Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009927.1 Corchorus capsularis cultivar CVL-1 contig09948, 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: 32451
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:771 original size:10 final size:10

Alignment explanation


    Indices: 756--782  Score: 54
    Period size: 10  Copynumber: 2.7  Consensus size: 10

        746 TTGAAACGTT

                      
        756 AAGCCCATTG
          1 AAGCCCATTG

                      
        766 AAGCCCATTG
          1 AAGCCCATTG

                   
        776 AAGCCCA
          1 AAGCCCA

        783 ACTCAGAGAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   17  1.00

ACGTcount: A:0.33, C:0.33, G:0.19, T:0.15


Consensus pattern (10 bp):   
AAGCCCATTG

Found at i:4568 original size:53 final size:53

Alignment explanation


    Indices: 4488--4594  Score: 178
    Period size: 53  Copynumber: 2.0  Consensus size: 53

       4478 TTTCTTTTTA

                        * *                 *                    
       4488 GTTTTTAACAATTTTTATGTGATGATTTTCATTTCAGGGTAGAGGAATTAAGG
          1 GTTTTTAACAATGTGTATGTGATGATTTTCATGTCAGGGTAGAGGAATTAAGG

                                         *                       
       4541 GTTTTTAACAATGTGTATGTGATGATTTTTATGTCAGGGTAGAGGAATTAAGG
          1 GTTTTTAACAATGTGTATGTGATGATTTTCATGTCAGGGTAGAGGAATTAAGG

             
       4594 G
          1 G

       4595 ATTCAACTGC


Statistics
Matches: 50,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  53   50  1.00

ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41


Consensus pattern (53 bp):   
GTTTTTAACAATGTGTATGTGATGATTTTCATGTCAGGGTAGAGGAATTAAGG

Found at i:11945 original size:6 final size:6

Alignment explanation


    Indices: 11932--11967  Score: 65
    Period size: 6  Copynumber: 6.2  Consensus size: 6

      11922 TCATTTAGCG

                                                       
      11932 GTGA-A GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA G
          1 GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA G

      11968 GAGGCCCCAA


Statistics
Matches: 30,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
   5    4  0.13
   6   26  0.87

ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17


Consensus pattern (6 bp):   
GTGAGA

Done.