ATTTTTAAAAATTATAAAAAATTATG
* *
17885189 ATAA-TTTTAATAATT-TAAAAAATT-TG
1 AAAATTTTTAAAAATTATAAAAAATTATG
17885215 AAAA
1 AAAA
17885219 ATATGATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.10
27 9 0.17
28 13 0.25
29 20 0.38
30 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.38
Consensus pattern (29 bp):
AAAATTTTTAAAAATTATAAAAAATTATG
Found at i:17885196 original size:28 final size:28
Alignment explanation
Indices: 17885136--17885217 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
17885126 TTCTAAAAAT
* * *
17885136 TTTTAAAACTAATAAAAAATATGAAATAT
1 TTTTAAAAATTATAAAAAAT-TGAAATAA
**
17885165 TTTTAAAAATTATAAAAAATTGTGATAA
1 TTTTAAAAATTATAAAAAATTGAAATAA
*
17885193 TTTTAATAATT-TAAAAAATTTGAAA
1 TTTTAAAAATTATAAAAAA-TTGAAA
17885218 AATATGATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 7 0.16
28 19 0.43
29 18 0.41
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (28 bp):
TTTTAAAAATTATAAAAAATTGAAATAA
Found at i:17885592 original size:21 final size:21
Alignment explanation
Indices: 17885568--17885615 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
17885558 TTGTTTTGAA
*
17885568 TTTTTATAAAATTTTTATG-TT
1 TTTTTATAAAAATTTTA-GATT
*
17885589 TTTTCA-AAAAATTTTAGATT
1 TTTTTATAAAAATTTTAGATT
17885609 TTTTTAT
1 TTTTTAT
17885616 TTTAACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.05
20 16 0.73
21 5 0.23
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTATAAAAATTTTAGATT
Found at i:17885661 original size:19 final size:21
Alignment explanation
Indices: 17885624--17885676 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
17885614 ATTTTAACTA
**
17885624 TTTTTTATATTTTGTG-AAAT
1 TTTTTTATATTTTAAGAAAAT
17885644 TTTTTTA-ATTTTAAGAAAAT
1 TTTTTTATATTTTAAGAAAAT
*
17885664 TTTATTTTTATTT
1 TTT-TTTATATTT
17885677 ACATCTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.22
20 14 0.52
21 3 0.11
22 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (21 bp):
TTTTTTATATTTTAAGAAAAT
Found at i:17885752 original size:25 final size:27
Alignment explanation
Indices: 17885706--17885756 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
17885696 GTATTTAAAA
17885706 TTTTTTGAAAAATGTTGCATTTTTTTT
1 TTTTTTGAAAAATGTTGCATTTTTTTT
*
17885733 TTTTTTG-AAAATTTTG-ATTTTTTT
1 TTTTTTGAAAAATGTTGCATTTTTTT
17885757 GAATTTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 8 0.35
27 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.67
Consensus pattern (27 bp):
TTTTTTGAAAAATGTTGCATTTTTTTT
Found at i:17885763 original size:25 final size:27
Alignment explanation
Indices: 17885708--17885763 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
17885698 ATTTAAAATT
***
17885708 TTTTGAAAAATGTTGCATTTTTTTTTT
1 TTTTGAAAAATGTTGCATTTTTTTGAA
*
17885735 TTTTG-AAAATTTTG-ATTTTTTTGAA
1 TTTTGAAAAATGTTGCATTTTTTTGAA
17885760 TTTT
1 TTTT
17885764 CTAAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 12 0.48
26 8 0.32
27 5 0.20
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (27 bp):
TTTTGAAAAATGTTGCATTTTTTTGAA
Found at i:17885763 original size:27 final size:27
Alignment explanation
Indices: 17885704--17885774 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
17885694 ATGTATTTAA
*
17885704 AATTTTTTGAAAAATGTTGCATTTTTTT
1 AATTTTTTG-AAAATTTTGCATTTTTTT
*
17885732 -TTTTTTTGAAAATTTTG-ATTTTTTT
1 AATTTTTTGAAAATTTTGCATTTTTTT
* *
17885757 GAATTTTCTAAAAATTTT
1 -AATTTTTTGAAAATTTT
17885775 TTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 8 0.22
26 8 0.22
27 20 0.56
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (27 bp):
AATTTTTTGAAAATTTTGCATTTTTTT
Found at i:17885826 original size:30 final size:30
Alignment explanation
Indices: 17885769--17885830 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
17885759 ATTTTCTAAA
* * *
17885769 AATTTTTTAAAATTTGTTTATAGTTTTTAG
1 AATTTTTGAAAATTTGTTTAAACTTTTTAG
17885799 AATTTTTGAAAA-TTGTTTAGAACTTTTTAG
1 AATTTTTGAAAATTTGTTTA-AACTTTTTAG
17885829 AA
1 AA
17885831 CTTTGTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (30 bp):
AATTTTTGAAAATTTGTTTAAACTTTTTAG
Found at i:17885894 original size:21 final size:21
Alignment explanation
Indices: 17885853--17885927 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
17885843 TTCCTAGAAG
* *
17885853 TTTT-AGAATTTGTTCATAAT
1 TTTTAAGAATTTTTTTATAAT
*
17885873 TTTTAAGAATTTTTTTAAAAT
1 TTTTAAGAATTTTTTTATAAT
**
17885894 TGCTAA-AA-TTTTTTATAAT
1 TTTTAAGAATTTTTTTATAAT
*
17885913 GTTTTTAGAATTTTT
1 -TTTTAAGAATTTTT
17885928 AAGAAAATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 10 0.24
20 9 0.21
21 19 0.45
22 4 0.10
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (21 bp):
TTTTAAGAATTTTTTTATAAT
Found at i:17888546 original size:138 final size:139
Alignment explanation
Indices: 17888292--17888569 Score: 432
Period size: 138 Copynumber: 2.0 Consensus size: 139
17888282 CAACCTTATG
17888292 TAATTAACTTCCCATTTTGCAGTGCCCTACAACATAGTATACTAGGATTTAACTTTTGTTTTCCT
1 TAATTAACTTCCCATTTTGCAGTGCCCTACAACATAGTATACTAGGATTTAACTTTTGTTTTCCT
* * * *
17888357 TTTGAACTAGTACCATATTTATTGTTTCATTTGCTGAAGCCAAATATATATAGGGGTTTGCCTAA
66 TTTGAACTAGTACCATATCTATTGTTTCATTTGCTGAAACCAAATACATATAAGGGTTTGCCTAA
17888422 GACAAGACT
131 GACAAGACT
* * * * *
17888431 TAATTAACTTTCTATTTTGCAGTGCCCT-CAACATAGTATATTGGGATTTAACTTTTGTTTTCTT
1 TAATTAACTTCCCATTTTGCAGTGCCCTACAACATAGTATACTAGGATTTAACTTTTGTTTTCCT
* * * *
17888495 TTTGAACTAGTACTATATCTATTGTTTCATTTGTTGAAACTAAATGCATATAAGGGTTTGCCTAA
66 TTTGAACTAGTACCATATCTATTGTTTCATTTGCTGAAACCAAATACATATAAGGGTTTGCCTAA
17888560 GACAAGACT
131 GACAAGACT
17888569 T
1 T
17888570 GTGAGTAAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
138 100 0.79
139 26 0.21
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (139 bp):
TAATTAACTTCCCATTTTGCAGTGCCCTACAACATAGTATACTAGGATTTAACTTTTGTTTTCCT
TTTGAACTAGTACCATATCTATTGTTTCATTTGCTGAAACCAAATACATATAAGGGTTTGCCTAA
GACAAGACT
Found at i:17895711 original size:31 final size:30
Alignment explanation
Indices: 17895672--17895736 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
17895662 TTTATATATT
*
17895672 ATAAGTGAATTAGATGAT-ATTATTTCATTA
1 ATAAGTGAATTAAATGATGA-TATTTCATTA
*
17895702 ATAATGTGAATTAAATGATGATATTTTATTA
1 ATAA-GTGAATTAAATGATGATATTTCATTA
17895733 ATAA
1 ATAA
17895737 ATTAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 4 0.13
31 26 0.84
32 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (30 bp):
ATAAGTGAATTAAATGATGATATTTCATTA
Found at i:17895750 original size:17 final size:17
Alignment explanation
Indices: 17895724--17895765 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
17895714 AAATGATGAT
* *
17895724 ATTTTATTAATAAATTA
1 ATTTTTTTAAAAAATTA
17895741 ATTTTTTTAAAAAATTA
1 ATTTTTTTAAAAAATTA
17895758 ATTTTTTT
1 ATTTTTTT
17895766 TATATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTTTAAAAAATTA
Found at i:17898500 original size:5 final size:5
Alignment explanation
Indices: 17898490--17898514 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17898480 TCAAAATTAC
17898490 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
17898515 ATTGAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:17902615 original size:197 final size:198
Alignment explanation
Indices: 17902239--17902616 Score: 457
Period size: 197 Copynumber: 1.9 Consensus size: 198
17902229 AATAAAAATG
** * *
17902239 AAAAGGTAAAAATAAAATAAATTTTGAGAATAAATATTAATTATCCAATGATGGAATTTATAAAA
1 AAAAGGTAAAAATAAAATAAATTTTGAGAATAAATACAAATAATCCAAGGATGGAATTTATAAAA
* ** *
17902304 ATTTCGAATGGTAAATTTTTATAAAATTCATAGGTGAGAAATTTTGTCTAAATTTGTCACAAATA
66 ATTTCAAATGGTAAATTTCGATAAAATTCATAGGTGAGAAATTTTATCTAAATTTGTCACAAATA
** *
17902369 GTGGAATAATTTAGATAAAAGTTTCAATATCAATAATTAATATTTATTTTCAAACACAAAAATTA
131 GTGGAATAATTTAGATAAAAGTTTCAATAAAAAAAATTAATATTTATTTTCAAACACAAAAATTA
17902434 TAA
196 TAA
* * * *
17902437 AAAATGTAAAAATATAA-AAATTTTG-GAATTAAATACAAATAATCCAAGGAT-GAGATTTTTAG
1 AAAAGGTAAAAATAAAATAAATTTTGAGAA-TAAATACAAATAATCCAAGGATGGA-ATTTATAA
*
17902499 AAATTTCAAATGGTAAATTTCGA-AGAAATCTC-TAGGTGAGAAATTTTATCTTAATTTGT-ACC
64 AAATTTCAAATGGTAAATTTCGATA-AAAT-TCATAGGTGAGAAATTTTATCTAAATTTGTCA-C
** * *
17902561 CTATGGTGGAATAATTTAGAT-GAAGTTTCAATAAAAAAAATTTTAATA-TTATTTTC
126 AAATAGTGGAATAATTTAGATAAAAGTTTCAATAAAAAAAA--TTAATATTTATTTTC
17902617 TTTCCAACAA
Statistics
Matches: 153, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
