Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015726.1 Corchorus capsularis cultivar CVL-1 contig15747, 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: 2776
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28


Found at i:865 original size:18 final size:19

Alignment explanation


    Indices: 831--868  Score: 60
    Period size: 18  Copynumber: 2.1  Consensus size: 19

        821 GTCCATCGTT

                      *        
        831 ATCTCCATGGTCTCCATGC
          1 ATCTCCATGGCCTCCATGC

                               
        850 ATCTCCAT-GCCTCCATGC
          1 ATCTCCATGGCCTCCATGC

             
        868 A
          1 A

        869 GCCCATGCAC


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  18   10  0.56
  19    8  0.44

ACGTcount: A:0.18, C:0.39, G:0.13, T:0.29


Consensus pattern (19 bp):   
ATCTCCATGGCCTCCATGC

Found at i:972 original size:28 final size:30

Alignment explanation


    Indices: 912--972  Score: 72
    Period size: 28  Copynumber: 2.1  Consensus size: 30

        902 CGTCTTCAAG

                                   *    * 
        912 TCCATGATAAGTCCTTGACGCATGAATCTC
          1 TCCATGATAAGTCCTTGACGCATCAATCCC

                             *       *    
        942 TCCATG-TAAG-CCTTGGCGCATCATTCCC
          1 TCCATGATAAGTCCTTGACGCATCAATCCC

               
        970 TCC
          1 TCC

        973 CCCTTGAAGA


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  28   17  0.63
  29    4  0.15
  30    6  0.22

ACGTcount: A:0.21, C:0.33, G:0.16, T:0.30


Consensus pattern (30 bp):   
TCCATGATAAGTCCTTGACGCATCAATCCC
Done.