Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009584.1 Kokia drynarioides strain JFW-HI SEQ_124298, 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: 83162
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:13149 original size:54 final size:54
Alignment explanation
Indices: 13091--13222 Score: 230
Period size: 54 Copynumber: 2.4 Consensus size: 54
13081 TGAGATACCC
*
13091 TGGACTGGTCCAAAATGGAGTGAT-CTTGATGCTTCAAATGATGCGAACAACTCA
1 TGGACTGGTTCAAAATGGAGTGATGC-TGATGCTTCAAATGATGCGAACAACTCA
*
13145 TGGACTGGTTCAAAATGGAGTGATGCTGATGCTTCAAATGATGTGAACAACTCA
1 TGGACTGGTTCAAAATGGAGTGATGCTGATGCTTCAAATGATGCGAACAACTCA
13199 TGGACTGGTTCAAAATGGAGTGAT
1 TGGACTGGTTCAAAATGGAGTGAT
13223 ACAGGTGCCT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
54 74 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (54 bp):
TGGACTGGTTCAAAATGGAGTGATGCTGATGCTTCAAATGATGCGAACAACTCA
Found at i:16472 original size:19 final size:19
Alignment explanation
Indices: 16436--16498 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
16426 TAAAGAATCG
16436 AAATAATTTTCAAAAATTCA
1 AAATAATTTT-AAAAATTCA
* *
16456 AAATAATTTTTAAAATTTA
1 AAATAATTTTAAAAATTCA
*
16475 GAAT-ATTTATAAAAATTCA
1 AAATAATTT-TAAAAATTCA
16494 TAAAT
1 -AAAT
16499 TTATATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 4 0.11
19 18 0.51
20 13 0.37
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATAATTTTAAAAATTCA
Found at i:25149 original size:17 final size:17
Alignment explanation
Indices: 25127--25160 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25117 TATTGTCAAG
*
25127 GGCAGAAATATTGATGT
1 GGCAGAAAGATTGATGT
25144 GGCAGAAAGATTGATGT
1 GGCAGAAAGATTGATGT
25161 CGGTGTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (17 bp):
GGCAGAAAGATTGATGT
Found at i:25908 original size:15 final size:15
Alignment explanation
Indices: 25865--25911 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
25855 GAAGTCCTTG
*
25865 AAGAAGATGTTAAGA
1 AAGAAGATGTTGAGA
*
25880 AAAAAGATGTTGAGA
1 AAGAAGATGTTGAGA
*
25895 AAGAAGATGCTGAGA
1 AAGAAGATGTTGAGA
25910 AA
1 AA
25912 TAATTTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.53, C:0.02, G:0.28, T:0.17
Consensus pattern (15 bp):
AAGAAGATGTTGAGA
Found at i:26685 original size:38 final size:38
Alignment explanation
Indices: 26634--26708 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
26624 TAATGGATGG
26634 CTAGTAGCATTCCTTGAATCTTGAATGAATCTGCCTTA
1 CTAGTAGCATTCCTTGAATCTTGAATGAATCTGCCTTA
26672 CTAGTAGCATTCCTTGAATCTTGAATGAATCTGCCTT
1 CTAGTAGCATTCCTTGAATCTTGAATGAATCTGCCTT
26709 TTACAATTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (38 bp):
CTAGTAGCATTCCTTGAATCTTGAATGAATCTGCCTTA
Found at i:36015 original size:15 final size:15
Alignment explanation
Indices: 35995--36044 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
35985 GAAGTCCTTG
35995 AAGAAGATGCTGAGA
1 AAGAAGATGCTGAGA
*
36010 AAGAAGATGTTGAGA
1 AAGAAGATGCTGAGA
36025 AAGAAGATGCTGAGA
1 AAGAAGATGCTGAGA
36040 AAGAA
1 AAGAA
36045 CCTACTGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.50, C:0.04, G:0.32, T:0.14
Consensus pattern (15 bp):
AAGAAGATGCTGAGA
Found at i:36052 original size:15 final size:15
Alignment explanation
Indices: 36004--36055 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
35994 GAAGAAGATG
* *
36004 CTGAGAAAGAAGATG
1 CTGAGAAAGAACATA
* * *
36019 TTGAGAAAGAAGATG
1 CTGAGAAAGAACATA
*
36034 CTGAGAAAGAACCTA
1 CTGAGAAAGAACATA
36049 CTGAGAA
1 CTGAGAA
36056 CATTGTAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.29, T:0.15
