Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007566.1 Corchorus capsularis cultivar CVL-1 contig07587, 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: 2204
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34


Found at i:2109 original size:2 final size:2

Alignment explanation


    Indices: 2102--2160  Score: 88
    Period size: 2  Copynumber: 30.5  Consensus size: 2

       2092 TGTTTTCATT

                                                                          
       2102 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA -A TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                                         
       2142 TA TA TA TA -A TA TA TGA TA T
          1 TA TA TA TA TA TA TA T-A TA T

       2161 GATTCAAAAA


Statistics
Matches: 53,  Mismatches: 0, Indels: 8
        0.87            0.00        0.13

Matches are distributed among these distances:
   1    3  0.06
   2   48  0.91
   3    2  0.04

ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47


Consensus pattern (2 bp):   
TA

Found at i:2140 original size:26 final size:25

Alignment explanation


    Indices: 2102--2160  Score: 100
    Period size: 26  Copynumber: 2.3  Consensus size: 25

       2092 TGTTTTCATT

                                     
       2102 TATATATATATATATATATATAATA
          1 TATATATATATATATATATATAATA

                                      
       2127 TATATAATATATATATATATATAATA
          1 TATAT-ATATATATATATATATAATA

                    
       2153 TATGATAT
          1 TAT-ATAT

       2161 GATTCAAAAA


Statistics
Matches: 32,  Mismatches: 0, Indels: 3
        0.91            0.00        0.09

Matches are distributed among these distances:
  25    5  0.16
  26   25  0.78
  27    2  0.06

ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47


Consensus pattern (25 bp):   
TATATATATATATATATATATAATA
Done.