Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01008865.1 Corchorus capsularis cultivar CVL-1 contig08886, 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: 84863
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:11 original size:6 final size:6
Alignment explanation
Indices: 1--66 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
* * * *
1 TTCTTT TTC-TT TTATTA TTCTTC TTCTTT TTCATTT TTCATTT ATC--T
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTC-TTT TTC-TTT TTCTTT
48 TTCTTT TTC-TT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TT
67 TCATTTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
4 3 0.06
5 9 0.19
6 24 0.50
7 12 0.25
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.76
Consensus pattern (6 bp):
TTCTTT
Found at i:28 original size:23 final size:23
Alignment explanation
Indices: 1--60 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
*
1 TTCTTTTTCTTTTATTATTCT-TC-
1 TTCTTTTTCTTTT-TCATT-TATCT
24 TTCTTTTTCATTTTTCATTTATCT
1 TTCTTTTTC-TTTTTCATTTATCT
48 TTCTTTTTCTTTT
1 TTCTTTTTCTTTT
61 CTTTTTTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.03
23 19 0.58
24 13 0.39
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (23 bp):
TTCTTTTTCTTTTTCATTTATCT
Found at i:45 original size:30 final size:29
Alignment explanation
Indices: 4--72 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
1 TTC
*
4 TTTTTCTTTTAT-TATTCTTCTTCTTTTTCA
1 TTTTTCATTTATCT-TTCTTCTTC-TTTTCA
* *
34 TTTTTCATTTATCTTTCTTTTTCTTTTCT
1 TTTTTCATTTATCTTTCTTCTTCTTTTCA
63 TTTTTCATTT
1 TTTTTCATTT
73 TTTTCATTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 15 0.43
30 19 0.54
31 1 0.03
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTCATTTATCTTTCTTCTTCTTTTCA
Found at i:595 original size:75 final size:74
Alignment explanation
Indices: 467--692 Score: 283
Period size: 75 Copynumber: 3.0 Consensus size: 74
457 TGGATTTAAT
* * * * * ** *
467 CACCTTGAAATCATTGCTTTGACTAAAACTGATTTTGAAACATCTTTTGATTAATACTTAACATC
1 CACCTCGAAACCATTGCTTTGATTAAAACTGATTTTGAAACATATTTTAATTAA-ACCCAACATT
532 CTTTTGCTCA
65 CTTTTGCTCA
* * * *
542 CACCTCGAAACCACTGCTTTGATTGAAACTTATTTTGAAACATGTTTTAATTAAAACCCAACATT
1 CACCTCGAAACCATTGCTTTGATTAAAACTGATTTTGAAACATATTTTAATT-AAACCCAACATT
*
607 CTTTTGCTCT
65 CTTTTGCTCA
* *
617 CACCTCGAAACCATTGCTTTGATTAAAACTGCTTTTG-AACATATTTTAGATTAAACCCATCATT
1 CACCTCGAAACCATTGCTTTGATTAAAACTGATTTTGAAACATATTTTA-ATTAAACCCAACATT
681 CTTTTGCTCA
65 CTTTTGCTCA
691 CA
1 CA
693 GTCCAGATAA
Statistics
Matches: 130, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
74 32 0.25
75 96 0.74
76 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (74 bp):
CACCTCGAAACCATTGCTTTGATTAAAACTGATTTTGAAACATATTTTAATTAAACCCAACATTC
TTTTGCTCA
Found at i:5028 original size:22 final size:21
Alignment explanation
Indices: 4980--5074 Score: 72
Period size: 22 Copynumber: 4.5 Consensus size: 21
4970 CCATCACTAT
4980 TTTACTGATTA-TTCTTTACT-
1 TTTACTGATTACTT-TTTACTC
5000 TTGTACTGATTACTATTTTACTC
1 TT-TACTGATTACT-TTTTACTC
* * *
5023 TTTACTAATTACCATTTTACCC
1 TTTACTGATTA-CTTTTTACTC
* *
5045 TTT-CAGA-TACCTTTTTACTT
1 TTTACTGATTA-CTTTTTACTC
5065 TTTACTGATT
1 TTTACTGATT
5075 GCATGCTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
20 15 0.25
21 14 0.24
22 26 0.44
23 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTACTGATTACTTTTTACTC
Found at i:5327 original size:16 final size:16
Alignment explanation
Indices: 5306--5367 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
5296 GACTCTTTAA
5306 TTACTGATTACTCAAT
1 TTACTGATTACTCAAT
**
5322 TTACTGATTACTATCTTT
