Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024049.1 Corchorus olitorius cultivar O-4 contig24082, 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: 12910
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30


Found at i:1484 original size:22 final size:21

Alignment explanation


    Indices: 1432--1485  Score: 60
    Period size: 19  Copynumber: 2.6  Consensus size: 21

       1422 TGCTTCTCGA

                                  
       1432 AATAATTCTTC-AATGATCTTC
          1 AATAA-TCTTCAAATGATCTTC

                          *      
       1453 -A-AATCTTCAAATTATCTTC
          1 AATAATCTTCAAATGATCTTC

                          
       1472 AATAAGTCTTCAAA
          1 AATAA-TCTTCAAA

       1486 CACGAACTTC


Statistics
Matches: 28,  Mismatches: 1, Indels: 7
        0.78            0.03        0.19

Matches are distributed among these distances:
  18    5  0.18
  19   11  0.39
  20    2  0.07
  21    2  0.07
  22    8  0.29

ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39


Consensus pattern (21 bp):   
AATAATCTTCAAATGATCTTC

Found at i:6860 original size:15 final size:16

Alignment explanation


    Indices: 6836--6875  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       6826 AGAAGTTTAA

                 *          
       6836 AGAAAGCAATTAAAC-
          1 AGAAAACAATTAAACT

                        *   
       6851 AGAAAACAATTATACT
          1 AGAAAACAATTAAACT

                     
       6867 AGAAAACAA
          1 AGAAAACAA

       6876 AACAAAGTAA


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15


Consensus pattern (16 bp):   
AGAAAACAATTAAACT

Done.