Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004799.1 Corchorus olitorius cultivar O-4 contig04816, 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, 731

Length: 1219
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.32


Found at i:644 original size:27 final size:24

Alignment explanation


    Indices: 595--730  Score: 182
    Period size: 24  Copynumber: 5.4  Consensus size: 24

        585 TGTGGGGCTT

                                    
        595 CATTTAAACCCTCACCACCTACTG
          1 CATTTAAACCCTCACCACCTACTG

                         *             
        619 CATTTAAACCTGGTTCACCACCTACTG
          1 CATTTAAACC---CTCACCACCTACTG

                           *        
        646 CATTTAAACCCTCACTACCTACTG
          1 CATTTAAACCCTCACCACCTACTG

                         *             
        670 CATTTAAACCTAGTTCACCACCTACTG
          1 CATTTAAACC---CTCACCACCTACTG

                           *        
        697 CATTTAAACCCTCACTACCTACTG
          1 CATTTAAACCCTCACCACCTACTG

                      
        721 CATTTAAACC
          1 CATTTAAACC

        731 ACCATCTACT


Statistics
Matches: 99,  Mismatches: 7, Indels: 12
        0.84            0.06        0.10

Matches are distributed among these distances:
  24   54  0.55
  27   45  0.45

ACGTcount: A:0.29, C:0.36, G:0.06, T:0.29


Consensus pattern (24 bp):   
CATTTAAACCCTCACCACCTACTG

Found at i:671 original size:51 final size:51

Alignment explanation


    Indices: 595--730  Score: 254
    Period size: 51  Copynumber: 2.7  Consensus size: 51

        585 TGTGGGGCTT

                           *                   *               
        595 CATTTAAACCCTCACCACCTACTGCATTTAAACCTGGTTCACCACCTACTG
          1 CATTTAAACCCTCACTACCTACTGCATTTAAACCTAGTTCACCACCTACTG

                                                               
        646 CATTTAAACCCTCACTACCTACTGCATTTAAACCTAGTTCACCACCTACTG
          1 CATTTAAACCCTCACTACCTACTGCATTTAAACCTAGTTCACCACCTACTG

                                              
        697 CATTTAAACCCTCACTACCTACTGCATTTAAACC
          1 CATTTAAACCCTCACTACCTACTGCATTTAAACC

        731 ACCATCTACT


Statistics
Matches: 83,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  51   83  1.00

ACGTcount: A:0.29, C:0.36, G:0.06, T:0.29


Consensus pattern (51 bp):   
CATTTAAACCCTCACTACCTACTGCATTTAAACCTAGTTCACCACCTACTG
Done.