Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005832.1 Corchorus capsularis cultivar CVL-1 contig05850, 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: 8713
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32


Found at i:116 original size:2 final size:2

Alignment explanation


    Indices: 109--158  Score: 100
    Period size: 2  Copynumber: 25.0  Consensus size: 2

         99 CGTCAAAACT

                                                                          
        109 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                       
        151 TA TA TA TA
          1 TA TA TA TA

        159 CCCACTTTTC


Statistics
Matches: 48,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   48  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:233 original size:43 final size:43

Alignment explanation


    Indices: 172--260  Score: 160
    Period size: 43  Copynumber: 2.1  Consensus size: 43

        162 ACTTTTCGGC

                                                  *    
        172 TTTTGCATTAAACATACATACATTTATTGAAATTTCAATAAAT
          1 TTTTGCATTAAACATACATACATTTATTGAAATTTCAACAAAT

                      *                                
        215 TTTTGCATTATACATACATACATTTATTGAAATTTCAACAAAT
          1 TTTTGCATTAAACATACATACATTTATTGAAATTTCAACAAAT

               
        258 TTT
          1 TTT

        261 CTTTTCAATC


Statistics
Matches: 44,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  43   44  1.00

ACGTcount: A:0.39, C:0.12, G:0.04, T:0.44


Consensus pattern (43 bp):   
TTTTGCATTAAACATACATACATTTATTGAAATTTCAACAAAT
Done.