Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009913.1 Corchorus olitorius cultivar O-4 contig09945, 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: 6795
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32


Found at i:2925 original size:25 final size:25

Alignment explanation


    Indices: 2891--2941  Score: 102
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       2881 TGTTGCTTCA

                                     
       2891 ATCACATCTAAGGCCATATATGGTT
          1 ATCACATCTAAGGCCATATATGGTT

                                     
       2916 ATCACATCTAAGGCCATATATGGTT
          1 ATCACATCTAAGGCCATATATGGTT

             
       2941 A
          1 A

       2942 GTAGATTTTT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   26  1.00

ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31


Consensus pattern (25 bp):   
ATCACATCTAAGGCCATATATGGTT

Found at i:5745 original size:29 final size:29

Alignment explanation


    Indices: 5705--5782  Score: 111
    Period size: 29  Copynumber: 2.7  Consensus size: 29

       5695 ACTTCTAGCG

                   *                     
       5705 TTTGGACGTTTTACCCTCTGAACTTCAAT
          1 TTTGGACATTTTACCCTCTGAACTTCAAT

                            *        *   
       5734 TTTGGACATTTTACCCCCTGAACTTTAAT
          1 TTTGGACATTTTACCCTCTGAACTTCAAT

                         *      
       5763 TTTGGGACATTTTGCCCTCT
          1 TTT-GGACATTTTACCCTCT

       5783 CATACTAACG


Statistics
Matches: 43,  Mismatches: 5, Indels: 1
        0.88            0.10        0.02

Matches are distributed among these distances:
  29   29  0.67
  30   14  0.33

ACGTcount: A:0.19, C:0.24, G:0.14, T:0.42


Consensus pattern (29 bp):   
TTTGGACATTTTACCCTCTGAACTTCAAT

Done.