1 TTACTGATTAC--TCAAT
*
5340 TTACCTGATTACT-GAT
1 TTA-CTGATTACTCAAT
5356 TTACTGATTACT
1 TTACTGATTACT
5368 ATTACCTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 9 0.23
16 15 0.38
17 1 0.03
18 6 0.15
19 8 0.21
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.48
Consensus pattern (16 bp):
TTACTGATTACTCAAT
Found at i:5378 original size:15 final size:16
Alignment explanation
Indices: 5339--5379 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
5329 TTACTATCTT
5339 TTTACCTGATTACTGA
1 TTTACCTGATTACTGA
5355 TTTA-CTGATTACT-A
1 TTTACCTGATTACTGA
5369 -TTACCTTGATT
1 TTTACC-TGATT
5380 CGTAATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.13
14 2 0.09
15 14 0.61
16 4 0.17
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (16 bp):
TTTACCTGATTACTGA
Found at i:5402 original size:71 final size:72
Alignment explanation
Indices: 5312--5448 Score: 204
Period size: 71 Copynumber: 1.9 Consensus size: 72
5302 TTAATTACTG
* * * * *
5312 ATTACTCAATTTACTGATTACTATCTTTTTACCTGATTACTGATTTACTGATTACTATTACCTTG
1 ATTACTCAATTTACCGATTAATATCTTCTTACCTAACTACTGATTTACTGATTACTATTACCTTG
5377 ATTCGTA
66 ATTCGTA
* *
5384 ATTA-TCAATTTACCGATTAATCTCTTCTTACTTAACTACTGATTTACTGATTACTATTACCTTG
1 ATTACTCAATTTACCGATTAATATCTTCTTACCTAACTACTGATTTACTGATTACTATTACCTTG
5448 A
66 A
5449 CTCTGATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
71 54 0.93
72 4 0.07
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (72 bp):
ATTACTCAATTTACCGATTAATATCTTCTTACCTAACTACTGATTTACTGATTACTATTACCTTG
ATTCGTA
Found at i:5459 original size:55 final size:54
Alignment explanation
Indices: 5398--5765 Score: 574
Period size: 55 Copynumber: 6.7 Consensus size: 54
5388 TCAATTTACC
5398 GATTAATCTCTTCTTACTTAACTACTGATTTACTGATTACTATTACCTTGACTCT
1 GATTAATCTCTT-TTACTTAACTACTGATTTACTGATTACTATTACCTTGACTCT
* * *
5453 GATTAATCTCTTCTTACTTGACTACTAATTTACTGATTACTATTACTTTGACTCT
1 GATTAATCTCTT-TTACTTAACTACTGATTTACTGATTACTATTACCTTGACTCT
* *
5508 GATTAATCTCTTTTCACTTAATTACTGATTTACTGATTACTATTACTTTGACTCT
1 GATTAATCTCTTTT-ACTTAACTACTGATTTACTGATTACTATTACCTTGACTCT
* * *
5563 GATTAATCTCGTTTTACTTAATTACTGATTTATTGATTACTATTACCTTGACTTT
1 GATTAATCTC-TTTTACTTAACTACTGATTTACTGATTACTATTACCTTGACTCT
*
5618 GATTAATCTCTTTTTACTTGACTACTGATTTACTGATTACTATTACCTTGACTCT
1 GATTAATCTC-TTTTACTTAACTACTGATTTACTGATTACTATTACCTTGACTCT
*
5673 GATTAATCTCTTCTTACTTGACTACTGATTTACTGATTACTATTACCTTGACTCT
1 GATTAATCTCTT-TTACTTAACTACTGATTTACTGATTACTATTACCTTGACTCT
*
5728 GATTAATCTCTTTTCACTTAATTACTGATTTACTGATT
1 GATTAATCTCTTTT-ACTTAACTACTGATTTACTGATT
5766 GTTCGGATTG
Statistics
Matches: 293, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
54 6 0.02
55 283 0.97
56 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (54 bp):
GATTAATCTCTTTTACTTAACTACTGATTTACTGATTACTATTACCTTGACTCT
Found at i:6745 original size:49 final size:49
Alignment explanation
Indices: 6623--6758 Score: 152
Period size: 49 Copynumber: 2.8 Consensus size: 49
6613 ACTAATTACT
** * * *
6623 CTAAAAA-TCAATCTTTTGCTCTAAGGTGACATCTTTACTTACTAATCA
1 CTAAAAATTCAATCTTTCACTCAAAGATGACATTTTTACTTACTAATCA
** *
6671 CTAAAGTTTCAATCTTTCACTCAAAGATGACATTTTTACTTACTAATTA
1 CTAAAAATTCAATCTTTCACTCAAAGATGACATTTTTACTTACTAATCA
*
6720 CTAAAAATTCAATC-TTCTA-TCCAAAGATGGCATTTTTAC
1 CTAAAAATTCAATCTTTC-ACT-CAAAGATGACATTTTTAC
6759 AAAAAGCTTC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 9 0.12
49 65 0.88
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (49 bp):
CTAAAAATTCAATCTTTCACTCAAAGATGACATTTTTACTTACTAATCA
Found at i:7541 original size:16 final size:16
Alignment explanation
