Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005405.1 Corchorus capsularis cultivar CVL-1 contig05423, 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: 6760
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38


Found at i:548 original size:2 final size:2

Alignment explanation


    Indices: 541--583  Score: 59
    Period size: 2  Copynumber: 21.5  Consensus size: 2

        531 TAGGTATGTG

                              *                     *          *          
        541 TA TA TA TA TA TA CA TA TA TA TA TA TA TG TA TA TA CA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

             
        583 T
          1 T

        584 CGTAAAATAC


Statistics
Matches: 35,  Mismatches: 6, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
   2   35  1.00

ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47


Consensus pattern (2 bp):   
TA

Found at i:2205 original size:25 final size:26

Alignment explanation


    Indices: 2171--2223  Score: 90
    Period size: 26  Copynumber: 2.1  Consensus size: 26

       2161 AAGATTCTTA

                 *                    
       2171 TTCAATGTTACT-AAAAATGCAGTTG
          1 TTCAAGGTTACTAAAAAATGCAGTTG

                                      
       2196 TTCAAGGTTACTAAAAAATGCAGTTG
          1 TTCAAGGTTACTAAAAAATGCAGTTG

              
       2222 TT
          1 TT

       2224 ATTAAAGGTT


Statistics
Matches: 26,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  25   11  0.42
  26   15  0.58

ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36


Consensus pattern (26 bp):   
TTCAAGGTTACTAAAAAATGCAGTTG

Done.