196 22 0.14
197 108 0.71
198 23 0.15
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (198 bp):
AAAAGGTAAAAATAAAATAAATTTTGAGAATAAATACAAATAATCCAAGGATGGAATTTATAAAA
ATTTCAAATGGTAAATTTCGATAAAATTCATAGGTGAGAAATTTTATCTAAATTTGTCACAAATA
GTGGAATAATTTAGATAAAAGTTTCAATAAAAAAAATTAATATTTATTTTCAAACACAAAAATTA
TAA
Found at i:17906771 original size:4 final size:4
Alignment explanation
Indices: 17906758--17906841 Score: 70
Period size: 4 Copynumber: 21.5 Consensus size: 4
17906748 ATGGATGGAA
* *
17906758 AAAG ATAAG AAAG AAA- AAA- AAAG AAAA AAAA AAAG AAAG AAAG AAA-
1 AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
* *
17906804 AAAG AAAG --AG AAAG AAAA AAGAG AAAA AAATG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AA-AG AAAG AAA-G AAAG AA
17906842 TGGAAAAAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
2 2 0.03
3 9 0.13
4 46 0.69
5 10 0.15
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:17906775 original size:15 final size:15
Alignment explanation
Indices: 17906755--17906831 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
17906745 CTAATGGATG
*
17906755 GAAAAAGATAAGAAA
1 GAAAAAGAAAAGAAA
17906770 GAAAAA-AAAAG-AA
1 GAAAAAGAAAAGAAA
17906783 -AAAAA-AAAAGAAA
1 GAAAAAGAAAAGAAA
17906796 GAAAGAA-AAAAGAAA
1 GAAA-AAGAAAAGAAA
*
17906811 GAGAAAGAAAA-AAGA
1 GAAAAAGAAAAGAA-A
17906826 GAAAAA
1 GAAAAA
17906832 AATGAAAGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
12 10 0.19
13 4 0.07
14 11 0.20
15 29 0.54
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (15 bp):
GAAAAAGAAAAGAAA
Found at i:17906785 original size:11 final size:11
Alignment explanation
Indices: 17906767--17906838 Score: 60
Period size: 10 Copynumber: 6.6 Consensus size: 11
17906757 AAAAGATAAG
17906767 AAAG-AAAAAA
1 AAAGAAAAAAA
17906777 AAAG-AAAAAA
1 AAAGAAAAAAA
* *
17906787 AAA-AAGAAAG
1 AAAGAAAAAAA
17906797 AAAGAAAAAAGA
1 AAAGAAAAAA-A
*
17906809 AAGAGAAAGAAA
1 AA-AGAAAAAAA
*
17906821 AAAGAGAAAAA
1 AAAGAAAAAAA
*
17906832 AATGAAA
1 AAAGAAA
17906839 GAATGGAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
10 20 0.41
11 17 0.35
12 5 0.10
13 7 0.14
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:17906824 original size:17 final size:16
Alignment explanation
Indices: 17906756--17906825 Score: 83
Period size: 17 Copynumber: 4.4 Consensus size: 16
17906746 TAATGGATGG
*
17906756 AAAAAGATAAGAAAG-
1 AAAAAGAAAAGAAAGA
17906771 AAAAA-AAAAGAAA-A
1 AAAAAGAAAAGAAAGA
*
17906785 AAAAAAAGAAAGAAAGA
1 AAAAAGA-AAAGAAAGA
17906802 AAAAAGAAAGAGAAAGA
1 AAAAAGAAA-AGAAAGA
17906819 AAAAAGA
1 AAAAAGA
17906826 GAAAAAAATG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.25
15 6 0.12
16 9 0.19
17 21 0.44
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (16 bp):
AAAAAGAAAAGAAAGA
Found at i:17906839 original size:15 final size:13
Alignment explanation
Indices: 17906764--17906841 Score: 79
Period size: 15 Copynumber: 5.7 Consensus size: 13
17906754 GGAAAAAGAT
17906764 AAGAAAGAAAAAAA
1 AAGAAAG-AAAAAA
17906778 AAGAAA-AAAAAA
1 AAGAAAGAAAAAA
17906790 AAGAAAGAAAGAAAA
1 AAGAAAG-AA-AAAA
17906805 AAGAAAGAGAAAGAA
1 AAGAAAGA-AAA-AA
17906820 AA-AAGAGAAAAAA
1 AAGAA-AGAAAAAA
*
17906833 ATGAAAGAA
1 AAGAAAGAA
17906842 TGGAAAAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
12 12 0.21
13 7 0.12
14 18 0.32
15 19 0.34
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:17906867 original size:47 final size:44
Alignment explanation
Indices: 17906752--17906870 Score: 111
Period size: 47 Copynumber: 2.7 Consensus size: 44
17906742 CTACTAATGG
17906752 ATGG-AAAAAGAT-AAGAAAGAA-AAAAAAAGAAAAAAAAAAAGA
1 ATGGAAAAAAGATGAA-AAAGAAGAAAAAAAGAAAAAAAAAAAGA
* * * * *
17906794 A-AGAAAGAAAAAAGAAAGAGAAAGAAAAAAGAGAAAAAAATGAAAGA
1 ATGGAAA-AAAGATGAAAAAG-AAGAAAAAA-AGAAAAAAA-AAAAGA
17906841 ATGGAAAAAAGATGAAAAAGAGAGAAAAAA
1 ATGGAAAAAAGATGAAAAAGA-AGAAAAAA
17906871 CTCAAATTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
41 1 0.02
42 3 0.05
43 7 0.12
44 4 0.07
45 6 0.10
46 10 0.17
47 24 0.41
48 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (44 bp):
ATGGAAAAAAGATGAAAAAGAAGAAAAAAAGAAAAAAAAAAAGA
Found at i:17913623 original size:16 final size:17
Alignment explanation
Indices: 17913595--17913631 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
17913585 AAGGAGGCAT
17913595 AAAGAAGAAAAGAAAAA
1 AAAGAAGAAAAGAAAAA
17913612 AAAGAA-AAAAGAAAAA
1 AAAGAAGAAAAGAAAAA
17913628 AAAG
1 AAAG
17913632 CCAAAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAGAAGAAAAGAAAAA
Found at i:17920110 original size:9 final size:10
Alignment explanation
Indices: 17920073--17920167 Score: 68
Period size: 11 Copynumber: 9.2 Consensus size: 10
17920063 TAAAATATTA
17920073 ATTTAATAAT
1 ATTTAATAAT
* * *
17920083 AATAAATATT
1 ATTTAATAAT
*
17920093 AATTAAATAA-
1 -ATTTAATAAT
17920103 ATTTAATAAT
1 ATTTAATAAT
17920113 ATTGTAATAAT
1 ATT-TAATAAT
*
17920124 ATTTAATTATT
1 ATTTAA-TAAT
*
17920135 ATTTAATTAT
1 ATTTAATAAT
*
17920145 ATTAAATTAAT
1 ATTTAA-TAAT
17920156 A-TTAATTAAT
1 ATTTAA-TAAT
17920166 AT
1 AT
17920168 GAATTAATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
9 8 0.12
10 29 0.43
11 30 0.45
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (10 bp):
ATTTAATAAT
Found at i:17920121 original size:35 final size:32
Alignment explanation
Indices: 17920071--17920164 Score: 81
Period size: 32 Copynumber: 3.0 Consensus size: 32
17920061 TATAAAATAT
*
17920071 TAATTTAATAATA-AT-A-AATATTAATTAAA
1 TAATTTAATAATATTTAATAATATTAATTAAA
17920100 TAAATTTAATAATATTGTAATAATATTTAATT--A
1 T-AATTTAATAATATT-TAATAATA-TTAATTAAA
* * *
17920133 TTATTTAATTATATTAAATTAATATTAATTAA
1 TAATTTAATAATATTTAA-TAATATTAATTAA
17920165 TATGAATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
29 1 0.02
30 12 0.23
31 8 0.15
32 18 0.35
33 3 0.06
34 4 0.08
35 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
TAATTTAATAATATTTAATAATATTAATTAAA
Found at i:17920129 original size:21 final size:21
Alignment explanation
Indices: 17920098--17920175 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
17920088 ATATTAATTA
17920098 AATAA-ATTTAA-TAATATTGT
1 AATAATATTTAATTAATATT-T
*
17920118 AATAATATTTAATTATTATTT
1 AATAATATTTAATTAATATTT
* *
17920139 AATTATATTAAATTAATA-TT
1 AATAATATTTAATTAATATTT
*
17920159 AATTAATA-TGAATTAAT
1 AA-TAATATTTAATTAAT
17920176 TATCTAATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 17 0.35
21 26 0.53
22 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
AATAATATTTAATTAATATTT
Found at i:17920147 original size:32 final size:31
Alignment explanation
Indices: 17920068--17920163 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
17920058 GTATATAAAA
* * *
17920068 TATTAATTTAATAATAATAAA-TATTAATTAAA
1 TATT-ATTTAATAATATTAAATTAAT-ATTAAT
* *
17920100 TA-AATTTAATAATATTGTAA-TAATATTTAAT
1 TATTATTTAATAATATT-AAATTAATA-TTAAT
*
17920131 TATTATTTAATTATATTAAATTAATATTAAT
1 TATTATTTAATAATATTAAATTAATATTAAT
17920162 TA
1 TA
17920164 ATATGAATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
30 13 0.25
31 20 0.38
32 19 0.37
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
TATTATTTAATAATATTAAATTAATATTAAT
Found at i:17926923 original size:17 final size:17
Alignment explanation
Indices: 17926897--17926931 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17926887 TTTGAAAGGA
* *
17926897 GAAAAGAAAAAAGAAAG
1 GAAAACAAAAAAAAAAG
17926914 GAAAACAAAAAAAAAAG
1 GAAAACAAAAAAAAAAG
17926931 G
1 G
17926932 GGAGAGAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (17 bp):
GAAAACAAAAAAAAAAG
Found at i:17935021 original size:37 final size:39
Alignment explanation
Indices: 17934980--17935065 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 39
17934970 ACTGATATAG
17934980 CATGATCCATC-ATACAAGTCAT-TTCA-TACCAATACAA
1 CATGATCCA-CGATACAAGTCATCTTCAGTACCAATACAA
* * * *
17935017 CATGATTCACGATACAAGTCATCTTTAGTATCAATACAG
1 CATGATCCACGATACAAGTCATCTTCAGTACCAATACAA
17935056 CATGATCCAC
1 CATGATCCAC
17935066 TTTACAGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 1 0.02
37 19 0.46
38 3 0.07
39 18 0.44
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (39 bp):
CATGATCCACGATACAAGTCATCTTCAGTACCAATACAA
Found at i:17936516 original size:158 final size:158
Alignment explanation
Indices: 17936310--17937030 Score: 824
Period size: 158 Copynumber: 4.6 Consensus size: 158
17936300 CACATTTATG
