Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015155.1 Kokia drynarioides strain JFW-HI SEQ_130199, 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: 127626
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Warning! 50 characters in sequence are not A, C, G, or T
Found at i:4383 original size:20 final size:21
Alignment explanation
Indices: 4358--4400 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4348 TACTTACTAC
4358 TACTAAC-AACAAAATAAAAT
1 TACTAACTAACAAAATAAAAT
*
4378 TACTAACTAACAAAATTAAAT
1 TACTAACTAACAAAATAAAAT
4399 TA
1 TA
4401 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (21 bp):
TACTAACTAACAAAATAAAAT
Found at i:13331 original size:27 final size:26
Alignment explanation
Indices: 13276--13498 Score: 203
Period size: 27 Copynumber: 8.3 Consensus size: 26
13266 AACAAATTAG
* * *
13276 GAAAGAATAACCTTTGTGGGGAATCAT
1 GAAAGAATAGCCTTTGTGCGAAAT-AT
* *
13303 GAAAGAATAGCCCTCGTAGCGAAATAT
1 GAAAGAATAGCCTTTGT-GCGAAATAT
*
13330 GAAAGAATAACCTTTGTGTCGAAATAT
1 GAAAGAATAGCCTTTGTG-CGAAATAT
13357 GAAAGAATAGCCTTTGTGACGAAATAT
1 GAAAGAATAGCCTTTGTG-CGAAATAT
* * * *
13384 GATAGAATAGCCTTTGTGAGGAATCAC
1 GAAAGAATAGCCTTTGTGCGAAAT-AT
* * *
13411 GAAAGAATAGTCTCTGTGGTGAAATAT
1 GAAAGAATAGCCTTTGT-GCGAAATAT
** *
13438 GAAAGAATAATCTTTGTGGTGAAATAT
1 GAAAGAATAGCCTTTGT-GCGAAATAT
* **
13465 GAAAGCATAGCCTTTGTGGCGAACCAT
1 GAAAGAATAGCCTTTGT-GCGAAATAT
13492 GAAAGAA
1 GAAAGAA
13499 CGGCTTTTGT
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
26 5 0.03
27 148 0.91
28 10 0.06
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (26 bp):
GAAAGAATAGCCTTTGTGCGAAATAT
Found at i:13483 original size:54 final size:54
Alignment explanation
Indices: 13276--13498 Score: 254
Period size: 54 Copynumber: 4.1 Consensus size: 54
13266 AACAAATTAG
* * * *
13276 GAAAGAATAACCTTTGTGGGGAATCATGAAAGAATAGCCCTCGTAGCGAAATAT
1 GAAAGAATAACCTTTGTGGGAAATCATGAAAGAATAGCCTTTGTGGCGAAATAT
* *
13330 GAAAGAATAACCTTTGTGTCGAAAT-ATGAAAGAATAGCCTTTGTGACGAAATAT
1 GAAAGAATAACCTTTGTG-GGAAATCATGAAAGAATAGCCTTTGTGGCGAAATAT
* * * * * *
13384 GATAGAATAGCCTTTGTGAGG-AATCACGAAAGAATAGTCTCTGTGGTGAAATAT
1 GAAAGAATAACCTTTGTG-GGAAATCATGAAAGAATAGCCTTTGTGGCGAAATAT
* * **
13438 GAAAGAATAATCTTTGTGGTGAAAT-ATGAAAGCATAGCCTTTGTGGCGAACCAT
1 GAAAGAATAACCTTTGTGG-GAAATCATGAAAGAATAGCCTTTGTGGCGAAATAT
13492 GAAAGAA
1 GAAAGAA
13499 CGGCTTTTGT
Statistics
Matches: 140, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 4 0.03
54 129 0.92
55 7 0.05
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (54 bp):
GAAAGAATAACCTTTGTGGGAAATCATGAAAGAATAGCCTTTGTGGCGAAATAT
Found at i:13496 original size:81 final size:80
Alignment explanation
Indices: 13276--13498 Score: 243
Period size: 81 Copynumber: 2.8 Consensus size: 80
13266 AACAAATTAG
* * * * *
13276 GAAAGAATAACCTTTGTGGGGAATCATGAAAGAATAGCCCTCGTAGCGAAATATGAAAGAATAAC
1 GAAAGAATAACCTTTGTGGGAAAT-ATGAAAGAATAGCCTTTGTGGCGAAACATGAAAGAATAAC
*
13341 CTTTGTGTCGAAATAT
65 CTCTGTGTCGAAATAT
* * * * * *
13357 GAAAGAATAGCCTTTGTGACGAAATATGATAGAATAGCCTTTGTGAG-GAATCACGAAAGAATAG
1 GAAAGAATAACCTTTGTG-GGAAATATGAAAGAATAGCCTTTGTG-GCGAAACATGAAAGAATAA
*
13421 TCTCTGTGGT-GAAATAT
64 CCTCTGT-GTCGAAATAT
* * *
13438 GAAAGAATAATCTTTGTGGTGAAATATGAAAGCATAGCCTTTGTGGCGAACCATGAAAGAA
1 GAAAGAATAACCTTTGTGG-GAAATATGAAAGAATAGCCTTTGTGGCGAAACATGAAAGAA
13499 CGGCTTTTGT
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
80 1 0.01
81 109 0.93
82 7 0.06
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (80 bp):
GAAAGAATAACCTTTGTGGGAAATATGAAAGAATAGCCTTTGTGGCGAAACATGAAAGAATAACC
TCTGTGTCGAAATAT
Found at i:15359 original size:24 final size:26
Alignment explanation
Indices: 15332--15379 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
