Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016101.1 Corchorus capsularis cultivar CVL-1 contig16122, 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: 7474
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33


Found at i:2990 original size:22 final size:21

Alignment explanation


    Indices: 2948--2992  Score: 63
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       2938 GTATAGGGTA

                         *       
       2948 TTGCTAAACACCATCCCTTTT
          1 TTGCTAAACACCACCCCTTTT

                         *        
       2969 TTGCTAAACACCGCCCCCTTTT
          1 TTGCTAAACACC-ACCCCTTTT

              
       2991 TT
          1 TT

       2993 TTACACGTTT


Statistics
Matches: 21,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  21   12  0.57
  22    9  0.43

ACGTcount: A:0.20, C:0.36, G:0.07, T:0.38


Consensus pattern (21 bp):   
TTGCTAAACACCACCCCTTTT

Found at i:3331 original size:33 final size:33

Alignment explanation


    Indices: 3249--3377  Score: 134
    Period size: 33  Copynumber: 3.9  Consensus size: 33

       3239 CGTCCTACTA

                             **              *
       3249 GGGCGGCA-TCAGCCATAACATGCCGCCCTCCTA
          1 GGGCGGCACT-AGCCATGGCATGCCGCCCTCCTG

             **   * *  *            *        
       3282 GAACGGTATTATCCATGGCATGCCACCCTCCTG
          1 GGGCGGCACTAGCCATGGCATGCCGCCCTCCTG

                   *  *              *       
       3315 GGGCGGCCCTTGCCATGGCATGCCGTCCTCCTG
          1 GGGCGGCACTAGCCATGGCATGCCGCCCTCCTG

                                          
       3348 GGGCGGCACTAGCCATGGCATGCCGCCCTC
          1 GGGCGGCACTAGCCATGGCATGCCGCCCTC

       3378 ATTTTTTTCA


Statistics
Matches: 75,  Mismatches: 20, Indels: 2
        0.77            0.21        0.02

Matches are distributed among these distances:
  33   74  0.99
  34    1  0.01

ACGTcount: A:0.16, C:0.38, G:0.28, T:0.19


Consensus pattern (33 bp):   
GGGCGGCACTAGCCATGGCATGCCGCCCTCCTG
Done.