Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004926.1 Corchorus capsularis cultivar CVL-1 contig04944, 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: 8876
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31


Found at i:2033 original size:16 final size:18

Alignment explanation


    Indices: 2012--2046  Score: 56
    Period size: 16  Copynumber: 2.1  Consensus size: 18

       2002 GATACGTTTA

                              
       2012 TTATTATTA-T-TCTTAT
          1 TTATTATTACTGTCTTAT

                              
       2028 TTATTATTACTGTCTTAT
          1 TTATTATTACTGTCTTAT

             
       2046 T
          1 T

       2047 AAACATGAAT


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  16    9  0.53
  17    1  0.06
  18    7  0.41

ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66


Consensus pattern (18 bp):   
TTATTATTACTGTCTTAT

Found at i:6088 original size:23 final size:22

Alignment explanation


    Indices: 6062--6112  Score: 57
    Period size: 22  Copynumber: 2.3  Consensus size: 22

       6052 AATGCTGTGA

                               *   
       6062 TAAAACCTTTTTATTTTTGTTTT
          1 TAAAACC-TTTTATTTTTGCTTT

                **                
       6085 TAAAGTCTTTTATTTTTGCTTT
          1 TAAAACCTTTTATTTTTGCTTT

            *     
       6107 GAAAAC
          1 TAAAAC

       6113 TTCCATTTTA


Statistics
Matches: 22,  Mismatches: 6, Indels: 1
        0.76            0.21        0.03

Matches are distributed among these distances:
  22   17  0.77
  23    5  0.23

ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57


Consensus pattern (22 bp):   
TAAAACCTTTTATTTTTGCTTT
Done.