Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001264.1 Kokia drynarioides strain JFW-HI SEQ_112640, 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: 110758
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 140 characters in sequence are not A, C, G, or T
Found at i:13860 original size:151 final size:151
Alignment explanation
Indices: 13581--13889 Score: 609
Period size: 151 Copynumber: 2.0 Consensus size: 151
13571 AGTACAAGAG
*
13581 TTTTGTGCTTGAATAAGCCGAATGAGAATTGCAAAGATTGTTCAAGCCATAATCTAGAGGCAGGT
1 TTTTATGCTTGAATAAGCCGAATGAGAATTGCAAAGATTGTTCAAGCCATAATCTAGAGGCAGGT
13646 AGATGAACTGCAAAGTGATCCATGCCTTATTTTAACAAAAAACCATACACACCACATTTTTATCA
66 AGATGAACTGCAAAGTGATCCATGCCTTATTTTAACAAAAAACCATACACACCACATTTTTATCA
13711 TTGTTTGCTGGCAATATCTAC
131 TTGTTTGCTGGCAATATCTAC
13732 TTTTATGCTTGAATAAGCCGAATGAGAATTGCAAAGATTGTTCAAGCCATAATCTAGAGGCAGGT
1 TTTTATGCTTGAATAAGCCGAATGAGAATTGCAAAGATTGTTCAAGCCATAATCTAGAGGCAGGT
13797 AGATGAACTGCAAAGTGATCCATGCCTTATTTTAACAAAAAACCATACACACCACATTTTTATCA
66 AGATGAACTGCAAAGTGATCCATGCCTTATTTTAACAAAAAACCATACACACCACATTTTTATCA
13862 TTGTTTGCTGGCAATATCTAC
131 TTGTTTGCTGGCAATATCTAC
13883 TTTTATG
1 TTTTATG
13890 TTTCTCAAAC
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 157 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (151 bp):
TTTTATGCTTGAATAAGCCGAATGAGAATTGCAAAGATTGTTCAAGCCATAATCTAGAGGCAGGT
AGATGAACTGCAAAGTGATCCATGCCTTATTTTAACAAAAAACCATACACACCACATTTTTATCA
TTGTTTGCTGGCAATATCTAC
Found at i:26151 original size:22 final size:22
Alignment explanation
Indices: 26123--26183 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
26113 TAGGGATCGA
*
26123 AATTAAATTATAATTTTTACGAT
1 AATTAAATTATAATTTTTA-AAT
* *
26146 AATAAAAATA-AATTTTTAAAT
1 AATTAAATTATAATTTTTAAAT
*
26167 AATTAAATTAAAATTTT
1 AATTAAATTATAATTTT
26184 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 10 0.31
22 14 0.44
23 8 0.25
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTAAATTATAATTTTTAAAT
Found at i:26168 original size:21 final size:22
Alignment explanation
Indices: 26134--26184 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
26124 ATTAAATTAT
*
26134 AATTTTTACGATAATAAAAATA
1 AATTTTTACAATAATAAAAATA
* *
26156 AATTTTTA-AATAATTAAATTA
1 AATTTTTACAATAATAAAAATA
*
26177 AAATTTTA
1 AATTTTTA
26185 TTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTTTTACAATAATAAAAATA
Found at i:26378 original size:30 final size:30
Alignment explanation
Indices: 26344--26403 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
26334 CTAAAAGAAC
* *
26344 ATTACCTCATTATAATATTTATTATATATA
1 ATTACCTCATTATAATATTTACTACATATA
26374 ATTACCTCATTATAATATTTACTACATATA
1 ATTACCTCATTATAATATTTACTACATATA
26404 GTATAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTACCTCATTATAATATTTACTACATATA
Found at i:29682 original size:16 final size:16
Alignment explanation
Indices: 29657--29690 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
29647 TTTCTAATGT
29657 AATGAGTGATGTGTGA
1 AATGAGTGATGTGTGA
*
29673 AATGATTGATGTGTGA
1 AATGAGTGATGTGTGA
29689 AA
1 AA
29691 CTGTTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
AATGAGTGATGTGTGA
Found at i:45488 original size:29 final size:30
Alignment explanation
Indices: 45445--45501 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
45435 TAATTAGATC
* *
45445 AAATCAAAATTTTATTTATAAAATTGCACA
1 AAATCAAAATTTTATGTATAAAACTGCACA
45475 AAATCAAAA-TTTATGTATAAAACTGCA
