Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01000896.1 Corchorus olitorius cultivar O-4 contig00896, 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, 607
Length: 1013
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Found at i:882 original size:169 final size:169
Alignment explanation
Indices: 599--942 Score: 627
Period size: 169 Copynumber: 2.0 Consensus size: 169
589 GCAATCAAGA
*
599 TTTA-AAAATGACTGCAGCGTACTATGCTGTTTTAGATGATCAACATATATTTCAAGCAACAATT
1 TTTAGAAAATGACTGCAGCGTACTATGCTGTTTTAGATGATCAACATACATTTCAAGCAACAATT
* *
663 AATATTAGCTTTATTTTGATGAATTATCTAAAGATGGAGGAGTAGAATATTAGCTTTATTTTGAT
66 AATATTAGCTTTATTTTGATGAATTATCTAAAGATGGAAGAGTAGAATATTAGCTTTATTTTAAT
*
728 GAATTATCCAGAGATGGACTAGAATTAAGATAATACACT
131 GAATTACCCAGAGATGGACTAGAATTAAGATAATACACT
*
767 TTTAGAAAATGACTGCAGCGTACTATGCTTTTTTAGATGATCAACATACATTTCAAGCAACAATT
1 TTTAGAAAATGACTGCAGCGTACTATGCTGTTTTAGATGATCAACATACATTTCAAGCAACAATT
*
832 AATATTAGCTTTATTTTGATGAATTATCTAGAGATGGAAGAGTAGAATATTAGCTTTATTTTAAT
66 AATATTAGCTTTATTTTGATGAATTATCTAAAGATGGAAGAGTAGAATATTAGCTTTATTTTAAT
897 GAATTACCCAGAGATGGACTAGAATTAAGATAATACACT
131 GAATTACCCAGAGATGGACTAGAATTAAGATAATACACT
936 TTTAGAA
1 TTTAGAA
943 TGAAAGAGAT
Statistics
Matches: 169, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
168 4 0.02
169 165 0.98
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (169 bp):
TTTAGAAAATGACTGCAGCGTACTATGCTGTTTTAGATGATCAACATACATTTCAAGCAACAATT
AATATTAGCTTTATTTTGATGAATTATCTAAAGATGGAAGAGTAGAATATTAGCTTTATTTTAAT
GAATTACCCAGAGATGGACTAGAATTAAGATAATACACT
Done.