Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011365.1 Corchorus capsularis cultivar CVL-1 contig11386, 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: 7256
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35


Found at i:3148 original size:21 final size:21

Alignment explanation


    Indices: 3124--3173  Score: 82
    Period size: 21  Copynumber: 2.4  Consensus size: 21

       3114 CAGCAGCTTC

                        *  *     
       3124 TTCTTCTTCCTCTTTTTCACT
          1 TTCTTCTTCCTCGTTCTCACT

                                 
       3145 TTCTTCTTCCTCGTTCTCACT
          1 TTCTTCTTCCTCGTTCTCACT

                    
       3166 TTCTTCTT
          1 TTCTTCTT

       3174 TTTCTTCTTC


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  21   27  1.00

ACGTcount: A:0.04, C:0.34, G:0.02, T:0.60


Consensus pattern (21 bp):   
TTCTTCTTCCTCGTTCTCACT

Found at i:4204 original size:22 final size:24

Alignment explanation


    Indices: 4148--4207  Score: 72
    Period size: 23  Copynumber: 2.6  Consensus size: 24

       4138 CATATCAGCT

                       *  **        
       4148 ACATGACCCGGGCATGCCGATCGC
          1 ACATGACCCGGCCACACCGATCGC

                                    
       4172 ACATG-CCCGGCCACACCGA-C-C
          1 ACATGACCCGGCCACACCGATCGC

                           
       4193 ACATGACCCGGCCAC
          1 ACATGACCCGGCCAC

       4208 GCCCATGCAC


Statistics
Matches: 32,  Mismatches: 3, Indels: 4
        0.82            0.08        0.10

Matches are distributed among these distances:
  21    6  0.19
  22   10  0.31
  23   11  0.34
  24    5  0.16

ACGTcount: A:0.23, C:0.45, G:0.23, T:0.08


Consensus pattern (24 bp):   
ACATGACCCGGCCACACCGATCGC

Found at i:7026 original size:22 final size:24

Alignment explanation


    Indices: 6970--7029  Score: 72
    Period size: 23  Copynumber: 2.6  Consensus size: 24

       6960 CATATCAGCT

                       *  **        
       6970 ACATGACCCGGGCATGCCGATCGC
          1 ACATGACCCGGCCACACCGATCGC

                                    
       6994 ACATG-CCCGGCCACACCGA-C-C
          1 ACATGACCCGGCCACACCGATCGC

                           
       7015 ACATGACCCGGCCAC
          1 ACATGACCCGGCCAC

       7030 GCCCATGCAT


Statistics
Matches: 32,  Mismatches: 3, Indels: 4
        0.82            0.08        0.10

Matches are distributed among these distances:
  21    6  0.19
  22   10  0.31
  23   11  0.34
  24    5  0.16

ACGTcount: A:0.23, C:0.45, G:0.23, T:0.08


Consensus pattern (24 bp):   
ACATGACCCGGCCACACCGATCGC
Done.