Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007621.1 Corchorus olitorius cultivar O-4 contig07647, 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, 604

Length: 1007
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31


Found at i:620 original size:35 final size:36

Alignment explanation


    Indices: 552--622  Score: 92
    Period size: 35  Copynumber: 2.0  Consensus size: 36

        542 GGCAGCCGGA

                                    *   *       
        552 AGCAGGCCTAGCGCTAGGGCCTGGTCTGTGCGGCCC
          1 AGCAGGCCTAGCGCTAGGGCCTGGCCTGCGCGGCCC

                            *                    
        588 AGCAGGCC-AGCGC-ATGGCCTTGGCCTGCGCGGCCC
          1 AGCAGGCCTAGCGCTAGGGCC-TGGCCTGCGCGGCCC

        623 TCTGCTTTGG


Statistics
Matches: 31,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
  34    5  0.16
  35   18  0.58
  36    8  0.26

ACGTcount: A:0.11, C:0.37, G:0.38, T:0.14


Consensus pattern (36 bp):   
AGCAGGCCTAGCGCTAGGGCCTGGCCTGCGCGGCCC

Found at i:741 original size:21 final size:21

Alignment explanation


    Indices: 716--761  Score: 65
    Period size: 21  Copynumber: 2.2  Consensus size: 21

        706 ATAAGGAAAT

                  *              
        716 GAAAAAGAAAGGAAAAAAGGA
          1 GAAAAAAAAAGGAAAAAAGGA

                        *   *    
        737 GAAAAAAAAAGGGAAATAGGA
          1 GAAAAAAAAAGGAAAAAAGGA

                
        758 GAAA
          1 GAAA

        762 TGGAAAATAA


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  21   22  1.00

ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02


Consensus pattern (21 bp):   
GAAAAAAAAAGGAAAAAAGGA
Done.