Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008188.1 Corchorus capsularis cultivar CVL-1 contig08209, 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: 1673
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35


Found at i:786 original size:13 final size:13

Alignment explanation


    Indices: 764--796  Score: 57
    Period size: 13  Copynumber: 2.5  Consensus size: 13

        754 AATTTTGAGG

                 *       
        764 AAATAGTGGCTGA
          1 AAATAATGGCTGA

                         
        777 AAATAATGGCTGA
          1 AAATAATGGCTGA

                   
        790 AAATAAT
          1 AAATAAT

        797 CCTTTTTAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  13   19  1.00

ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24


Consensus pattern (13 bp):   
AAATAATGGCTGA

Found at i:1495 original size:62 final size:63

Alignment explanation


    Indices: 1398--1520  Score: 194
    Period size: 62  Copynumber: 2.0  Consensus size: 63

       1388 TAATGAAGAG

                        *                 *                                
       1398 AAACCTAATCTATACTAATTTTTCAATATATTTTTATGTCATTTTGGTATAGTTGTTTTCAGA
          1 AAACCTAATCTACACTAATTTTTCAATATACTTTTATGTCATTTTGGTATAGTTGTTTTCAGA

                       *  *                        *                     
       1461 AAACCTAATCTGCATTAA-TTTTCAATATACTTTTATGTGATTTTGGTATAGTTGTTTTCA
          1 AAACCTAATCTACACTAATTTTTCAATATACTTTTATGTCATTTTGGTATAGTTGTTTTCA

       1521 ATTGGTGCTC


Statistics
Matches: 55,  Mismatches: 5, Indels: 1
        0.90            0.08        0.02

Matches are distributed among these distances:
  62   40  0.73
  63   15  0.27

ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49


Consensus pattern (63 bp):   
AAACCTAATCTACACTAATTTTTCAATATACTTTTATGTCATTTTGGTATAGTTGTTTTCAGA
Done.