Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012294.1 Corchorus olitorius cultivar O-4 contig12327, 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: 3341
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32


Found at i:59 original size:29 final size:30

Alignment explanation


    Indices: 17--75  Score: 84
    Period size: 29  Copynumber: 2.0  Consensus size: 30

          7 CAATTCTCCC

                *                         
         17 TCTTGAAATAAATCTTCAAA-GTCTTCAAG
          1 TCTTCAAATAAATCTTCAAAGGTCTTCAAG

                     *                    
         46 TCTTCAAATTAATCTTCAAATGGTCTTCAA
          1 TCTTCAAATAAATCTTCAAA-GGTCTTCAA

         76 ACACGAACTT


Statistics
Matches: 26,  Mismatches: 2, Indels: 2
        0.87            0.07        0.07

Matches are distributed among these distances:
  29   18  0.69
  31    8  0.31

ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37


Consensus pattern (30 bp):   
TCTTCAAATAAATCTTCAAAGGTCTTCAAG

Found at i:1944 original size:21 final size:21

Alignment explanation


    Indices: 1920--1992  Score: 65
    Period size: 21  Copynumber: 3.4  Consensus size: 21

       1910 GGCACTGAAT

                          *      
       1920 GGTGATGGCACGGGCATAGCC
          1 GGTGATGGCACGGGAATAGCC

                *         **  *  
       1941 GGTGGTGGCACGGGGTTAACC
          1 GGTGATGGCACGGGAATAGCC

                *             *   
       1962 GGTGGTGGCACGGTGAATGGCC
          1 GGTGATGGCACGG-GAATAGCC

               *     
       1984 GGTAATGGC
          1 GGTGATGGC

       1993 TTGGTAGTGG


Statistics
Matches: 41,  Mismatches: 10, Indels: 1
        0.79            0.19        0.02

Matches are distributed among these distances:
  21   30  0.73
  22   11  0.27

ACGTcount: A:0.16, C:0.19, G:0.47, T:0.18


Consensus pattern (21 bp):   
GGTGATGGCACGGGAATAGCC
Done.