Indices: 7520--7563 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
7510 TGCTTTTTTT
7520 AAAACCCTAGTTTTCA
1 AAAACCCTAGTTTTCA
* *
7536 AGAACCCTAGATTTCA
1 AAAACCCTAGTTTTCA
7552 AAAACCCTAGTT
1 AAAACCCTAGTT
7564 GCCCTCTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (16 bp):
AAAACCCTAGTTTTCA
Found at i:8727 original size:23 final size:23
Alignment explanation
Indices: 8699--8742 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
8689 ACTCAAAAGG
8699 AGACAAGTCCAAGATTAACTCAA
1 AGACAAGTCCAAGATTAACTCAA
8722 AGACAAGTCCAAGATTAACTC
1 AGACAAGTCCAAGATTAACTC
8743 TTAATGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.18
Consensus pattern (23 bp):
AGACAAGTCCAAGATTAACTCAA
Found at i:9223 original size:28 final size:27
Alignment explanation
Indices: 9171--9246 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 27
9161 AAGTGAACTT
* * *
9171 AAAATGACCAACATACCCTTAAATGCAA
1 AAAATGACCAAAATGCCCCTAAATG-AA
* **
9199 AAAATGACCAAAATGCCCCTGAATGTG
1 AAAATGACCAAAATGCCCCTAAATGAA
9226 AAAATGACCAAAATGCCCCTA
1 AAAATGACCAAAATGCCCCTA
9247 TGTGACCCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 20 0.49
28 21 0.51
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (27 bp):
AAAATGACCAAAATGCCCCTAAATGAA
Found at i:11346 original size:12 final size:12
Alignment explanation
Indices: 11329--11396 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
11319 GAAAAAGCAA
*
11329 AAAAGAAGAAGT
1 AAAAGAAGAAAT
*
11341 AAAAGAAAAAAT
1 AAAAGAAGAAAT
*
11353 AAAAAAAGAAA-
1 AAAAGAAGAAAT
*
11364 AAATCAGAA-AATT
1 AAA--AGAAGAAAT
* *
11377 AAAAGATGCAAT
1 AAAAGAAGAAAT
11389 AAAAGAAG
1 AAAAGAAG
11397 TTTTCAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 6 0.14
12 30 0.71
13 6 0.14
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (12 bp):
AAAAGAAGAAAT
Found at i:14310 original size:14 final size:13
Alignment explanation
Indices: 14283--14332 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
14273 AAGAGACTTT
* *
14283 TTTTTAAAATAGG
1 TTTTCAAAAAAGG
14296 TTTTCAAGAAAAGG
1 TTTTCAA-AAAAGG
*
14310 TTTTCAAAAATGAG
1 TTTTCAAAAAAG-G
14324 TTTTCAAAA
1 TTTTCAAAA
14333 GGTTTTGAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 10 0.31
14 22 0.69
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (13 bp):
TTTTCAAAAAAGG
Found at i:15561 original size:10 final size:10
Alignment explanation
Indices: 15546--15621 Score: 57
Period size: 10 Copynumber: 7.6 Consensus size: 10
15536 ATGGTGAGGT
15546 AAAAATAAAA
1 AAAAATAAAA
* *
15556 AAAAATCAAT
1 AAAAATAAAA
* *
15566 CAAAAT-CAA
1 AAAAATAAAA
15575 AAAAATAAAA
1 AAAAATAAAA
15585 AAATAA-AAAA
1 AAA-AATAAAA
*
15595 AAGAAAGAAAA
1 AA-AAATAAAA
* *
15606 ATATATAAAA
1 AAAAATAAAA
15616 AAAAAT
1 AAAAAT
15622 GATACAGCTC
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
9 6 0.12
10 36 0.72
11 8 0.16
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:15615 original size:21 final size:20
Alignment explanation
Indices: 15573--15620 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 20
15563 AATCAAAATC
*
15573 AAAAAAATAAAAAAATAAAA
1 AAAAAAAGAAAAAAATAAAA
15593 AAAAGAAAGAAAAATATATAAAA
1 AAAA-AAAGAAAAA-A-ATAAAA
15616 AAAAA
1 AAAAA
15621 TGATACAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 2 0.08
23 10 0.42
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.10
Consensus pattern (20 bp):
AAAAAAAGAAAAAAATAAAA
Found at i:17218 original size:56 final size:56
Alignment explanation
Indices: 17069--17673 Score: 766
Period size: 56 Copynumber: 10.5 Consensus size: 56
17059 ATAAACAGAT
* *
17069 TCATAGATGGGTTTTGAAAACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
1 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
* ** *
17125 TCATAGA-GGGTTCTGAAGACAGTTCCTAAAAATTAAGAAGGAGTATGAAGACTGC
1 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
*
17180 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTACGAAGACTGC
1 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
* *
17236 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTACGAAGACTAC
1 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
* * *
17292 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTACGAGGACTGT
1 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
* ** *
17348 TCATAGATGGGTTCTGAAGACAGTTCCTAAAAATTAAGAAGGAGTATGAAGACTGC
1 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
* * *
17404 TCATAGATGGGTTCTGAAGAGAGTTCCTAGATATTAAGAATGAGTATGAAGACAGC
1 TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
*
17460 TCATAGATGGGTTCTGAAGACAGTTCCTAAAAGATATTAAGAATGAGTATGAAGACTGC
1 TCATAGATGGGTTCTGAAGACAGTTCCT---AGATGTTAAGAATGAGTATGAAGACTGC
* *
17519 TCATAGATGGGTTCTGAAGACAATTCCTAAAAGATTTTAAGAATATTAAGAATGAGTATAAAGAC
1 TCATAGATGGGTTCTGAAGACAGTTCCT---AGA---T--G----TTAAGAATGAGTATGAAGAC
17584 TGC
54 TGC
* * * *
17587 TCTTAGATGGGTTCTGAAGACAGCTCCTGAAAGGTAT-TTAAGAAGGAGTATGAAGACAGC
1 TCATAGATGGGTTCTGAAGACAGTTCCT---A-G-ATGTTAAGAATGAGTATGAAGACTGC
*
17647 TCATAGAT-GGATCTGAAGACAGTTCCT
1 TCATAGATGGGTTCTGAAGACAGTTCCT
17674 GAAAGATTTA
Statistics
Matches: 492, Mismatches: 42, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
55 49 0.10
56 285 0.58
59 77 0.16
60 27 0.05
62 1 0.00
67 1 0.00
68 50 0.10
69 1 0.00
70 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (56 bp):
TCATAGATGGGTTCTGAAGACAGTTCCTAGATGTTAAGAATGAGTATGAAGACTGC
Found at i:17662 original size:127 final size:127
Alignment explanation
Indices: 17434--17682 Score: 383
Period size: 127 Copynumber: 2.0 Consensus size: 127
17424 GAGTTCCTAG
* *
17434 ATATTAAGAATGAGTATGAAGACAGCTCATAGATGGGTTCTGAAGACAGTTCCTAAAAGATATTA
1 ATATTAAGAATGAGTATAAAGACAGCTCATAGATGGGTTCTGAAGACAGCTCCTAAAAGATATTA
* * *
17499 AGAATGAGTATGAAGACTGCTCATAGATGGGTTCTGAAGACAATTCCTAAAAGATTTTAAGA
66 AGAAGGAGTATGAAGACAGCTCATAGATGGGATCTGAAGACAATTCCTAAAAGATTTTAAGA
* * * *
17561 ATATTAAGAATGAGTATAAAGACTGCTCTTAGATGGGTTCTGAAGACAGCTCCTGAAAGGTATTT
1 ATATTAAGAATGAGTATAAAGACAGCTCATAGATGGGTTCTGAAGACAGCTCCTAAAAGATA-TT
* *
17626 AAGAAGGAGTATGAAGACAGCTCATAGAT-GGATCTGAAGACAGTTCCTGAAAGATTT
65 AAGAAGGAGTATGAAGACAGCTCATAGATGGGATCTGAAGACAATTCCTAAAAGATTT
17683 AGCATTAAGG
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
127 81 0.74
128 29 0.26
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (127 bp):
ATATTAAGAATGAGTATAAAGACAGCTCATAGATGGGTTCTGAAGACAGCTCCTAAAAGATATTA
AGAAGGAGTATGAAGACAGCTCATAGATGGGATCTGAAGACAATTCCTAAAAGATTTTAAGA
Found at i:17862 original size:56 final size:56
Alignment explanation
Indices: 17754--17865 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 56
17744 AGTTTTCAAC
* * * ***
17754 AGTTACTTAAGTCGATCGAAGACGGTCATCTTTCTCAGTTTTCAGTTTTTTTTAGT
1 AGTTACTCAAGTCGATCGAAGACGATCATCTTTCTCAGATTTCAGCAATTTTTAGT
* * * *
17810 AGTTACTCAAGTTGTTCGAAGACGATCATTTTTCTTAGATTTCAGCAATTTTTAGT
1 AGTTACTCAAGTCGATCGAAGACGATCATCTTTCTCAGATTTCAGCAATTTTTAGT
17866 GCAGGCCTCA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (56 bp):
AGTTACTCAAGTCGATCGAAGACGATCATCTTTCTCAGATTTCAGCAATTTTTAGT
Found at i:18143 original size:26 final size:27
Alignment explanation
Indices: 18088--18154 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
18078 GGGTCATATG
**
18088 GGGGCATTTTGGTCATTTTTACACTAA
