Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007484.1 Kokia drynarioides strain JFW-HI SEQ_122108, 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: 73213
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:11021 original size:17 final size:17
Alignment explanation
Indices: 10999--11032 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10989 AATAAAAACT
10999 AGAAAA-AAAAATATAAA
1 AGAAAATAAAAAT-TAAA
11016 AGAAAATAAAAATTAAA
1 AGAAAATAAAAATTAAA
11033 TATAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AGAAAATAAAAATTAAA
Found at i:11026 original size:31 final size:32
Alignment explanation
Indices: 10988--11053 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
10978 CCACAAAAAT
10988 AAATAAAAACTAGAA-A-AAAAAATATAAA-AGA
1 AAATAAAAACTA-AATATAAAAAAT-TAAAGAGA
*
11019 AAATAAAAATTAAATATAAAAAATTAAAGAGA
1 AAATAAAAACTAAATATAAAAAATTAAAGAGA
11051 AAA
1 AAA
11054 AATATCGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 2 0.06
31 16 0.52
32 13 0.42
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (32 bp):
AAATAAAAACTAAATATAAAAAATTAAAGAGA
Found at i:11037 original size:13 final size:14
Alignment explanation
Indices: 11023--11056 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11013 AAAAGAAAAT
11023 AAAAATTAAATATA
1 AAAAATTAAATATA
* *
11037 AAAAATTAAAGAGA
1 AAAAATTAAATATA
11051 AAAAAT
1 AAAAAT
11057 ATCGATGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
AAAAATTAAATATA
Found at i:11249 original size:16 final size:15
Alignment explanation
Indices: 11228--11258 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
11218 GGCTATTTAC
11228 ATAAAAAAATAACTTA
1 ATAAAAAAA-AACTTA
11244 ATAAAAAAAAACTTA
1 ATAAAAAAAAACTTA
11259 CCTTTTCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAAAAAAAAACTTA
Found at i:14546 original size:47 final size:49
Alignment explanation
Indices: 14493--14596 Score: 124
Period size: 47 Copynumber: 2.2 Consensus size: 49
14483 AAAAATTACG
*
14493 TATAATAATTACTAACAACTTAAT-ATAATATTAACAAAAAC-AATATA
1 TATAATAATTACTAACAACTTAATAATAATATTAACAAAAACAAAAATA
* * * * *
14540 TATAATAA-TATTAATAACTTAGTAATGATATTAACTAAAACAAAAATA
1 TATAATAATTACTAACAACTTAATAATAATATTAACAAAAACAAAAATA
*
14588 TATGATAAT
1 TATAATAAT
14597 ATTTTCTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
46 12 0.26
47 23 0.49
48 12 0.26
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.34
Consensus pattern (49 bp):
TATAATAATTACTAACAACTTAATAATAATATTAACAAAAACAAAAATA
Found at i:15265 original size:3 final size:3
Alignment explanation
Indices: 15257--15301 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
15247 GCCTGAAATA
15257 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15302 GAATTAAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15700 original size:51 final size:51
Alignment explanation
Indices: 15623--16157 Score: 594
Period size: 51 Copynumber: 10.5 Consensus size: 51
15613 TGTGTACGGC
* * * * *
15623 TTTACTGGCAGAAAGATTTGGGGAGAT-GGGGATCAATCCAGTGTGTTCA-G
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGG-TCAATCCATTGTTTTCAGG
* * * *
15673 TGTTACCAGCGGAAAGATCTGGAGAGATAGGGGTTAATTCATTGTTTTCAGG
1 T-TTACTAGCGGAAAGATCTGGGGAGATAGGGGTCAATCCATTGTTTTCAGG
* * * *
15725 TTTGCTAGTGGAAAGATCTGGGGAGATAGGGGTCAAACCATTATTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGGTCAATCCATTGTTTTCAGG
* * *