15322 AGAGAAATGT
15332 AAATG-TGATATATGA-A-ATTATGAG
1 AAATGATGA-ATATGAGAGATTATGAG
15356 AAATGATGAATATGAGAGATTATG
1 AAATGATGAATATGAGAGATTATG
15380 TCCATGTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATGAATATGAGAGATTATGAG
Found at i:15480 original size:23 final size:23
Alignment explanation
Indices: 15446--15489 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
15436 TAGCGCGCTT
15446 ACTGTTCAGCACTGT-GTGTGCAA
1 ACTGTTCAGCACT-TCGTGTGCAA
15469 ACTGTTTC-GCACTTCGTGTGC
1 ACTG-TTCAGCACTTCGTGTGC
15490 CTACTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.05
23 15 0.79
24 3 0.16
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (23 bp):
ACTGTTCAGCACTTCGTGTGCAA
Found at i:16973 original size:34 final size:30
Alignment explanation
Indices: 16910--16983 Score: 85
Period size: 34 Copynumber: 2.3 Consensus size: 30
16900 CAAAAAGAAA
16910 CTACTACTTTTTTTTTTTTTTTACTATTTTG
1 CTACTA-TTTTTTTTTTTTTTTACTATTTTG
* *
16941 TTTCTATTTTTTTTATTGTTTTCTCACTATTTTG
1 CTACTATTTTTTTT-TT-TTTT-T-ACTATTTTG
16975 CTACTATTT
1 CTACTATTT
16984 CACTACTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 8 0.23
31 6 0.17
32 4 0.11
33 1 0.03
34 16 0.46
ACGTcount: A:0.14, C:0.14, G:0.04, T:0.69
Consensus pattern (30 bp):
CTACTATTTTTTTTTTTTTTTACTATTTTG
Found at i:17010 original size:14 final size:14
Alignment explanation
Indices: 16993--17027 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16983 TCACTACTAC
16993 ATTGTTACCATTTT
1 ATTGTTACCATTTT
**
17007 ATTGTTATTATTTT
1 ATTGTTACCATTTT
17021 ATTGTTA
1 ATTGTTA
17028 TTTTGTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.63
Consensus pattern (14 bp):
ATTGTTACCATTTT
Found at i:17028 original size:14 final size:14
Alignment explanation
Indices: 17002--17029 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16992 CATTGTTACC
17002 ATTTTATTGTTATT
1 ATTTTATTGTTATT
17016 ATTTTATTGTTATT
1 ATTTTATTGTTATT
17030 TTGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
ATTTTATTGTTATT
Found at i:17184 original size:29 final size:30
Alignment explanation
Indices: 17121--17190 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
17111 ATCTCAAAAC
17121 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTATGATTT-ATGTGCAATTG
* * *
17152 TATACATGAACTTTGATTT-TGTGTAATTT
1 TATACATGAACTATGATTTATGTGCAATTG
17181 TATACATGAA
1 TATACATGAA
17191 ATTTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 18 0.50
31 18 0.50
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (30 bp):
TATACATGAACTATGATTTATGTGCAATTG
Found at i:20734 original size:16 final size:16
Alignment explanation
Indices: 20713--20746 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20703 ACTACCCAGC
20713 ATTATCAAAATAAATT
1 ATTATCAAAATAAATT
* *
20729 ATTATCCAAATGAATT
1 ATTATCAAAATAAATT
20745 AT
1 AT
20747 CTTGATTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTATCAAAATAAATT
Found at i:26143 original size:22 final size:22
Alignment explanation
Indices: 26115--26160 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
26105 AATGGGAAAA
26115 AAAAAATTAAAATATCAAATTG
1 AAAAAATTAAAATATCAAATTG
26137 AAAAAATTAAAATATCAAATTG
1 AAAAAATTAAAATATCAAATTG
26159 AA
1 AA
26161 CATTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAAATTAAAATATCAAATTG
Found at i:28021 original size:17 final size:19
Alignment explanation
Indices: 27999--28038 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
27989 TCATATTCAT
27999 GAAAAAA-TAAATTCT-AA
1 GAAAAAATTAAATTCTAAA
28016 GAAAAAATTAAATTCTAAA
1 GAAAAAATTAAATTCTAAA
28035 GAAA
1 GAAA
28039 GTAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
GAAAAAATTAAATTCTAAA
Found at i:38892 original size:33 final size:34
Alignment explanation