1 GGGGCATTTTGGTCATTTGCACACTAA
** *
18115 -GGGCATTTTGGTCATTTGCACTTTCA
1 GGGGCATTTTGGTCATTTGCACACTAA
18141 GGGGCATTTTGGTC
1 GGGGCATTTTGGTC
18155 TTTTACTAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 21 0.62
27 13 0.38
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.40
Consensus pattern (27 bp):
GGGGCATTTTGGTCATTTGCACACTAA
Found at i:36394 original size:114 final size:114
Alignment explanation
Indices: 36192--36420 Score: 449
Period size: 114 Copynumber: 2.0 Consensus size: 114
36182 ATATTTGACC
36192 AAGAATTCGCCGGATTAGGAAAGAGGAGCGTTAGACGGTGTGAAATTTCGGCCGGAGGCTTGGGT
1 AAGAATTCGCCGGATTAGGAAAGAGGAGCGTTAGACGGTGTGAAATTTCGGCCGGAGGCTTGGGT
36257 GGGTAGGTAGAGGATAAGATTGTGAGCAGCGGCGCCCTTAGACTTAGAG
66 GGGTAGGTAGAGGATAAGATTGTGAGCAGCGGCGCCCTTAGACTTAGAG
36306 AAGAATTCGCCGGATTAGGAAAGAGGAGCGTTAGACGGTGTGAAATTTCGGCCGGAGGCTTGGGT
1 AAGAATTCGCCGGATTAGGAAAGAGGAGCGTTAGACGGTGTGAAATTTCGGCCGGAGGCTTGGGT
*
36371 GGGTAGGTAGAGGATAAGTTTGTGAGCAGCGGCGCCCTTAGACTTAGAG
66 GGGTAGGTAGAGGATAAGATTGTGAGCAGCGGCGCCCTTAGACTTAGAG
36420 A
1 A
36421 CTATAGTTGA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.26, C:0.14, G:0.38, T:0.21
Consensus pattern (114 bp):
AAGAATTCGCCGGATTAGGAAAGAGGAGCGTTAGACGGTGTGAAATTTCGGCCGGAGGCTTGGGT
GGGTAGGTAGAGGATAAGATTGTGAGCAGCGGCGCCCTTAGACTTAGAG
Found at i:37733 original size:20 final size:22
Alignment explanation
Indices: 37700--37748 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
37690 ATTTTTATAG
* *
37700 CTATTTTTCCATGT-TTTT-TC
1 CTATTTTTACATGTATTTTACC
*
37720 CTATTTTTATATGTATTTTACC
1 CTATTTTTACATGTATTTTACC
37742 CTATTTT
1 CTATTTT
37749 GCTAGTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 12 0.50
21 4 0.17
22 8 0.33
ACGTcount: A:0.16, C:0.16, G:0.04, T:0.63
Consensus pattern (22 bp):
CTATTTTTACATGTATTTTACC
Found at i:39622 original size:27 final size:27
Alignment explanation
Indices: 39592--39648 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
39582 TTTTTTCTAT
39592 AAAAAAAAAG-TTTGCGATTTTAAAAA
1 AAAAAAAAAGATTTGCGATTTTAAAAA
** * *
39618 AAAAATTAGGATTTGCGATTTTTAAAA
1 AAAAAAAAAGATTTGCGATTTTAAAAA
39645 AAAA
1 AAAA
39649 TTATGTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (27 bp):
AAAAAAAAAGATTTGCGATTTTAAAAA
Found at i:39630 original size:20 final size:21
Alignment explanation
Indices: 39591--39631 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39581 ATTTTTTCTA
* *
39591 TAAAAAAAAAGTTTGCGATTT
1 TAAAAAAAAAATTAGCGATTT
39612 TAAAAAAAAAATTAG-GATTT
1 TAAAAAAAAAATTAGCGATTT
39632 GCGATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (21 bp):
TAAAAAAAAAATTAGCGATTT
Found at i:44902 original size:16 final size:16
Alignment explanation
Indices: 44866--44987 Score: 196
Period size: 16 Copynumber: 7.8 Consensus size: 16
44856 TTCGAGCGGA
*
44866 TTCGGGTTCGGGTA-C
1 TTCGGGTTCGGGTATT
44881 TTCGGGTTCGGGTATT
1 TTCGGGTTCGGGTATT
44897 TTCGGGTTCGGGTATT
1 TTCGGGTTCGGGTATT
44913 TTCGGGTTCGGG-ATTT
1 TTCGGGTTCGGGTA-TT
*
44929 TTCGGGTTCGGGTTTT
1 TTCGGGTTCGGGTATT
44945 TTCGGGTTCGGGTA-T
1 TTCGGGTTCGGGTATT
44960 TTCGGGTTCGGGTATT
1 TTCGGGTTCGGGTATT
44976 TTCGGGTTCGGG
1 TTCGGGTTCGGG
44988 ATCGGATCGG
Statistics
Matches: 100, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
15 30 0.30
16 70 0.70
ACGTcount: A:0.05, C:0.14, G:0.39, T:0.42
Consensus pattern (16 bp):
TTCGGGTTCGGGTATT
Found at i:44922 original size:32 final size:32
Alignment explanation
Indices: 44866--44987 Score: 196
Period size: 31 Copynumber: 3.9 Consensus size: 32
44856 TTCGAGCGGA
*
44866 TTCGGGTTCGGGTA-CTTCGGGTTCGGGTATT
