Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011352.1 Kokia drynarioides strain JFW-HI SEQ_126332, 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: 63448
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:527 original size:11 final size:12
Alignment explanation
Indices: 506--614 Score: 84
Period size: 11 Copynumber: 9.3 Consensus size: 12
496 GATTTATTTC
*
506 TAAAATTAAATT
1 TAAATTTAAATT
*
518 T-ACTTTAAATT
1 TAAATTTAAATT
529 TAAATTTAAATT
1 TAAATTTAAATT
* **
541 CATTCTTTAAATT
1 TA-AATTTAAATT
554 TAAATTT-AATT
1 TAAATTTAAATT
565 TAAATTTAAATT
1 TAAATTTAAATT
* *
577 T-AGTCTAAATT
1 TAAATTTAAATT
*
588 TGAAA--TAATTT
1 T-AAATTTAAATT
*
599 TAAACTTAAATT
1 TAAATTTAAATT
611 TAAA
1 TAAA
615 ATCAATTACA
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
10 3 0.04
11 35 0.46
12 28 0.37
13 10 0.13
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (12 bp):
TAAATTTAAATT
Found at i:529 original size:25 final size:25
Alignment explanation
Indices: 501--577 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
491 TTTTAGATTT
501 ATTTCTAAAATTAAATT-TACTTTAA
1 ATTT-TAAAATTAAATTATACTTTAA
* *
526 A-TTTAAATTTAAATTCATTCTTTAA
1 ATTTTAAAATTAAATT-ATACTTTAA
* * *
551 A-TTTAAATTTAATTTA-AATTTAA
1 ATTTTAAAATTAAATTATACTTTAA
574 ATTT
1 ATTT
578 AGTCTAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 17 0.39
24 5 0.11
25 22 0.50
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTTAAAATTAAATTATACTTTAA
Found at i:530 original size:6 final size:6
Alignment explanation
Indices: 506--614 Score: 84
Period size: 6 Copynumber: 18.7 Consensus size: 6
496 GATTTATTTC
* * * **
506 TAAAAT TAAATT T-ACTT TAAATT TAAATT TAAATT CATTCTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TA-AATT TAAATT
* * *
554 TAAATT T-AATT TAAATT TAAATT T-AGTC TAAATT TGAAA-- TAATTT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT T-AAATT TAAATT
*
599 TAAACT TAAATT TAAA
1 TAAATT TAAATT TAAA
615 ATCAATTACA
Statistics
Matches: 79, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
4 2 0.03
5 13 0.16
6 58 0.73
7 6 0.08
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (6 bp):
TAAATT
Found at i:531 original size:17 final size:17
Alignment explanation
Indices: 511--613 Score: 86
Period size: 17 Copynumber: 5.9 Consensus size: 17
501 ATTTCTAAAA
*
511 TTAAATTT-ACTTTAAAT
1 TTAAATTTAAATTT-AAT
**
528 TTAAATTTAAATTCATTCT
1 TTAAATTTAAATT--TAAT
547 TTAAATTTAAATTTAAT
1 TTAAATTTAAATTTAAT
*
564 TTAAATTTAAATTTAGT
1 TTAAATTTAAATTTAAT
*
581 CTAAATTTGAAA--TAATT
1 TTAAATTT-AAATTTAA-T
*
598 TTAAACTTAAATTTAA
1 TTAAATTTAAATTTAA
614 AATCAATTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.07
17 40 0.58
18 9 0.13
19 14 0.20
20 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAAATTTAAATTTAAT
Found at i:1411 original size:3 final size:3
Alignment explanation
Indices: 1347--1392 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
1337 ATATTGTTAT
**
1347 TAA TAA TAA CCA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1393 CTGTTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1417 original size:9 final size:9
Alignment explanation
Indices: 1363--1431 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
1353 TAACCATAAT
*
1363 TAATAATAA
1 TAATATTAA
*
1372 TAATAATAA
1 TAATATTAA
*
1381 TAATAATAA
1 TAATATTAA
* **
1390 TAACTGTTTT
1 TAA-TATTAA
1400 TAA-ATTAA
1 TAATATTAA
1408 TAATATTAA
1 TAATATTAA
1417 TAATATTAA
1 TAATATTAA
1426 CTAATA
1 -TAATA
1432 AATAAAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
8 5 0.10
9 35 0.70
10 10 0.20