15776 TTTACTAGCGGAAAGATCTGGGGAGGTAGGGGTCAACCCATTATTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGGTCAATCCATTGTTTTCAGG
* *
15827 TTTACTAGCGGAAAGATCTGGGGA-AGTAGGGATCAACCCATTGTTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGA-TAGGGGTCAATCCATTGTTTTCAGG
* * * *
15878 TTTGCTAGCCGAAAGATCTGAGGAGGTAGGGGTCAATCCATTGTTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGGTCAATCCATTGTTTTCAGG
* ** *
15929 TTTGCTAGCGGAAAGATCTGGGGAGGCAGGGGTCAACCCATTGTTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGGTCAATCCATTGTTTTCAGG
* * * * *
15980 TTTGCTAGCGAAAAGATCTGGGGA-AGCAGGGGTCAACCCATTATTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGA-TAGGGGTCAATCCATTGTTTTCAGG
* * * * *
16031 TTTGCTAGCAGAAAGATCTGGAGAGGTAGGGGTCAA-CTCATTATTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGGTCAATC-CATTGTTTTCAGG
* * * * **
16082 TTTGCTAGCGGAAAGATCTGGGAAGGTAGGGGTCAATCCATTATTTTCAAC
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGGTCAATCCATTGTTTTCAGG
* *
16133 TTTACCAGCGGAAAGATTTGGGGAG
1 TTTACTAGCGGAAAGATCTGGGGAG
16158 TAAGGGACTC
Statistics
Matches: 425, Mismatches: 51, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
50 2 0.00
51 416 0.98
52 7 0.02
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (51 bp):
TTTACTAGCGGAAAGATCTGGGGAGATAGGGGTCAATCCATTGTTTTCAGG
Found at i:15908 original size:153 final size:151
Alignment explanation
Indices: 15623--16164 Score: 658
Period size: 153 Copynumber: 3.5 Consensus size: 151
15613 TGTGTACGGC
* * * * * * * *
15623 TTTACTGGCAGAAAGATTTGGGGAGAT-GGGGATCAATCCAGTGTGTTCA-GTGTTACCAGCGGA
1 TTTACTAGCGGAAAGATCTGGGGAGGTAGGGG-TCAACCCATTATTTTCAGGT-TTACCAGCGGA
* * * ** ** *
15686 AAGATCTGGAGAGATAGGGGTTAATTCATTGTTTTCAGGTTTGCTAGTGGAAAGATCTGGGGAGA
64 AAGATCTGGGGAG-TAGGGATCAACCCATTGTTTTCAGGTTTGCTAGCAGAAAGATCT-GGGAGG
15751 TAGGGGTCAAACCATTATTTTCAGG
127 TAGGGGTCAAACCATTATTTTCAGG
*
15776 TTTACTAGCGGAAAGATCTGGGGAGGTAGGGGTCAACCCATTATTTTCAGGTTTACTAGCGGAAA
1 TTTACTAGCGGAAAGATCTGGGGAGGTAGGGGTCAACCCATTATTTTCAGGTTTACCAGCGGAAA
*
15841 GATCTGGGGAAGTAGGGATCAACCCATTGTTTTCAGGTTTGCTAGCCGAAAGATCTGAGGAGGTA
66 GATCTGGGG-AGTAGGGATCAACCCATTGTTTTCAGGTTTGCTAGCAGAAAGATCTG-GGAGGTA
* *
15906 GGGGTCAATCCATTGTTTTCAGG
129 GGGGTCAAACCATTATTTTCAGG
* * * * * *
15929 TTTGCTAGCGGAAAGATCTGGGGAGGCAGGGGTCAACCCATTGTTTTCAGGTTTGCTAGCGAAAA
1 TTTACTAGCGGAAAGATCTGGGGAGGTAGGGGTCAACCCATTATTTTCAGGTTTACCAGCGGAAA
* * *
15994 GATCTGGGGAAGCAGGGGTCAACCCATTATTTTCAGGTTTGCTAGCAGAAAGATCTGGAGAGGTA
66 GATCTGGGG-AGTAGGGATCAACCCATTGTTTTCAGGTTTGCTAGCAGAAAGATCTGG-GAGGTA
16059 GGGGTC-AACTCATTATTTTCAGG
129 GGGGTCAAAC-CATTATTTTCAGG
* * * **
16082 TTTGCTAGCGGAAAGATCTGGGAAGGTAGGGGTCAATCCATTATTTTCAACTTTACCAGCGGAAA
1 TTTACTAGCGGAAAGATCTGGGGAGGTAGGGGTCAACCCATTATTTTCAGGTTTACCAGCGGAAA
*
16147 GATTTGGGGAGTAAGGGA
66 GATCTGGGGAGT-AGGGA
16165 CTCCGGACTC
Statistics
Matches: 340, Mismatches: 42, Indels: 14
0.86 0.11 0.04
Matches are distributed among these distances:
152 6 0.02
153 326 0.96
154 8 0.02
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.28
Consensus pattern (151 bp):
TTTACTAGCGGAAAGATCTGGGGAGGTAGGGGTCAACCCATTATTTTCAGGTTTACCAGCGGAAA
GATCTGGGGAGTAGGGATCAACCCATTGTTTTCAGGTTTGCTAGCAGAAAGATCTGGGAGGTAGG
GGTCAAACCATTATTTTCAGG
Found at i:17429 original size:90 final size:89
Alignment explanation
Indices: 17284--17561 Score: 403
Period size: 90 Copynumber: 3.1 Consensus size: 89
17274 TTGGAGCATT
* * * **
17284 CGGCGGCGGTTCCATTCCTTGTTTCGTTCTGAAAAGGATGTCCAATCAGCGTGGCCGACAACCGG
