Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020592.1 Corchorus olitorius cultivar O-4 contig20625, 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: 12866
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29


Found at i:2734 original size:136 final size:137

Alignment explanation


    Indices: 2478--2734  Score: 385
    Period size: 136  Copynumber: 1.9  Consensus size: 137

       2468 AAAAATTGCC

                                     *       *                               
       2478 GCCACGTCCCCATTTCTTGGGGGAATTTGTGCCTATTTTAACAATTTAGGAAGTGAATGTTCCAA
          1 GCCACGTCCCCATTTCTTGGGGGAAATTGTGCCGATTTTAACAATTTAGGAAGTGAATGTTCCAA

                                                      *** *   *              
       2543 ATTAAAGTTCAAGGGGGAAATTATCCCCATTTTGATAGTTTGTCTGCCTGCAAATTGCTGACATG
         66 ATTAAAGTTCAAGGGGGAAATTATCCCCATTTTGATAGTTTGAAGGACTGAAAATTGCTGACATG

                   
       2608 GCATTAT
        131 GCATTAT

                                           *                                 
       2615 GCCACGT-CCCATTTCTTGGGGGAAATTGTGTCGATTTTAACAATTTAGGAAGTGAATGTTCCAA
          1 GCCACGTCCCCATTTCTTGGGGGAAATTGTGCCGATTTTAACAATTTAGGAAGTGAATGTTCCAA

                                   *                         *        
       2679 ATTAAAAGTTCAA-GGGGAAATTGTCCCCATTTTGAATAGTTT-AAGGATTGAAAATT
         66 ATT-AAAGTTCAAGGGGGAAATTATCCCCATTTTG-ATAGTTTGAAGGACTGAAAATT

       2735 CCAAATTAAA


Statistics
Matches: 108,  Mismatches: 10, Indels: 5
        0.88            0.08        0.04

Matches are distributed among these distances:
 136   85  0.79
 137   23  0.21

ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34


Consensus pattern (137 bp):   
GCCACGTCCCCATTTCTTGGGGGAAATTGTGCCGATTTTAACAATTTAGGAAGTGAATGTTCCAA
ATTAAAGTTCAAGGGGGAAATTATCCCCATTTTGATAGTTTGAAGGACTGAAAATTGCTGACATG
GCATTAT
Done.