1 TTCGGGTTCGGGTATTTTCGGGTTCGGGTATT
44897 TTCGGGTTCGGGTATTTTCGGGTTCGGG-ATTT
1 TTCGGGTTCGGGTATTTTCGGGTTCGGGTA-TT
*
44929 TTCGGGTTCGGGTTTTTTCGGGTTCGGGTA-T
1 TTCGGGTTCGGGTATTTTCGGGTTCGGGTATT
44960 TTCGGGTTCGGGTATTTTCGGGTTCGGG
1 TTCGGGTTCGGGTATTTTCGGGTTCGGG
44988 ATCGGATCGG
Statistics
Matches: 85, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
31 43 0.51
32 41 0.48
33 1 0.01
ACGTcount: A:0.05, C:0.14, G:0.39, T:0.42
Consensus pattern (32 bp):
TTCGGGTTCGGGTATTTTCGGGTTCGGGTATT
Found at i:44963 original size:63 final size:63
Alignment explanation
Indices: 44866--44989 Score: 214
Period size: 63 Copynumber: 2.0 Consensus size: 63
44856 TTCGAGCGGA
44866 TTCGGGTTCGGGTACTTCGGGTTCGGGTATTTTCGGGTTCGGGTATTTTCGGGTTCGGGATTT
1 TTCGGGTTCGGGTACTTCGGGTTCGGGTATTTTCGGGTTCGGGTATTTTCGGGTTCGGGATTT
**
44929 TTCGGGTTCGGGTTTTTTCGGGTTCGGGTA-TTTCGGGTTCGGGTATTTTCGGGTTCGGGAT
1 TTCGGGTTCGGG-TACTTCGGGTTCGGGTATTTTCGGGTTCGGGTATTTTCGGGTTCGGGAT
44990 CGGATCGGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 43 0.74
64 15 0.26
ACGTcount: A:0.06, C:0.14, G:0.39, T:0.42
Consensus pattern (63 bp):
TTCGGGTTCGGGTACTTCGGGTTCGGGTATTTTCGGGTTCGGGTATTTTCGGGTTCGGGATTT
Found at i:45836 original size:16 final size:16
Alignment explanation
Indices: 45817--45875 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
45807 CGGGTTCGGA
45817 CGGGTTCGGGT-TGTCT
1 CGGGTTCGGGTAT-TCT
*
45833 CGGGTTCGGGTATTTT
1 CGGGTTCGGGTATTCT
45849 CGGGTTCGGGTAATT-T
1 CGGGTTCGGGT-ATTCT
*
45865 CGGGCTCGGGT
1 CGGGTTCGGGT
45876 TCGAGCGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 35 0.90
17 4 0.10
ACGTcount: A:0.05, C:0.17, G:0.42, T:0.36
Consensus pattern (16 bp):
CGGGTTCGGGTATTCT
Found at i:57211 original size:27 final size:24
Alignment explanation
Indices: 57170--57220 Score: 57
Period size: 27 Copynumber: 2.0 Consensus size: 24
57160 TCTAGATGAC
*
57170 TAAAATGAATTAAATAATCTAAAT
1 TAAAATGAATTAAATAACCTAAAT
*
57194 TAAAAGTGAACTTAAAATGACCTAAAT
1 TAAAA-TGAA-TT-AAATAACCTAAAT
57221 GCCCCTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 5 0.23
25 4 0.18
26 2 0.09
27 11 0.50
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (24 bp):
TAAAATGAATTAAATAACCTAAAT
Found at i:57229 original size:26 final size:26
Alignment explanation
Indices: 57206--57280 Score: 123
Period size: 26 Copynumber: 2.8 Consensus size: 26
57196 AAAGTGAACT
*
57206 TAAAATGACCTAAATGCCCCTGAATG
1 TAAAATGACCAAAATGCCCCTGAATG
*
57232 TAAAATGACCAAAATGCCCATGAATG
1 TAAAATGACCAAAATGCCCCTGAATG
57258 TAAAAATGACCAAAATGCCCCTG
1 T-AAAATGACCAAAATGCCCCTG
57281 TATGACCCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 25 0.56
27 20 0.44
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.20
Consensus pattern (26 bp):
TAAAATGACCAAAATGCCCCTGAATG
Found at i:58020 original size:5 final size:5
Alignment explanation
Indices: 58006--58038 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
57996 CTTGGCATTT
58006 AAAAG AAAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AA
58039 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:62024 original size:16 final size:18
Alignment explanation
Indices: 61993--62026 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
61983 AAAGAAAATG
61993 TTACCGTTCAATTTTCTT
1 TTACCGTTCAATTTTCTT
62011 TTACC-TTC-ATTTTCTT
1 TTACCGTTCAATTTTCTT
62027 CTTCTCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.15, C:0.24, G:0.03, T:0.59
Consensus pattern (18 bp):
TTACCGTTCAATTTTCTT
Found at i:62701 original size:21 final size:21
Alignment explanation
Indices: 62675--62741 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