Indices: 38821--38888 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
38811 AACTATTTTC
* *
38821 TTATTTTAATTTCGTATATATTGCATTTATGTTA
1 TTATTTTAATTTCGTATATATTACATTTATATTA
38855 TTATTATTAATTTCG-A-ATATTACATTT-TATTA
1 TTATT-TTAATTTCGTATATATTACATTTATATTA
38887 TT
1 TT
38889 TATTGTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 6 0.19
33 10 0.32
34 6 0.19
35 9 0.29
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (34 bp):
TTATTTTAATTTCGTATATATTACATTTATATTA
Found at i:51836 original size:53 final size:53
Alignment explanation
Indices: 51756--51862 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
51746 TATTAGGAGA
51756 TTAAACCTGTACATATGCTGTGATATATAATTACTCTTTTCCTCACTTTTTGG
1 TTAAACCTGTACATATGCTGTGATATATAATTACTCTTTTCCTCACTTTTTGG
51809 TTAAACCTGTACATATGCTGTGATATATAATTACTCTTTTCCTCACTTTTTGG
1 TTAAACCTGTACATATGCTGTGATATATAATTACTCTTTTCCTCACTTTTTGG
51862 T
1 T
51863 CTGTTTTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (53 bp):
TTAAACCTGTACATATGCTGTGATATATAATTACTCTTTTCCTCACTTTTTGG
Found at i:54058 original size:18 final size:20
Alignment explanation
Indices: 54035--54075 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
54025 CTCAAGTTCA
*
54035 TTTTT-CAAGTTTTTTT-TT
1 TTTTTCCAAATTTTTTTATT
54053 TTTTTCCAAATTTTTTTATT
1 TTTTTCCAAATTTTTTTATT
54073 TTT
1 TTT
54076 CAGATAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 10 0.50
20 5 0.25
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTCCAAATTTTTTTATT
Found at i:59470 original size:20 final size:20
Alignment explanation
Indices: 59441--59479 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59431 TACTAATTTA
59441 AAATTATAAAAAAATTAAGT
1 AAATTATAAAAAAATTAAGT
*
59461 AAATTGTAAAAAAATTAAG
1 AAATTATAAAAAAATTAAG
59480 GGTCTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
AAATTATAAAAAAATTAAGT
Found at i:64591 original size:42 final size:42
Alignment explanation
Indices: 64540--64627 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
64530 AAAATTTCTT
* *
64540 GAAATTGTTGAAGAGTTGGGAACTGGATAGAATGTAAAAGTG
1 GAAATTGTTGAAGAGGTGGGAACTAGATAGAATGTAAAAGTG
*
64582 GAAATTGTTGAAGAGGTGGGAACTAGATGGAATGTAAAAGTG
1 GAAATTGTTGAAGAGGTGGGAACTAGATAGAATGTAAAAGTG
64624 GAAA
1 GAAA
64628 AACATCATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.02, G:0.34, T:0.24
Consensus pattern (42 bp):
GAAATTGTTGAAGAGGTGGGAACTAGATAGAATGTAAAAGTG
Found at i:71482 original size:32 final size:34
Alignment explanation
Indices: 71433--71496 Score: 80
Period size: 32 Copynumber: 1.9 Consensus size: 34
71423 AATTTTTATG
*
71433 AAATATTTTCAGAAAATTTAT-CAAA-TAACATA
1 AAATATTTTCAGAAAATTCATCCAAAGTAACATA
*
71465 AAATATTTTACA-CAAATTCATCCAAAGTAACA
1 AAATATTTT-CAGAAAATTCATCCAAAGTAACA
71497 AATGGCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 16 0.59
33 6 0.22
34 5 0.19
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (34 bp):
AAATATTTTCAGAAAATTCATCCAAAGTAACATA
Found at i:81073 original size:59 final size:59
Alignment explanation
Indices: 81002--81113 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
80992 CACTTTTTCT
* *
81002 TAATTTGGTATTTAAACTTT-ATAT-TTTTTCTTAAATTGATACTTAATCTTTTTGGAGTC
1 TAATTTGGTATTTAAA-TTTGAT-TCTTTTTCCTAAATTGATACTCAATCTTTTTGGAGTC
* *
81061 TAATTTGGTATTTGAATTTGATTCTTTTTCCTAATTTGATACTCAATCTTTTT
1 TAATTTGGTATTTAAATTTGATTCTTTTTCCTAAATTGATACTCAATCTTTTT
81114 TTTGTTCGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
58 4 0.09
59 43 0.91
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (59 bp):
TAATTTGGTATTTAAATTTGATTCTTTTTCCTAAATTGATACTCAATCTTTTTGGAGTC
Found at i:81951 original size:19 final size:20
Alignment explanation
Indices: 81927--81964 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
81917 AATTTTGTAT
*
81927 TTTGAT-TTTTTTTATTTAA
