Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000162.1 Corchorus capsularis cultivar CVL-1 contig00162, 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, 748

Length: 1248
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31


Found at i:597 original size:29 final size:30

Alignment explanation


    Indices: 563--634  Score: 85
    Period size: 29  Copynumber: 2.5  Consensus size: 30

        553 ATTTGTAGTA

                                      *   
        563 TTTGGACATTTTGCCCCCTAAACT-TTAAT
          1 TTTGGACATTTTGCCCCCTAAACTCTCAAT

                         **               
        592 TTTGGACATTTT-ATCCCTAAACTCTCAAT
          1 TTTGGACATTTTGCCCCCTAAACTCTCAAT

               *   *      
        621 TTTCGACGTTTTGC
          1 TTTGGACATTTTGC

        635 TCCTTTCAAG


Statistics
Matches: 35,  Mismatches: 6, Indels: 3
        0.80            0.14        0.07

Matches are distributed among these distances:
  28    9  0.26
  29   26  0.74

ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43


Consensus pattern (30 bp):   
TTTGGACATTTTGCCCCCTAAACTCTCAAT

Found at i:745 original size:32 final size:32

Alignment explanation


    Indices: 703--781  Score: 131
    Period size: 32  Copynumber: 2.5  Consensus size: 32

        693 GGTACAAAAA

                 *                      *   
        703 TCCGATGTGGCAATGCCATGTCATCAGTTTGG
          1 TCCGACGTGGCAATGCCATGTCATCAGTGTGG

                                     *      
        735 TCCGACGTGGCAATGCCATGTCATCGGTGTGG
          1 TCCGACGTGGCAATGCCATGTCATCAGTGTGG

                           
        767 TCCGACGTGGCAATG
          1 TCCGACGTGGCAATG

        782 GCACATCATT


Statistics
Matches: 44,  Mismatches: 3, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  32   44  1.00

ACGTcount: A:0.18, C:0.24, G:0.32, T:0.27


Consensus pattern (32 bp):   
TCCGACGTGGCAATGCCATGTCATCAGTGTGG
Done.