Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010953.1 Corchorus capsularis cultivar CVL-1 contig10974, 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: 14900
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31


Found at i:2875 original size:13 final size:13

Alignment explanation


    Indices: 2858--2914  Score: 71
    Period size: 13  Copynumber: 4.4  Consensus size: 13

       2848 TTTTTGTAGT

                         
       2858 TTCTGAAATCA-A
          1 TTCTGAAATCAGA

                   **     
       2870 TTTCTGATTTCAGA
          1 -TTCTGAAATCAGA

                     *   
       2884 TTCTGAAATTAGA
          1 TTCTGAAATCAGA

                         
       2897 TTCTGAAATCAGA
          1 TTCTGAAATCAGA

                 
       2910 TTCTG
          1 TTCTG

       2915 TTTTCGGTTT


Statistics
Matches: 37,  Mismatches: 6, Indels: 2
        0.82            0.13        0.04

Matches are distributed among these distances:
  13   36  0.97
  14    1  0.03

ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40


Consensus pattern (13 bp):   
TTCTGAAATCAGA

Found at i:7989 original size:21 final size:20

Alignment explanation


    Indices: 7955--8001  Score: 58
    Period size: 21  Copynumber: 2.3  Consensus size: 20

       7945 TCTCTGATGA

                                
       7955 AGAAGAAAAAGAAGAAAGTG
          1 AGAAGAAAAAGAAGAAAGTG

                    *      *     
       7975 AGAACGAAGAAGAAGGAAGTG
          1 AGAA-GAAAAAGAAGAAAGTG

             *    
       7996 AAAAGA
          1 AGAAGA

       8002 GGGAGAAGAA


Statistics
Matches: 23,  Mismatches: 3, Indels: 2
        0.82            0.11        0.07

Matches are distributed among these distances:
  20    6  0.26
  21   17  0.74

ACGTcount: A:0.62, C:0.02, G:0.32, T:0.04


Consensus pattern (20 bp):   
AGAAGAAAAAGAAGAAAGTG
Done.