Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012682.1 Kokia drynarioides strain JFW-HI SEQ_127693, 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: 91570
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 102 characters in sequence are not A, C, G, or T
Found at i:1270 original size:18 final size:17
Alignment explanation
Indices: 1249--1359 Score: 123
Period size: 17 Copynumber: 6.4 Consensus size: 17
1239 TATAATAATT
1249 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
* *
1267 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
* *
1284 TTTAAATTCAAAACAAA
1 TTTAAATTTAAAATAAA
1301 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* * *
1318 TTCAAAATTTTAAACAAA
1 TT-TAAATTTAAAATAAA
*
1336 TTTAATTTTTAAAATAAA
1 TTTAA-ATTTAAAATAAA
1354 TTTAAA
1 TTTAAA
1360 GGGAGTTTGG
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
17 39 0.52
18 36 0.48
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:1277 original size:6 final size:6
Alignment explanation
Indices: 1249--1312 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
1239 TATAATAATT
* * *
1249 TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTCAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
1296 -ACAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
1313 ATAAATTCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
5 12 0.26
6 32 0.68
7 3 0.06
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (6 bp):
TTTAAA
Found at i:1288 original size:35 final size:34
Alignment explanation
Indices: 1249--1359 Score: 132
Period size: 35 Copynumber: 3.2 Consensus size: 34
1239 TATAATAATT
* * *
1249 TTTAAATTTGAAAATAAATTTAAACTTAAATTAAA
1 TTTAAATTT-AAAACAAATTTAAATTTAAAATAAA
*
1284 TTTAAATTCAAAACAAATTTAAATTTAAAATAAA
1 TTTAAATTTAAAACAAATTTAAATTTAAAATAAA
* * *
1318 TTCAAAATTTTAAACAAATTTAATTTTTAAAATAAA
1 TT-TAAATTTAAAACAAATTTAA-ATTTAAAATAAA
1354 TTTAAA
1 TTTAAA
1360 GGGAGTTTGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 24 0.37
35 28 0.43
36 13 0.20
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (34 bp):
TTTAAATTTAAAACAAATTTAAATTTAAAATAAA
Found at i:1742 original size:11 final size:10
Alignment explanation
Indices: 1707--1771 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 10
1697 ATTTTTTTAT
1707 ATTTTTAATAA
1 ATTTTTAAT-A
1718 ATTTTTAAT-
1 ATTTTTAATA
*
1727 TTTTTTAAATA
1 ATTTTT-AATA
1738 ATTTTT-ATA
1 ATTTTTAATA
*
1747 CTTTTT--TGA
1 ATTTTTAAT-A
1756 ATTTTTAA-A
1 ATTTTTAATA
1765 ATTTTTA
1 ATTTTTA
1772 TATTTAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
8 1 0.02
9 27 0.60
10 3 0.07
11 14 0.31
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:1751 original size:20 final size:19
Alignment explanation
Indices: 1700--1752 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1690 GCAATTAATT
1700 TTTTTATATTTTTAATAAA
1 TTTTTATATTTTTAATAAA
*
1719 TTTTTAATTTTTTTAA-ATAA
1 TTTTT-ATATTTTTAATA-AA
1739 TTTTTATACTTTTT
1 TTTTTATA-TTTTT
1753 TGAATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTATATTTTTAATAAA
Found at i:3748 original size:5 final size:5
Alignment explanation
Indices: 3738--3769 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
3728 GTTATTGTAC
3738 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT GG
1 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT GG
3770 ATTTAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (5 bp):
GGGTT
Found at i:9868 original size:135 final size:136