* * * * *
17936310 AAAGGTAAAAACTATTGCATA-TTTACATTGTGATTCTAGTTGTGTATTGTGATTGTTGATGAAG
1 AAAGGTGAAAACTATTACGTATTTTGCTTTGTGATTCTAGTTGTGTATTGTGATTGTTGATGAAG
* * * * *
17936374 TAGATAGTGTAGTAATTGAAAGCCTTAACATTGTAAAAAATTTAGTATTGAACCATATAGTGTTT
66 TAGATAATGTAGTAATTAAAAGCCTTAACATTGTAAGAAATTTAATATTGAACTATATAGTGTTT
* *
17936439 TGTGCTTGTTAAGATGCAATGAATTTGT
131 TGTGCTTATTGAGATGCAATGAATTTGT
* * ** **
17936467 AAATGTGAAAATTATTTTGTATTTTGCTTTGTGATTCTAGTTGCATATTGTGATTGTT-AGTGAA
1 AAAGGTGAAAACTATTACGTATTTTGCTTTGTGATTCTAGTTGTGTATTGTGATTGTTGA-TGAA
* * * *
17936531 GTAGATAATGTAATAATTGAAAA--CTTAAACATTGCAGGAAATTTAATATTGAACTATATATTG
65 GTAGATAATGTAGTAATT-AAAAGCCTT-AACATTGTAAGAAATTTAATATTGAACTATATAGTG
* * * *
17936594 TTTTATGCTTACTGAGATACAATGAATTTAT
128 TTTTGTGCTTATTGAGATGCAATGAATTTGT
* * * *
17936625 AAAGGT-AAAAGCTATTACATATTTTGCTTTGTCATTTTGGTTGTGTATTGTGATTGTTGATGAA
1 AAAGGTGAAAA-CTATTACGTATTTTGCTTTGTGATTCTAGTTGTGTATTGTGATTGTTGATGAA
* * * * * * * ** *
17936689 GTAAATAGTATAGCAATTAAAAGCCTAAACATTGTAGGAATTTTTGTATTGAACTATTTAGTGTT
65 GTAGATAATGTAGTAATTAAAAGCCTTAACATTGTAAGAAATTTAATATTGAACTATATAGTGTT
* *
17936754 TTCTGCTTAGTGAGATGCAATGAATTTGT
130 TTGTGCTTATTGAGATGCAATGAATTTGT
* *
17936783 AAAGGTGAAAACTATTACGTATTTTGCTTTGTGATTCTAGTTATGTATTATGATTGTTGATGAAG
1 AAAGGTGAAAACTATTACGTATTTTGCTTTGTGATTCTAGTTGTGTATTGTGATTGTTGATGAAG
* * * * *
17936848 TAGATAATGTAGTAATTTAAAGCGTGAACATTGTAAGAAATTCAATATTGAACAATATAGTGTTT
66 TAGATAATGTAGTAATTAAAAGCCTTAACATTGTAAGAAATTTAATATTGAACTATATAGTGTTT
* *
17936913 TGTTCTTATTGAGATCCAATGAATTTGT
131 TGTGCTTATTGAGATGCAATGAATTTGT
* ** * * * *
17936941 GAAGGCAAAAACTATTACGTATTTTACTTTGTGATTTTCGTTGTGTATTGTGATGGTTGATGAAA
1 AAAGGTGAAAACTATTACGTATTTTGCTTTGTGATTCTAGTTGTGTATTGTGATTGTTGATG-AA
*
17937006 G-AGATAATATAGTAATTAAAAGCCT
65 GTAGATAATGTAGTAATTAAAAGCCT
17937031 AAATAGTATT
Statistics
Matches: 467, Mismatches: 87, Indels: 19
0.82 0.15 0.03
Matches are distributed among these distances:
157 27 0.06
158 427 0.91
159 13 0.03
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (158 bp):
AAAGGTGAAAACTATTACGTATTTTGCTTTGTGATTCTAGTTGTGTATTGTGATTGTTGATGAAG
TAGATAATGTAGTAATTAAAAGCCTTAACATTGTAAGAAATTTAATATTGAACTATATAGTGTTT
TGTGCTTATTGAGATGCAATGAATTTGT
Found at i:17936935 original size:316 final size:316
Alignment explanation
Indices: 17936303--17937033 Score: 957
Period size: 316 Copynumber: 2.3 Consensus size: 316
17936293 ATGAGATCAC
* * *
17936303 ATTTATGAAAGGTAAAAACTATTGCATA-TTTACATTGTGATTCTAGTTGTGTATTGTGATTGTT
1 ATTTAT-AAAGGTAAAAACTATTACATATTTTACTTTGTGATTTTAGTTGTGTATTGTGATTGTT
* * *
17936367 GATGAAGTAGATAGTGTAGTAATTGAAAGCCTTAACATTGTAAAAAATTTAGTATTGAACCATAT
65 GATGAAGTAGATAGTATAGTAATTAAAAGCCTAAACATTGTAAAAAATTTAGTATTGAACCATAT
* * * **
17936432 AGTGTTTTGTGCTTGTTAAGATGCAATGAATTTGTAAATGTGAAAATTATTTTGTATTTTGCTTT
130 AGTGTTTTCTGCTTGTTAAGATGCAATGAATTTGTAAAGGTGAAAACTATTACGTATTTTGCTTT
* * *
17936497 GTGATTCTAGTTGCATATTGTGATTGTTAGTGAAGTAGATAATGTAATAATTGAAAACTTAAACA
195 GTGATTCTAGTTACATATTATGATTGTTAGTGAAGTAGATAATGTAATAATTGAAAACGTAAACA
* * * *
17936562 TTGCAGGAAATTTAATATTGAACTATATATTGTTTTATGCTTACTGAGATACAATGA
260 TTGCAAGAAATTCAATATTGAACAATATAGTGTTTTATGCTTACTGAGATACAATGA
* * * *
17936619 ATTTATAAAGGTAAAAGCTATTACATATTTTGCTTTGTCATTTTGGTTGTGTATTGTGATTGTTG
1 ATTTATAAAGGTAAAAACTATTACATATTTTACTTTGTGATTTTAGTTGTGTATTGTGATTGTTG
* * ** * * * *
17936684 ATGAAGTAAATAGTATAGCAATTAAAAGCCTAAACATTGTAGGAATTTTTGTATTGAACTATTTA
66 ATGAAGTAGATAGTATAGTAATTAAAAGCCTAAACATTGTAAAAAATTTAGTATTGAACCATATA
*
17936749 GTGTTTTCTGCTTAG-TGAGATGCAATGAATTTGTAAAGGTGAAAACTATTACGTATTTTGCTTT
131 GTGTTTTCTGCTT-GTTAAGATGCAATGAATTTGTAAAGGTGAAAACTATTACGTATTTTGCTTT
** * * * *
17936813 GTGATTCTAGTTATGTATTATGATTGTT-GATGAAGTAGATAATGTAGTAATTTAAAGCGTGAAC
195 GTGATTCTAGTTACATATTATGATTGTTAG-TGAAGTAGATAATGTAATAATTGAAAACGTAAAC
* * * * *
17936877 ATTGTAAGAAATTCAATATTGAACAATATAGTGTTTTGTTCTTATTGAGATCCAATGA
259 ATTGCAAGAAATTCAATATTGAACAATATAGTGTTTTATGCTTACTGAGATACAATGA
* * * * * *
17936935 ATTTGTGAAGGCAAAAACTATTACGTATTTTACTTTGTGATTTTCGTTGTGTATTGTGATGGTTG
1 ATTTATAAAGGTAAAAACTATTACATATTTTACTTTGTGATTTTAGTTGTGTATTGTGATTGTTG
*
17937000 ATGAAAG-AGATAATATAGTAATTAAAAGCCTAAA
66 ATG-AAGTAGATAGTATAGTAATTAAAAGCCTAAA
17937034 TAGTATTTTA
Statistics
Matches: 357, Mismatches: 54, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
315 20 0.06
316 333 0.93
317 4 0.01
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (316 bp):
ATTTATAAAGGTAAAAACTATTACATATTTTACTTTGTGATTTTAGTTGTGTATTGTGATTGTTG
ATGAAGTAGATAGTATAGTAATTAAAAGCCTAAACATTGTAAAAAATTTAGTATTGAACCATATA
GTGTTTTCTGCTTGTTAAGATGCAATGAATTTGTAAAGGTGAAAACTATTACGTATTTTGCTTTG
TGATTCTAGTTACATATTATGATTGTTAGTGAAGTAGATAATGTAATAATTGAAAACGTAAACAT
TGCAAGAAATTCAATATTGAACAATATAGTGTTTTATGCTTACTGAGATACAATGA
Found at i:17949053 original size:52 final size:52
Alignment explanation
Indices: 17948973--17949129 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
17948963 TGGACAAGAA
* * *
17948973 GACTTGCAAAAGAAGAATTTCAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
* * *
17949025 GACTTGCAAGAGAAGAATTTTAAAAGAAAAAAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
* * * * * *
17949077 GACTTACAGGAGAAGAATTCTAAGAG-GAGAAGGATTCTTAATGGGCAAATTT
1 GACTTGCAAGAGAAGAATTTTAAGAGAAAG-AGGATTCTTAATAGGCAAGTTT
17949129 G
1 G
17949130 TATGATTATA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 1 0.01
52 88 0.99
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTTTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:17949646 original size:31 final size:31
Alignment explanation
Indices: 17949608--17949690 Score: 157
Period size: 31 Copynumber: 2.7 Consensus size: 31
17949598 GCTTTTAGCC
17949608 CAACAAATGGTATCAGAGCTGTGGTGTTCCT
1 CAACAAATGGTATCAGAGCTGTGGTGTTCCT
17949639 CAACAAATGGTATCAGAGCTGTGGTGTTCCT
1 CAACAAATGGTATCAGAGCTGTGGTGTTCCT
*
17949670 CAACAAGTGGTATCAGAGCTG
1 CAACAAATGGTATCAGAGCTG
17949691 AAGGTTCGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
CAACAAATGGTATCAGAGCTGTGGTGTTCCT
Found at i:17949767 original size:24 final size:25
Alignment explanation
Indices: 17949728--17949792 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
17949718 GATTCAACAT
17949728 GTGGAAAAAG-TCGAAAGTTCGAGAC
1 GTGGAAAAAGCT-GAAAGTTCGAGAC
* *
17949753 GT-GAAAAAGCTGAAAGTTTGAGAT
1 GTGGAAAAAGCTGAAAGTTCGAGAC
*
17949777 GTGGGAAAAGCT-AAAG
1 GTGGAAAAAGCTGAAAG
17949793 GTTTAAGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 24 0.69
25 11 0.31
ACGTcount: A:0.42, C:0.08, G:0.32, T:0.18
Consensus pattern (25 bp):
GTGGAAAAAGCTGAAAGTTCGAGAC
Found at i:17949796 original size:25 final size:25
Alignment explanation
Indices: 17949757--17949808 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
17949747 CGAGACGTGA
*
17949757 AAAAGCTGAAAGTTTGAGATGTGGG
1 AAAAGCTGAAAGTTTAAGATGTGGG
17949782 AAAAGCT-AAAGGTTTAAGATGTGGG
1 AAAAGCTGAAA-GTTTAAGATGTGGG
17949807 AA
1 AA
17949809 GTGCTTGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.40, C:0.04, G:0.33, T:0.23
Consensus pattern (25 bp):
AAAAGCTGAAAGTTTAAGATGTGGG
Found at i:17949824 original size:23 final size:24
Alignment explanation
Indices: 17949768--17949833 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 24
17949758 AAAGCTGAAA
*
17949768 GTTTGAGATGTGGGAAAAGCTAAAG
1 GTTTGAGATGTGGGAAGAGCT-AAG
* * *
17949793 GTTTAAGATGTGGGAAGTGCT-TG
1 GTTTGAGATGTGGGAAGAGCTAAG
*
17949816 GTTTGAGATATGGGAAGA
1 GTTTGAGATGTGGGAAGA
17949834 AGTAAGCTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 16 0.47
25 18 0.53
ACGTcount: A:0.30, C:0.03, G:0.38, T:0.29
Consensus pattern (24 bp):
GTTTGAGATGTGGGAAGAGCTAAG
Found at i:17950129 original size:25 final size:25
Alignment explanation
Indices: 17950100--17950174 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
17950090 GAAGACTTGC
17950100 AAAAGAAGAATTTCAAGAGAAAGAG
1 AAAAGAAGAATTTCAAGAGAAAGAG
17950125 AAAAGAAGAATTTCAAGAGAAAGAG
1 AAAAGAAGAATTTCAAGAGAAAGAG
17950150 AAAAGAAGAATTTCAAGAGAAAGAG
1 AAAAGAAGAATTTCAAGAGAAAGAG
17950175 GATTCTTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.60, C:0.04, G:0.24, T:0.12
Consensus pattern (25 bp):
AAAAGAAGAATTTCAAGAGAAAGAG
Found at i:17950259 original size:51 final size:51
Alignment explanation
Indices: 17950153--17950296 Score: 166
Period size: 51 Copynumber: 2.8 Consensus size: 51
17950143 GAAAGAGAAA
* * * *