Consensus pattern (15 bp):
CTGAGAAAGAACATA
Found at i:36054 original size:30 final size:30
Alignment explanation
Indices: 35995--36055 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35985 GAAGTCCTTG
* **
35995 AAGAAGATGCTGAGAAAGAAGATGTTGAGA
1 AAGAAGATGCTGAGAAAGAACATACTGAGA
*
36025 AAGAAGATGCTGAGAAAGAACCTACTGAGA
1 AAGAAGATGCTGAGAAAGAACATACTGAGA
36055 A
1 A
36056 CATTGTAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.30, T:0.15
Consensus pattern (30 bp):
AAGAAGATGCTGAGAAAGAACATACTGAGA
Found at i:44289 original size:37 final size:37
Alignment explanation
Indices: 44240--44609 Score: 488
Period size: 37 Copynumber: 10.0 Consensus size: 37
44230 GCTCACACAA
* *
44240 TATTCAGACTATGTGCCTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
* *
44277 TTTTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
* * ** * **
44314 TATTCAGGCTCTGTGCGTAGTAGGCTTTTTGCCAGCC
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
* * * *
44351 TTTTCAAGCTATGTACATAGTAGGCTTCGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
*
44388 TATTCAGGCTATGTGCCTAGTAGGTTTCGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
*
44425 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCTGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
* * *
44462 TATTCAGGCTATGTGCCTAGTAGGCTTTGAGCCGATG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
* *
44499 TATTCAGGCTATGTGCCTAGTAGGCTTCCTACCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
* * *
44536 TTTTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGATG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
* * *
44573 TATTCAGGCTATGTGCCTAGCAGGCTTTGTGTCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
44610 GTCCAAGAAT
Statistics
Matches: 285, Mismatches: 48, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 285 1.00
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (37 bp):
TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
Found at i:44396 original size:21 final size:20
Alignment explanation
Indices: 44372--44471 Score: 58
Period size: 21 Copynumber: 5.2 Consensus size: 20
44362 TGTACATAGT
44372 AGGCTTCGTGCCGGTGTATTC
1 AGGCTTCGTGCC-GTGTATTC
*
44393 AGGCTAT-GTGCC---TAGT-
1 AGGCT-TCGTGCCGTGTATTC
*
44409 AGGTTTCGTGCCGGTGTATTC
1 AGGCTTCGTGCC-GTGTATTC
*
44430 AGGCTAT-GTGCC---TAGT-
1 AGGCT-TCGTGCCGTGTATTC
44446 AGGCTTCGTGCCTGTGTATTC
1 AGGCTTCGTGCC-GTGTATTC
44467 AGGCT
1 AGGCT
44472 ATGTGCCTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 28
0.63 0.06 0.30
Matches are distributed among these distances:
15 2 0.03
16 19 0.32
17 6 0.10
20 6 0.10
21 24 0.41
22 2 0.03
ACGTcount: A:0.13, C:0.21, G:0.32, T:0.34
Consensus pattern (20 bp):
AGGCTTCGTGCCGTGTATTC
Found at i:44477 original size:21 final size:21
Alignment explanation
Indices: 44416--44479 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
44406 AGTAGGTTTC
*
44416 GTGCCGGTGTATTCAGGCTAT
1 GTGCCTGTGTATTCAGGCTAT
*
44437 GTGCC----TAGT-AGGCT-T
1 GTGCCTGTGTATTCAGGCTAT
44452 CGTGCCTGTGTATTCAGGCTAT
1 -GTGCCTGTGTATTCAGGCTAT
44474 GTGCCT
1 GTGCCT
44480 AGTAGGCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
15 1 0.03
16 10 0.29
17 3 0.09
20 3 0.09
21 16 0.47
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.31, T:0.34
Consensus pattern (21 bp):
GTGCCTGTGTATTCAGGCTAT
Found at i:48221 original size:26 final size:26
Alignment explanation
Indices: 48165--48250 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
48155 AGCATTGCGC
*
