Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013897.1 Corchorus capsularis cultivar CVL-1 contig13918, 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: 4001
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36


Found at i:749 original size:18 final size:18

Alignment explanation


    Indices: 722--760  Score: 62
    Period size: 18  Copynumber: 2.2  Consensus size: 18

        712 TTGCATCCAT

                              
        722 GGTGGGTCGGTTAA-ACG
          1 GGTGGGTCGGTTAAGACG

                               
        739 GGTGCGGTCGGTTAAGACG
          1 GGTG-GGTCGGTTAAGACG

               
        758 GGT
          1 GGT

        761 CTAACCGAAA


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  17    4  0.20
  18   10  0.50
  19    6  0.30

ACGTcount: A:0.15, C:0.13, G:0.49, T:0.23


Consensus pattern (18 bp):   
GGTGGGTCGGTTAAGACG

Found at i:889 original size:23 final size:24

Alignment explanation


    Indices: 843--890  Score: 62
    Period size: 23  Copynumber: 2.0  Consensus size: 24

        833 CGACCGACTA

                          *  *      
        843 ATTATATAATATAATTTTAAAAAT
          1 ATTATATAATATAAATTCAAAAAT

                               *    
        867 ATTATAT-ATATAAATTCAGAAAT
          1 ATTATATAATATAAATTCAAAAAT

             
        890 A
          1 A

        891 ATAATATTTT


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  23   14  0.67
  24    7  0.33

ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42


Consensus pattern (24 bp):   
ATTATATAATATAAATTCAAAAAT
Done.