Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018307.1 Corchorus olitorius cultivar O-4 contig18340, 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: 3401
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32


Found at i:1444 original size:21 final size:21

Alignment explanation


    Indices: 1411--1459  Score: 55
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       1401 AAGAATTGTA

                          **     
       1411 GCTT-CTTGGAAATGGCTCTT
          1 GCTTCCTTGGAAATCCCTCTT

                    *            
       1431 GCTTCCTTTGAAATCCCTCTT
          1 GCTTCCTTGGAAATCCCTCTT

                    
       1452 GCATTCCT
          1 GC-TTCCT

       1460 AAAGCATTGA


Statistics
Matches: 24,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  20    4  0.17
  21   15  0.62
  22    5  0.21

ACGTcount: A:0.14, C:0.29, G:0.16, T:0.41


Consensus pattern (21 bp):   
GCTTCCTTGGAAATCCCTCTT

Found at i:2633 original size:25 final size:26

Alignment explanation


    Indices: 2591--2640  Score: 84
    Period size: 25  Copynumber: 2.0  Consensus size: 26

       2581 AAAAGTAACT

                                      
       2591 AAGAAAAATAAACAAAAATAAAAGAA
          1 AAGAAAAATAAACAAAAATAAAAGAA

                         *           
       2617 AAGAAAAAT-AACGAAAATAAAAGA
          1 AAGAAAAATAAACAAAAATAAAAGA

       2641 TAAGGGTAAG


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  25   14  0.61
  26    9  0.39

ACGTcount: A:0.78, C:0.04, G:0.10, T:0.08


Consensus pattern (26 bp):   
AAGAAAAATAAACAAAAATAAAAGAA
Done.