Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013068.1 Corchorus olitorius cultivar O-4 contig13101, 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: 6776
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:6641 original size:44 final size:44

Alignment explanation


    Indices: 6578--6661  Score: 114
    Period size: 44  Copynumber: 1.9  Consensus size: 44

       6568 GTGTCCCAAG

                                 *       * *            
       6578 CTATAACCAAACTATGAAATTGTGAAAACTTTCCTATGAATTTC
          1 CTATAACCAAACTATGAAATTCTGAAAACCTACCTATGAATTTC

                  *  *               *              
       6622 CTATAATCACACTATGAAATTCTGATAACCTACCTATGAA
          1 CTATAACCAAACTATGAAATTCTGAAAACCTACCTATGAA

       6662 ATTTTGATAG


Statistics
Matches: 34,  Mismatches: 6, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  44   34  1.00

ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32


Consensus pattern (44 bp):   
CTATAACCAAACTATGAAATTCTGAAAACCTACCTATGAATTTC

Found at i:6649 original size:22 final size:22

Alignment explanation


    Indices: 6580--6693  Score: 70
    Period size: 22  Copynumber: 5.2  Consensus size: 22

       6570 GTCCCAAGCT

                  * *          *  
       6580 ATAACCAAACTATGAAATTGTG
          1 ATAACCTACCTATGAAATTCTG

             *   * *        *      
       6602 AAAACTTTCCTATGAATTTCCT-
          1 ATAACCTACCTATGAAATT-CTG

                *                  
       6624 ATAATC-ACACTATGAAATTCTG
          1 ATAACCTAC-CTATGAAATTCTG

                               *  
       6646 ATAACCTACCTATGAAATTTTG
          1 ATAACCTACCTATGAAATTCTG

               *   * *    *    *  
       6668 ATAGCCTTCTTATGGAATTTTG
          1 ATAACCTACCTATGAAATTCTG

                
       6690 ATAA
          1 ATAA

       6694 TGAAACTATG


Statistics
Matches: 69,  Mismatches: 19, Indels: 8
        0.72            0.20        0.08

Matches are distributed among these distances:
  21    3  0.04
  22   63  0.91
  23    3  0.04

ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36


Consensus pattern (22 bp):   
ATAACCTACCTATGAAATTCTG
Done.