1 TTTGATATTTTTTAATTTAA
81946 TTTGATATTTTTTAATTTA
1 TTTGATATTTTTTAATTTA
81965 GTATCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTGATATTTTTTAATTTAA
Found at i:82417 original size:60 final size:61
Alignment explanation
Indices: 82320--82503 Score: 149
Period size: 60 Copynumber: 3.1 Consensus size: 61
82310 CGTTTGACTA
** * * * * *
82320 ATACCAAATTGAA--CAAAAAAAGATTAGGTATCAAATTAGGAAAAAGA-GTCAAGTTCAAG
1 ATACCAAATTGAACCCCCAAAAAGATTAAGTACCAAATTAGAAAAAAAATGTCAAATT-AAG
* *
82379 -TACCAAATTGAACCCCCAAAAAGTTTAAGTACCAAATTAGAAAAAAAATGTCAAATTTAG
1 ATACCAAATTGAACCCCCAAAAAGATTAAGTACCAAATTAGAAAAAAAATGTCAAATTAAG
* *
82439 ATACCAAATTG-A---GC-AAAAGAATTTAAGTACTAAATT--AAAAAAAATGTCAAATTTAA-
1 ATACCAAATTGAACCCCCAAAAAG-A-TTAAGTACCAAATTAGAAAAAAAATGTCAAA-TTAAG
82495 ATACCAAAT
1 ATACCAAAT
82504 ATTATATTAA
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
56 29 0.28
57 4 0.04
58 25 0.24
60 30 0.29
61 17 0.16
ACGTcount: A:0.53, C:0.12, G:0.11, T:0.23
Consensus pattern (61 bp):
ATACCAAATTGAACCCCCAAAAAGATTAAGTACCAAATTAGAAAAAAAATGTCAAATTAAG
Found at i:83671 original size:23 final size:24
Alignment explanation
Indices: 83645--83689 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
83635 GAGAAATTGA
83645 AATAT-GAA-AAAACATAAAATTTG
1 AATATCGAATAAAA-ATAAAATTTG
*
83668 AATATCGAATAATAATAAAATT
1 AATATCGAATAAAAATAAAATT
83690 ATTTTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 11 0.58
25 3 0.16
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (24 bp):
AATATCGAATAAAAATAAAATTTG
Found at i:86564 original size:58 final size:58
Alignment explanation
Indices: 86502--86674 Score: 136
Period size: 59 Copynumber: 3.0 Consensus size: 58
86492 GGGTGAAATA
* *
86502 GTAATTTTGGGAAAATTT-GGGGTT-AAAAT-GGATTTTTTCGATATTCGGGGGTAAAAGG
1 GTAATTTT--GAAAATTTCGAGGTTGAAAATGGGA-TTTTTCGAAATTCGGGGGTAAAAGG
* * * **
86560 GTAATTTTGAGAGTTTCGAGGTTGAAAATGGGATTTTTGGAAATTCGGGGGTAAAAAT
1 GTAATTTTGAAAATTTCGAGGTTGAAAATGGGATTTTTCGAAATTCGGGGGTAAAAGG
* * * * ** ** * *
86618 GAAATTTTTGGAAGTTTTGAGGTCAAAAATGGGATTTTGGGAAGTTCAGGGGTAAAA
1 GTAA-TTTTGAAAATTTCGAGGTTGAAAATGGGATTTTTCGAAATTCGGGGGTAAAA
86675 ATGGATTTTT
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
56 6 0.06
57 5 0.05
58 37 0.39
59 47 0.49
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.34
Consensus pattern (58 bp):
GTAATTTTGAAAATTTCGAGGTTGAAAATGGGATTTTTCGAAATTCGGGGGTAAAAGG
Found at i:86640 original size:59 final size:59
Alignment explanation
Indices: 86517--86733 Score: 212
Period size: 58 Copynumber: 3.7 Consensus size: 59
86507 TTTGGGAAAA
* * * ** *
86517 TTTGGGGTT-AAAAT-GGATTTTTTCGATATTCGGGGGTAAAAGGGTAA-TTTT-GAGAGT
1 TTTGAGGTTAAAAATGGGA-TTTTTGGAAATTCGGGGGTAAAAATGAAATTTTTGGA-AGT
* *
86574 TTCGAGGTTGAAAATGGGATTTTTGGAAATTCGGGGGTAAAAATGAAATTTTTGGAAGT
1 TTTGAGGTTAAAAATGGGATTTTTGGAAATTCGGGGGTAAAAATGAAATTTTTGGAAGT
* * * * * *
86633 TTTGAGGTCAAAAATGGGATTTTGGGAAGTTCAGGGGTAAAAATGGATTTTTTGGAA-T
1 TTTGAGGTTAAAAATGGGATTTTTGGAAATTCGGGGGTAAAAATGAAATTTTTGGAAGT
* * *
86691 TTT-AGGGTTAAAAATGGGTTTTTTGGAAGTTTGGGGGTAAAAA
1 TTTGA-GGTTAAAAATGGGATTTTTGGAAATTCGGGGGTAAAAA
86734 CATAATTTTT
Statistics
Matches: 135, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
57 8 0.06
58 66 0.49
59 59 0.44
60 2 0.01
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.36
Consensus pattern (59 bp):
TTTGAGGTTAAAAATGGGATTTTTGGAAATTCGGGGGTAAAAATGAAATTTTTGGAAGT
Found at i:86705 original size:58 final size:59
Alignment explanation
Indices: 86545--86733 Score: 215
Period size: 59 Copynumber: 3.2 Consensus size: 59
86535 TTTTTCGATA
** * * * *
86545 TTCGGGGGTAAAAGGGTAA-TTTT-GAGAGTTTCGAGGTTGAAAATGGGATTTTTGGAAA
1 TTCGGGGGTAAAAATGAAATTTTTGGA-AGTTTTGAGGTTAAAAATGGGATTTTTGGAAG
* *