17950153 AGAAGAATTTCAAGAGAAAGAGGATTCTTAATAGGTAAGTTTGACTTGCAAG
1 AGAAGAATTTTAAGAGAAAAAGGATTCTT-ATAGGCAAGTTTGACTTACAAG
*
17950205 AGAAGAATTTTAAAAGAAAAAGGATTCTTATAGGCAAGTTTGACTTA-ACAG
1 AGAAGAATTTTAAGAGAAAAAGGATTCTTATAGGCAAGTTTGACTTACA-AG
* * * * *
17950256 AGAAGAATTCTAAGAG-AGAAGGATTCTAATGGGCAAATTTG
1 AGAAGAATTTTAAGAGAAAAAGGATTCTTATAGGCAAGTTTG
17950297 TATGATTATG
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 22 0.28
51 32 0.40
52 26 0.32
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (51 bp):
AGAAGAATTTTAAGAGAAAAAGGATTCTTATAGGCAAGTTTGACTTACAAG
Found at i:17950275 original size:16 final size:16
Alignment explanation
Indices: 17950254--17950284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17950244 TTGACTTAAC
17950254 AGAGAAGAATTCTAAG
1 AGAGAAGAATTCTAAG
*
17950270 AGAGAAGGATTCTAA
1 AGAGAAGAATTCTAA
17950285 TGGGCAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.26, T:0.19
Consensus pattern (16 bp):
AGAGAAGAATTCTAAG
Found at i:17954681 original size:18 final size:18
Alignment explanation
Indices: 17954640--17954682 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17954630 GTGATTGATC
* *
17954640 CTTTTTCTTTTTTTTTTG
1 CTTTTTTTTTTTTTTTTA
*
17954658 CATTTTTTTTTTTTTTTA
1 CTTTTTTTTTTTTTTTTA
17954676 CTTTTTT
1 CTTTTTT
17954683 CCTTTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (18 bp):
CTTTTTTTTTTTTTTTTA
Found at i:17954688 original size:19 final size:19
Alignment explanation
Indices: 17954641--17954688 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
17954631 TGATTGATCC
*
17954641 TTTTTCTTTTTTTTTTGCAT
1 TTTTTC-TTTTTTTTTACAT
17954661 TTTTT-TTTTTTTTTAC-T
1 TTTTTCTTTTTTTTTACAT
*
17954678 TTTTTCCTTTT
1 TTTTTCTTTTT
17954689 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.24
18 14 0.56
20 5 0.20
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTACAT
Found at i:17955607 original size:26 final size:26
Alignment explanation
Indices: 17955577--17955641 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
17955567 GATTAACTAA
* * *
17955577 AATTATGATAATACTCTTTTTAACAT
1 AATTATGAAAATACTCCTCTTAACAT
* *
17955603 AATTATTAAAATACTCCTCTTATCAT
1 AATTATGAAAATACTCCTCTTAACAT
*
17955629 AATTGATCAAAAT
1 AATT-ATGAAAAT
17955642 TACTATAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 25 0.78
27 7 0.22
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.42
Consensus pattern (26 bp):
AATTATGAAAATACTCCTCTTAACAT
Found at i:17955811 original size:25 final size:25
Alignment explanation
Indices: 17955791--17955852 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
17955781 CTATAATTTT
*
17955791 GAAAATGTCATCTTACCATAATTAC
1 GAAAATATCATCTTACCATAATTAC
*
17955816 GAAAATATCCTCTTACCATAATTATC
1 GAAAATATCATCTTACCATAATTA-C
17955842 -AAAATACTCAT
1 GAAAATA-TCAT
17955853 TATATTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (25 bp):
GAAAATATCATCTTACCATAATTAC
Found at i:17956314 original size:110 final size:111
Alignment explanation
Indices: 17956169--17956380 Score: 297
Period size: 110 Copynumber: 1.9 Consensus size: 111
17956159 AAAAATATCT
* * *
17956169 TCTTACCATAATTATAAAAATTCTCCTCATATTATAATT-ATTTAAAATTACTATAATA-CTCTC
1 TCTTACCATAATTACAAAAATTCTCATCATATTATAATTGA-TCAAAATTACTATAATACCT-TC
* *
17956232 TAATCATAATTA-AAAAATATCATTTTGATTGCTTCATATAATGCCTC
64 TAAGCATAATTATAAAAATATCATTTTGATGGCTTCATATAATGCCTC
* * *
17956279 TCTTACCATAATTACAAATATATC-CATCATATTATACTTGATCAAAATTACTATATTACCTTCT
1 TCTTACCATAATTACAAAAAT-TCTCATCATATTATAATTGATCAAAATTACTATAATACCTTCT
17956343 AAGCATAATTATAAAAATATCATTTTGATGGCTTCATA
65 AAGCATAATTATAAAAATATCATTTTGATGGCTTCATA
17956381 ATTACACATT
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
110 60 0.67
111 30 0.33
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.41
Consensus pattern (111 bp):
TCTTACCATAATTACAAAAATTCTCATCATATTATAATTGATCAAAATTACTATAATACCTTCTA
AGCATAATTATAAAAATATCATTTTGATGGCTTCATATAATGCCTC
Found at i:17957535 original size:2 final size:2
Alignment explanation
Indices: 17957528--17957554 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17957518 GTTTTAGATC
17957528 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17957555 GGTTTATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17970475 original size:21 final size:22
Alignment explanation
Indices: 17970450--17970493 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
17970440 ATTCCAAAGA
17970450 TATAAAATA-AAT-ATGAAAAAT
1 TATAAAATACAATAAT-AAAAAT
17970471 TATAAAATACAATAATAAAAAT
1 TATAAAATACAATAATAAAAAT
17970493 T
1 T
17970494 TTTAACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 10 0.48
23 2 0.10
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
TATAAAATACAATAATAAAAAT
Found at i:17970925 original size:15 final size:15
Alignment explanation
Indices: 17970904--17970938 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17970894 TATATATGTG
*
17970904 AATTAAATTTAATTT
1 AATTAAATTAAATTT
*
17970919 TATTAAATTAAATTT
1 AATTAAATTAAATTT
17970934 AATTA
1 AATTA
17970939 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAAATTAAATTT
Found at i:17971005 original size:38 final size:37
Alignment explanation
Indices: 17970906--17971006 Score: 103
Period size: 38 Copynumber: 2.7 Consensus size: 37
17970896 TATATGTGAA
* * **
17970906 TTAAATTTAATTTTATTAAATTAAATTTAATTATTTTT
1 TTAAATTTTATTTT-TTAAATTAAATTTAATTACTAGT
* * * *
17970944 TTAATTTTTATTATATAAATTAAATTTAATTGGCTAGT
1 TTAAATTTTATTTTTTAAATTAAATTTAATT-ACTAGT
*
17970982 TTAAATTTTATTTTTTAATTTAAAT
1 TTAAATTTTATTTTTTAAATTAAAT
17971007 CGAACCTAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 16 0.32
38 34 0.68
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (37 bp):
TTAAATTTTATTTTTTAAATTAAATTTAATTACTAGT
Found at i:17973816 original size:71 final size:70
Alignment explanation
Indices: 17973734--17973872 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 70
17973724 AGCATGTTTC
17973734 ATCATGTAGTGCAAGAGACAGATGCCCACACTATTTGAAAAAAATTAAAGGCATTATATGAGAAG
1 ATCATGTAGTGCAAGAGACAGATGCCCACACTATTTGAAAAAAATTAAAGGCATTATATGAG-AG
17973799 AAAATA
65 AAAATA
* *
17973805 ATCATGTAGTGCAAGAGACAGATGCTCACACTGTTTGAAAAAAATTAAAGGCATTATATGAGAGA
1 ATCATGTAGTGCAAGAGACAGATGCCCACACTATTTGAAAAAAATTAAAGGCATTATATGAGAGA
17973870 AAA
66 AAA
17973873 ACATATATGA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 6 0.09
71 60 0.91
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.23
Consensus pattern (70 bp):
ATCATGTAGTGCAAGAGACAGATGCCCACACTATTTGAAAAAAATTAAAGGCATTATATGAGAGA
AAATA
Found at i:17982418 original size:5 final size:5
Alignment explanation
Indices: 17982410--17982468 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
17982400 AATCACAATT
* *
17982410 AATAA AATAA AATAA AATAA AA-AGA TAA-AA AATAA ATTAA ATCAAAA
1 AATAA AATAA AATAA AATAA AATA-A -AATAA AATAA AATAA A--ATAA
17982457 AATAA AATAA AA
1 AATAA AATAA AA
17982469 AGAACAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 3 0.07
5 36 0.80
6 3 0.07
7 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:17982439 original size:13 final size:12
Alignment explanation
Indices: 17982410--17982469 Score: 63
Period size: 13 Copynumber: 5.1 Consensus size: 12
17982400 AATCACAATT
17982410 AATAAAAT--AA
1 AATAAAATAAAA
17982420 AATAAAATAAAA
1 AATAAAATAAAA
*
17982432 AGATAAAA-AATA
1 A-ATAAAATAAAA
*
17982444 AATTAAATCAAAA
1 AATAAAAT-AAAA
17982457 AATAAAATAAAA
1 AATAAAATAAAA
17982469 A
1 A
17982470 GAACAAGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.20
11 5 0.12
12 12 0.29
13 16 0.39
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:17982446 original size:24 final size:25
Alignment explanation
Indices: 17982413--17982463 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
17982403 CACAATTAAT
17982413 AAAATAAAATAAAAT-AAAAAGATAA
1 AAAATAAAATAAAATCAAAAA-ATAA
*
17982438 AAAAT-AAATTAAATCAAAAAATAA
1 AAAATAAAATAAAATCAAAAAATAA
17982462 AA
1 AA
17982464 TAAAAAGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (25 bp):
AAAATAAAATAAAATCAAAAAATAA
Found at i:17984657 original size:12 final size:12
Alignment explanation
Indices: 17984640--17984664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17984630 TAACACAATA
17984640 AATAAATAAAAT
1 AATAAATAAAAT
17984652 AATAAATAAAAT
1 AATAAATAAAAT
17984664 A
1 A
17984665 CAAAGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:17986855 original size:17 final size:17