1 AAATCAAAATTTTATGTATAAAACTGCA
45502 TATTAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTTATGTATAAAACTGCACA
Found at i:54272 original size:26 final size:25
Alignment explanation
Indices: 54222--54274 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
54212 AATTTATAAA
*
54222 AAAATTAATGTTTTGGTTATAATGAT
1 AAAATTAATGTTTT-GTCATAATGAT
54248 AAAATTAATTGTTTT-TCATACATGAT
1 AAAATTAA-TGTTTTGTCATA-ATGAT
54274 A
1 A
54275 TTACGAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 14 0.58
27 6 0.25
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (25 bp):
AAAATTAATGTTTTGTCATAATGAT
Found at i:55213 original size:2 final size:2
Alignment explanation
Indices: 55206--55233 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55196 GTAAATACTC
55206 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
55234 TTCAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64411 original size:21 final size:22
Alignment explanation
Indices: 64376--64420 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
64366 CTTTTTATAA
* *
64376 TTTTTAATATTTTTATTTTATT
1 TTTTTAATATATTTATTTAATT
64398 TTTTTAATA-ATTTATTTAATT
1 TTTTTAATATATTTATTTAATT
64419 TT
1 TT
64421 AACTGGTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTAATATATTTATTTAATT
Found at i:64491 original size:19 final size:19
Alignment explanation
Indices: 64467--64504 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64457 TAGAGTAGTC
*
64467 CGAAATCGATTCAATTATT
1 CGAAATCAATTCAATTATT
64486 CGAAATCAATTCAATTATT
1 CGAAATCAATTCAATTATT
64505 GTTTCAACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
CGAAATCAATTCAATTATT
Found at i:67224 original size:2 final size:2
Alignment explanation
Indices: 67217--67245 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
67207 CATCACAATC
67217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67246 ACAGTAACCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78246 original size:2 final size:2
Alignment explanation
Indices: 78239--78269 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
78229 CGAGCCTAAA
78239 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
78270 AAGTGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:78673 original size:15 final size:15
Alignment explanation
Indices: 78649--78700 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
78639 AAGAGCTGAT
*
78649 TGTTGTTGTTGCTGC
1 TGTTGCTGTTGCTGC
78664 TGTTGCTGTTGCTGC
1 TGTTGCTGTTGCTGC
* * * *
78679 TGCTGCTGCTGTTGT
1 TGTTGCTGTTGCTGC
78694 TGTTGCT
1 TGTTGCT
78701 TGGAAGCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.00, C:0.17, G:0.33, T:0.50
Consensus pattern (15 bp):
TGTTGCTGTTGCTGC
Found at i:78676 original size:12 final size:12
Alignment explanation
Indices: 78661--78700 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
78651 TTGTTGTTGC
78661 TGCTGTTGCTGT
1 TGCTGTTGCTGT
* *
78673 TGCTGCTGCTGC
1 TGCTGTTGCTGT
*
78685 TGCTGTTGTTGT
1 TGCTGTTGCTGT
78697 TGCT
1 TGCT
78701 TGGAAGCAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.20, G:0.33, T:0.47
Consensus pattern (12 bp):
TGCTGTTGCTGT
Found at i:78700 original size:18 final size:18
Alignment explanation
Indices: 78652--78700 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
78642 AGCTGATTGT
*
78652 TGTTGTTGCTGCTGTTGC
1 TGTTGTTGCTGCTGCTGC
*
78670 TGTTGCTGCTGCTGCTGC
1 TGTTGTTGCTGCTGCTGC
*
78688 TGTTGTTGTTGCT
