Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015496.1 Corchorus olitorius cultivar O-4 contig15529, 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: 4449
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37


Found at i:4093 original size:21 final size:22

Alignment explanation


    Indices: 4067--4174  Score: 123
    Period size: 22  Copynumber: 5.0  Consensus size: 22

       4057 TCTCACAAGG

                         *        
       4067 AGGTTATCAAAA-ATCATAGGA
          1 AGGTTATCAAAATTTCATAGGA

                                  
       4088 AGGTTA-CAAAATTTCATAGGA
          1 AGGTTATCAAAATTTCATAGGA

                    *            **
       4109 AGGTTTATTAAAATTTCATAGTT
          1 AGG-TTATCAAAATTTCATAGGA

                       *           
       4132 AGGTTATCAAAGTTTCATATGG-
          1 AGGTTATCAAAATTTCATA-GGA

              *                  
       4154 AGTTTATCAAAATTTCATAGG
          1 AGGTTATCAAAATTTCATAGG

       4175 TAATCAAAAT


Statistics
Matches: 74,  Mismatches: 9, Indels: 8
        0.81            0.10        0.09

Matches are distributed among these distances:
  20    5  0.07
  21   19  0.26
  22   34  0.46
  23   16  0.22

ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35


Consensus pattern (22 bp):   
AGGTTATCAAAATTTCATAGGA

Found at i:4436 original size:22 final size:21

Alignment explanation


    Indices: 4397--4440  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 21

       4387 TAAAAGAATC

                   *     *       
       4397 TTTATTATTTATCGTTTTATT
          1 TTTATTAATTATCCTTTTATT

                                  
       4418 TTTATTTAATTATCCTTTTATT
          1 TTTA-TTAATTATCCTTTTATT

             
       4440 T
          1 T

       4441 AATTATTTC


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  21    4  0.20
  22   16  0.80

ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70


Consensus pattern (21 bp):   
TTTATTAATTATCCTTTTATT
Done.