86603 TTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGAGGTCAAAAATGGGATTTTGGGAAG
1 TTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGAGGTTAAAAATGGGATTTTTGGAAG
* * * *
86662 TTCAGGGGTAAAAATGGATTTTTTGGAA-TTTT-AGGGTTAAAAATGGGTTTTTTGGAAG
1 TTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGA-GGTTAAAAATGGGATTTTTGGAAG
*
86720 TTTGGGGGTAAAAA
1 TTCGGGGGTAAAAA
86734 CATAATTTTT
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
57 1 0.01
58 53 0.47
59 56 0.50
60 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.32, T:0.34
Consensus pattern (59 bp):
TTCGGGGGTAAAAATGAAATTTTTGGAAGTTTTGAGGTTAAAAATGGGATTTTTGGAAG
Found at i:86731 original size:29 final size:29
Alignment explanation
Indices: 86584--86733 Score: 158
Period size: 29 Copynumber: 5.1 Consensus size: 29
86574 TTCGAGGTTG
* **
86584 AAAATGGGATTTTTGGAAATTCGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTAGGGGTA
** * *
86613 AAAATGAAATTTTTGGAAGTTTTGAGGTCA
1 AAAATGGGATTTTTGGAAGTTTAGGGGT-A
* *
86643 AAAATGGGATTTTGGGAAGTTCAGGGGTA
1 AAAATGGGATTTTTGGAAGTTTAGGGGTA
* *
86672 AAAAT-GGATTTTTTGGAATTTTAGGGTTA
1 AAAATGGGA-TTTTTGGAAGTTTAGGGGTA
* *
86701 AAAATGGGTTTTTTGGAAGTTTGGGGGTA
1 AAAATGGGATTTTTGGAAGTTTAGGGGTA
86730 AAAA
1 AAAA
86734 CATAATTTTT
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.03
29 70 0.71
30 25 0.26
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.35
Consensus pattern (29 bp):
AAAATGGGATTTTTGGAAGTTTAGGGGTA
Found at i:88620 original size:17 final size:16
Alignment explanation
Indices: 88594--88634 Score: 73
Period size: 17 Copynumber: 2.5 Consensus size: 16
88584 TTTAATTTTG
88594 AAATTAAATTTAAAAT
1 AAATTAAATTTAAAAT
88610 AAATCTAAATTTAAAAT
1 AAAT-TAAATTTAAAAT
88627 AAATTAAA
1 AAATTAAA
88635 AATGGGGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAATTTAAAAT
Found at i:89548 original size:181 final size:181
Alignment explanation
Indices: 89236--89606 Score: 607
Period size: 181 Copynumber: 2.0 Consensus size: 181
89226 CATCAGGAGA
*
89236 ACGAATTTGGTTCACTTTTCAGTATCTCATCAGGAAGCTAACCGTTTATTGCTTCGACCTACTTC
1 ACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTATTGCTTCGACCTACTTC
* ** *
89301 TAAGTGTCTCACCAGGAAGCTGAGATTCGAAGCTTTGTTCATACCGAGCGTGGGTTTGATTTGGT
66 TAAGTGTCTCACCAGGAAGCTGAGATTCGAAGCTTTGCTCATACCGAGCGTAAGTTTGACTTGGT
*
89366 CTTCTTCTCAGTATCTCATCAGGAAGATGACCGCGTCGCTTGTTTCAATCC
131 CTTCTTCTCAGTATCTCATCAGGAAGATGACCACGTCGCTTGTTTCAATCC
* *
89417 ACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAATCGTTTATTGCTTCGACCTGCTTC
1 ACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTATTGCTTCGACCTACTTC
* *
89482 TCAGTGTCTCACCAGGAAGCTGGGATTCGAAGCTTTGCTCATACCGAGCGTAAGTTTGACTTGGT
66 TAAGTGTCTCACCAGGAAGCTGAGATTCGAAGCTTTGCTCATACCGAGCGTAAGTTTGACTTGGT
* ** *
89547 CTTCTTCTCATTATCTCATTTGGAAGATGACTACGTCGCTTGTTTCAATCC
131 CTTCTTCTCAGTATCTCATCAGGAAGATGACCACGTCGCTTGTTTCAATCC
*
89598 GCGAATTTG
1 ACGAATTTG
89607 TATCTCATCA
Statistics
Matches: 175, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
181 175 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (181 bp):
ACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTATTGCTTCGACCTACTTC
TAAGTGTCTCACCAGGAAGCTGAGATTCGAAGCTTTGCTCATACCGAGCGTAAGTTTGACTTGGT
CTTCTTCTCAGTATCTCATCAGGAAGATGACCACGTCGCTTGTTTCAATCC
Found at i:89769 original size:205 final size:205
Alignment explanation
Indices: 89417--89796 Score: 652
Period size: 205 Copynumber: 1.9 Consensus size: 205
89407 GTTTCAATCC
* *
89417 ACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAATCGTTTATTGCTTCGACCTGCTTC
1 ACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTAATGCTTCGACCTGCTTC
89482 TCAGTGTCTCACCAGGAAGCTGGGATTCGAAGCTTTGCTCATACCGAGCGTAAGTTTGACTTGGT
66 TCAGTGTCTCACCAGGAAGCTGGGATTCGAAGCTTTGCTCATACCGAGCGTAAGTTTGACTTGGT
