Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010028.1 Corchorus olitorius cultivar O-4 contig10060, 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: 6093
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35


Found at i:4187 original size:22 final size:22

Alignment explanation


    Indices: 4159--4202  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       4149 AACCTTTTTT

                    *  *     *    
       4159 CCTTTTTTTTTGAGAAATAAAA
          1 CCTTTTTTCTTAAGAAAAAAAA

                                  
       4181 CCTTTTTTCTTAAGAAAAAAAA
          1 CCTTTTTTCTTAAGAAAAAAAA

       4203 AGTTTAAAGA


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  22   19  1.00

ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41


Consensus pattern (22 bp):   
CCTTTTTTCTTAAGAAAAAAAA

Found at i:4599 original size:29 final size:29

Alignment explanation


    Indices: 4557--4641  Score: 143
    Period size: 29  Copynumber: 2.9  Consensus size: 29

       4547 AGAATTTTTT

                                         
       4557 CTCTGTTGATCGTCGCCATGGGCTCTTTG
          1 CTCTGTTGATCGTCGCCATGGGCTCTTTG

                                         
       4586 CTCTGTTGATCGTCGCCATGGGCTCTTTG
          1 CTCTGTTGATCGTCGCCATGGGCTCTTTG

                  *     *              
       4615 CTCTGTGGATCGCCGCCATGGGGCTCT
          1 CTCTGTTGATCGTCGCCAT-GGGCTCT

       4642 CAGTTTCTAT


Statistics
Matches: 53,  Mismatches: 2, Indels: 1
        0.95            0.04        0.02

Matches are distributed among these distances:
  29   46  0.87
  30    7  0.13

ACGTcount: A:0.07, C:0.29, G:0.29, T:0.34


Consensus pattern (29 bp):   
CTCTGTTGATCGTCGCCATGGGCTCTTTG
Done.