Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006981.1 Corchorus olitorius cultivar O-4 contig07006, 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, 666

Length: 1111
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29


Found at i:479 original size:7 final size:6

Alignment explanation


    Indices: 464--516  Score: 63
    Period size: 6  Copynumber: 8.7  Consensus size: 6

        454 CCTAACCTTT

                                                            *  *     
        464 TTTTTC TTTTTCC TTTTTC -TTTTC TTTTTC TTTTTAC TTTTCC CTTTTC
          1 TTTTTC TTTTT-C TTTTTC TTTTTC TTTTTC TTTTT-C TTTTTC TTTTTC

                
        513 TTTT
          1 TTTT

        517 ATTATTCTAT


Statistics
Matches: 40,  Mismatches: 4, Indels: 6
        0.80            0.08        0.12

Matches are distributed among these distances:
   5    5  0.12
   6   24  0.60
   7   11  0.28

ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77


Consensus pattern (6 bp):   
TTTTTC

Found at i:746 original size:19 final size:18

Alignment explanation


    Indices: 685--747  Score: 58
    Period size: 19  Copynumber: 3.4  Consensus size: 18

        675 TCCAGTGCAT

                 *             
        685 AAATAAAAG-CCAAAGTAA
          1 AAATATAAGCCCAAA-TAA

                                
        703 TAAATA-AAGCCCAAATCAA
          1 -AAATATAAGCCCAAAT-AA

             *                
        722 AGATATAAGCCCAAATAA
          1 AAATATAAGCCCAAATAA

                    
        740 CAAATATA
          1 -AAATATA

        748 GTGACCAGAC


Statistics
Matches: 38,  Mismatches: 2, Indels: 8
        0.79            0.04        0.17

Matches are distributed among these distances:
  18   10  0.26
  19   28  0.74

ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16


Consensus pattern (18 bp):   
AAATATAAGCCCAAATAA
Done.