Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005659.1 Corchorus capsularis cultivar CVL-1 contig05677, 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: 5997
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38


Found at i:4818 original size:21 final size:20

Alignment explanation


    Indices: 4779--4818  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 20

       4769 CAATTTTCTC

                        * *     
       4779 ATTATAAGGTTATCGAGAAA
          1 ATTATAAGGTTACCAAGAAA

                                
       4799 ATTATAAAGGTTACCAAGAA
          1 ATTAT-AAGGTTACCAAGAA

       4819 CGTTATACTA


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  20    5  0.29
  21   12  0.71

ACGTcount: A:0.47, C:0.07, G:0.17, T:0.28


Consensus pattern (20 bp):   
ATTATAAGGTTACCAAGAAA

Found at i:4958 original size:20 final size:20

Alignment explanation


    Indices: 4929--4977  Score: 64
    Period size: 20  Copynumber: 2.4  Consensus size: 20

       4919 CTTCAAAAGG

                 *               
       4929 TATAAAATTATTAA-AAATGT
          1 TATAATATTATTAATAAAT-T

                                
       4949 TATAATATTATTAATAAATT
          1 TATAATATTATTAATAAATT

                     
       4969 TAGTAATAT
          1 TA-TAATAT

       4978 CTTACATTAC


Statistics
Matches: 26,  Mismatches: 1, Indels: 3
        0.87            0.03        0.10

Matches are distributed among these distances:
  20   16  0.62
  21   10  0.38

ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45


Consensus pattern (20 bp):   
TATAATATTATTAATAAATT
Done.