Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015740.1 Corchorus capsularis cultivar CVL-1 contig15761, 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: 4288
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32


Found at i:992 original size:28 final size:27

Alignment explanation


    Indices: 922--996  Score: 114
    Period size: 27  Copynumber: 2.7  Consensus size: 27

        912 TTTTCGGCAC

                                    *  
        922 CAGGGGCATTTTGGTCATTTGCATGTA
          1 CAGGGGCATTTTGGTCATTTGCATATA

                                      *
        949 CAGGGGCATTTTGGTCATTTGCATATT
          1 CAGGGGCATTTTGGTCATTTGCATATA

                        *        
        976 CAGAGGGCATTTAGGTCATTT
          1 CAG-GGGCATTTTGGTCATTT

        997 TGAATCCACT


Statistics
Matches: 44,  Mismatches: 3, Indels: 1
        0.92            0.06        0.02

Matches are distributed among these distances:
  27   28  0.64
  28   16  0.36

ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37


Consensus pattern (27 bp):   
CAGGGGCATTTTGGTCATTTGCATATA

Found at i:1135 original size:25 final size:25

Alignment explanation


    Indices: 1079--1141  Score: 76
    Period size: 24  Copynumber: 2.6  Consensus size: 25

       1069 GCACTTTTAG

                *         *  *        
       1079 CATTGTAGTATATTCCATAGCATTTT
          1 CATTTTAGTA-ATTTCACAGCATTTT

                                     
       1105 CA-TTTAGTAATTTCACAGCATTTT
          1 CATTTTAGTAATTTCACAGCATTTT

                          
       1129 CATTTTA-TAATTT
          1 CATTTTAGTAATTT

       1142 AGTATTGTTG


Statistics
Matches: 33,  Mismatches: 3, Indels: 4
        0.82            0.08        0.10

Matches are distributed among these distances:
  24   21  0.64
  25   10  0.30
  26    2  0.06

ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49


Consensus pattern (25 bp):   
CATTTTAGTAATTTCACAGCATTTT
Done.