Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01010502.1 Corchorus olitorius cultivar O-4 contig10534, 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: 1814
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Found at i:702 original size:169 final size:168
Alignment explanation
Indices: 421--740 Score: 561
Period size: 169 Copynumber: 1.9 Consensus size: 168
411 AAAGAATACC
* *
421 TCAAGTCTAAGGCATTCAGATCCGTCGACGGTGGGCGAACGGAGGGGCGACCATCGTGGATTTGG
1 TCAAGTCTAAGGCATTCAGATCCGTCGACGGTGGGCGAACGGACGGGCGACCATCG-GGATTTGA
* *
486 AAATGAAGGAGGCGGAGGGAGAGAGTGAAAGAGAGTTGAGAGAGCTCGCGCAAAAGAGGGAATTA
65 AAATGAAGGAGGCGGAAGGAGAGAGTGAAAGAGAGTTGAGAGAGCTCGAGCAAAAGA-GGAATTA
551 GGGATTAGGTTTATGAAAATTTAAGAAAGGAGAAGAATGGG
129 GGGATTAGGTTTA-GAAAATTTAAGAAAGGAGAAGAATGGG
*
592 TCAAGTCTCAGGCATTCAGATCCGTCGACGGTGGGCGAACGGACGGGCGACCATC-GGATTTGAA
1 TCAAGTCTAAGGCATTCAGATCCGTCGACGGTGGGCGAACGGACGGGCGACCATCGGGATTTGAA
656 AATGAAGGAGGCGGAAGGAGAGAGTGAAAGAGAGTTGAGAGAGCTCGAGCAAAAGAGGAATTAGG
66 AATGAAGGAGGCGGAAGGAGAGAGTGAAAGAGAGTTGAGAGAGCTCGAGCAAAAGAGGAATTAGG
721 GATTAGGTTTAGAAAATTTA
131 GATTAGGTTTAGAAAATTTA
741 TATATATATA
Statistics
Matches: 144, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
167 9 0.06
168 20 0.14
169 62 0.43
171 53 0.37
ACGTcount: A:0.33, C:0.12, G:0.37, T:0.18
Consensus pattern (168 bp):
TCAAGTCTAAGGCATTCAGATCCGTCGACGGTGGGCGAACGGACGGGCGACCATCGGGATTTGAA
AATGAAGGAGGCGGAAGGAGAGAGTGAAAGAGAGTTGAGAGAGCTCGAGCAAAAGAGGAATTAGG
GATTAGGTTTAGAAAATTTAAGAAAGGAGAAGAATGGG
Done.