* *** *
89547 CTTCTTCTCATTATCTCATTTGGAAGATGACTACGTCGCTTGTTTCAATCCGCGAATTTGTATCT
131 CTTCTTCTCAGTATCTCATCAAGAAGATGACCACGTCGCTTGTTTCAATCCGCGAATTTGTATCT
89612 CATCAGGAGA
196 CATCAGGAGA
* *
89622 ACGAATTTGGTTCACTTCTCAGTATCTTATCAGGAAGTTAACCGTTTAATGCTTCGACCTGCTTC
1 ACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTAATGCTTCGACCTGCTTC
* *
89687 TCGGTGTCTCACCAGGAAGCTGGGATTCGAAGCTTTGCTCATACCGAGCGTGAGTTTGACTTGGT
66 TCAGTGTCTCACCAGGAAGCTGGGATTCGAAGCTTTGCTCATACCGAGCGTAAGTTTGACTTGGT
*
89752 CTTCTTCTCAGTATCTCATCAAGAAGATGACCGCGTCGCTTGTTT
131 CTTCTTCTCAGTATCTCATCAAGAAGATGACCACGTCGCTTGTTT
89797 GTGAATAATC
Statistics
Matches: 163, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
205 163 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (205 bp):
ACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTAATGCTTCGACCTGCTTC
TCAGTGTCTCACCAGGAAGCTGGGATTCGAAGCTTTGCTCATACCGAGCGTAAGTTTGACTTGGT
CTTCTTCTCAGTATCTCATCAAGAAGATGACCACGTCGCTTGTTTCAATCCGCGAATTTGTATCT
CATCAGGAGA
Found at i:90323 original size:27 final size:27
Alignment explanation
Indices: 90293--90352 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
90283 TCAAGAATTC
*
90293 TATTAAAAAGAGGATCTAAGGAAACAA
1 TATTAAAAAGAGGATCAAAGGAAACAA
* *
90320 TATTAAAAGGAGGATCAAAGGAAATAA
1 TATTAAAAAGAGGATCAAAGGAAACAA
90347 TATTAA
1 TATTAA
90353 TTGAAATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.22
Consensus pattern (27 bp):
TATTAAAAAGAGGATCAAAGGAAACAA
Found at i:95256 original size:678 final size:678
Alignment explanation
Indices: 93955--95315 Score: 2515
Period size: 678 Copynumber: 2.0 Consensus size: 678
93945 TAACTTCCAT
* *
93955 TGGGTCCGAATGAGGCAAGATTTGTTTTTCTTCCTGTTCCATCATTCTTAAAAGATTCGGAGGTA
1 TGGGTCCGAATGAGGCAAGATCTGTTTTTCTTCCTGTTCCATCATTCTTAAAAGATCCGGAGGTA
* *
94020 GATCAGAATCTTGATTATCTTCAAGGTCCTGAAGCTCTTCCGAACACGTATCTTGCGTCAGGGTT
66 GATCACAATCTTGATTATCTTCAAGGTCCTGAAGCTCTTCCGAACACGTATCTTGCATCAGGGTT
** *
94085 GTTCATATTATTGATATCTGAGGATCTGTCAAAGGATGAAATGAAGGTCCAAAGAGCAAAATAAA
131 ACTCATATTATTGATATCTGAGGATCTGTCAAAGGATGAAAGGAAGGTCCAAAGAGCAAAATAAA
94150 TTTACGAAAGAATGACTATGTGGCATATGTATGAGTATGTATGTATTAAAGAATAATTTAATCTT
196 TTTACGAAAGAATGACTATGTGGCATATGTATGAGTATGTATGTATTAAAGAATAATTTAATCTT
* * *
94215 GTTTATTAGATATGTTCGAATGGTTTATTAAGCCGAATTAAGAAATGAAAGAATAATTATGGAGA
261 GTTTATTAGATATGTTCAAATGGTTTACTAAGCCGAATTAAGAAATAAAAGAATAATTATGGAGA
94280 AGAATATAAAATGGAAAGTTCATTTCATTCAAAATAACTGAATAATGACCATGAGCCCTTCTACA
326 AGAATATAAAATGGAAAGTTCATTTCATTCAAAATAACTGAATAATGACCATGAGCCCTTCTACA
* *
94345 AAAAGATCCATATTGCTTTCGAGCCTAAAGCAATAGGTGTTTTCAAGCATTACTCTGAGGAAATC
391 AAAAGATCCATATTGCTTTCGACCCTAAAGCAATAGGTGTTTTCAAGCATTACTCTAAGGAAATC
*
94410 TTAAAAATTACAAGGAGTTCCTCCACGGTCCAATTATTCAAGGTGCTTTCAGGTGCACACGGAAT
456 TTAAAAATTACAAGGAGTTCCTCCACGGTCCAATTATTCAAGGTGCTTTCAGGTGCACACGAAAT
*
94475 AATTCTTGACGGATCCCCTTCATTTCTTTCATCTGATATAGCATTAATGCCTAGAGCTTTTATGA
521 AATTCTTGACGGATCCCCTTCATTTATTTCATCTGATATAGCATTAATGCCTAGAGCTTTTATGA
* *
94540 TGCCCTCTTTGGTTCTAATCGTCACTCGCTCCTTCCTCTGCTGATTGATCACCTCTCCTAAGATG
586 TGACCTCTTTGGTTCCAATCGTCACTCGCTCCTTCCTCTGCTGATTGATCACCTCTCCTAAGATG
94605 AAAGTCTCGTAGATGTATGGGAAGACCA
651 AAAGTCTCGTAGATGTATGGGAAGACCA
94633 TGGGTCCGAATGAGGCAAGATCTGTTTTTCTTCCTGTTCCATCATTCTTAAAAGATCCGGAGGTA
1 TGGGTCCGAATGAGGCAAGATCTGTTTTTCTTCCTGTTCCATCATTCTTAAAAGATCCGGAGGTA
94698 GATCACAATCTTGATTATCTTCAAGGTCCTGAAGCTCTTCCGAACACGTATCTTGCATCAGGGTT
66 GATCACAATCTTGATTATCTTCAAGGTCCTGAAGCTCTTCCGAACACGTATCTTGCATCAGGGTT
*
94763 ACTCATATTATTGATATCTGAGGATCTGTCAAAGGATGAAAGGAAGGTTCAAAGAGCAAAATAAA
131 ACTCATATTATTGATATCTGAGGATCTGTCAAAGGATGAAAGGAAGGTCCAAAGAGCAAAATAAA
94828 TTTACGAAAGAATGACTATGTGGCATATGTATGAGTATGTATGTATTAAAGAATAATTTAATCTT