Alignment explanation
Indices: 17986835--17986898 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
17986825 TTTAGGTTTG
17986835 CAAGAATTTCAAATTCA
1 CAAGAATTTCAAATTCA
* * *
17986852 CAAGATTTTCAGATTCG
1 CAAGAATTTCAAATTCA
*
17986869 CAAGAATTTTCATATTCA
1 CAAGAA-TTTCAAATTCA
17986887 CAAGAATGTTCA
1 CAAGAAT-TTCA
17986899 GATTTGTAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 20 0.51
18 19 0.49
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (17 bp):
CAAGAATTTCAAATTCA
Found at i:17986879 original size:18 final size:18
Alignment explanation
Indices: 17986738--17986902 Score: 103
Period size: 18 Copynumber: 9.6 Consensus size: 18
17986728 TTTGTAAGGC
*
17986738 TTTT-AGATTCACAAAAA
1 TTTTCAGATTCACAAGAA
*
17986755 TTTTCA-ATGTCACAAAAA
1 TTTTCAGAT-TCACAAGAA
* * **
17986773 TTTTTAAATTTGCAAGAA
1 TTTTCAGATTCACAAGAA
* * *
17986791 TTTTTAGATTCATAATAA
1 TTTTCAGATTCACAAGAA
* *
17986809 -TTT--GATTCTCAAGGA
1 TTTTCAGATTCACAAGAA
* **
17986824 TTTT-AGGTTTGCAAGAA
1 TTTTCAGATTCACAAGAA
*
17986841 -TTTCAAATTCACAAG-A
1 TTTTCAGATTCACAAGAA
*
17986857 TTTTCAGATTCGCAAGAA
1 TTTTCAGATTCACAAGAA
*
17986875 TTTTCATATTCACAAGAA
1 TTTTCAGATTCACAAGAA
*
17986893 TGTTCAGATT
1 TTTTCAGATT
17986903 TGTAAGAATC
Statistics
Matches: 113, Mismatches: 27, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
15 8 0.07
16 7 0.06
17 37 0.33
18 59 0.52
19 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (18 bp):
TTTTCAGATTCACAAGAA
Found at i:17986910 original size:36 final size:35
Alignment explanation
Indices: 17986831--17986911 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 35
17986821 GGATTTTAGG
*
17986831 TTTGCAAGAA-TTTCAAATTCACAAGATTTTCAGA
1 TTTGCAAGAATTTTCAAATTCACAAGATGTTCAGA
* *
17986865 TTCGCAAGAATTTTCATATTCACAAGAATGTTCAGA
1 TTTGCAAGAATTTTCAAATTCACAAG-ATGTTCAGA
*
17986901 TTTGTAAGAAT
1 TTTGCAAGAAT
17986912 CTGATTCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 9 0.22
35 14 0.35
36 17 0.43
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (35 bp):
TTTGCAAGAATTTTCAAATTCACAAGATGTTCAGA
Found at i:17986998 original size:15 final size:16
Alignment explanation
Indices: 17986974--17987003 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17986964 TTTGTTAGAT
17986974 TTTGATTTCGCAAGAG
1 TTTGATTTCGCAAGAG
17986990 TTTGA-TTCGCAAGA
1 TTTGATTTCGCAAGA
17987004 ACTTTTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (16 bp):
TTTGATTTCGCAAGAG
Found at i:17987029 original size:16 final size:17
Alignment explanation
Indices: 17986993--17987030 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
17986983 GCAAGAGTTT
*
17986993 GATTCGCAAGAACTTTTA
1 GATTCACAAGAAC-TTTA
17987011 GATTCACAAGAAC-TTA
1 GATTCACAAGAACTTTA
17987027 GATT
1 GATT
17987031 TGCAAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
18 12 0.63
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (17 bp):
GATTCACAAGAACTTTA
Found at i:17987036 original size:16 final size:17
Alignment explanation
Indices: 17986980--17987038 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
17986970 AGATTTTGAT
*
17986980 TTCGCAAG-AGTTT-GA
1 TTCGCAAGAACTTTAGA
17986995 TTCGCAAGAACTTTTAGA
1 TTCGCAAGAAC-TTTAGA
*
17987013 TTCACAAGAAC-TTAGA
1 TTCGCAAGAACTTTAGA
*
17987029 TTTGCAAGAA
1 TTCGCAAGAA
17987039 AGTTTCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 8 0.22
16 14 0.38
17 3 0.08
18 12 0.32
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (17 bp):
TTCGCAAGAACTTTAGA
Found at i:17988360 original size:10 final size:9
Alignment explanation
Indices: 17988328--17988401 Score: 59
Period size: 9 Copynumber: 8.7 Consensus size: 9
17988318 TTTTTTTCCT
*
17988328 TTTTTCACA
1 TTTTTCTCA
17988337 TTTTTCTCA
1 TTTTTCTCA
*
17988346 TTTTTCTTA
1 TTTTTCTCA
*
17988355 TCTTT-TCA
1 TTTTTCTCA
17988363 -TTTT-TCA
1 TTTTTCTCA
*
17988370 TTTTT-TGA
1 TTTTTCTCA
17988378 CTTTTT-TCA
1 -TTTTTCTCA
*
17988387 TTTTTTTCA
1 TTTTTCTCA
17988396 TTTTTC
1 TTTTTC
17988402 ATTTTTCACT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
7 6 0.11
8 13 0.24
9 35 0.65
ACGTcount: A:0.12, C:0.16, G:0.01, T:0.70
Consensus pattern (9 bp):
TTTTTCTCA
Found at i:17988372 original size:33 final size:31
Alignment explanation
Indices: 17988335--17988417 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 31
17988325 CCTTTTTTCA
17988335 CATTTTTCTCATTTTTC-TTATCTTTTCATTTTT
1 CATTTTTCTC-TTTTTCATT-T-TTTTCATTTTT
17988368 CATTTTT-TGACTTTTTTCATTTTTTTCATTTTT
1 CATTTTTCT--C-TTTTTCATTTTTTTCATTTTT
*
17988401 CATTTTTCACTTTTTCA
1 CATTTTTCTCTTTTTCA
17988418 CTTCATCCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
31 7 0.16
32 2 0.05
33 25 0.57
34 8 0.18
35 2 0.05
ACGTcount: A:0.13, C:0.17, G:0.01, T:0.69
Consensus pattern (31 bp):
CATTTTTCTCTTTTTCATTTTTTTCATTTTT
Found at i:17988383 original size:17 final size:16
Alignment explanation
Indices: 17988335--17988417 Score: 73
Period size: 17 Copynumber: 5.1 Consensus size: 16
17988325 CCTTTTTTCA
17988335 CATTTTTCT-CATTTTT
1 CATTTTT-TACATTTTT
*
17988351 C-TTATCTTTTCATTTTT
1 CATT-T-TTTACATTTTT
*
17988368 CATTTTTTGACTTTTTT
1 CATTTTTT-ACATTTTT
*
17988385 CATTTTTTTCATTTTT
1 CATTTTTTACATTTTT
*
17988401 CATTTTTCAC-TTTTT
1 CATTTTTTACATTTTT
17988416 CA
1 CA
17988418 CTTCATCCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.16
16 20 0.36
17 25 0.45
18 2 0.04
ACGTcount: A:0.13, C:0.17, G:0.01, T:0.69
Consensus pattern (16 bp):
CATTTTTTACATTTTT
Found at i:17988420 original size:8 final size:7
Alignment explanation
Indices: 17988338--17988417 Score: 61
Period size: 7 Copynumber: 10.0 Consensus size: 7
17988328 TTTTTCACAT
17988338 TTTTCTCA
1 TTTT-TCA
17988346 TTTTTCTTA
1 TTTTTC--A
17988355 TCTTTTCA
1 T-TTTTCA
17988363 TTTTTCA
1 TTTTTCA
*
17988370 TTTTTTGACT
1 -TTTTT--CA
17988380 TTTTTCA
1 TTTTTCA
17988387 TTTTTTTCA
1 --TTTTTCA
17988396 TTTTTCA
1 TTTTTCA
17988403 TTTTTCA
1 TTTTTCA
17988410 CTTTTTCA
1 -TTTTTCA
17988418 CTTCATCCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
7 23 0.38
8 18 0.30
9 14 0.23
10 6 0.10
ACGTcount: A:0.12, C:0.16, G:0.01, T:0.70
Consensus pattern (7 bp):
TTTTTCA
Found at i:17991754 original size:21 final size:22
Alignment explanation
Indices: 17991711--17991753 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17991701 AAATGACAAG
*
17991711 AAAAAAACTATGTATGTGTTTT
1 AAAAAAACTATGTATATGTTTT
17991733 AAAAAAA-TATGTATCATGTTT
1 AAAAAAACTATGTAT-ATGTTT
17991754 ATTCATGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (22 bp):
AAAAAAACTATGTATATGTTTT
Found at i:17993838 original size:12 final size:12
Alignment explanation
Indices: 17993821--17993845 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17993811 TAACACAATA
17993821 AATAAATAAAAT
1 AATAAATAAAAT
17993833 AATAAATAAAAT
1 AATAAATAAAAT
17993845 A
1 A
17993846 CAAAGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:17995215 original size:123 final size:125
Alignment explanation
Indices: 17995009--17995240 Score: 398
Period size: 123 Copynumber: 1.9 Consensus size: 125
17994999 GCATGTTTCT
*
17995009 TTTTTCATTCCTAATGAATCAACTCCAAAACCAAAAAAAAAAAAAATCTAAAAACTAACTCAAAC
1 TTTTTCATTCCTAATGAATCAACTCCAAAACCAAAAAAAAAAAAAATCCAAAAACTAACTCAAAC
17995074 TAAAAACCAATCACTCAAAA-TTTCATCTATTTTTTATTGTTCCCATATTACTTGTTCCTC
66 TAAAAACCAATCACTCAAAATTTTC-TCTATTTTTTATTGTTCCCATATTACTTGTTCCTC
*
17995134 TTTTT-ATTCCTAATGAATCAACTCCAAAACC-AAAAAAAAAAAAATCCAAACACTAACTCAAAC
1 TTTTTCATTCCTAATGAATCAACTCCAAAACCAAAAAAAAAAAAAATCCAAAAACTAACTCAAAC
* *
17995197 TGAAAACCAATCACTCAAAATTTTCTCTCTTTTTTATTGTTCCC
66 TAAAAACCAATCACTCAAAATTTTCTCTATTTTTTATTGTTCCC
17995241 TCTTGAGTTC
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
123 67 0.66
124 30 0.29
125 5 0.05
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (125 bp):
TTTTTCATTCCTAATGAATCAACTCCAAAACCAAAAAAAAAAAAAATCCAAAAACTAACTCAAAC
TAAAAACCAATCACTCAAAATTTTCTCTATTTTTTATTGTTCCCATATTACTTGTTCCTC
Found at i:17995848 original size:44 final size:43
Alignment explanation
Indices: 17995773--17995856 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 43
17995763 TTCTATAGAG
* *
17995773 GTTTTGAAACTTTAGAAATTTAAAATACTCCC-TTTCAATAAAA
1 GTTTTAAAACTTTAGAAATTTAAAAGACTCCCATTT-AATAAAA
* *
17995816 GTTTTAAAACTTTGGAAAATTTAAAAGGCTCCCATTTAATA
1 GTTTTAAAACTTTAG-AAATTTAAAAGACTCCCATTTAATA
17995857 GAAACATTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 13 0.37