1 CGGCGACGGTTCCATTCCTTGTTTCGTTCTAAAAAGGA-GTCCAATCGGAATGGCCGACAACCGG
*
17349 AAGTCCATCTTCATCTTGGAGAAGA
65 AAGTCCATCTTCGTCTTGGAGAAGA
* *
17374 CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAGGCAGTCCAATCGGAATGGCCGACAACTGG
1 CGGCGACGGTTCCATTCCTTGTTTCGTTCTAAAAAGG-AGTCCAATCGGAATGGCCGACAACCGG
17439 AAGTCCATCTTCGTCTTGGAGAAGA
65 AAGTCCATCTTCGTCTTGGAGAAGA
* * * *
17464 CGACGGCGGTTCCATTCCTTGGTTCTTTCTAAAAAGGAAGTCCAATCGGAATGGCCGACAACCGG
1 CGGCGACGGTTCCATTCCTTGTTTCGTTCTAAAAAGG-AGTCCAATCGGAATGGCCGACAACCGG
**
17529 AAGTTTATCTTCGTCTTGGAGAAGA
65 AAGTCCATCTTCGTCTTGGAGAAGA
17554 CGGCGACG
1 CGGCGACG
17562 TTCAAATAGT
Statistics
Matches: 168, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
90 167 0.99
91 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (89 bp):
CGGCGACGGTTCCATTCCTTGTTTCGTTCTAAAAAGGAGTCCAATCGGAATGGCCGACAACCGGA
AGTCCATCTTCGTCTTGGAGAAGA
Found at i:19101 original size:45 final size:44
Alignment explanation
Indices: 19022--19107 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 44
19012 TAAAAAAATT
* * * *
19022 TTATTCAAAATTCAAATTTTTACAGATCAATCCAATTAAATAAA
1 TTATTAAAAATTAAAATTTTTACAAATCAATCCAACTAAATAAA
*
19066 TTATTAAAAATATAAAATTTTTA-AAATTCAGTCCAACTAAAT
1 TTATTAAAAAT-TAAAATTTTTACAAA-TCAATCCAACTAAAT
19108 TTTAACCTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
44 12 0.34
45 23 0.66
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (44 bp):
TTATTAAAAATTAAAATTTTTACAAATCAATCCAACTAAATAAA
Found at i:27329 original size:19 final size:19
Alignment explanation
Indices: 27278--27329 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
27268 TTTAAATTTC
27278 TATTTATCTAAATTTCGAAA
1 TATTTATCT-AATTTCGAAA
* * **
27298 T-TTTGTATAATTTTTAAA
1 TATTTATCTAATTTCGAAA
27316 TATTTATCTAATTT
1 TATTTATCTAATTT
27330 ACTTTTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (19 bp):
TATTTATCTAATTTCGAAA
Found at i:28524 original size:20 final size:21
Alignment explanation
Indices: 28495--28542 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
28485 TTCTATTTTT
* *
28495 TTTTGCTGTT-TTGTTTATTA
1 TTTTGATGTTATTGTTTACTA
*
28515 TTTTGATGTTATTTTTTACTA
1 TTTTGATGTTATTGTTTACTA
28536 TTTTGAT
1 TTTTGAT
28543 ATTGTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.15, C:0.04, G:0.12, T:0.69
Consensus pattern (21 bp):
TTTTGATGTTATTGTTTACTA
Found at i:28530 original size:24 final size:25
Alignment explanation
Indices: 28503--28628 Score: 63
Period size: 24 Copynumber: 5.3 Consensus size: 25
28493 TTTTTTGCTG
28503 TTTTGTTTATTATTTTGA-TGTTA-
1 TTTTGTTTATTATTTTGATTGTTAT
*
28526 -TTT-TTTACTATTTTGATATTGTTAT
1 TTTTGTTTATTATTTTG--ATTGTTAT
* * **
28551 TTTTG-TTATTGTTTTTACTACTT-T
1 TTTTGTTTATTATTTTGA-TTGTTAT
* * *
28575 TTTTG-TTATTGTTTTG-CTATTAT
1 TTTTGTTTATTATTTTGATTGTTAT
** *
28598 TTTTACTT-TTATTTTGATTGTTGT
1 TTTTGTTTATTATTTTGATTGTTAT
28622 TTTTGTT
1 TTTTGTT
28629 ATTCAAGTGT
Statistics
Matches: 76, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
21 11 0.14
22 5 0.07
23 13 0.17
24 33 0.43
25 3 0.04
26 11 0.14
ACGTcount: A:0.14, C:0.04, G:0.11, T:0.71
Consensus pattern (25 bp):
TTTTGTTTATTATTTTGATTGTTAT
Found at i:28540 original size:33 final size:32
Alignment explanation
Indices: 28492--28631 Score: 104
Period size: 35 Copynumber: 4.1 Consensus size: 32
28482 TGTTTCTATT
* * *
28492 TTTTTTTGCTGTTTTGTTTATTATTTTGATGTTA
1 TTTTTTTACTATTTTGTTTGTTATTTT--TGTTA