196 TTTACGAAAGAATGACTATGTGGCATATGTATGAGTATGTATGTATTAAAGAATAATTTAATCTT
*
94893 GTTTATTAGATATGTTCAAATGGTTTACTAAGCCGAATTAAGAAATAAAATAATAATTATGGAGA
261 GTTTATTAGATATGTTCAAATGGTTTACTAAGCCGAATTAAGAAATAAAAGAATAATTATGGAGA
94958 AGAATATAAAATGGAAAGTTCATTTCATTCAAAATAACTGAATAATGACCATGAGCCCTTCTACA
326 AGAATATAAAATGGAAAGTTCATTTCATTCAAAATAACTGAATAATGACCATGAGCCCTTCTACA
*
95023 AAAAGATCCATATTGCTTTCGACCCTAAAGCAATAGGTGTTTTCGAGCATTACTCTAAGGAAATC
391 AAAAGATCCATATTGCTTTCGACCCTAAAGCAATAGGTGTTTTCAAGCATTACTCTAAGGAAATC
* *
95088 TTAAAAATTACAGGGAGTTCCTCCATGGTCCAATTATTCAAGGTGCTTTCAGGTGCACACGAAAT
456 TTAAAAATTACAAGGAGTTCCTCCACGGTCCAATTATTCAAGGTGCTTTCAGGTGCACACGAAAT
95153 AATTCTTGACGGATCCCCTTCATTTATTTCATCTGATATAGCATTAATGCCTAGAGCTTTTATGA
521 AATTCTTGACGGATCCCCTTCATTTATTTCATCTGATATAGCATTAATGCCTAGAGCTTTTATGA
*
95218 TGACCTCTTTGGTTCCAATCGTCACTCGCTCTTTCCTCTGCTGATTGATCACCTCTCCTAAGATG
586 TGACCTCTTTGGTTCCAATCGTCACTCGCTCCTTCCTCTGCTGATTGATCACCTCTCCTAAGATG
*
95283 AAAGTCTCGTAGATGTGTGGGAAGACCA
651 AAAGTCTCGTAGATGTATGGGAAGACCA
95311 TGGGT
1 TGGGT
95316 TCCCACGAGA
Statistics
Matches: 660, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
678 660 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (678 bp):
TGGGTCCGAATGAGGCAAGATCTGTTTTTCTTCCTGTTCCATCATTCTTAAAAGATCCGGAGGTA
GATCACAATCTTGATTATCTTCAAGGTCCTGAAGCTCTTCCGAACACGTATCTTGCATCAGGGTT
ACTCATATTATTGATATCTGAGGATCTGTCAAAGGATGAAAGGAAGGTCCAAAGAGCAAAATAAA
TTTACGAAAGAATGACTATGTGGCATATGTATGAGTATGTATGTATTAAAGAATAATTTAATCTT
GTTTATTAGATATGTTCAAATGGTTTACTAAGCCGAATTAAGAAATAAAAGAATAATTATGGAGA
AGAATATAAAATGGAAAGTTCATTTCATTCAAAATAACTGAATAATGACCATGAGCCCTTCTACA
AAAAGATCCATATTGCTTTCGACCCTAAAGCAATAGGTGTTTTCAAGCATTACTCTAAGGAAATC
TTAAAAATTACAAGGAGTTCCTCCACGGTCCAATTATTCAAGGTGCTTTCAGGTGCACACGAAAT
AATTCTTGACGGATCCCCTTCATTTATTTCATCTGATATAGCATTAATGCCTAGAGCTTTTATGA
TGACCTCTTTGGTTCCAATCGTCACTCGCTCCTTCCTCTGCTGATTGATCACCTCTCCTAAGATG
AAAGTCTCGTAGATGTATGGGAAGACCA
Found at i:102212 original size:29 final size:28
Alignment explanation
Indices: 102180--102401 Score: 107
Period size: 30 Copynumber: 7.6 Consensus size: 28
102170 AATTTTGGGT
102180 TAAAAATGGAATTATTTGAAATTCGGGGG
1 TAAAAATGGAATT-TTTGAAATTCGGGGG
* * *
102209 T-AAAAGGGTAA-TTTTGAGAGTTTC-GAGG
1 TAAAAATGG-AATTTTTGA-A-ATTCGGGGG
* *
102237 TCGAAAATGGGATTTTTGGAAATTCGGGGG
1 T-AAAAATGGAATTTTT-GAAATTCGGGGG
* * *
102267 TAAAATTTGAATTTTTGGAAGTTTC-GGGG
1 TAAAAATGGAATTTTT-GAA-ATTCGGGGG
* * *
102296 TAAAAAATTGG-ATTTTGGGAAGTTCGAGGG
1 T-AAAAA-TGGAATTTT-TGAAATTCGGGGG
* ** *
102326 TAAAAATGGATTTTTTGAAATTTTTGAGG
1 TAAAAATGGAATTTTTGAAA-TTCGGGGG
*
102355 TCAAAAAT-GAGATTTTTGGAAGTTCGGGGG
1 T-AAAAATGGA-ATTTTT-GAAATTCGGGGG
102385 TAAAAAAT-GAATTTTTG
1 T-AAAAATGGAATTTTTG
102402 GGGTCAAAAA
Statistics
Matches: 145, Mismatches: 30, Indels: 37
0.68 0.14 0.17
Matches are distributed among these distances:
27 5 0.03
28 19 0.13
29 55 0.38
30 59 0.41
31 7 0.05
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.35
Consensus pattern (28 bp):
TAAAAATGGAATTTTTGAAATTCGGGGG
Found at i:102295 original size:30 final size:28
Alignment explanation
Indices: 102248--102402 Score: 132
Period size: 30 Copynumber: 5.3 Consensus size: 28
102238 CGAAAATGGG
* *
102248 ATTTTTGGAAATTCGGGGGTAAAATTTGA
1 ATTTTTGGAAGTTCGGGGGTAAAA-ATGA
*
102277 ATTTTTGGAAGTTTC-GGGGTAAAAAATTGG
1 ATTTTTGGAAG-TTCGGGGGT-AAAAA-TGA
* *
102307 ATTTTGGGAAGTTCGAGGGTAAAAATGGA
1 ATTTTTGGAAGTTCGGGGGTAAAAAT-GA
* * * ** *
102336 TTTTTTGAAATTTTTGAGGTCAAAAATGA
1 ATTTTTGGAAGTTCGGGGGT-AAAAATGA
102365 GATTTTTGGAAGTTCGGGGGTAAAAAATGA
1 -ATTTTTGGAAGTTCGGGGGT-AAAAATGA
102395 ATTTTTGG
1 ATTTTTGG
102403 GGTCAAAAAT
Statistics
Matches: 98, Mismatches: 21, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
28 1 0.01
