Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009697.1 Corchorus olitorius cultivar O-4 contig09729, 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: 6679
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35


Found at i:1353 original size:29 final size:29

Alignment explanation


    Indices: 1311--1367  Score: 105
    Period size: 29  Copynumber: 2.0  Consensus size: 29

       1301 TTTCAGTATG

                                         
       1311 GCTTCAAGCATCTTGTACCTGCTAATTTA
          1 GCTTCAAGCATCTTGTACCTGCTAATTTA

                                   *    
       1340 GCTTCAAGCATCTTGTACCTGCTGATTT
          1 GCTTCAAGCATCTTGTACCTGCTAATTT

       1368 GGCTACAGCT


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  29   27  1.00

ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39


Consensus pattern (29 bp):   
GCTTCAAGCATCTTGTACCTGCTAATTTA

Found at i:1610 original size:40 final size:40

Alignment explanation


    Indices: 1555--1647  Score: 186
    Period size: 40  Copynumber: 2.3  Consensus size: 40

       1545 CTTTTGCAAA

                                                    
       1555 TGCAGTAGGATGTGCTTAAATCTTTAAGTAGTAAATATTT
          1 TGCAGTAGGATGTGCTTAAATCTTTAAGTAGTAAATATTT

                                                    
       1595 TGCAGTAGGATGTGCTTAAATCTTTAAGTAGTAAATATTT
          1 TGCAGTAGGATGTGCTTAAATCTTTAAGTAGTAAATATTT

                         
       1635 TGCAGTAGGATGT
          1 TGCAGTAGGATGT

       1648 TAAGTTATTA


Statistics
Matches: 53,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  40   53  1.00

ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39


Consensus pattern (40 bp):   
TGCAGTAGGATGTGCTTAAATCTTTAAGTAGTAAATATTT
Done.