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (9 bp):
TAATATTAA
Found at i:2363 original size:29 final size:29
Alignment explanation
Indices: 2320--2518 Score: 193
Period size: 29 Copynumber: 6.8 Consensus size: 29
2310 GGAGGTCCTT
2320 AAACTGTCCAAAAATTCCATTTTCACCCCC
1 AAACT-TCCAAAAATTCCATTTTCACCCCC
* * * *
2350 AAACTTCCAAAAATCCCATTTTTGACCTCA
1 AAACTTCCAAAAATTCCA-TTTTCACCCCC
* * * **
2380 AAACCTCTAAAAATTTCATTTTCACCCTT
1 AAACTTCCAAAAATTCCATTTTCACCCCC
* *
2409 AAACTTCCAAAAATTCTATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTCACCCCC
* * *
2438 GAACTTCCAAAAA-TCCTATTTTTAACCCCA
1 AAACTTCCAAAAATTCC-A-TTTTCACCCCC
* *
2468 AAACTTCTAAAAATTCCATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTCACCCCC
* *
2497 AAAATTCCAAAAATCCCATTTT
1 AAACTTCCAAAAATTCCATTTT
2519 TGACACCGAA
Statistics
Matches: 135, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
28 2 0.01
29 82 0.61
30 48 0.36
31 3 0.02
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTCACCCCC
Found at i:2477 original size:88 final size:88
Alignment explanation
Indices: 2316--2519 Score: 282
Period size: 88 Copynumber: 2.3 Consensus size: 88
2306 CCCTGGAGGT
* * *
2316 CCTTAAACTGTCCAAAAATTCCATTTTCACCCCCAAACTTCCAAAAATCCCATTTTTGACCTCAA
1 CCTTAAACT-TCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCCCAA
*
2381 AACCTCTAAAAATTTCATTTTCAC
65 AACCTCTAAAAATTCCATTTTCAC
* * *
2405 CCTTAAACTTCCAAAAATTCTATTTTTACCCCCGAACTTCCAAAAATCCTATTTTTAACCCCAAA
1 CCTTAAACTTCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCCCAAA
* *
2470 ACTTCTAAAAATTCCATTTTTAC
66 ACCTCTAAAAATTCCATTTTCAC
** * *
2493 CCCCAAAATTCCAAAAATCCCATTTTT
1 CCTTAAACTTCCAAAAATTCCATTTTT
2520 GACACCGAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 92 0.91
89 9 0.09
ACGTcount: A:0.35, C:0.30, G:0.01, T:0.33
Consensus pattern (88 bp):
CCTTAAACTTCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCCCAAA
ACCTCTAAAAATTCCATTTTCAC
Found at i:4103 original size:57 final size:57
Alignment explanation
Indices: 4036--4150 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
4026 ACTAAAAAAC
4036 ATGAAAATTACTAAAAACGGGTAGAATTAGCTTACTCAAATCAAAGCTCTAAGCTTA
1 ATGAAAATTACTAAAAACGGGTAGAATTAGCTTACTCAAATCAAAGCTCTAAGCTTA
4093 ATGAAAATTACTAAAAACGGGTAGAATTAGCTTACTCAAATCAAAGCTCTAAGCTTA
1 ATGAAAATTACTAAAAACGGGTAGAATTAGCTTACTCAAATCAAAGCTCTAAGCTTA
4150 A
1 A
4151 GAATGAAACC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (57 bp):
ATGAAAATTACTAAAAACGGGTAGAATTAGCTTACTCAAATCAAAGCTCTAAGCTTA
Found at i:4820 original size:22 final size:22
Alignment explanation
Indices: 4774--4823 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4764 ACCACTTATA
*
4774 CAAAATT-TTAATTTAATAATT
1 CAAAATTCTTAATTCAATAATT
4795 -AAAATTCTTCAATTCAA-AATT
1 CAAAATTCTT-AATTCAATAATT
4816 CAAAATTC
1 CAAAATTC
4824 CAAATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 6 0.24
22 13 0.52
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (22 bp):
CAAAATTCTTAATTCAATAATT
Found at i:5750 original size:5 final size:6
Alignment explanation
Indices: 5733--5788 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
5723 TATATATATA
* ***
5733 TCTTTT TCTTTT TCTTTT TCTTTT TATCAA T-TTTT TCTTTCTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TT-TT TCTTTT
5782 TCTTTT T
1 TCTTTT T
5789 TTATGTGGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
5 2 0.05
6 30 0.75
7 4 0.10
8 4 0.10
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (6 bp):
TCTTTT
Found at i:6495 original size:34 final size:34
Alignment explanation
Indices: 6452--6519 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
