Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001287.1 Corchorus olitorius cultivar O-4 contig01287, 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, 748

Length: 1247
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29


Found at i:264 original size:6 final size:6

Alignment explanation


    Indices: 255--298  Score: 52
    Period size: 6  Copynumber: 7.3  Consensus size: 6

        245 ACTACTGCTG

                        *          *      *      *             
        255 CTCCCA CTCCCG CTCCCA CTACCA CTACCA CTACCA CTCCCA CT
          1 CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CT

        299 GCTATCACTT


Statistics
Matches: 34,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
   6   34  1.00

ACGTcount: A:0.20, C:0.59, G:0.02, T:0.18


Consensus pattern (6 bp):   
CTCCCA

Found at i:271 original size:12 final size:12

Alignment explanation


    Indices: 255--298  Score: 61
    Period size: 12  Copynumber: 3.7  Consensus size: 12

        245 ACTACTGCTG

                    *  *
        255 CTCCCACTCCCG
          1 CTCCCACTACCA

                        
        267 CTCCCACTACCA
          1 CTCCCACTACCA

              *         
        279 CTACCACTACCA
          1 CTCCCACTACCA

                    
        291 CTCCCACT
          1 CTCCCACT

        299 GCTATCACTT


Statistics
Matches: 28,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  12   28  1.00

ACGTcount: A:0.20, C:0.59, G:0.02, T:0.18


Consensus pattern (12 bp):   
CTCCCACTACCA

Found at i:312 original size:21 final size:21

Alignment explanation


    Indices: 283--322  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        273 CTACCACTAC

                                 
        283 CACTACCACTCCCACTGCTAT
          1 CACTACCACTCCCACTGCTAT

                *     * *      
        304 CACTTCCACTGCTACTGCT
          1 CACTACCACTCCCACTGCT

        323 TGAACTTGAA


Statistics
Matches: 16,  Mismatches: 3, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   16  1.00

ACGTcount: A:0.20, C:0.45, G:0.07, T:0.28


Consensus pattern (21 bp):   
CACTACCACTCCCACTGCTAT
Done.