Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006887.1 Corchorus capsularis cultivar CVL-1 contig06908, 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: 21278
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32


Found at i:3706 original size:12 final size:12

Alignment explanation


    Indices: 3689--3716  Score: 56
    Period size: 12  Copynumber: 2.3  Consensus size: 12

       3679 ACGCGTGGGA

                        
       3689 CATCGCACGGGC
          1 CATCGCACGGGC

                        
       3701 CATCGCACGGGC
          1 CATCGCACGGGC

                
       3713 CATC
          1 CATC

       3717 CGGCCACAAC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   16  1.00

ACGTcount: A:0.18, C:0.43, G:0.29, T:0.11


Consensus pattern (12 bp):   
CATCGCACGGGC

Found at i:4930 original size:70 final size:70

Alignment explanation


    Indices: 4817--4978  Score: 315
    Period size: 70  Copynumber: 2.3  Consensus size: 70

       4807 TAGCACTCTG

                                                                             
       4817 ATATGAAAGAGGGAATGAAACCTACTCCATATATAAGTTAAGTAGAGAAGTAATGATGAATGTGT
          1 ATATGAAAGAGGGAATGAAACCTACTCCATATATAAGTTAAGTAGAGAAGTAATGATGAATGTGT

                 
       4882 AATGA
         66 AATGA

                                                                             
       4887 ATATGAAAGAGGGAATGAAACCTACTCCATATATAAGTTAAGTAGAGAAGTAATGATGAATGTGT
          1 ATATGAAAGAGGGAATGAAACCTACTCCATATATAAGTTAAGTAGAGAAGTAATGATGAATGTGT

            *    
       4952 CATGA
         66 AATGA

                                  
       4957 ATATGAAAGAGGGAATGAAACC
          1 ATATGAAAGAGGGAATGAAACC

       4979 CTTATATATG


Statistics
Matches: 91,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  70   91  1.00

ACGTcount: A:0.44, C:0.08, G:0.23, T:0.24


Consensus pattern (70 bp):   
ATATGAAAGAGGGAATGAAACCTACTCCATATATAAGTTAAGTAGAGAAGTAATGATGAATGTGT
AATGA

Found at i:7995 original size:22 final size:22

Alignment explanation


    Indices: 7960--8001  Score: 57
    Period size: 22  Copynumber: 1.9  Consensus size: 22

       7950 TCTCCTGTTT

                     *    *       
       7960 CGACCTTCATCAGGGTCGAGCG
          1 CGACCTTCAGCAGGATCGAGCG

                    *           
       7982 CGACCTTCCGCAGGATCGAG
          1 CGACCTTCAGCAGGATCGAG

       8002 ACAGGCTGCA


Statistics
Matches: 17,  Mismatches: 3, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  22   17  1.00

ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17


Consensus pattern (22 bp):   
CGACCTTCAGCAGGATCGAGCG
Done.