Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012253.1 Corchorus olitorius cultivar O-4 contig12286, 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, 931

Length: 1553
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37


Found at i:964 original size:26 final size:25

Alignment explanation


    Indices: 909--966  Score: 66
    Period size: 26  Copynumber: 2.3  Consensus size: 25

        899 TATTTTCTTC

                                     
        909 TTCTTTTTTTTTCCTTCCTTCCTTT
          1 TTCTTTTTTTTTCCTTCCTTCCTTT

            *                          
        934 CTCTTTTTCTTTTCCTTGCC-T-CTTT
          1 TTCTTTTT-TTTTCCTT-CCTTCCTTT

                    
        959 ATTCTTTT
          1 -TTCTTTT

        967 CTTCATTTAT


Statistics
Matches: 28,  Mismatches: 2, Indels: 5
        0.80            0.06        0.14

Matches are distributed among these distances:
  25   11  0.39
  26   15  0.54
  27    2  0.07

ACGTcount: A:0.02, C:0.28, G:0.02, T:0.69


Consensus pattern (25 bp):   
TTCTTTTTTTTTCCTTCCTTCCTTT

Found at i:984 original size:2 final size:2

Alignment explanation


    Indices: 977--1019  Score: 52
    Period size: 2  Copynumber: 21.5  Consensus size: 2

        967 CTTCATTTAT

                                              *  *                         
        977 TA TA TA TA TA TA TA TA TA TA TA TT TT TA TCA -A TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA

             
       1019 T
          1 T

       1020 TACGGTCTTA


Statistics
Matches: 37,  Mismatches: 2, Indels: 4
        0.86            0.05        0.09

Matches are distributed among these distances:
   1    1  0.03
   2   35  0.95
   3    1  0.03

ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53


Consensus pattern (2 bp):   
TA

Done.