62665 AAATTATTGC
*
62675 TGAGAATTTCAACTTGAAGAA
1 TGAGAATTTCAAGTTGAAGAA
*
62696 TGAGAATTTCAAGTTGCAGAA
1 TGAGAATTTCAAGTTGAAGAA
62717 TGAGAATTTCAAGTTGAAGAA
1 TGAGAATTTCAAGTTGAAGAA
62738 TGAG
1 TGAG
62742 TTGCAATGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.28
Consensus pattern (21 bp):
TGAGAATTTCAAGTTGAAGAA
Found at i:66207 original size:30 final size:30
Alignment explanation
Indices: 66141--66199 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
66131 AACTCGGCCC
*
66141 CATTCTCAGCATTATCTACATTATCACCAA
1 CATTCTGAGCATTATCTACATTATCACCAA
* * *
66171 CATTCTGAGCATTCTCTCCATTCTCACCA
1 CATTCTGAGCATTATCTACATTATCACCA
66200 TGATTCTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.34, G:0.05, T:0.34
Consensus pattern (30 bp):
CATTCTGAGCATTATCTACATTATCACCAA
Found at i:66941 original size:51 final size:51
Alignment explanation
Indices: 66886--67040 Score: 132
Period size: 51 Copynumber: 3.2 Consensus size: 51
66876 AAACCCAACA
66886 CATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAG
1 CATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAG
* * * * * ** *
66937 CATAAAAC-T-TAGAA-A-ATCCA-TATCAGCCACA-TAAA-CA--ACCCA-ACA
1 CATAAAACATAAAGAATATACCCACT-T-A-CTATATTAAATTAGTATACATA-G
66982 CATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAG
1 CATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAG
67033 CATAAAAC
1 CATAAAAC
67041 TTAGAAAATC
Statistics
Matches: 74, Mismatches: 16, Indels: 28
0.63 0.14 0.24
Matches are distributed among these distances:
44 1 0.01
45 11 0.15
46 2 0.03
47 13 0.18
48 12 0.16
49 13 0.18
50 2 0.03
51 19 0.26
52 1 0.01
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (51 bp):
CATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAG
Found at i:67041 original size:96 final size:96
Alignment explanation
Indices: 66877--67075 Score: 389
Period size: 96 Copynumber: 2.1 Consensus size: 96
66867 CTATGTGAGA
66877 AACCCAACACATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAGCATAA
1 AACCCAACACATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAGCATAA
*
66942 AACTTAGAAAATCCATATCAGCCACATAAAC
66 AACTTAGAAAATCCATAGCAGCCACATAAAC
66973 AACCCAACACATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAGCATAA
1 AACCCAACACATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAGCATAA
67038 AACTTAGAAAATCCATAGCAGCCACATAAAC
66 AACTTAGAAAATCCATAGCAGCCACATAAAC
67069 AACCCAA
1 AACCCAA
67076 ATTAGTAGCA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 102 1.00
ACGTcount: A:0.50, C:0.23, G:0.06, T:0.22
Consensus pattern (96 bp):
AACCCAACACATAAAACATAAAGAATATACCCACTTACTATATTAAATTAGTATACATAGCATAA
AACTTAGAAAATCCATAGCAGCCACATAAAC
Found at i:67260 original size:19 final size:19
Alignment explanation
Indices: 67236--67278 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
67226 CCAGAAATCA
*
67236 AAACCCCCAAATTATTTTG
1 AAACCCCCAAATTATTTCG
67255 AAA-CCCCAAATTATTTCG
1 AAACCCCCAAATTATTTCG
67273 AAACCC
1 AAACCC
67279 TAACTCGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.40, C:0.30, G:0.05, T:0.26
Consensus pattern (19 bp):
AAACCCCCAAATTATTTCG
Found at i:70372 original size:2 final size:2
Alignment explanation
Indices: 70365--70394 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70355 CTCTCCCAAC
70365 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
70395 GAACTTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73786 original size:31 final size:30
Alignment explanation
Indices: 73739--73818 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
73729 GCTTAATACC
* *
