Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011007.1 Corchorus capsularis cultivar CVL-1 contig11028, 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: 2273
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39


Found at i:1409 original size:18 final size:18

Alignment explanation


    Indices: 1386--1422  Score: 74
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       1376 AAAAATTCCG

                              
       1386 TGTATTAGTTATTGAATT
          1 TGTATTAGTTATTGAATT

                              
       1404 TGTATTAGTTATTGAATT
          1 TGTATTAGTTATTGAATT

             
       1422 T
          1 T

       1423 TGACATTATT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57


Consensus pattern (18 bp):   
TGTATTAGTTATTGAATT

Found at i:1575 original size:18 final size:18

Alignment explanation


    Indices: 1529--1577  Score: 53
    Period size: 19  Copynumber: 2.6  Consensus size: 18

       1519 GTTAATTGAA

                *        *     
       1529 TTGGTATTAGTTATTCAAT
          1 TTGGAATTA-TTAATCAAT

              *                
       1548 TTTGACATTATTAATCAAT
          1 TTGGA-ATTATTAATCAAT

                       
       1567 TTGGAATTATT
          1 TTGGAATTATT

       1578 GATTTCTTAA


Statistics
Matches: 25,  Mismatches: 4, Indels: 3
        0.78            0.12        0.09

Matches are distributed among these distances:
  18    6  0.24
  19   15  0.60
  20    4  0.16

ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51


Consensus pattern (18 bp):   
TTGGAATTATTAATCAAT
Done.