Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001670.1 Corchorus capsularis cultivar CVL-1 contig01670, 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, 612

Length: 1020
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27


Found at i:966 original size:6 final size:6

Alignment explanation


    Indices: 955--1017  Score: 71
    Period size: 6  Copynumber: 11.2  Consensus size: 6

        945 GGGATCACTA

                                          *      *                 
        955 ACTAAT ACTAAT -CTAAT ACTAAT A-GAAT A-GAAT ACTAAT -CTAAT
          1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT

                   *              
        999 ACTAAT TCTAAT ACTAAT A
          1 ACTAAT ACTAAT ACTAAT A

       1018 GAA


Statistics
Matches: 50,  Mismatches: 4, Indels: 6
        0.83            0.07        0.10

Matches are distributed among these distances:
   5   19  0.38
   6   31  0.62

ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33


Consensus pattern (6 bp):   
ACTAAT

Found at i:972 original size:11 final size:11

Alignment explanation


    Indices: 951--1016  Score: 62
    Period size: 11  Copynumber: 5.5  Consensus size: 11

        941 AGCCGGGATC

                       
        951 ACTAA-CTAAT
          1 ACTAATCTAAT

                       
        961 ACTAATCTAAT
          1 ACTAATCTAAT

                     *      
        972 ACTAATAGAATAGAAT
          1 ACTAAT---CT--AAT

                       
        988 ACTAATCTAAT
          1 ACTAATCTAAT

                        
        999 ACTAATTCTAAT
          1 ACTAA-TCTAAT

                  
       1011 ACTAAT
          1 ACTAAT

       1017 AGAA


Statistics
Matches: 47,  Mismatches: 2, Indels: 13
        0.76            0.03        0.21

Matches are distributed among these distances:
  10    5  0.11
  11   20  0.43
  12   11  0.23
  13    1  0.02
  14    1  0.02
  16    9  0.19

ACGTcount: A:0.48, C:0.15, G:0.03, T:0.33


Consensus pattern (11 bp):   
ACTAATCTAAT

Done.