48165 CCAGAATTATCACTGCATGAACT-TGT
1 CCAGAATTATCGCTGCATGAA-TATGT
* **
48191 TCAGAATTATCGCTGTGTGAATATGT
1 CCAGAATTATCGCTGCATGAATATGT
* * * *
48217 CCAGAGTTGTCGCTGCATGAACAGGT
1 CCAGAATTATCGCTGCATGAATATGT
48243 CCAGAATT
1 CCAGAATT
48251 GCGCCCAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 1 0.02
26 46 0.98
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (26 bp):
CCAGAATTATCGCTGCATGAATATGT
Found at i:50295 original size:21 final size:21
Alignment explanation
Indices: 50269--50310 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
50259 AGTGTTATTG
50269 CAGTCACTGTCACAGAAAGGT
1 CAGTCACTGTCACAGAAAGGT
*
50290 CAGTCACTGTCACTGAAAGGT
1 CAGTCACTGTCACAGAAAGGT
50311 GAAGCGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (21 bp):
CAGTCACTGTCACAGAAAGGT
Found at i:58245 original size:17 final size:17
Alignment explanation
Indices: 58234--58294 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
58224 CACATTCCCG
**
58234 TTGTCATTACATTTTAA
1 TTGTCATTACATTCCAA
*
58251 TTGTCATTACATTTGC-A
1 TTGTCATTACA-TTCCAA
*
58268 TTGTCATTACATTTCCAT
1 TTGTCATTACA-TTCCAA
58286 TTGTCATTA
1 TTGTCATTA
58295 GAATTTAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 27 0.71
18 11 0.29
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (17 bp):
TTGTCATTACATTCCAA
Found at i:58263 original size:34 final size:34
Alignment explanation
Indices: 58216--58281 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
58206 GTTAGTAAGC
* *
58216 ATTGTTATCACATTCCCGTTGTCATTACATTTTA
1 ATTGTCATCACATTCCCATTGTCATTACATTTTA
* **
58250 ATTGTCATTACATTTGCATTGTCATTACATTT
1 ATTGTCATCACATTCCCATTGTCATTACATTT
58282 CCATTTGTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (34 bp):
ATTGTCATCACATTCCCATTGTCATTACATTTTA
Found at i:58865 original size:5 final size:5
Alignment explanation
Indices: 58855--58892 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
58845 ATATATATAT
* *
58855 AAAGA AAAGA AAAGA AAATA AAATA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
58893 AGATATATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (5 bp):
AAAGA
Found at i:61085 original size:66 final size:65
Alignment explanation
Indices: 60940--61086 Score: 204
Period size: 66 Copynumber: 2.2 Consensus size: 65
60930 GATACACGAA
* * *
60940 TCTCCAACACACTAAATGACTTATAGAGACGAACATATTCCAAAAGTGAAGCATATAGCTAACAC
1 TCTCCAACACACCAAATGACTCATAGAGACGAACATATCCCAAAAGTGAAGCATATAGCTAACAC
* * * * *
61005 TCTCTAACATACCAAATGACTCATAGAGTCGATCATGTCCCAAAAAGTGAAGCATATAGCTAACA
1 TCTCCAACACACCAAATGACTCATAGAGACGAACATATCCC-AAAAGTGAAGCATATAGCTAACA
61070 C
65 C
*
61071 TCTCCATCACACCAAA
1 TCTCCAACACACCAAA
61087 CAATGTCCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
65 33 0.47
66 37 0.53
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.22
Consensus pattern (65 bp):
TCTCCAACACACCAAATGACTCATAGAGACGAACATATCCCAAAAGTGAAGCATATAGCTAACAC
Found at i:63909 original size:100 final size:100
Alignment explanation
Indices: 63724--63964 Score: 272
Period size: 100 Copynumber: 2.4 Consensus size: 100
63714 TATACCTATT
* * * *
63724 TGTGCAAGCTAGCAAG-AGTAAACGCATAAATAAGCTGACGAGCGTAAATATATGCAAGCTGGGG
1 TGTGCAAGCTGGCGAGCA-TAAACGCATAAATAAGCTGACGAGCATAAATATATGCAAGCTAGGG
* *
63788 AGCATAAATCCAGAAATAAGCTAAC-AGGCTTAAACG
65 AGCATAAATCCAGAAAAAAGCTAACGA-GCATAAACG
* * *
63824 TGTGCAAGTTTGCGAGCATAAACGCATAAATAAGCTGACGAGCATAAACT-TGTGCAAGCTAGGG
1 TGTGCAAGCTGGCGAGCATAAACGCATAAATAAGCTGACGAGCATAAA-TATATGCAAGCTAGGG
* * * * *
63888 ATCTTAAATGCATAAAAAAGCTGACGAGCATAAACG