1 TGTTGTTGCTGCT
78701 TGGAAGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.33, T:0.49
Consensus pattern (18 bp):
TGTTGTTGCTGCTGCTGC
Found at i:80777 original size:20 final size:20
Alignment explanation
Indices: 80748--80785 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80738 GTTAAAATGG
*
80748 TTGAAATTGAATTTTTAAAC
1 TTGAAATTGAATTATTAAAC
*
80768 TTGAAGTTGAATTATTAA
1 TTGAAATTGAATTATTAA
80786 TGTTTAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTGAAATTGAATTATTAAAC
Found at i:84147 original size:22 final size:22
Alignment explanation
Indices: 84083--84147 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
84073 TTTATGGGAC
84083 CGAAATTAAATTGTATATTTTTA
1 CGAAATTAAATTGTATA-TTTTA
* * * **
84106 TGATAGTAAAAAAGTA-ATTTTA
1 CGA-AATTAAATTGTATATTTTA
84128 CGAAATTAAATTGTATATTT
1 CGAAATTAAATTGTATATTT
84148 ATGAAATCCT
Statistics
Matches: 30, Mismatches: 10, Indels: 5
0.67 0.22 0.11
Matches are distributed among these distances:
21 8 0.27
22 11 0.37
23 3 0.10
24 8 0.27
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (22 bp):
CGAAATTAAATTGTATATTTTA
Found at i:84153 original size:21 final size:22
Alignment explanation
Indices: 84084--84154 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
84074 TTATGGGACC
84084 GAAATTAAATTGTATATTTTTAT
1 GAAATTAAATTGTATA-TTTTAT
* * ** *
84107 GATAGTAAAAAAGTA-ATTTTAC
1 GA-AATTAAATTGTATATTTTAT
84129 GAAATTAAATTGTATA-TTTAT
1 GAAATTAAATTGTATATTTTAT
84150 GAAAT
1 GAAAT
84155 CCTCTTTAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
21 17 0.47
22 8 0.22
23 3 0.08
24 8 0.22
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.42
Consensus pattern (22 bp):
GAAATTAAATTGTATATTTTAT
Found at i:85106 original size:23 final size:21
Alignment explanation
Indices: 85058--85098 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85048 CTTTTTTTAA
*
85058 TTTTTAATATTTTATTGAAAT
1 TTTTTAATATTTTATAGAAAT
*
85079 TTTTTATTATATTTATAGAA
1 TTTTTAATAT-TTTATAGAA
85099 CTCTTTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTTTAATATTTTATAGAAAT
Found at i:93872 original size:25 final size:27
Alignment explanation
Indices: 93830--93884 Score: 87
Period size: 25 Copynumber: 2.1 Consensus size: 27
93820 GTGAGGTTTA
93830 TAATATGGTAATGAGATTAAATT-AAT
1 TAATATGGTAATGAGATTAAATTAAAT
*
93856 TAATAT-GTAATGTGATTAAATTAAAT
1 TAATATGGTAATGAGATTAAATTAAAT
93882 TAA
1 TAA
93885 AATTTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (27 bp):
TAATATGGTAATGAGATTAAATTAAAT
Found at i:97886 original size:19 final size:19
Alignment explanation
Indices: 97849--97889 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
97839 GGATTTGAGC
* **
97849 AATAATATTAGACTTAAAA
1 AATAAGATTAGACAAAAAA
97868 AATAAGATTAGACAAAAAA
1 AATAAGATTAGACAAAAAA
97887 AAT
1 AAT
97890 TAGGTATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (19 bp):
AATAAGATTAGACAAAAAA
Found at i:98491 original size:20 final size:20
Alignment explanation
Indices: 98468--98550 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
98458 TTGGTGCTGC
98468 TTTTGCTATTATTTTTATTG
1 TTTTGCTATTATTTTTATTG
*
98488 TTTTTATTGCTATT-TTTGTTGTTG
1 ---TT-TTGCTATTATTT-TTATTG
* *
98512 TTTTGCTGTTATTTTTGTTG
1 TTTTGCTATTATTTTTATTG
* * *
98532 TTTGGGTGTTATTTTTATT
1 TTTTGCTATTATTTTTATT
98551 CATTTTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 29 0.56
21 5 0.10
23 5 0.10
24 13 0.25
ACGTcount: A:0.10, C:0.04, G:0.17, T:0.70
