Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012756.1 Corchorus capsularis cultivar CVL-1 contig12777, 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: 9021
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30


Found at i:4808 original size:6 final size:6

Alignment explanation


    Indices: 4793--4836  Score: 81
    Period size: 6  Copynumber: 7.5  Consensus size: 6

       4783 AAAGCAAAGC

                                                                
       4793 AAAT-T AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAA
          1 AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAA

       4837 GCAGAATATA


Statistics
Matches: 38,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
   5    4  0.11
   6   34  0.89

ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32


Consensus pattern (6 bp):   
AAATCT

Found at i:4848 original size:18 final size:18

Alignment explanation


    Indices: 4793--4848  Score: 53
    Period size: 18  Copynumber: 3.2  Consensus size: 18

       4783 AAAGCAAAGC

                     *      * 
       4793 AAAT-TAAATCTAAATCT
          1 AAATCTAAAGCTAAATAT

                     *      * 
       4810 AAATCTAAATCTAAATCT
          1 AAATCTAAAGCTAAATAT

                               
       4828 AAATCTAAAGC-AGAATAT
          1 AAATCTAAAGCTA-AATAT

               
       4846 AAA
          1 AAA

       4849 GCAAACAATA


Statistics
Matches: 35,  Mismatches: 2, Indels: 3
        0.88            0.05        0.08

Matches are distributed among these distances:
  17    5  0.14
  18   30  0.86

ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29


Consensus pattern (18 bp):   
AAATCTAAAGCTAAATAT
Done.