Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002685.1 Corchorus capsularis cultivar CVL-1 contig02693, 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: 3299
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36


Found at i:1475 original size:56 final size:53

Alignment explanation


    Indices: 1403--1508  Score: 167
    Period size: 56  Copynumber: 1.9  Consensus size: 53

       1393 ACGTATAAAT

                *              *                                    
       1403 AAATGAATATAATAAATCATATATTAATTTGTAATTATAAATCATAAAAATAAAAA
          1 AAATAAATATAATAAATCACATATTAATTTGTAA-TAT-AA-CATAAAAATAAAAA

                                                              
       1459 AAATAAATATAATAAATCACATATTAATTTGTAATATAACATAAAAATAA
          1 AAATAAATATAATAAATCACATATTAATTTGTAATATAACATAAAAATAA

       1509 TATAATTTCG


Statistics
Matches: 48,  Mismatches: 2, Indels: 3
        0.91            0.04        0.06

Matches are distributed among these distances:
  53   11  0.23
  54    2  0.04
  55    3  0.06
  56   32  0.67

ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33


Consensus pattern (53 bp):   
AAATAAATATAATAAATCACATATTAATTTGTAATATAACATAAAAATAAAAA

Found at i:2323 original size:21 final size:21

Alignment explanation


    Indices: 2297--2337  Score: 57
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       2287 AGTCTTATCT

                                  
       2297 AAATTTA-CTAAAAAAGTTATA
          1 AAATTTATC-AAAAAAGTTATA

                       *        
       2318 AAATTTATCAAGAAAGTTAT
          1 AAATTTATCAAAAAAGTTAT

       2338 GATGCTTTCA


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

Matches are distributed among these distances:
  21   17  0.94
  22    1  0.06

ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34


Consensus pattern (21 bp):   
AAATTTATCAAAAAAGTTATA
Done.