6442 GCAACTAAAC
6452 TACGTACTGAAAAATAAAAGACTAACTCATTGAT
1 TACGTACTGAAAAATAAAAGACTAACTCATTGAT
6486 TACGTACTGAAAAATAAAAGACTAACTCATTGAT
1 TACGTACTGAAAAATAAAAGACTAACTCATTGAT
6520 ATGTAGCCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (34 bp):
TACGTACTGAAAAATAAAAGACTAACTCATTGAT
Found at i:26193 original size:2 final size:2
Alignment explanation
Indices: 26188--26213 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26178 ATATAATGAC
26188 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
26214 GTGGTCCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36871 original size:31 final size:30
Alignment explanation
Indices: 36836--36902 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
36826 TTTCAGGGTT
*
36836 GGTGATCAAAAGAGAAAAATT-CAAATAGTTG
1 GGTGACCAAAA-AG-AAAATTACAAATAGTTG
* *
36867 GGTGACCAAAAAGAAATTTACTAATAGTTG
1 GGTGACCAAAAAGAAAATTACAAATAGTTG
36897 GGTGAC
1 GGTGAC
36903 TACCAGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.16
30 17 0.53
31 10 0.31
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (30 bp):
GGTGACCAAAAAGAAAATTACAAATAGTTG
Found at i:44811 original size:21 final size:22
Alignment explanation
Indices: 44775--44820 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
44765 GATAAATGCT
* *
44775 TAACTAATTAAAAATATTTAAA
1 TAACTAAATAAAAATATATAAA
44797 TAACTAAAT-AAAATATATAAA
1 TAACTAAATAAAAATATATAAA
44818 TAA
1 TAA
44821 TTTATCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
TAACTAAATAAAAATATATAAA
Found at i:44993 original size:27 final size:26
Alignment explanation
Indices: 44946--44996 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
44936 TTTTAATAAG
* * *
44946 TTTTAATAATTTATTATATATATTAT
1 TTTTAAAAAATTATTACATATATTAT
44972 TTTTAAAAAATTATATACATATATT
1 TTTTAAAAAATTAT-TACATATATT
44997 TTAATTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTAAAAAATTATTACATATATTAT
Found at i:51873 original size:24 final size:24
Alignment explanation
Indices: 51833--51878 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
51823 CTATATATTA
*
51833 TTTTTCTAATATTATATATTAAAT
1 TTTTTCTAATATCATATATTAAAT
*
51857 TTTTTACTAAT-TCATATTTTAA
1 TTTTT-CTAATATCATATATTAA
51879 TAATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTTCTAATATCATATATTAAAT
Found at i:51893 original size:15 final size:15
Alignment explanation
Indices: 51875--52000 Score: 54
Period size: 15 Copynumber: 8.7 Consensus size: 15
51865 AATTCATATT
51875 TTAATAATAATTATA
1 TTAATAATAATTATA
*
51890 TTAAAAAT-ATTAT-
1 TTAATAATAATTATA
* *
51903 TAAATTATATATTAT-
1 TTAATAATA-ATTATA
* * *
51918 TTTATTAT-ATTGTA
1 TTAATAATAATTATA
*
51932 TTTAATAATAATTATG
1 -TTAATAATAATTATA
* *
51948 TTAAAATATAATTAAA
1 TTAATA-ATAATTATA
51964 TTAAT--T-ATTAT-
1 TTAATAATAATTATA
* *
51975 TTTATTA-AATTATA
1 TTAATAATAATTATA
51989 TTTAATAATAAT
1 -TTAATAATAAT
52001 CTTATTAAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 23
0.66 0.16 0.19
Matches are distributed among these distances:
11 4 0.05
12 4 0.05
13 15 0.19
14 5 0.06
15 34 0.43
16 18 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TTAATAATAATTATA
Found at i:52006 original size:31 final size:30
Alignment explanation
Indices: 51914--52006 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 30
51904 AAATTATATA
* *
51914 TTATTTTATTATATTGTATTTAATAATAA-
1 TTATTTTATTAAATTATATTTAATAATAAT
* * *
51943 TTATGTTA--AAA-TATAATTAA-ATTAATT
1 TTATTTTATTAAATTATATTTAATAATAA-T
51970 ATTATTTTATTAAATTATATTTAATAATAAT
1 -TTATTTTATTAAATTATATTTAATAATAAT
52001 CTTATT
1 -TTATT
52007 AAAATTTAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
