Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001466.1 Corchorus capsularis cultivar CVL-1 contig01466, 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: 7448
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32


Found at i:397 original size:11 final size:11

Alignment explanation


    Indices: 359--391  Score: 50
    Period size: 11  Copynumber: 3.0  Consensus size: 11

        349 ATGTAAACTA

                        
        359 AATTATCAAA-T
          1 AATTAT-AAATT

                       
        370 AATTATAAATT
          1 AATTATAAATT

                       
        381 AATTATAAATT
          1 AATTATAAATT

        392 TGTTATGAAT


Statistics
Matches: 21,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  10    3  0.14
  11   18  0.86

ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42


Consensus pattern (11 bp):   
AATTATAAATT

Found at i:4948 original size:11 final size:11

Alignment explanation


    Indices: 4932--4961  Score: 51
    Period size: 11  Copynumber: 2.7  Consensus size: 11

       4922 GGTCTTCAAT

                     * 
       4932 TCTTCAAATTA
          1 TCTTCAAATAA

                       
       4943 TCTTCAAATAA
          1 TCTTCAAATAA

                    
       4954 TCTTCAAA
          1 TCTTCAAA

       4962 CACGAACTTC


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  11   18  1.00

ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40


Consensus pattern (11 bp):   
TCTTCAAATAA

Found at i:4948 original size:19 final size:18

Alignment explanation


    Indices: 4911--4949  Score: 51
    Period size: 19  Copynumber: 2.1  Consensus size: 18

       4901 TTCTTGAAAT

                        *     
       4911 AATTCTTCAATGGTCTTC
          1 AATTCTTCAATGATCTTC

                        *      
       4929 AATTCTTCAAATTATCTTC
          1 AATTCTTC-AATGATCTTC

              
       4948 AA
          1 AA

       4950 ATAATCTTCA


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  18    8  0.44
  19   10  0.56

ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44


Consensus pattern (18 bp):   
AATTCTTCAATGATCTTC
Done.