Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010213.1 Corchorus olitorius cultivar O-4 contig10245, 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, 997

Length: 1662
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38


Found at i:91 original size:54 final size:54

Alignment explanation


    Indices: 5--151  Score: 217
    Period size: 54  Copynumber: 2.7  Consensus size: 54

          1 TGCT

                         *             *                           
          5 GTCGTTTCAAGAAATTTTCGAAGATCATAGTTGATCTTCAGATGATCC-GATATG
          1 GTCGTTTCAAGAAGTTTTCGAAGATCAGAGTTGATCTTCAGATGATCCAG-TATG

                                                 *             *  
         59 GTCGTTTCAAGAAGTTTTCGAAGATCAGAGTTGATCTCCAGATGATCCAGTGTG
          1 GTCGTTTCAAGAAGTTTTCGAAGATCAGAGTTGATCTTCAGATGATCCAGTATG

                             *   *                  
        113 GTCG-TTCAAGAAGTTTCCGATGATCAGAGTTGATCTTCA
          1 GTCGTTTCAAGAAGTTTTCGAAGATCAGAGTTGATCTTCA

        152 ATATGGTTAC


Statistics
Matches: 85,  Mismatches: 7, Indels: 3
        0.89            0.07        0.03

Matches are distributed among these distances:
  53   32  0.38
  54   52  0.61
  55    1  0.01

ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33


Consensus pattern (54 bp):   
GTCGTTTCAAGAAGTTTTCGAAGATCAGAGTTGATCTTCAGATGATCCAGTATG

Found at i:904 original size:2 final size:2

Alignment explanation


    Indices: 843--891  Score: 71
    Period size: 2  Copynumber: 24.5  Consensus size: 2

        833 TGTTCTTATC

                              *           *           *                   
        843 TA TA TA TA TA TA GA TA TA TA GA TA TA TA GA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                      
        885 TA TA TA T
          1 TA TA TA T

        892 TCTTTCCTAT


Statistics
Matches: 41,  Mismatches: 6, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
   2   41  1.00

ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45


Consensus pattern (2 bp):   
TA
Done.