Alignment explanation
Indices: 9591--9847 Score: 417
Period size: 135 Copynumber: 1.9 Consensus size: 136
9581 AATGCCTGCT
* *
9591 TAATTGAAGTTCTCCCTAATTTCTTTTACTTTTTTCATTAGTTATACCTTTACAAGTAAGAAAGG
1 TAATTGAAGTTCTCCCTAATTTCTTTTACTTTTTTCATTAGATATACCTTTACAAGTAAGAAAGA
* * *
9656 ATAGTATCAAAACCTATGATTCTCTATATTTGAGTATTCAACCAGAGACCTGAATCATGAAAATG
66 ATAGTATCAAAACCTATGATTCTCTACATTTGAGTATTCAACAAGAGACCTGAATCAAGAAAATG
* *
9721 CCTACT
131 CATACA
*
9727 TAATTGAAGTTTTCCCTAATTTCTTTTACTTTTTTCATTAGATATACCTTTACAAGTAA-AAAGA
1 TAATTGAAGTTCTCCCTAATTTCTTTTACTTTTTTCATTAGATATACCTTTACAAGTAAGAAAGA
* *
9791 ATAGTATCAAAATCTATGATTCTCTACATTTGAGTATTCAACAAGAGACTTGAATCA
66 ATAGTATCAAAACCTATGATTCTCTACATTTGAGTATTCAACAAGAGACCTGAATCA
9848 CAAGGAAATC
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
135 57 0.50
136 57 0.50
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (136 bp):
TAATTGAAGTTCTCCCTAATTTCTTTTACTTTTTTCATTAGATATACCTTTACAAGTAAGAAAGA
ATAGTATCAAAACCTATGATTCTCTACATTTGAGTATTCAACAAGAGACCTGAATCAAGAAAATG
CATACA
Found at i:11176 original size:13 final size:12
Alignment explanation
Indices: 11144--11175 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11134 TTAATTAATA
11144 ATTTTTTTAAAG
1 ATTTTTTTAAAG
*
11156 ATTTTTTTGAAG
1 ATTTTTTTAAAG
11168 ATTTTTTT
1 ATTTTTTT
11176 TCTAAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (12 bp):
ATTTTTTTAAAG
Found at i:15600 original size:20 final size:20
Alignment explanation
Indices: 15556--15601 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15546 AAAGGTTGTG
*
15556 AAAATTATAATTATAAAATA
1 AAAATTACAATTATAAAATA
* * *
15576 TAAATTACAATTATTAATTA
1 AAAATTACAATTATAAAATA
15596 AAAATT
1 AAAATT
15602 TTGATTAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTACAATTATAAAATA
Found at i:15610 original size:17 final size:18
Alignment explanation
Indices: 15588--15625 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15578 AATTACAATT
15588 ATTAATTAAA-AA-TTTTG
1 ATTAA-TAAAGAAGTTTTG
15605 ATTAATAAAGAAGTTTTG
1 ATTAATAAAGAAGTTTTG
15623 ATT
1 ATT
15626 TTTTGATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (18 bp):
ATTAATAAAGAAGTTTTG
Found at i:22299 original size:12 final size:12
Alignment explanation
Indices: 22260--22301 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
22250 TTAACTTAAT
*
22260 CGAATATGTTCA
1 CGAACATGTTCA
**
22272 CGAACAT-TAAA
1 CGAACATGTTCA
22283 CGAACATGTTCA
1 CGAACATGTTCA
22295 CGAACAT
1 CGAACAT
22302 ATAATTGAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:22320 original size:24 final size:23
Alignment explanation
Indices: 22255--22324 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
22245 TTCATTTAAC
22255 TTAATCGAATATGTTCACGAACA
1 TTAATCGAATATGTTCACGAACA
* *
22278 TTAAACGAACATGTTCACGAACA
1 TTAATCGAATATGTTCACGAACA
*
22301 TATAATTGAATATGTTCACGAACA
1 T-TAATCGAATATGTTCACGAACA
22325 ATGTTAATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 22 0.54
24 19 0.46
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (23 bp):
TTAATCGAATATGTTCACGAACA
Found at i:30635 original size:32 final size:32
Alignment explanation
Indices: 30599--30666 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
30589 AAAAAGAGAA
30599 TAATAATCGAGTGACTACATTAAAAAAATTGG
1 TAATAATCGAGTGACTACATTAAAAAAATTGG
30631 TAATAATCGAGTGACTACATTAAAAAAATTGG
1 TAATAATCGAGTGACTACATTAAAAAAATTGG
30663 TAAT
1 TAAT
30667 TAGGTGGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (32 bp):
