Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01007015.1 Corchorus olitorius cultivar O-4 contig07040, 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: 2280
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Found at i:1336 original size:173 final size:173
Alignment explanation
Indices: 1047--1396 Score: 637
Period size: 173 Copynumber: 2.0 Consensus size: 173
1037 GCTAAAGATG
* * *
1047 ATATGGAACGTTCTTATTGGCCATGTTGGATCCTATTTAATGAGAATAATATAAATTTCCATTAT
1 ATATGGAACGTTCTTATTGGCCACGTTGGATCCTAATTAATGAGAACAATATAAATTTCCATTAT
1112 TTTAATAATAGAATAATTAAAATATTATTTAACAATGGCAATTTAGAAATATATTTGAAAAAAAG
66 TTTAATAATAGAATAATTAAAATATTATTTAACAATGGCAATTTAGAAATATATTTGAAAAAAAG
1177 GGTACAATTGGCAAACATAAAGTTTCCCCTTATTCGTACTTTT
131 GGTACAATTGGCAAACATAAAGTTTCCCCTTATTCGTACTTTT
* *
1220 ATATGGAGCGTTCTTATTGGCCACGTTGGATCCTAATTAATGAGAACAATCTAAATTTCCATTAT
1 ATATGGAACGTTCTTATTGGCCACGTTGGATCCTAATTAATGAGAACAATATAAATTTCCATTAT
*
1285 TTTAATAATAGAATAATTAAAATATTATTTAATAATGGCAATTTAGAAATATATTTGAAAAAAAG
66 TTTAATAATAGAATAATTAAAATATTATTTAACAATGGCAATTTAGAAATATATTTGAAAAAAAG
*
1350 GGTACAATTGGTAAACATAAAGTTTCCCCTTATTCGTACTTTT
131 GGTACAATTGGCAAACATAAAGTTTCCCCTTATTCGTACTTTT
1393 ATAT
1 ATAT
1397 ATAGTATAGA
Statistics
Matches: 170, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 170 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (173 bp):
ATATGGAACGTTCTTATTGGCCACGTTGGATCCTAATTAATGAGAACAATATAAATTTCCATTAT
TTTAATAATAGAATAATTAAAATATTATTTAACAATGGCAATTTAGAAATATATTTGAAAAAAAG
GGTACAATTGGCAAACATAAAGTTTCCCCTTATTCGTACTTTT
Done.