Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006966.1 Corchorus capsularis cultivar CVL-1 contig06987, 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: 1927
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37


Found at i:1017 original size:30 final size:30

Alignment explanation


    Indices: 956--1018  Score: 74
    Period size: 30  Copynumber: 2.1  Consensus size: 30

        946 TCTTCAAGGG

                *                *        
        956 GGAGTGAATGATGCGCCCAAGGCTTACCAT
          1 GGAGAGAATGATGCGCCCAAGACTTACCAT

                            *          *   
        986 GGAGAGAATGATGCG-TCAACGACTTATCAT
          1 GGAGAGAATGATGCGCCCAA-GACTTACCAT

               
       1016 GGA
          1 GGA

       1019 CTTGAAGACG


Statistics
Matches: 28,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  29    3  0.11
  30   25  0.89

ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21


Consensus pattern (30 bp):   
GGAGAGAATGATGCGCCCAAGACTTACCAT

Found at i:1085 original size:18 final size:19

Alignment explanation


    Indices: 1062--1099  Score: 60
    Period size: 18  Copynumber: 2.1  Consensus size: 19

       1052 GTCCATGGGC

                      *        
       1062 TGCATGGAG-GCATGGAGA
          1 TGCATGGAGACCATGGAGA

                               
       1080 TGCATGGAGACCATGGAGA
          1 TGCATGGAGACCATGGAGA

             
       1099 T
          1 T

       1100 AACGATGGAC


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

Matches are distributed among these distances:
  18    9  0.50
  19    9  0.50

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


Consensus pattern (19 bp):   
TGCATGGAGACCATGGAGA

Done.