Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000593.1 Corchorus olitorius cultivar O-4 contig00593, 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, 657

Length: 1096
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:551 original size:20 final size:21

Alignment explanation


    Indices: 523--562  Score: 55
    Period size: 20  Copynumber: 2.0  Consensus size: 21

        513 GAGGCCTAAG

                      *          
        523 ATTGAAGTGATAA-ACAAAGA
          1 ATTGAAGTGACAAGACAAAGA

                *               
        543 ATTGGAGTGACAAGACAAAG
          1 ATTGAAGTGACAAGACAAAG

        563 CTTGAAAGCT


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  20   11  0.65
  21    6  0.35

ACGTcount: A:0.50, C:0.07, G:0.25, T:0.17


Consensus pattern (21 bp):   
ATTGAAGTGACAAGACAAAGA

Found at i:971 original size:30 final size:31

Alignment explanation


    Indices: 936--999  Score: 103
    Period size: 30  Copynumber: 2.1  Consensus size: 31

        926 AGGCGTTTAA

                     *                     
        936 CCCCCTAAATTTCAATTTTGG-ACATTTTGC
          1 CCCCCTAAACTTCAATTTTGGAACATTTTGC

                                    *      
        966 CCCCCTAAACTTCAATTTTGGAACGTTTTGC
          1 CCCCCTAAACTTCAATTTTGGAACATTTTGC

               
        997 CCC
          1 CCC

       1000 TTCAGCCTAA


Statistics
Matches: 31,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
  30   20  0.65
  31   11  0.35

ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36


Consensus pattern (31 bp):   
CCCCCTAAACTTCAATTTTGGAACATTTTGC

Done.