Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010123.1 Corchorus capsularis cultivar CVL-1 contig10144, 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: 3559
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37


Found at i:252 original size:120 final size:120

Alignment explanation


    Indices: 56--288  Score: 364
    Period size: 120  Copynumber: 1.9  Consensus size: 120

         46 CAATAAATTG

                                                              *      *       
         56 GTTGATTAATAAGGCCTTAACGGATTGTTCGAAAAAAATGAAGCCTTAATTGACCGAGCCTTAAT
          1 GTTGATTAATAAGGCCTTAACGGATTGTTCGAAAAAAA-GAAGCCTTAATGGACCGAACCTTAAT

                  *        *                                        
        121 TAACAAGCTTTGGCCGATTTGCTCCAAAATTATCAATAAATTTGTCAATTTTATTA
         65 TAACAAACTTTGGCCAATTTGCTCCAAAATTATCAATAAATTTGTCAATTTTATTA

                                                                             
        177 GTTGATTAATAATGG-CTTAACGGATTGTTC--AAAAAAGAAAGGCCTTAATGGACCGAACCTTA
          1 GTTGATTAATAA-GGCCTTAACGGATTGTTCGAAAAAAAG-AA-GCCTTAATGGACCGAACCTTA

            *                                                 
        239 GTTAACAAACTTTGGCCAATTTGCTCCAAAATTATCAATAAATTTGTCAA
         63 ATTAACAAACTTTGGCCAATTTGCTCCAAAATTATCAATAAATTTGTCAA

        289 CTTCTATCTC


Statistics
Matches: 104,  Mismatches: 5, Indels: 7
        0.90            0.04        0.06

Matches are distributed among these distances:
 118    1  0.01
 119    8  0.08
 120   66  0.63
 121   27  0.26
 122    2  0.02

ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32


Consensus pattern (120 bp):   
GTTGATTAATAAGGCCTTAACGGATTGTTCGAAAAAAAGAAGCCTTAATGGACCGAACCTTAATT
AACAAACTTTGGCCAATTTGCTCCAAAATTATCAATAAATTTGTCAATTTTATTA
Done.