25 4 0.08
26 7 0.15
27 2 0.04
28 7 0.15
29 7 0.15
30 3 0.06
31 14 0.29
32 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (30 bp):
TTATTTTATTAAATTATATTTAATAATAAT
Found at i:52011 original size:57 final size:57
Alignment explanation
Indices: 51884--52016 Score: 180
Period size: 57 Copynumber: 2.3 Consensus size: 57
51874 TTTAATAATA
* * *
51884 ATTATATTAAAAATATTATTAAATTATATATTATTTTATTATATTGTATTTAATAATA
1 ATTATATT-AAAATATAATTAAATTATATATTATTTTATTAAATTATATTTAATAATA
*
51942 ATTATGTTAAAATATAATTAAATTA-ATTATTATTTTATTAAATTATATTTAATAATA
1 ATTATATTAAAATATAATTAAATTATA-TATTATTTTATTAAATTATATTTAATAATA
*
51999 ATCT-TATTAAAATTTAAT
1 AT-TATATTAAAATATAAT
52017 AACAATAATC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
56 1 0.01
57 58 0.87
58 8 0.12
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (57 bp):
ATTATATTAAAATATAATTAAATTATATATTATTTTATTAAATTATATTTAATAATA
Found at i:52168 original size:16 final size:16
Alignment explanation
Indices: 52147--52202 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
52137 TGAATTACTG
52147 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
52163 ATTACAGCTCTATTTC
1 ATTACAGCTCTATTCC
*
52179 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
52195 ATTACAGC
1 ATTACAGC
52203 GAACCAAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:54856 original size:74 final size:74
Alignment explanation
Indices: 54735--54887 Score: 272
Period size: 74 Copynumber: 2.1 Consensus size: 74
54725 TGTTAAGGGA
*
54735 TTCATCGACTTCAAGTAAATTACACTTCAAACATTTCTTTCAAAATAATCAGAAATCCCTCAATA
1 TTCATCGACTTCAAGTAAATTACACTTCAAACATTTCTTTCAAAATAATCAGAAATCCCTCAACA
54800 ATTATAATT
66 ATTATAATT
54809 TTCATCGACTTCAAGTAAATTACACTTCAAACA-TTCTTCTCAAAATAATCAGAAATCCCTCAAC
1 TTCATCGACTTCAAGTAAATTACACTTCAAACATTTCTT-TCAAAATAATCAGAAATCCCTCAAC
*
54873 AATTATATTT
65 AATTATAATT
54883 TTCAT
1 TTCAT
54888 TTTTAACACA
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
73 5 0.07
74 71 0.93
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (74 bp):
TTCATCGACTTCAAGTAAATTACACTTCAAACATTTCTTTCAAAATAATCAGAAATCCCTCAACA
ATTATAATT
Found at i:57348 original size:119 final size:119
Alignment explanation
Indices: 57186--57431 Score: 483
Period size: 119 Copynumber: 2.1 Consensus size: 119
57176 ATGTCTTGGT
57186 GGCTCAAATGACGTAAGAGCCTATGCAACACTTTAACCTATCCTGCCAAGCTCATTCTAGGTTTC
1 GGCTCAAATGACGTAAGAGCCTATGCAACACTTTAACCTATCCTGCCAAGCTCATTCTAGGTTTC
57251 GTGCCGCCATTACCACCTGCGATCTTGATTTTTACGGTAAATTATTTTTACATA
66 GTGCCGCCATTACCACCTGCGATCTTGATTTTTACGGTAAATTATTTTTACATA
*
57305 GGCTCAAATGACGTAAGAGCCTATGCAACACTTTGACCTATCCTGCCAAGCTCATTCTAGGTTTC
1 GGCTCAAATGACGTAAGAGCCTATGCAACACTTTAACCTATCCTGCCAAGCTCATTCTAGGTTTC
57370 GTGCCGCCATTACCACCTGCGATCTTGATTTTTACGGTAAATTATTTTTACATA
66 GTGCCGCCATTACCACCTGCGATCTTGATTTTTACGGTAAATTATTTTTACATA
57424 GGCTCAAA
1 GGCTCAAA
57432 AAAAAAAAAA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 126 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (119 bp):
GGCTCAAATGACGTAAGAGCCTATGCAACACTTTAACCTATCCTGCCAAGCTCATTCTAGGTTTC
GTGCCGCCATTACCACCTGCGATCTTGATTTTTACGGTAAATTATTTTTACATA
Found at i:60543 original size:25 final size:25
Alignment explanation
Indices: 60509--60560 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
60499 TGACCATTAA
60509 AGCGGATTTGGAGAAAGCTTACGAT
1 AGCGGATTTGGAGAAAGCTTACGAT
60534 AGCGGATTTGGAGAAAGCTTACGAT
1 AGCGGATTTGGAGAAAGCTTACGAT
60559 AG
1 AG
60561 ACTTAGGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.23
Consensus pattern (25 bp):
AGCGGATTTGGAGAAAGCTTACGAT
Done.