Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009577.1 Corchorus capsularis cultivar CVL-1 contig09598, 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: 8058
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:4267 original size:19 final size:18

Alignment explanation


    Indices: 4234--4269  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       4224 TTGAAATAAT

                              
       4234 TCTTCAATGATCTTCAAA
          1 TCTTCAATGATCTTCAAA

                     *        
       4252 TCTTCAAATTATCTTCAA
          1 TCTTC-AATGATCTTCAA

       4270 GAAATCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGATCTTCAAA

Found at i:6082 original size:24 final size:27

Alignment explanation


    Indices: 6032--6084  Score: 76
    Period size: 26  Copynumber: 2.1  Consensus size: 27

       6022 AGGATGAAAT

                                       
       6032 TCCTCCTTATTTTCCTTCTCTTGATTC
          1 TCCTCCTTATTTTCCTTCTCTTGATTC

                    *                  
       6059 TCCTCC-TCTTTTCCTTC-CTT-ATTC
          1 TCCTCCTTATTTTCCTTCTCTTGATTC

              
       6083 TC
          1 TC

       6085 ATCACTAGAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 3
        0.86            0.03        0.10

Matches are distributed among these distances:
  24    6  0.24
  25    3  0.12
  26   10  0.40
  27    6  0.24

ACGTcount: A:0.06, C:0.38, G:0.02, T:0.55


Consensus pattern (27 bp):   
TCCTCCTTATTTTCCTTCTCTTGATTC
Done.