Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002314.1 Corchorus capsularis cultivar CVL-1 contig02320, 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, 659

Length: 1099
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31


Found at i:92 original size:13 final size:13

Alignment explanation


    Indices: 74--108  Score: 61
    Period size: 13  Copynumber: 2.7  Consensus size: 13

         64 TTGATACTTT

                         
         74 TAGAGAATGAAAA
          1 TAGAGAATGAAAA

                         
         87 TAGAGAATGAAAA
          1 TAGAGAATGAAAA

                *    
        100 TAGAAAATG
          1 TAGAGAATG

        109 TTTTCATCCT


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  13   21  1.00

ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17


Consensus pattern (13 bp):   
TAGAGAATGAAAA

Found at i:986 original size:33 final size:33

Alignment explanation


    Indices: 933--1067  Score: 119
    Period size: 33  Copynumber: 4.1  Consensus size: 33

        923 GACGCGGTGC

                          **      *     *    
        933 CCAACCGTGGTGTGTTGTCCTCGTAGGATGGCA
          1 CCAACCGTGGTGTGCCGTCCTCATAGGACGGCA

                  *               *  *       
        966 CCAACCATGGTGTGCCGTCCTCCTAAGACGGCA
          1 CCAACCGTGGTGTGCCGTCCTCATAGGACGGCA

            *    *  *      *                * 
        999 TCAACTGTCGTGTGCTGTCCT-ATGAGGACGGTA
          1 CCAACCGTGGTGTGCCGTCCTCAT-AGGACGGCA

                                  ***        
       1032 CCAACCGTGGTGTGCCGTCCTCCGGGGACGGCA
          1 CCAACCGTGGTGTGCCGTCCTCATAGGACGGCA

               
       1065 CCA
          1 CCA

       1068 CATCTAAATC


Statistics
Matches: 78,  Mismatches: 22, Indels: 4
        0.75            0.21        0.04

Matches are distributed among these distances:
  32    1  0.01
  33   77  0.99

ACGTcount: A:0.17, C:0.30, G:0.30, T:0.22


Consensus pattern (33 bp):   
CCAACCGTGGTGTGCCGTCCTCATAGGACGGCA
Done.