TAATAATCGAGTGACTACATTAAAAAAATTGG
Found at i:31496 original size:109 final size:109
Alignment explanation
Indices: 31305--31524 Score: 422
Period size: 109 Copynumber: 2.0 Consensus size: 109
31295 TTTTATGTAC
*
31305 AACTCTCTATCTTATAATCCCACTCTTTTCCCTGTTTTAACTTAGAATCTAAAATTCTAAACTCA
1 AACTCTCTATCTTATAATCCCACTCTTTCCCCTGTTTTAACTTAGAATCTAAAATTCTAAACTCA
*
31370 AAGTTGTTTCGTAGGTCATGAAAAGCATAGATAGCTGTACATAT
66 AAGTTGTTTCGTAGGTCATGAAAAGCATAGATAGATGTACATAT
31414 AACTCTCTATCTTATAATCCCACTCTTTCCCCTGTTTTAACTTAGAATCTAAAATTCTAAACTCA
1 AACTCTCTATCTTATAATCCCACTCTTTCCCCTGTTTTAACTTAGAATCTAAAATTCTAAACTCA
31479 AAGTTGTTTCGTAGGTCATGAAAAGCATAGATAGATGTACATAT
66 AAGTTGTTTCGTAGGTCATGAAAAGCATAGATAGATGTACATAT
31523 AA
1 AA
31525 TTTTATTATG
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (109 bp):
AACTCTCTATCTTATAATCCCACTCTTTCCCCTGTTTTAACTTAGAATCTAAAATTCTAAACTCA
AAGTTGTTTCGTAGGTCATGAAAAGCATAGATAGATGTACATAT
Found at i:31969 original size:3 final size:3
Alignment explanation
Indices: 31957--31988 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
31947 GCTTAGCTGC
*
31957 TGA TGG TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
31989 CAGCCCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:35105 original size:20 final size:20
Alignment explanation
Indices: 35077--35116 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35067 TTTAGTTATG
35077 GATAAAATTTAATAGGTATC
1 GATAAAATTTAATAGGTATC
* **
35097 GATATAATTTTCTAGGTATC
1 GATAAAATTTAATAGGTATC
35117 AACACTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (20 bp):
GATAAAATTTAATAGGTATC
Found at i:40674 original size:23 final size:21
Alignment explanation
Indices: 40648--40700 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
40638 TTTATTAATT
40648 AAAAATAAA-ATAACATGAAATAA
1 AAAAATAAATATAA-AT-AAA-AA
*
40671 AAAATATAAATATAAATAAAAG
1 AAAA-ATAAATATAAATAAAAA
40693 AAAAATAA
1 AAAAATAA
40701 GACTTGAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 7 0.26
24 7 0.26
25 4 0.15
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAATAAATATAAATAAAAA
Found at i:40696 original size:24 final size:22
Alignment explanation
Indices: 40648--40697 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
40638 TTTATTAATT
* * *
40648 AAAAATAAAATAACATGAAATA
1 AAAAATAAAATAAAATAAAAGA
40670 AAAAATATAAATATAAATAAAAGA
1 AAAAATA-AAATA-AAATAAAAGA
40694 AAAA
1 AAAA
40698 TAAGACTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 7 0.30
23 5 0.22
24 11 0.48
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (22 bp):
AAAAATAAAATAAAATAAAAGA
Found at i:78662 original size:10 final size:10
Alignment explanation
Indices: 78640--78687 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
78630 GAATATGTTG
78640 AATTTTTTAA
1 AATTTTTTAA
78650 AATTATTTT-A
1 AATT-TTTTAA
78660 AATTTTTTAA
1 AATTTTTTAA
*
78670 AATTATTTT-G
1 AATT-TTTTAA
78680 AATTTTTT
1 AATTTTTT
78688 TTGTACTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
9 8 0.24
10 18 0.53
11 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:78663 original size:20 final size:20
Alignment explanation
Indices: 78640--78687 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
78630 GAATATGTTG
78640 AATTTTTTAAAATTATTTTA
1 AATTTTTTAAAATTATTTTA
*
78660 AATTTTTTAAAATTATTTTG
1 AATTTTTTAAAATTATTTTA
78680 AATTTTTT
1 AATTTTTT
78688 TTGTACTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTTTTTAAAATTATTTTA
