Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008581.1 Corchorus capsularis cultivar CVL-1 contig08602, 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: 2411
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37


Found at i:587 original size:34 final size:34

Alignment explanation


    Indices: 509--575  Score: 116
    Period size: 34  Copynumber: 2.0  Consensus size: 34

        499 GATACAAGGC

                                *             
        509 CCACCTCTCCCCAAAACATGGCATGTGTCCCATT
          1 CCACCTCTCCCCAAAACATGACATGTGTCCCATT

                           *                 
        543 CCACCTCTCCCCAAATCATGACATGTGTCCCAT
          1 CCACCTCTCCCCAAAACATGACATGTGTCCCAT

        576 GAGGCTGCTC


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  34   31  1.00

ACGTcount: A:0.24, C:0.42, G:0.10, T:0.24


Consensus pattern (34 bp):   
CCACCTCTCCCCAAAACATGACATGTGTCCCATT

Found at i:995 original size:18 final size:17

Alignment explanation


    Indices: 924--995  Score: 62
    Period size: 17  Copynumber: 4.4  Consensus size: 17

        914 ACTCCTCTTC

                      *      
        924 TTCTCTTCCTTTCC-TT
          1 TTCTCTTCCTATCCTTT

                             *
        940 TTCTC--CC-ATTCCTTC
          1 TTCTCTTCCTA-TCCTTT

                             
        955 TTCTCTTCCTATCCTTT
          1 TTCTCTTCCTATCCTTT

             *           *    
        972 TCCTCTTCCTTATTCTTT
          1 TTCTCTTCC-TATCCTTT

                  
        990 TTCTCT
          1 TTCTCT

        996 CTCACTGCCT


Statistics
Matches: 44,  Mismatches: 6, Indels: 10
        0.73            0.10        0.17

Matches are distributed among these distances:
  14    5  0.11
  15    6  0.14
  16    5  0.11
  17   15  0.34
  18   13  0.30

ACGTcount: A:0.04, C:0.38, G:0.00, T:0.58


Consensus pattern (17 bp):   
TTCTCTTCCTATCCTTT
Done.