Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008758.1 Corchorus capsularis cultivar CVL-1 contig08779, 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: 9756
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33


Found at i:6661 original size:14 final size:13

Alignment explanation


    Indices: 6619--6677  Score: 57
    Period size: 14  Copynumber: 4.3  Consensus size: 13

       6609 TAAAAACTTA

                         
       6619 AAAACC-TTTTTG
          1 AAAACCTTTTTTG

                   *    * 
       6631 AAAACTCATTTTGG
          1 AAAAC-CTTTTTTG

                          
       6645 AAAACCTTTTCTTG
          1 AAAACCTTTT-TTG

                           
       6659 AAAACCATTTTTTTG
          1 AAAACC--TTTTTTG

                
       6674 AAAA
          1 AAAA

       6678 ACGTCTCTTG


Statistics
Matches: 39,  Mismatches: 3, Indels: 7
        0.80            0.06        0.14

Matches are distributed among these distances:
  12    5  0.13
  13    5  0.13
  14   18  0.46
  15    7  0.18
  16    4  0.10

ACGTcount: A:0.37, C:0.15, G:0.08, T:0.39


Consensus pattern (13 bp):   
AAAACCTTTTTTG

Found at i:6674 original size:15 final size:15

Alignment explanation


    Indices: 6625--6677  Score: 58
    Period size: 14  Copynumber: 3.7  Consensus size: 15

       6615 CTTAAAAACC

                            
       6625 TTTTTGAAAACTCA--
          1 TTTTTGAAAAC-CATT

                *          
       6639 TTTTGGAAAACC-TT
          1 TTTTTGAAAACCATT

              *            
       6653 TTCTTGAAAACCATT
          1 TTTTTGAAAACCATT

                      
       6668 TTTTTGAAAA
          1 TTTTTGAAAA

       6678 ACGTCTCTTG


Statistics
Matches: 32,  Mismatches: 4, Indels: 5
        0.78            0.10        0.12

Matches are distributed among these distances:
  13    1  0.03
  14   20  0.62
  15   11  0.34

ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43


Consensus pattern (15 bp):   
TTTTTGAAAACCATT
Done.