Found at i:79046 original size:21 final size:22
Alignment explanation
Indices: 79022--79066 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
79012 AAATTGATTA
*
79022 TATATT-AAAAATATTTCTATG
1 TATATTAAAAAATATTCCTATG
79043 TATATTAAAAAATATTCCTATG
1 TATATTAAAAAATATTCCTATG
79065 TA
1 TA
79067 AATTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (22 bp):
TATATTAAAAAATATTCCTATG
Found at i:79464 original size:11 final size:11
Alignment explanation
Indices: 79448--79495 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
79438 AGTAAATAAT
79448 ATATTTTTTAA
1 ATATTTTTTAA
*
79459 ATATTTTTCATAT
1 ATATTTTT--TAA
79472 ATATTTTTTAA
1 ATATTTTTTAA
79483 A-ATATTTTTAA
1 ATAT-TTTTTAA
79494 AT
1 AT
79496 TTTCACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
10 2 0.06
11 19 0.61
13 10 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTTTTTAA
Found at i:79724 original size:26 final size:28
Alignment explanation
Indices: 79694--79750 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 28
79684 TGAGAAAACA
*
79694 AGATTTTTAA-AT-AAAAAAAATTATAG
1 AGATTTTCAACATCAAAAAAAATTATAG
*
79720 AGA--TTCAACGTCAAAAAAAATTATAG
1 AGATTTTCAACATCAAAAAAAATTATAG
79746 AGATT
1 AGATT
79751 CAACGTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 4 0.16
25 1 0.04
26 20 0.80
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (28 bp):
AGATTTTCAACATCAAAAAAAATTATAG
Found at i:79762 original size:28 final size:26
Alignment explanation
Indices: 79706--79763 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
79696 ATTTTTAAAT
79706 AAAAAAAATTATAGAGATTCAACGTC
1 AAAAAAAATTATAGAGATTCAACGTC
79732 AAAAAAAATTATAGAGATTCAACGTC
1 AAAAAAAATTATAGAGATTCAACGTC
*
79758 ACAAAA
1 AAAAAA
79764 TTTAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.21
Consensus pattern (26 bp):
AAAAAAAATTATAGAGATTCAACGTC
Found at i:84619 original size:53 final size:53
Alignment explanation
Indices: 84561--84663 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
84551 TAATGGTTCC
84561 GGCAGAGATTGAAGAATCGCCATGGAATTTAGAGGTTTATATATGCAAGGAAA
1 GGCAGAGATTGAAGAATCGCCATGGAATTTAGAGGTTTATATATGCAAGGAAA
*
84614 GGCAGAGATTGAAGAATCGGCATGGAATTTAGAGGTTTATATATGCAAGG
1 GGCAGAGATTGAAGAATCGCCATGGAATTTAGAGGTTTATATATGCAAGG
84664 GAAAACTCCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.25
Consensus pattern (53 bp):
GGCAGAGATTGAAGAATCGCCATGGAATTTAGAGGTTTATATATGCAAGGAAA
Found at i:86572 original size:17 final size:18
Alignment explanation
Indices: 86533--86572 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
86523 TATTATATAA
86533 TATTTAAATATATAATTT
1 TATTTAAATATATAATTT
* *
86551 AATTTAAATGTAT-ATTT
1 TATTTAAATATATAATTT
86568 TATTT
1 TATTT
86573 TTAGTGGAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTTAAATATATAATTT
Found at i:89476 original size:19 final size:19
Alignment explanation
Indices: 89454--89496 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
89444 TATTATAGAT
89454 CCGGTTCACATGTATAAAC
1 CCGGTTCACATGTATAAAC
89473 CCGGTTCACATGTATAAAC
1 CCGGTTCACATGTATAAAC
89492 CCGGT
1 CCGGT
89497 ATAAGAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (19 bp):
CCGGTTCACATGTATAAAC
Found at i:90723 original size:6 final size:6
Alignment explanation
Indices: 90698--90736 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
90688 ATAATTCATA
* * *
90698 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
90737 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Done.