Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009911.1 Corchorus olitorius cultivar O-4 contig09943, 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: 1870
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35


Found at i:1417 original size:35 final size:35

Alignment explanation


    Indices: 1371--1558  Score: 254
    Period size: 35  Copynumber: 5.4  Consensus size: 35

       1361 TTATGCCCTA

                                              *
       1371 GGTGTAGCATCTTCAAACATGAATTCAGATGACTT
          1 GGTGTAGCATCTTCAAACATGAATTCAGATGACTC

                             * *  **  *        
       1406 GGTGTAGCATCTTCAAAAAGGACCTCGGATGACTC
          1 GGTGTAGCATCTTCAAACATGAATTCAGATGACTC

                             *   *             
       1441 GGTGTAGCATCTTCAAAGATGCATTCAGATGACTC
          1 GGTGTAGCATCTTCAAACATGAATTCAGATGACTC

                                               
       1476 GGTGTAGCATCTTCAAACATGAATTCAGATGACTC
          1 GGTGTAGCATCTTCAAACATGAATTCAGATGACTC

                                        *        
       1511 GGTGTAGCATCTTCAAA-ACTG-ATCTCGGATGACTC
          1 GGTGTAGCATCTTCAAACA-TGAAT-TCAGATGACTC

             *           
       1546 GATGTAGCATCTT
          1 GGTGTAGCATCTT

       1559 GAATATGAAC


Statistics
Matches: 135,  Mismatches: 16, Indels: 4
        0.87            0.10        0.03

Matches are distributed among these distances:
  34    3  0.02
  35  132  0.98

ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29


Consensus pattern (35 bp):   
GGTGTAGCATCTTCAAACATGAATTCAGATGACTC

Done.