Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009808.1 Corchorus capsularis cultivar CVL-1 contig09829, 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: 6549
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31


Found at i:148 original size:29 final size:31

Alignment explanation


    Indices: 85--148  Score: 87
    Period size: 29  Copynumber: 2.1  Consensus size: 31

         75 GTTAGGGAGT

                  *                  *    *
         85 AAAATGTCCTGAATTTGGAAATTCATAGGGT
          1 AAAATGCCCTGAATTTGGAAATTCAGAGGGC

                                           
        116 AAAATGCCCTG-ATTT-GAAATTCAGAGGGC
          1 AAAATGCCCTGAATTTGGAAATTCAGAGGGC

                
        145 AAAA
          1 AAAA

        149 CGTTCTTAAC


Statistics
Matches: 30,  Mismatches: 3, Indels: 2
        0.86            0.09        0.06

Matches are distributed among these distances:
  29   16  0.53
  30    4  0.13
  31   10  0.33

ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27


Consensus pattern (31 bp):   
AAAATGCCCTGAATTTGGAAATTCAGAGGGC

Found at i:6485 original size:7 final size:7

Alignment explanation


    Indices: 6473--6497  Score: 50
    Period size: 7  Copynumber: 3.6  Consensus size: 7

       6463 AATGTTTCTT

                   
       6473 TTTTGTA
          1 TTTTGTA

                   
       6480 TTTTGTA
          1 TTTTGTA

                   
       6487 TTTTGTA
          1 TTTTGTA

                
       6494 TTTT
          1 TTTT

       6498 CAAACTTTGA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   18  1.00

ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76


Consensus pattern (7 bp):   
TTTTGTA
Done.