28526 -TTTTTTACTATTTTGATATTGTTATTTTTGTTA
1 TTTTTTTACTATTTTG-T-TTGTTATTTTTGTTA
*
28559 TTGTTTTTACTACTTTT-TTTGTTATTGTTTTGCTA
1 TT-TTTTTACTA-TTTTGTTTGTTA-T-TTTTGTTA
* *
28594 TTATTTTTACTTTTATTTTGATTGTTGTTTTTGTTA
1 TT-TTTTTAC---TATTTTGTTTGTTATTTTTGTTA
28630 TT
1 TT
28632 CAAGTGTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
33 24 0.28
34 4 0.05
35 34 0.39
36 13 0.15
37 5 0.06
38 7 0.08
ACGTcount: A:0.14, C:0.04, G:0.11, T:0.71
Consensus pattern (32 bp):
TTTTTTTACTATTTTGTTTGTTATTTTTGTTA
Found at i:28674 original size:21 final size:20
Alignment explanation
Indices: 28638--28684 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
28628 TATTCAAGTG
**
28638 TTATTTTTTATATTTTTTTA
1 TTATTTTTTATATTTTAATA
*
28658 TTATTTTATTATTTTTTAATA
1 TTATTTT-TTATATTTTAATA
28679 TTATTT
1 TTATTT
28685 GAATATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTTTTTATATTTTAATA
Found at i:28689 original size:11 final size:11
Alignment explanation
Indices: 28656--28693 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
28646 TATATTTTTT
*
28656 TATTATTTTAT
1 TATTATTTTAA
28667 TATT-TTTTAA
1 TATTATTTTAA
*
28677 TATTATTTGAA
1 TATTATTTTAA
28688 TATTAT
1 TATTAT
28694 AAAATTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
TATTATTTTAA
Found at i:28691 original size:21 final size:19
Alignment explanation
Indices: 28647--28691 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
28637 GTTATTTTTT
*
28647 ATATTTTTTTATTATTTTA
1 ATATTTTTTTATTATTTGA
*
28666 TTATTTTTTAATATTATTTGA
1 ATATTTTTT--TATTATTTGA
28687 ATATT
1 ATATT
28692 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
ATATTTTTTTATTATTTGA
Found at i:34638 original size:21 final size:22
Alignment explanation
Indices: 34597--34639 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
34587 TAAATGAAAA
* *
34597 AAATATAAAATTAATAGATATT
1 AAATATAAAATTAAAAAATATT
34619 AAAT-TAAAATTAAAAAATATT
1 AAATATAAAATTAAAAAATATT
34640 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATATAAAATTAAAAAATATT
Found at i:38735 original size:14 final size:14
Alignment explanation
Indices: 38697--38736 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
38687 TATTTTTAAA
*
38697 TTTAAAATTTAATT
1 TTTAAAATTTTATT
* *
38711 TTTATATTTTTATT
1 TTTAAAATTTTATT
38725 TTTAAAATTTTA
1 TTTAAAATTTTA
38737 GTATATCTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAAAATTTTATT
Found at i:43510 original size:31 final size:30
Alignment explanation
Indices: 43444--43520 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 30
43434 AATAATTTAT
* *
43444 ATTTTATAATTTTT-AAAAGATTAAATTAA
1 ATTTTATTATTTTTAAAAAGATTAAAGTAA
43473 ATTTTTATTATTTTTAAGAAAG-TTAAAGTATA
1 A-TTTTATTATTTTTAA-AAAGATTAAAGTA-A
43505 ATTTTATT-TTTATTAA
1 ATTTTATTATTT-TTAA
43521 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 1 0.02
30 15 0.37
31 19 0.46
32 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
ATTTTATTATTTTTAAAAAGATTAAAGTAA
Found at i:66533 original size:29 final size:29
Alignment explanation
Indices: 66488--66543 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
66478 AGTCTTGAAA
**
66488 TTTTAAAATTTATTAATTTTTAAATATAT
1 TTTTAAAATTTATTAATTAATAAATATAT
*
66517 TTTTATAATTT-TCTAATTAATAAATAT
1 TTTTAAAATTTAT-TAATTAATAAATAT
66544 CAACTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.04
29 22 0.96
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTAAAATTTATTAATTAATAAATATAT
Done.