65 AGCATAAATCCAGAAAAAAGCTAACGAGCATAAACG
** * *
63924 TGTGCAAGCTGGCGAGTGTAAACGCATGAATAAGCTAACGA
1 TGTGCAAGCTGGCGAGCATAAACGCATAAATAAGCTGACGA
63965 AGTGAGCGTA
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
100 116 0.97
101 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (100 bp):
TGTGCAAGCTGGCGAGCATAAACGCATAAATAAGCTGACGAGCATAAATATATGCAAGCTAGGGA
GCATAAATCCAGAAAAAAGCTAACGAGCATAAACG
Found at i:63959 original size:50 final size:50
Alignment explanation
Indices: 63724--63964 Score: 229
Period size: 50 Copynumber: 4.8 Consensus size: 50
63714 TATACCTATT
* * * **
63724 TGTGCAAGCTAGCAAG-AGTAAACGCATAAATAAGCTGACGAGCGTAAATA
1 TGTGCAAGCTGGCGAGCA-TAAACGCATAAATAAGCTGACGAGCATAAACG
* * * * *
63774 TATGCAAGCTGGGGAGCATAAATC-CAGAAATAAGCTAAC-AGGCTTAAACG
1 TGTGCAAGCTGGCGAGCATAAA-CGCATAAATAAGCTGACGA-GCATAAACG
* * *
63824 TGTGCAAGTTTGCGAGCATAAACGCATAAATAAGCTGACGAGCATAAACT
1 TGTGCAAGCTGGCGAGCATAAACGCATAAATAAGCTGACGAGCATAAACG
* * * *
63874 TGTGCAAGCTAGG-GATCTTAAATGCATAAAAAAGCTGACGAGCATAAACG
1 TGTGCAAGCT-GGCGAGCATAAACGCATAAATAAGCTGACGAGCATAAACG
** * *
63924 TGTGCAAGCTGGCGAGTGTAAACGCATGAATAAGCTAACGA
1 TGTGCAAGCTGGCGAGCATAAACGCATAAATAAGCTGACGA
63965 AGTGAGCGTA
Statistics
Matches: 153, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
49 4 0.03
50 145 0.95
51 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (50 bp):
TGTGCAAGCTGGCGAGCATAAACGCATAAATAAGCTGACGAGCATAAACG
Found at i:69999 original size:6 final size:6
Alignment explanation
Indices: 69974--70012 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
69964 ACAATTCATA
* * *
69974 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
70013 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
Found at i:72959 original size:22 final size:22
Alignment explanation
Indices: 72934--73000 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
72924 GCTTTCTTTT
72934 ATATCATATATATTATTTTGTG
1 ATATCATATATATTATTTTGTG
* * *
72956 ATATGATATATATGATTGTTG-C
1 ATATCATATATATTATT-TTGTG
72978 ATA-CA-ATAATATTATTTTGTG
1 ATATCATAT-ATATTATTTTGTG
72999 AT
1 AT
73001 TTGTGTTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
20 5 0.14
21 10 0.28
22 18 0.50
23 3 0.08
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.49
Consensus pattern (22 bp):
ATATCATATATATTATTTTGTG
Found at i:76422 original size:21 final size:21
Alignment explanation
Indices: 76393--76444 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
76383 CTGACTTCTT
*
76393 TGTTCCGACATACATAGGCTA
1 TGTTGCGACATACATAGGCTA
76414 TGTTGCGACATACATAGGCTA
1 TGTTGCGACATACATAGGCTA
76435 TGTTGCGACA
1 TGTTGCGACA
76445 ATGCCTACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (21 bp):
TGTTGCGACATACATAGGCTA
Found at i:79457 original size:26 final size:26
Alignment explanation
Indices: 79414--79477 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
79404 TATAAAAACT
* * *
79414 TGTCCAGAATTATTGCTGCATGAATA
1 TGTCCAGAGTTATCGCTGCATGAACA
* * *
79440 TGTCCAGAGTTGTCGCTGTATGAGCA
1 TGTCCAGAGTTATCGCTGCATGAACA
*
79466 TGTCTAGAGTTA
1 TGTCCAGAGTTA
79478 CGCCAGGAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (26 bp):
TGTCCAGAGTTATCGCTGCATGAACA
Found at i:83104 original size:18 final size:19
Alignment explanation
Indices: 83068--83106 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
83058 TAAAATTGAT
83068 TAAAAATAATTTGGAAAAA
1 TAAAAATAATTTGGAAAAA
* *
83087 TAAAAATATTTTTGAAAAA
1 TAAAAATAATTTGGAAAAA
83106 T
1 T
83107 TAATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
TAAAAATAATTTGGAAAAA
Done.