Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014768.1 Corchorus capsularis cultivar CVL-1 contig14789, 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: 2899
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34


Found at i:797 original size:44 final size:44

Alignment explanation


    Indices: 714--828  Score: 158
    Period size: 44  Copynumber: 2.6  Consensus size: 44

        704 TGGAAAACCC

                           *        *    *               
        714 TTTTATCAAAACCCTCTTGAAAACTATAATTCTTCTTGAAAAACA
          1 TTTTATCAAAA-CCTTTTGAAAACCATAACTCTTCTTGAAAAACA

                       *              *      *       *  
        759 TTTTATCAAAATCTTTTGAAAACCATGACTCTTTTTGAAAACCA
          1 TTTTATCAAAACCTTTTGAAAACCATAACTCTTCTTGAAAAACA

                                      
        803 TTTTATCAAAACCTTTTGAAAACCAT
          1 TTTTATCAAAACCTTTTGAAAACCAT

        829 CGTTGCTCTT


Statistics
Matches: 62,  Mismatches: 8, Indels: 1
        0.87            0.11        0.01

Matches are distributed among these distances:
  44   51  0.82
  45   11  0.18

ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37


Consensus pattern (44 bp):   
TTTTATCAAAACCTTTTGAAAACCATAACTCTTCTTGAAAAACA

Found at i:873 original size:17 final size:17

Alignment explanation


    Indices: 837--883  Score: 51
    Period size: 17  Copynumber: 2.6  Consensus size: 17

        827 ATCGTTGCTC

                         *     
        837 TTTCTCTTTTTCTTTCTTT
          1 TTTCT-TTTTTC-ATCTTT

                             
        856 TTTCTTTTTTCAT-TTT
          1 TTTCTTTTTTCATCTTT

                        
        872 TTTCATTTTTTC
          1 TTTC-TTTTTTC

        884 CACTTATCCC


Statistics
Matches: 26,  Mismatches: 1, Indels: 4
        0.84            0.03        0.13

Matches are distributed among these distances:
  16    7  0.27
  17    8  0.31
  18    6  0.23
  19    5  0.19

ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79


Consensus pattern (17 bp):   
TTTCTTTTTTCATCTTT
Done.