Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006166.1 Corchorus capsularis cultivar CVL-1 contig06184, 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: 13280
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30


Found at i:2384 original size:19 final size:18

Alignment explanation


    Indices: 2347--2386  Score: 53
    Period size: 19  Copynumber: 2.2  Consensus size: 18

       2337 TTCTTGAAAT

                        *     
       2347 AATTCTTCAATGGTCTTC
          1 AATTCTTCAATGATCTTC

                        *      
       2365 AATTCTTCAAATTATCTTC
          1 AATTCTTC-AATGATCTTC

               
       2384 AAT
          1 AAT

       2387 AAATCTTCAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  18    8  0.42
  19   11  0.58

ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45


Consensus pattern (18 bp):   
AATTCTTCAATGATCTTC

Found at i:9943 original size:21 final size:21

Alignment explanation


    Indices: 9918--9966  Score: 71
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       9908 GCGCTGGGTG

                          * *   *
       9918 CCCATGTGGTTTGCTTGGCGC
          1 CCCATGTGGTTTGCCTCGCGA

                                 
       9939 CCCATGTGGTTTGCCTCGCGA
          1 CCCATGTGGTTTGCCTCGCGA

                   
       9960 CCCATGT
          1 CCCATGT

       9967 ACTCGAGTGC


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   25  1.00

ACGTcount: A:0.08, C:0.33, G:0.29, T:0.31


Consensus pattern (21 bp):   
CCCATGTGGTTTGCCTCGCGA
Done.