Consensus pattern (20 bp):
TTTTGCTATTATTTTTATTG
Found at i:98497 original size:24 final size:24
Alignment explanation
Indices: 98470--98515 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
98460 GGTGCTGCTT
98470 TTGCTATTATTT-TTATTGTTTTTA
1 TTGCTATT-TTTGTTATTGTTTTTA
*
98494 TTGCTATTTTTGTTGTTGTTTT
1 TTGCTATTTTTGTTATTGTTTT
98516 GCTGTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.11, C:0.04, G:0.13, T:0.72
Consensus pattern (24 bp):
TTGCTATTTTTGTTATTGTTTTTA
Found at i:98501 original size:21 final size:20
Alignment explanation
Indices: 98477--98534 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
98467 CTTTTGCTAT
*
98477 TATTTTTATTGTTTTTATTGC
1 TATTTTTATTGTTGTT-TTGC
*
98498 TATTTTTGTTGTTGTTTTGC
1 TATTTTTATTGTTGTTTTGC
*
98518 TGTTATTT-TTGTTGTTT
1 TATT-TTTATTGTTGTTT
98535 GGGTGTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.09, C:0.03, G:0.16, T:0.72
Consensus pattern (20 bp):
TATTTTTATTGTTGTTTTGC
Found at i:98501 original size:44 final size:44
Alignment explanation
Indices: 98442--98534 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
98432 ATTATATTGC
*
98442 TGTTTTTTTTACTA-TTTTGGTGCTGCTTTTGCTATTATTTTTAT
1 TGTTTTTATTACTATTTTTGGTGCTG-TTTTGCTATTATTTTTAT
* * * * *
98486 TGTTTTTATTGCTATTTTTGTTGTTGTTTTGCTGTTATTTTTGT
1 TGTTTTTATTACTATTTTTGGTGCTGTTTTGCTATTATTTTTAT
98530 TGTTT
1 TGTTT
98535 GGGTGTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 33 0.79
45 9 0.21
ACGTcount: A:0.09, C:0.06, G:0.16, T:0.69
Consensus pattern (44 bp):
TGTTTTTATTACTATTTTTGGTGCTGTTTTGCTATTATTTTTAT
Found at i:99085 original size:26 final size:28
Alignment explanation
Indices: 99056--99115 Score: 68
Period size: 31 Copynumber: 2.1 Consensus size: 28
99046 AAAAAAATTG
99056 AATAAATAAAA-AATATAAAATTATTAA
1 AATAAATAAAATAATATAAAATTATTAA
* *
99083 ATATTAAAATAAAATAATATAAATTTTTTAA
1 A-A-T-AAATAAAATAATATAAAATTATTAA
99114 AA
1 AA
99116 AATAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
27 1 0.04
28 1 0.04
29 1 0.04
30 9 0.33
31 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
AATAAATAAAATAATATAAAATTATTAA
Found at i:99654 original size:23 final size:23
Alignment explanation
Indices: 99624--99673 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
99614 GAAGATACCC
*
99624 TTTGCAGATAATTAGATTAAAAA
1 TTTGCAGATAAATAGATTAAAAA
99647 TTTGCAGATAAATAGATTAAAAA
1 TTTGCAGATAAATAGATTAAAAA
99670 TTTG
1 TTTG
99674 AATATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (23 bp):
TTTGCAGATAAATAGATTAAAAA
Found at i:99680 original size:23 final size:23
Alignment explanation
Indices: 99624--99680 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
99614 GAAGATACCC
* *
99624 TTTGCAGATAATTAGATTAAAAA
1 TTTGAAGATAAATAGATTAAAAA
*
99647 TTTGCAGATAAATAGATTAAAAA
1 TTTGAAGATAAATAGATTAAAAA
*
99670 TTTGAATATAA
1 TTTGAAGATAA
99681 TATTGCAGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (23 bp):
TTTGAAGATAAATAGATTAAAAA
Found at i:109113 original size:29 final size:29
Alignment explanation
Indices: 109071--109138 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
109061 TTCAGGGTGC
*
109071 ATCGTGGAATTTTACGAAATCCAATATCA
1 ATCGTGGCATTTTACGAAATCCAATATCA
*
109100 ATCGTGGCATTTTACGAAATCCAGTATCA
1 ATCGTGGCATTTTACGAAATCCAATATCA
* *
109129 GTCATGGCAT
1 ATCGTGGCAT
109139 GGGCATGCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (29 bp):
ATCGTGGCATTTTACGAAATCCAATATCA
Done.