Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012940.1 Corchorus capsularis cultivar CVL-1 contig12961, 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: 6570
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:294 original size:13 final size:13

Alignment explanation


    Indices: 276--302  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

        266 GCGCGGACAA

                         
        276 CACCCATGCCATG
          1 CACCCATGCCATG

                         
        289 CACCCATGCCATG
          1 CACCCATGCCATG

             
        302 C
          1 C

        303 CGATGTCACC


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.22, C:0.48, G:0.15, T:0.15


Consensus pattern (13 bp):   
CACCCATGCCATG

Found at i:3825 original size:21 final size:21

Alignment explanation


    Indices: 3799--3851  Score: 72
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       3789 GCACTGGAGT

                   *   * *       
       3799 ACATGGGTCGCGAGGCAAACC
          1 ACATGGGGCGCCAAGCAAACC

                                 
       3820 ACATGGGGCGCCAAGCAAACC
          1 ACATGGGGCGCCAAGCAAACC

                        
       3841 ACAT-GGGCGCC
          1 ACATGGGGCGCC

       3852 CAGCGCTAGT


Statistics
Matches: 29,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
  20    7  0.24
  21   22  0.76

ACGTcount: A:0.28, C:0.32, G:0.32, T:0.08


Consensus pattern (21 bp):   
ACATGGGGCGCCAAGCAAACC

Found at i:5379 original size:20 final size:20

Alignment explanation


    Indices: 5328--5372  Score: 90
    Period size: 20  Copynumber: 2.2  Consensus size: 20

       5318 ACTTGCCCTA

                                
       5328 GTTAAGTAGTTTATCTATTT
          1 GTTAAGTAGTTTATCTATTT

                                
       5348 GTTAAGTAGTTTATCTATTT
          1 GTTAAGTAGTTTATCTATTT

                 
       5368 GTTAA
          1 GTTAA

       5373 TTGGTTTGTG


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   25  1.00

ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53


Consensus pattern (20 bp):   
GTTAAGTAGTTTATCTATTT
Done.