44 19 0.54
45 3 0.09
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (43 bp):
GTTTTAAAACTTTAGAAATTTAAAAGACTCCCATTTAATAAAA
Found at i:17995916 original size:49 final size:49
Alignment explanation
Indices: 17995863--17996041 Score: 173
Period size: 49 Copynumber: 3.7 Consensus size: 49
17995853 AATAGAAACA
* * * * * *
17995863 TTGAAACTTTAAAAATTCATAACTAATAAGCTCCTTCTCAACAGAGGTG
1 TTGAAACTTTAAAAATTCACAACCAAAAAACTCATTCTCAACAGAGGCG
* * *
17995912 TTGAAACTTTAAAAATTTACAACCAAAAAACTTATTCTCAACGGAGGCG
1 TTGAAACTTTAAAAATTCACAACCAAAAAACTCATTCTCAACAGAGGCG
* * * * *
17995961 TTGAAACCTTAAAAACTT-GCAACCAAAAAGCTC-TTCCTTAACAGAGGCA
1 TTGAAACTTTAAAAA-TTCACAACCAAAAAACTCATT-CTCAACAGAGGCG
* **
17996010 TTTAAACTTTAAAAATGGACAACCAAAAAACT
1 TTGAAACTTTAAAAATTCACAACCAAAAAACT
17996042 TCTCTTGAGC
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
48 3 0.03
49 101 0.95
50 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (49 bp):
TTGAAACTTTAAAAATTCACAACCAAAAAACTCATTCTCAACAGAGGCG
Found at i:17996510 original size:14 final size:13
Alignment explanation
Indices: 17996483--17996512 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
17996473 ATGCATATAA
17996483 AATGTATGAATGC
1 AATGTATGAATGC
17996496 AATGTATGCAATGC
1 AATGTATG-AATGC
17996510 AAT
1 AAT
17996513 TCATTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTATGAATGC
Found at i:17997229 original size:15 final size:15
Alignment explanation
Indices: 17997209--17997238 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17997199 AGTCCTCTTT
*
17997209 TTTTATTTTTTTTCA
1 TTTTATTATTTTTCA
17997224 TTTTATTATTTTTCA
1 TTTTATTATTTTTCA
17997239 AGCAAAATAT
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:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTATTTTTCA
Found at i:18006775 original size:125 final size:125
Alignment explanation
Indices: 18006553--18006806 Score: 454
Period size: 125 Copynumber: 2.0 Consensus size: 125
18006543 TAAAATAGTA
18006553 AAAAAAAAAAGTCCTTTCATGGATCCTATTTTAAGATTTTTTATACAAAGCGGAAGGCAGCGCTT
1 AAAAAAAAAAGTCCTTTCATGGATCCTATTTTAAGATTTTTTATACAAAGCGGAAGGCAGCGCTT
* *
18006618 TAATTTAGGTTTGGATCCTTAGGGTTTGTTTACATGCTAGATTTAAAGGTTTGACAATCT
66 TAATTTAGGTTTGGATCCTTAAGGTTTATTTACATGCTAGATTTAAAGGTTTGACAATCT
* * * *
18006678 AAAAAAAAAGGTCCTTTCATGGATCCTATTTTAGGATTTTTTATACAAAGCGGAAGGCAGGGTTT
1 AAAAAAAAAAGTCCTTTCATGGATCCTATTTTAAGATTTTTTATACAAAGCGGAAGGCAGCGCTT
18006743 TAATTTAGGTTTGGATCCTTAAGGTTTATTTACATGCTAGATTTAAAGGTTTGACAATCT
66 TAATTTAGGTTTGGATCCTTAAGGTTTATTTACATGCTAGATTTAAAGGTTTGACAATCT
18006803 AAAA
1 AAAA
18006807 GCTCTCAAAT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (125 bp):
AAAAAAAAAAGTCCTTTCATGGATCCTATTTTAAGATTTTTTATACAAAGCGGAAGGCAGCGCTT
TAATTTAGGTTTGGATCCTTAAGGTTTATTTACATGCTAGATTTAAAGGTTTGACAATCT
Found at i:18007790 original size:20 final size:20
Alignment explanation
Indices: 18007738--18007790 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
18007728 CGAAATAATG
*
18007738 TCATACAAAATACTAAAATA
1 TCATACAAAATAATAAAATA
18007758 TCATGGA-AAAATAAT-AAATA
1 TCAT--ACAAAATAATAAAATA
18007778 TCATACAATAATA
1 TCATACAA-AATA
18007791 TCATAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 1 0.04
19 2 0.07
20 17 0.61
21 7 0.25
22 1 0.04
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.26
Consensus pattern (20 bp):
TCATACAAAATAATAAAATA
Found at i:18007856 original size:23 final size:23
Alignment explanation
Indices: 18007830--18007900 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
18007820 AAATGATGCA
18007830 AATAATTCATGCAAAAACATCAC
1 AATAATTCATGCAAAAACATCAC
*
18007853 AATAAAATCATGCCAAAAATCATC-C
1 AAT-AATTCATG-CAAAAA-CATCAC
18007878 AA-AGATATCATGCAAAAACATCA
1 AATA-AT-TCATGCAAAAACATCA
18007901 TAATCATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
23 8 0.20
24 14 0.35
25 14 0.35
26 4 0.10
ACGTcount: A:0.54, C:0.21, G:0.06, T:0.20
Consensus pattern (23 bp):
AATAATTCATGCAAAAACATCAC
Found at i:18007893 original size:13 final size:11
Alignment explanation
Indices: 18007819--18007911 Score: 50
Period size: 13 Copynumber: 8.1 Consensus size: 11
18007809 AAAATAAAAT
*
18007819 AAAATGATGCA
1 AAAATCATGCA
18007830 AATAATTCATGCA
1 AA-AA-TCATGCA
*
18007843 AAAA-CATCACAA
1 AAAATCAT-GC-A
18007855 TAAAATCATGCCA
1 -AAAATCATG-CA
*
18007868 AAAATCATCCA
1 AAAATCATGCA
18007879 AAGATATCATGCA
1 AA-A-ATCATGCA
18007892 AAAA-CAT-C-
1 AAAATCATGCA
*
18007900 ATAATCATGCA
1 AAAATCATGCA
18007911 A
1 A
18007912 GAATAAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 24
0.68 0.06 0.26
Matches are distributed among these distances:
8 3 0.05
9 4 0.06
10 7 0.11
11 9 0.14
12 15 0.23
13 22 0.34
14 4 0.06
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.20
Consensus pattern (11 bp):
AAAATCATGCA
Found at i:18008095 original size:13 final size:13
Alignment explanation
Indices: 18008077--18008128 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
18008067 CACAATTAAT
*
18008077 AAAATAAAAATAG
1 AAAATAAAAATAA
18008090 AAAAT-AAAATAA
1 AAAATAAAAATAA
*
18008102 AAAGATAAAACACAA
1 AAA-ATAAAA-ATAA
18008117 AAAATTAAAAAT
1 AAAA-TAAAAAT
18008129 CAAATCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 9 0.28
13 7 0.22
14 5 0.16
15 11 0.34
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:18008111 original size:18 final size:18
Alignment explanation
Indices: 18008074--18008111 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18008064 AATCACAATT
*
18008074 AATAAAATAAAAATAGAA
1 AATAAAATAAAAAGAGAA
*
18008092 AATAAAATAAAAAGATAA
1 AATAAAATAAAAAGAGAA
18008110 AA
1 AA
18008112 CACAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
AATAAAATAAAAAGAGAA
Found at i:18009296 original size:51 final size:51
Alignment explanation
Indices: 18009220--18009323 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
18009210 GTGTAAATGT
* * *
18009220 ATCTTAAGAATCCATTTTTCAATTATTGCTTAGTGCATGCTGAAAAAGATA
1 ATCTTAAGAATCCACTTTTCAATTATTGCTTAGTACATACTGAAAAAGATA
*
18009271 ATCTTAAGAATCCACTTTTCAATTATTGCTTGGTACATACTGAAAAAGATA
1 ATCTTAAGAATCCACTTTTCAATTATTGCTTAGTACATACTGAAAAAGATA
18009322 AT
1 AT
18009324 GTAAGACAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (51 bp):
ATCTTAAGAATCCACTTTTCAATTATTGCTTAGTACATACTGAAAAAGATA
Found at i:18010204 original size:5 final size:5
Alignment explanation
Indices: 18010196--18010283 Score: 58
Period size: 5 Copynumber: 18.2 Consensus size: 5
18010186 AATCACAATT
* * * *
18010196 AATAA AATAA AAT-A TAGAA AATAA AAT-A AA-AA GATAA AA-AA ATTAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* * * * *
18010242 AATTA AATCA AATCA AATCA AATCAA ATTAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA A
18010284 CATGTGATCG
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
4 10 0.15
5 52 0.80
6 3 0.05
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:18010235 original size:19 final size:19
Alignment explanation
Indices: 18010196--18010235 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18010186 AATCACAATT
*
18010196 AATAAAATAAAATATAGAA
1 AATAAAATAAAAGATAGAA
18010215 AATAAAATAAAAAGATA-AA
1 AATAAAAT-AAAAGATAGAA
18010234 AA
1 AA
18010236 AATTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
AATAAAATAAAAGATAGAA
Found at i:18019394 original size:18 final size:16
Alignment explanation
Indices: 18019367--18019410 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
18019357 TTTAATAAAA
18019367 TATTAATTTTATTTACT
1 TATTAATTTT-TTTACT
18019384 TATTAAATTTTTTTAC-
1 TATT-AATTTTTTTACT
*
18019400 TACTAATTTTT
1 TATTAATTTTT
18019411 AATTAGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 7 0.28
16 3 0.12
17 9 0.36
18 6 0.24
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTAATTTTTTTACT
Found at i:18025834 original size:41 final size:40
Alignment explanation
Indices: 18025789--18026600 Score: 1030
Period size: 41 Copynumber: 20.0 Consensus size: 40
18025779 GTCTAGGAGT
* * *
18025789 ATTTACCTTTCAAAGTTCTGTTACCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCTGTTGCCTCTGTTTAGAGGAGCA
*
18025830 ATTTAC-TTTC-AAGT-TCGTTGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCT-GTTGCCTCTGTTTAGAGGAGCA
* *
18025868 ATTTACTTTGC-AAGTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCTGTTGCCTCTGTTTAGAGGAGCA
* * *
18025907 ATTTATTTTTCCAAGTTTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCTGTTGCCTCTGTTTAGAGGAGCA