73739 CAAATTAGTCCCTTAACTATCCATTTTGGGA
1 CAAATTGGCCCCTTAACT-TCCATTTTGGGA
* ***
73770 CAAATTGGCCCTTTAACTTTTTTTTTGGGA
1 CAAATTGGCCCCTTAACTTCCATTTTGGGA
*
73800 TAAATTGGCCCCTTAACTT
1 CAAATTGGCCCCTTAACTT
73819 TTAAAAACGA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 26 0.63
31 15 0.37
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (30 bp):
CAAATTGGCCCCTTAACTTCCATTTTGGGA
Found at i:73796 original size:30 final size:30
Alignment explanation
Indices: 73762--73820 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
73752 TAACTATCCA
*
73762 TTTTGGGACAAATTGGCCCTTTAACTTTTT
1 TTTTGGGACAAATTGGCCCCTTAACTTTTT
*
73792 TTTTGGGATAAATTGGCCCCTTAACTTTT
1 TTTTGGGACAAATTGGCCCCTTAACTTTT
73821 AAAAACGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (30 bp):
TTTTGGGACAAATTGGCCCCTTAACTTTTT
Found at i:74548 original size:29 final size:31
Alignment explanation
Indices: 74516--74594 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 31
74506 TCGTTTTTAT
74516 AAGTTAAGGGGCCAATTTGTACCAAAA-A-A
1 AAGTTAAGGGGCCAATTTGTACCAAAATAGA
* *
74545 AAGTTTAGGGGCCAATTTGTCCCAAAATAGA
1 AAGTTAAGGGGCCAATTTGTACCAAAATAGA
* *
74576 TAGTTAAGGGGCTAATTTG
1 AAGTTAAGGGGCCAATTTG
74595 GGTATTAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 25 0.58
30 1 0.02
31 17 0.40
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (31 bp):
AAGTTAAGGGGCCAATTTGTACCAAAATAGA
Found at i:79155 original size:2 final size:2
Alignment explanation
Indices: 79107--79135 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
79097 ATGCACTTAT
79107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
79136 TGTTAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81345 original size:16 final size:16
Alignment explanation
Indices: 81324--81354 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
81314 TCTACGAATT
*
81324 ATAAAGGTTTAGTAAA
1 ATAAAGATTTAGTAAA
81340 ATAAAGATTTAGTAA
1 ATAAAGATTTAGTAA
81355 TATTTTTCAA
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:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (16 bp):
ATAAAGATTTAGTAAA
Found at i:83253 original size:16 final size:16
Alignment explanation
Indices: 83232--83264 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
83222 TATTTTTTTT
83232 AGTGAAATTAAAATTA
1 AGTGAAATTAAAATTA
83248 AGTGAAATTAAAATTA
1 AGTGAAATTAAAATTA
83264 A
1 A
83265 TTTATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (16 bp):
AGTGAAATTAAAATTA
Found at i:83686 original size:105 final size:105
Alignment explanation
Indices: 83501--83866 Score: 594
Period size: 105 Copynumber: 3.5 Consensus size: 105
83491 AATTTTTCTA
* ** * * * *
83501 ACCCTTAAAATAAAATTTTAATTTTAATTT-GGGTTAAACTTAGTG-AATTAATTATATATTTTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
*
83564 TTTCTAAAATCCTATAACAATATTATTAATTATGGAATTT
66 TTTCTAAAACCCTATAACAATATTATTAATTATGGAATTT
83604 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
83669 TTTCTAAAACCCTATAACAATATTATTAATTATGGAATTT
66 TTTCTAAAACCCTATAACAATATTATTAATTATGGAATTT
*
83709 ACCATTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
* *
83774 TTTCT-AAACCCTATAACAATAAATTATTAATTTTGAAATTT
66 TTTCTAAAACCCTATAACAAT--ATTATTAATTATGGAATTT
83815 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTA
83867 AGGCTAAACT
Statistics
Matches: 247, Mismatches: 12, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
103 27 0.11
104 29 0.12
105 123 0.50
106 68 0.28
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (105 bp):
ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
TTTCTAAAACCCTATAACAATATTATTAATTATGGAATTT
Done.