Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005690.1 Corchorus capsularis cultivar CVL-1 contig05708, 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: 4266
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38


Found at i:2854 original size:35 final size:35

Alignment explanation


    Indices: 2799--2887  Score: 117
    Period size: 36  Copynumber: 2.5  Consensus size: 35

       2789 ATTTTAAACA

                     *                   *      
       2799 GTTTTAAGTGTTGTTTTTATGTTG-AAAAGAAAATG
          1 GTTTTAAGTATT-TTTTTATGTTGCAAAAAAAAATG

                                               *
       2834 GTTTTAAGTATTTTTCTTATGTTGCAAAAAAAAATT
          1 GTTTTAAGTATTTTT-TTATGTTGCAAAAAAAAATG

                       *      
       2870 GTTTTAAGTATCTTTTTA
          1 GTTTTAAGTATTTTTTTA

       2888 AGTAAGACAA


Statistics
Matches: 48,  Mismatches: 4, Indels: 4
        0.86            0.07        0.07

Matches are distributed among these distances:
  34    3  0.06
  35   22  0.46
  36   23  0.48

ACGTcount: A:0.31, C:0.03, G:0.16, T:0.49


Consensus pattern (35 bp):   
GTTTTAAGTATTTTTTTATGTTGCAAAAAAAAATG

Found at i:4165 original size:2 final size:2

Alignment explanation


    Indices: 4158--4193  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       4148 TATTAACTAG

                                                                 
       4158 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       4194 AAAGCCTAGA


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

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


Consensus pattern (2 bp):   
TA

Done.