Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003373.1 Corchorus capsularis cultivar CVL-1 contig03381, 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, 674

Length: 1124
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37


Found at i:88 original size:40 final size:41

Alignment explanation


    Indices: 44--141  Score: 137
    Period size: 40  Copynumber: 2.4  Consensus size: 41

         34 TTTTTATTCT

                                           *         
         44 TTACCGATTTACTGATCACTTCTTTTACTTTTACTC-TTAA
          1 TTACCGATTTACTGATCACTTCTTTTACTTTGACTCTTTAA

                             *                        
         84 TTACC-ATTTTACTGATTACTTCTTTTACTTTGACTCTTTAA
          1 TTACCGA-TTTACTGATCACTTCTTTTACTTTGACTCTTTAA

                *            
        125 TTACTGATTTCACTGAT
          1 TTACCGATTT-ACTGAT

        142 AAATCTCTTA


Statistics
Matches: 51,  Mismatches: 3, Indels: 6
        0.85            0.05        0.10

Matches are distributed among these distances:
  39    1  0.02
  40   32  0.63
  41   11  0.22
  42    7  0.14

ACGTcount: A:0.22, C:0.20, G:0.06, T:0.51


Consensus pattern (41 bp):   
TTACCGATTTACTGATCACTTCTTTTACTTTGACTCTTTAA

Found at i:1010 original size:2 final size:2

Alignment explanation


    Indices: 1003--1032  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

        993 ATTTTGCTTA

                                                        
       1003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       1033 CTAGAGTTCA


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.