* *
18025947 ATTTACTTTTCCAAGTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCTGTTGCCTCTGTTTAGAGGAGCA
*
18025987 ATTTACTTTTCCAAGT-TCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCT-GTTGCCTCTGTTTAGAGGAGCA
*
18026027 ATTTGCTTTTC-AAGT-TCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCT-GTTGCCTCTGTTTAGAGGAGCA
*
18026066 ATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCT-GTTGCCTCTGTTTAGAGGAGCA
*
18026107 ATTTACTTTCCAAAGT-TGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCTGT--TGCCTCTGTTTAGAGGAGCA
* *
18026148 ATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTC-TGTTGCCTCTGTTTAGAGGAGCA
*
18026189 ATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCT-GTTGCCTCTGTTTAGAGGAGCA
* * *
18026230 ATTTACTTTTCCAAAGTCGCGGTGCCTTTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTC-TGTTGCCTCTGTTTAGAGGAGCA
* *
18026272 ATTTACTTTTCAAAGTCGGGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTC-TGTTGCCTCTGTTTAGAGGAGCA
* *
18026313 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTC-TGTTGCCTCTGTTTAGAGGAGCA
* *
18026354 ATTTACTTTTCTAAAGTCGTGGTGCCTCTGTTTAGATGAGCA
1 ATTTACTTTTC-AAAGTC-TGTTGCCTCTGTTTAGAGGAGCA
*
18026396 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTC-TGTTGCCTCTGTTTAGAGGAGCA
* *
18026438 ATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTC-TGTTGCCTCTGTTTAGAGGAGCA
** *
18026479 ATTTACTTCCCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCT-GTTGCCTCTGTTTAGAGGAGCA
* * *
18026520 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCA
1 ATTTACTTTTCAAAGTC-TGTTGCCTCTGTTTAGAGGAGCA
*
18026561 ATTTATTTTTCAAAGTC-GTTGAGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTCAAAGTCTGTT--GCCTCTGTTTAGAGGAGC
18026601 TTTGGTCAAA
Statistics
Matches: 705, Mismatches: 47, Indels: 38
0.89 0.06 0.05
Matches are distributed among these distances:
37 1 0.00
38 28 0.04
39 82 0.12
40 122 0.17
41 354 0.50
42 116 0.16
43 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCTGTTGCCTCTGTTTAGAGGAGCA
Found at i:18026312 original size:124 final size:122
Alignment explanation
Indices: 18025789--18026600 Score: 1103
Period size: 124 Copynumber: 6.7 Consensus size: 122
18025779 GTCTAGGAGT
* * * *
18025789 ATTTACCTTTCAAAGTTC-TGTTACCTCTATTTAGAGGAGCAATTTAC-TTTC-AAGTTCGTTGC
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
* * *
18025851 CTCTATTTAGAGGAGCAATTTACTTTGC-AAGTC-CGTTGCCTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCA
* * * * * *
18025907 ATTTATTTTTCCAAGT-TTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTCCGTTGCC
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
* *
18025971 TCTGTTTAGAGGAGCAATTTACTTTTCC-AAGT-TCGTTGCCTCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCA
*
18026027 ATTTGCTTTTC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTCGTTG
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TTCGTTG
* *
18026089 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCA
*
18026148 ATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTCGTTGC
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TTCGTTGC
*
18026213 CTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGCGGTGCCTTTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCA
* *
18026272 ATTTACTTTTCAAAGTCGGGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTG
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TG
* * *
18026336 CCTCTGTTTAGAGGAGCAATTTACTTTTCTAAAGTCGTGGTGCCTCTGTTTAGATGAGCA
64 CCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCA
*
18026396 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG-TCGTGGT
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--T
* ** *
18026460 GCCTCTGTTTAGAGGAGCAATTTACTTCCCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCA
* * *
18026520 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTTCAAAG-TCGTTGAG
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTT--G
18026584 CCTCTGTTTAGAGGAGC
64 CCTCTGTTTAGAGGAGC
18026601 TTTGGTCAAA
Statistics
Matches: 635, Mismatches: 40, Indels: 33
0.90 0.06 0.05
Matches are distributed among these distances:
117 28 0.04
118 16 0.03
119 74 0.12
120 75 0.12
121 36 0.06
122 7 0.01
123 133 0.21
124 192 0.30
125 74 0.12
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (122 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
TCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCA
Found at i:18026836 original size:9 final size:8
Alignment explanation
Indices: 18026817--18026857 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 8
18026807 TTTCTTCTTC
18026817 TTTTA-TA
1 TTTTATTA
18026824 TTTTATGTA
1 TTTTAT-TA
18026833 TTTTATTA
1 TTTTATTA
18026841 -TTTATTA
1 TTTTATTA
18026848 TTATTATTA
1 TT-TTATTA
18026857 T
1 T
18026858 ATATTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 12 0.40
8 3 0.10
9 15 0.50
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTTATTA
Found at i:18026844 original size:16 final size:16
Alignment explanation
Indices: 18026825--18026969 Score: 72
Period size: 16 Copynumber: 8.8 Consensus size: 16
18026815 TCTTTTATAT
18026825 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
18026841 TTTATTATTATTATTA
1 TTTATTATTATTATTA
*
18026857 TATATTAATATATGTA-TA
1 TTTATT-AT-TAT-TATTA
*
18026875 TCT-TTATTTATTTATTTA
1 TTTATTA-TTA-TTA-TTA
* *
18026893 TTTATTTTCTATTAATA
1 TTTATTAT-TATTATTA
*
18026910 TTTA-TATGTATT-GTA
1 TTTATTAT-TATTATTA
18026925 TTTA-TA-TAGTTATATA
1 TTTATTATTA-TTAT-TA
18026941 TATTATTA-TATTATTA
1 T-TTATTATTATTATTA
18026957 TTTTATTATTATT
1 -TTTATTATTATT
18026970 TTTTTTCTCA
Statistics
Matches: 103, Mismatches: 9, Indels: 33
0.71 0.06 0.23
Matches are distributed among these distances:
13 2 0.02
14 2 0.02
15 12 0.12
16 38 0.37
17 24 0.23
18 19 0.18
19 6 0.06
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:18026846 original size:12 final size:12
Alignment explanation
Indices: 18026826--18026971 Score: 54
Period size: 12 Copynumber: 11.9 Consensus size: 12
18026816 CTTTTATATT
*
18026826 TTATGTATTTTA
1 TTATTTATTTTA
18026838 TTATTTATTATTA
1 TTATTTATT-TTA
*
18026851 TTATTATATATTAA
1 TTATT-TAT-TTTA
* *
18026865 TATATGTATATCT-
1 T-TATTTAT-TTTA
18026878 TTATTTA-TTTA
1 TTATTTATTTTA
18026889 TTTATTTATTTT-
1 -TTATTTATTTTA
* *
18026901 CTATTAATATTTA
1 TTATTTAT-TTTA
* *
18026914 -TATGTATTGTA
1 TTATTTATTTTA
* *
18026925 TT-TATATAGTTA
1 TTATTTAT-TTTA
*
18026937 TATATATTATTATA
1 T-TAT-TTATTTTA
18026951 TTA-TTATTTTA
1 TTATTTATTTTA
18026962 TTA-TTATTTT
1 TTATTTATTTT
18026972 TTTTCTCATT
Statistics
Matches: 101, Mismatches: 19, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
10 2 0.02
11 30 0.30
12 32 0.32
13 15 0.15
14 15 0.15
15 7 0.07
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:18026869 original size:8 final size:7
Alignment explanation
Indices: 18026819--18026968 Score: 52
Period size: 8 Copynumber: 21.6 Consensus size: 7
18026809 TCTTCTTCTT
*
18026819 TTATATT
1 TTATATA
*
18026826 TTATGTA
1 TTATATA
18026833 TT-T-TA
1 TTATATA
*
18026838 TTATTTA
1 TTATATA
18026845 TTATTATTA
1 TTA-TA-TA
18026854 TTATATA
1 TTATATA
18026861 TTAATATA
1 TT-ATATA
*
18026869 TGTATATC
1 T-TATATA
18026877 TT-TAT-
1 TTATATA
*
18026882 TTATTTA
1 TTATATA
*
18026889 TTTATTTA
1 -TTATATA
* *
18026897 TTTTCTA
1 TTATATA
18026904 TTA-ATA
1 TTATATA
18026910 TT-TATA
1 TTATATA
*
18026916 TGTATTGTA
1 T-TA-TATA
18026925 TTTATATA
1 -TTATATA
18026933 GTTATATA
1 -TTATATA
18026941 -TAT-TA
1 TTATATA
18026946 TTATATTA
1 TTATA-TA
18026954 TTAT-T-
1 TTATATA
18026959 TTAT-TA
1 TTATATA
18026965 TTAT
1 TTAT
18026969 TTTTTTTCTC
Statistics
Matches: 113, Mismatches: 12, Indels: 37
0.70 0.07 0.23
Matches are distributed among these distances:
5 13 0.12
6 26 0.23
7 25 0.22
8 37 0.33
9 11 0.10
10 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (7 bp):
TTATATA
Found at i:18026885 original size:56 final size:58
Alignment explanation
Indices: 18026819--18026968 Score: 136
Period size: 56 Copynumber: 2.6 Consensus size: 58
18026809 TCTTCTTCTT
18026819 TTATATTTTATGTATTTTATTATTTATTATTATTATTATATAT-TAATATATGTATAT-C
1 TTATA-TTTAT-TATTTTATTATTTATTATTATTATTATATATGTAATATATGTATATAC
* * * * *
18026877 TT-TATTTATT-TATTTATTTATTT-TCTATTAATATT-TATATGTATTGTATTTATATAG
1 TTATATTTATTAT-TTTA-TTATTTAT-TATTATTATTATATATGTAATATATGTATATAC
* *
