Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006541.1 Corchorus olitorius cultivar O-4 contig06566, 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, 856

Length: 1427
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34


Found at i:472 original size:17 final size:18

Alignment explanation


    Indices: 452--497  Score: 67
    Period size: 19  Copynumber: 2.6  Consensus size: 18

        442 TATCTACTTA

                *             
        452 TGTATTCTAA-CTGATCT
          1 TGTACTCTAATCTGATCT

                               
        469 TGTACTCTAAATCTGATCT
          1 TGTACTCT-AATCTGATCT

                      
        488 TGTACTCTAA
          1 TGTACTCTAA

        498 ATCTCAGCTA


Statistics
Matches: 26,  Mismatches: 1, Indels: 3
        0.87            0.03        0.10

Matches are distributed among these distances:
  17    7  0.27
  18    4  0.15
  19   15  0.58

ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43


Consensus pattern (18 bp):   
TGTACTCTAATCTGATCT

Found at i:486 original size:19 final size:19

Alignment explanation


    Indices: 462--501  Score: 80
    Period size: 19  Copynumber: 2.1  Consensus size: 19

        452 TGTATTCTAA

                               
        462 CTGATCTTGTACTCTAAAT
          1 CTGATCTTGTACTCTAAAT

                               
        481 CTGATCTTGTACTCTAAAT
          1 CTGATCTTGTACTCTAAAT

              
        500 CT
          1 CT

        502 CAGCTATAAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   21  1.00

ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42


Consensus pattern (19 bp):   
CTGATCTTGTACTCTAAAT
Done.