Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008848.1 Corchorus capsularis cultivar CVL-1 contig08869, 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, 859

Length: 1432
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33


Found at i:1234 original size:168 final size:167

Alignment explanation


    Indices: 950--1254  Score: 479
    Period size: 168  Copynumber: 1.8  Consensus size: 167

        940 CAACTTGTCA

                *                        *   *                             * 
        950 TTTATTAATTCCACTACTCTATTCAAATCCATTGAGAAATGACAAAAAAGATTACTTATTTAATC
          1 TTTAGTAATTCCACTACTCTATTCAAATCAATTAAGAAATGACAAAAAAGATTACTTATTTAACC

                                                *                            
       1015 CACTCAAGAATCAAAAGTTAGGACATTTAAGTAATCTGCCAAGTAGGAAAAGACGAAAAAAAATA
         66 CACTCAAGAATCAAAAGTTAGGACATTTAAGTAATCGGCCAAGTAGGAAAAGACG-AAAAAAATA

                                                  
       1080 AGTTCTCTAACTCTAAAAGCAAGCCTTGGTAGGGATCT
        130 AGTTCTCTAACTCTAAAAGCAAGCCTTGGTAGGGATCT

                                                        *           *        
       1118 TTTAGTAATTCCACTACTCTATT-AAAGTCAATTAAGAAATGACCAAAAAG-TCTAGTTATTTAA
          1 TTTAGTAATTCCACTACTCTATTCAAA-TCAATTAAGAAATGACAAAAAAGAT-TACTTATTTAA

               *                                          *                  
       1181 CCCCCTCAAGAATCAAAAGTTAGGACATTTAAGTAATCGGCCAAGTGGGAAAAGACGAAAAAAAT
         64 CCCACTCAAGAATCAAAAGTTAGGACATTTAAGTAATCGGCCAAGTAGGAAAAGACGAAAAAAAT

            *        
       1246 TAGTTCTCT
        129 AAGTTCTCT

       1255 CGCTCCTCAT


Statistics
Matches: 125,  Mismatches: 10, Indels: 5
        0.89            0.07        0.04

Matches are distributed among these distances:
 167   20  0.16
 168  105  0.84

ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28


Consensus pattern (167 bp):   
TTTAGTAATTCCACTACTCTATTCAAATCAATTAAGAAATGACAAAAAAGATTACTTATTTAACC
CACTCAAGAATCAAAAGTTAGGACATTTAAGTAATCGGCCAAGTAGGAAAAGACGAAAAAAATAA
GTTCTCTAACTCTAAAAGCAAGCCTTGGTAGGGATCT
Done.