29 46 0.47
30 51 0.52
ACGTcount: A:0.32, C:0.03, G:0.28, T:0.37
Consensus pattern (28 bp):
ATTTTTGGAAGTTCGGGGGTAAAAATGA
Found at i:102310 original size:59 final size:58
Alignment explanation
Indices: 102181--102402 Score: 211
Period size: 59 Copynumber: 3.8 Consensus size: 58
102171 ATTTTGGGTT
*
102181 AAAAATGGAATTATTT-GAAATTCGGGGGT-AAAAGGGTAA-TTTT-GAGAGTTTCGAGGTC
1 AAAAATGG-ATT-TTTGGAAATTCGGGGGTAAAAATGG-AATTTTTGGA-AGTTTCGAGGTC
* * * * *
102239 GAAAATGGGATTTTTGGAAATTCGGGGGTAAAATTTGAATTTTTGGAAGTTTCGGGGTA
1 AAAAAT-GGATTTTTGGAAATTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGTC
* * * * * * *
102298 AAAAATTGGATTTTGGGAAGTTCGAGGGTAAAAATGGATTTTTTGAAATTTTTGAGGTC
1 AAAAA-TGGATTTTTGGAAATTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGTC
*
102357 AAAAATGAGATTTTTGGAAGTTCGGGGGTAAAAAAT-GAATTTTTGG
1 AAAAATG-GATTTTTGGAAATTCGGGGGT-AAAAATGGAATTTTTGG
102403 GGTCAAAAAT
Statistics
Matches: 134, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
57 3 0.02
58 25 0.19
59 97 0.72
60 9 0.07
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (58 bp):
AAAAATGGATTTTTGGAAATTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGTC
Found at i:102402 original size:29 final size:29
Alignment explanation
Indices: 102248--102402 Score: 143
Period size: 29 Copynumber: 5.3 Consensus size: 29
102238 CGAAAATGGG
* **
102248 ATTTTTGGAAATTCGGGGGTAAAATTTGA
1 ATTTTTGGAAGTTCGGGGGTAAAAAATGA
*
102277 ATTTTTGGAAGTTTC-GGGGTAAAAAATTGG
1 ATTTTTGGAAG-TTCGGGGGTAAAAAA-TGA
* *
102307 ATTTTGGGAAGTTCGAGGGT-AAAAATGGA
1 ATTTTTGGAAGTTCGGGGGTAAAAAAT-GA
* * * ** * *
102336 TTTTTTGAAATTTTTGAGGTCAAAAATGA
1 ATTTTTGGAAGTTCGGGGGTAAAAAATGA
102365 GATTTTTGGAAGTTCGGGGGTAAAAAATGA
1 -ATTTTTGGAAGTTCGGGGGTAAAAAATGA
102395 ATTTTTGG
1 ATTTTTGG
102403 GGTCAAAAAT
Statistics
Matches: 98, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
28 1 0.01
29 50 0.51
30 47 0.48
ACGTcount: A:0.32, C:0.03, G:0.28, T:0.37
Consensus pattern (29 bp):
ATTTTTGGAAGTTCGGGGGTAAAAAATGA
Found at i:104820 original size:2 final size:2
Alignment explanation
Indices: 104813--104852 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
104803 TAAATATTAA
104813 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
104853 TAAATTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114965 original size:26 final size:24
Alignment explanation
Indices: 114924--114991 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 24
114914 AAAACATATC
* *
114924 AATTTAAATTTAAAAAAATAAAAA
1 AATTGAAATTTTAAAAAATAAAAA
**
114948 TAATATGAAATTTTAAAATTTAAAAA
1 -AAT-TGAAATTTTAAAAAATAAAAA
* *
114974 AATTTAAATTTTTAAAAA
1 AATTGAAATTTTAAAAAA
114992 GTTACATCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
24 11 0.32
25 6 0.18
26 17 0.50
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (24 bp):
AATTGAAATTTTAAAAAATAAAAA
Found at i:117876 original size:27 final size:24
Alignment explanation
Indices: 117841--117892 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 24
117831 AAATTAACGA
*
117841 TATTATCAATGTATTAAATGATAATGT
1 TATTATCAAT-TATAAAAT-A-AATGT
*
117868 TATTTTCAATTATAAAATAAATGT
1 TATTATCAATTATAAAATAAATGT
117892 T
1 T
117893 TCATATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 1 0.04
26 7 0.30
27 9 0.39
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (24 bp):
TATTATCAATTATAAAATAAATGT
Found at i:119310 original size:19 final size:19
Alignment explanation
Indices: 119269--119310 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
119259 AGTAATGTTT
* **
119269 TTTTTTATCTCAAAAGTGT
1 TTTTTTATCTCAAAAATAC
119288 TTTTTTATCTCAAAAATAC
1 TTTTTTATCTCAAAAATAC
119307 TTTT
1 TTTT
119311 GAAAGCAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTTTATCTCAAAAATAC
Done.