18026934 TTATATATATTATTATATTA-TTATT-TTATTATTAT
1 TTATATTTATTATTTTATTATTTATTATTATTATTAT
18026969 TTTTTTTCTC
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
54 1 0.01
55 18 0.24
56 35 0.47
57 8 0.11
58 12 0.16
59 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (58 bp):
TTATATTTATTATTTTATTATTTATTATTATTATTATATATGTAATATATGTATATAC
Found at i:18027393 original size:25 final size:25
Alignment explanation
Indices: 18027363--18027416 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
18027353 CTGAGAGTGA
18027363 GAAAAAATTTT-TAGAAATTTTTGG
1 GAAAAAATTTTCTAGAAATTTTTGG
* *
18027387 CGAAAAATTTTTCTGGAAATTTTTGG
1 -GAAAAAATTTTCTAGAAATTTTTGG
18027413 GAAA
1 GAAA
18027417 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTTTGG
Found at i:18027976 original size:11 final size:11
Alignment explanation
Indices: 18027960--18028021 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
18027950 TTAATATTCT
*
18027960 TTTTATCTTTA
1 TTTTATTTTTA
18027971 TTTTATTTTTA
1 TTTTATTTTTA
18027982 TTTT-TGTTTTA
1 TTTTAT-TTTTA
* *
18027993 CTTT-TCTTTA
1 TTTTATTTTTA
18028003 -TTTATTTTTA
1 TTTTATTTTTA
18028013 -TTTATTTTT
1 TTTTATTTTT
18028022 TTTATTATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
9 3 0.07
10 19 0.42
11 23 0.51
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:18027980 original size:6 final size:6
Alignment explanation
Indices: 18027959--18028037 Score: 56
Period size: 6 Copynumber: 12.7 Consensus size: 6
18027949 TTTAATATTC
* *
18027959 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTCT- TTATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TT-TTTA
*
18028007 TTTTTA TTTATTT TTTTTA TTATTCTA TTTT
1 TTTTTA TTT-TTA TTTTTA TT-TT-TA TTTT
18028038 CCTTAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
5 8 0.14
6 29 0.50
7 16 0.28
8 5 0.09
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:18028037 original size:13 final size:13
Alignment explanation
Indices: 18027967--18028037 Score: 53
Period size: 14 Copynumber: 5.6 Consensus size: 13
18027957 TCTTTTTATC
18027967 TTTATTTTA-TT-
1 TTTATTTTATTTA
*
18027978 TTTATTTT-TGT-
1 TTTATTTTATTTA
*
18027989 TTTACTTTTCTTTA
1 TTTA-TTTTATTTA
18028003 TTTATTTTTATTTA
1 TTTA-TTTTATTTA
*
18028017 TTTTTTTTA-TTA
1 TTTATTTTATTTA
18028029 TTCTATTTT
1 TT-TATTTT
18028038 CCTTAAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
11 13 0.27
12 9 0.18
13 12 0.24
14 15 0.31
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.79
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:18028134 original size:60 final size:59
Alignment explanation
Indices: 18028047--18028350 Score: 330
Period size: 59 Copynumber: 5.0 Consensus size: 59
18028037 TCCTTAAATA
*
18028047 AAAATCAAAAATTTCAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATC-AAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTT
18028107 AAAGATCAAAATTTCCAAAAAAATATTTTTA-GAGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAA-ATCAAAATTTCCAAAAAAATATTTTTAGGA-AAAAGTTGAAAGTATCAATTTTCCTT
* * *
18028167 AAAAAAATAAATAAATAAATTTTCAAAGAAATATTTTT-GGAAAAAAGTTGAAAGTATCAATTTT
1 ------A-AAAT-CA-AAATTTCCAAAAAAATATTTTTAGG-AAAAAGTTGAAAGTATCAATTTT
18028231 CCTT
56 CCTT
* * * *
18028235 AGAAAT-AAATTTTCAAAAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATTAATTTTCCTT
1 A-AAATCAAAATTTCCAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTT
* * *
18028294 GAAAATCGAAATTTCC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 -AAAATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCC
18028351 CTACACAAAA
Statistics
Matches: 209, Mismatches: 17, Indels: 37
0.79 0.06 0.14
Matches are distributed among these distances:
58 2 0.01
59 83 0.40
60 60 0.29
61 5 0.02
62 5 0.02
66 3 0.01
67 3 0.01
68 47 0.22
69 1 0.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (59 bp):
AAAATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:18028188 original size:68 final size:70
Alignment explanation
Indices: 18028115--18028244 Score: 210
Period size: 68 Copynumber: 1.9 Consensus size: 70
18028105 TTAAAGATCA
*
18028115 AAATTTCCAAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTA-AAA-AAATAAA
1 AAATTTCCAAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATAAA
18028178 TAAAT
66 TAAAT
* * *
18028183 AAATTTTCAAAGAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 AAATTTCCAAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
18028245 TTTCAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
68 49 0.88
69 3 0.05
70 4 0.07
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (70 bp):
AAATTTCCAAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATAAA
TAAAT
Found at i:18028203 original size:128 final size:124
Alignment explanation
Indices: 18028033--18028350 Score: 377
Period size: 127 Copynumber: 2.6 Consensus size: 124
18028023 TTATTATTCT
* *
18028033 ATTTTCCTTAAATAAAAATCAAAAATTTCAAAAAAAATATTTTTAGG-AAAAAGTTGAAAGTATC
1 ATTTTCCTTAAAAAAAAATAAAAAATTTCAAAAAAAATATTTTT-GGAAAAAAGTTGAAAGTATC
* *
18028097 AATTTTCCTTA-AAGATCAAAATTTCCAAAAAAATATTTTT-AGAGAAAAGTTGAAAGTATCA
65 AATTTTCCTTAGAA-AT-AAAATTTCAAAAAAAAGATTTTTGAG-GAAAAGTTGAAAGTATCA
*
18028158 ATTTTCCTTAAAAAAATAAATAAATAAATTTTC-AAAGAAATATTTTTGGAAAAAAGTTGAAAGT
1 ATTTTCCTT-AAAAAA-AAATAAA-AAA-TTTCAAAAAAAATATTTTTGGAAAAAAGTTGAAAGT
* *
18028222 ATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATTA
62 ATCAATTTTCCTTAGAAATAAAATTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
* ** * **
18028285 ATTTTCCTT----GAAAAT-CGAAATTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAAAAAATAAAAAATTTCAAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCA
18028344 ATTTTCC
66 ATTTTCC
18028351 CTACACAAAA
Statistics
Matches: 172, Mismatches: 14, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
118 42 0.24
119 3 0.02
121 4 0.02
122 1 0.01
125 9 0.05
126 5 0.03
127 54 0.31
128 48 0.28
129 6 0.03
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (124 bp):
ATTTTCCTTAAAAAAAAATAAAAAATTTCAAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCA
ATTTTCCTTAGAAATAAAATTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:18032973 original size:30 final size:30
Alignment explanation
Indices: 18032932--18033036 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 30
18032922 TATATTTTTA
* *
18032932 TTATATTTAAATAAGTCCTCAACTTTTAAT
1 TTATATCTAAATAAGTCCTTAACTTTTAAT
* *
18032962 TTGTATCTAAATAA-ACTCTTAACTTTTAAT
1 TTATATCTAAATAAGTC-CTTAACTTTTAAT
** *
18032992 TTATATGAAAATAATTCCTTAACTTTTAAT
1 TTATATCTAAATAAGTCCTTAACTTTTAAT
*
18033022 TTATACCTAAATAAG
1 TTATATCTAAATAAG
18033037 CTATTAAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
29 1 0.02
30 59 0.97
31 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (30 bp):
TTATATCTAAATAAGTCCTTAACTTTTAAT
Found at i:18040284 original size:11 final size:11
Alignment explanation
Indices: 18040268--18040293 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18040258 TAGACTTAGA
18040268 AAAATAATAAC
1 AAAATAATAAC
18040279 AAAATAATAAC
1 AAAATAATAAC
18040290 AAAA
1 AAAA
18040294 AACTAAACTA
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:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:18043337 original size:17 final size:18
Alignment explanation
Indices: 18043317--18043351 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18043307 TTTAATAAAA
18043317 TATT-AATTTTATTTACT
1 TATTAAATTTTATTTACT
*
18043334 TATTAAATTTTTTTTACT
1 TATTAAATTTTATTTACT
18043352 GCTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTAAATTTTATTTACT
Found at i:18044409 original size:2 final size:2
Alignment explanation
Indices: 18044402--18044560 Score: 144
Period size: 2 Copynumber: 79.5 Consensus size: 2
18044392 CCAATTGGCT
* *
18044402 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
18044444 TA GA TA TA GA TA TA TGA TA AA TA GA TA TA GT- TT TA TGA -A TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA -TA TA TA T-A TA TA
* *
18044485 T- TG TA TA TA TA TA TA TA TA TA TA TA TA TC 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
* * * * *
18044526 TA TA GA TA TA GA TA TA GA TA TA GA TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18044561 GATAAAATAG
Statistics
Matches: 125, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
1 3 0.02
2 118 0.94
3 4 0.03
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (2 bp):
TA
Done.