Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001013.1 Corchorus olitorius cultivar O-4 contig01013, 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, 959

Length: 1599
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34


Found at i:984 original size:49 final size:47

Alignment explanation


    Indices: 890--1035  Score: 179
    Period size: 49  Copynumber: 3.0  Consensus size: 47

        880 GAGCGTGCCA

                        *         *                  *      
        890 ATCAATTTTGTCAAAAAATTGATAAAAAGTGCAA-TGAAAATTAAAAG
          1 ATCAATTTTGTCTAAAAATTGAGAAAAAGTGCAAGT-AAAAATAAAAG

                                                             
        937 ATCAATTTTGTCTTAAAAATTGAGAAAAAGGTGCAAGTAAAAATAAAAG
          1 ATCAATTTTGTC-TAAAAATTGAGAAAAA-GTGCAAGTAAAAATAAAAG

            *           *  *                                 
        986 TTCAATTTTGTAGTATAAATTGAGAAAAAGTGC-AGTAAAAAGTAAAAG
          1 ATCAATTTTGT-CTAAAAATTGAGAAAAAGTGCAAGTAAAAA-TAAAAG

              
       1034 AT
          1 AT

       1036 TGCTTGGAGG


Statistics
Matches: 87,  Mismatches: 7, Indels: 9
        0.84            0.07        0.09

Matches are distributed among these distances:
  47   20  0.23
  48   25  0.29
  49   41  0.47
  50    1  0.01

ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28


Consensus pattern (47 bp):   
ATCAATTTTGTCTAAAAATTGAGAAAAAGTGCAAGTAAAAATAAAAG
Done.