Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017601.1 Corchorus olitorius cultivar O-4 contig17634, 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: 3698
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33


Found at i:1725 original size:3 final size:3

Alignment explanation


    Indices: 1719--1754  Score: 56
    Period size: 3  Copynumber: 12.0  Consensus size: 3

       1709 TTAGGAGGAA

                                                            
       1719 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT

       1755 TTTGGAATAA


Statistics
Matches: 31,  Mismatches: 0, Indels: 4
        0.89            0.00        0.11

Matches are distributed among these distances:
   2    2  0.06
   3   26  0.84
   4    3  0.10

ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31


Consensus pattern (3 bp):   
AAT

Found at i:2431 original size:28 final size:28

Alignment explanation


    Indices: 2371--2423  Score: 81
    Period size: 28  Copynumber: 1.9  Consensus size: 28

       2361 CCTATCATGA

                               *   *    
       2371 AAAATTACCGTTTTGCCCTTTGTCGAAT
          1 AAAATTACCGTTTTGCCCTCTGTAGAAT

                                      
       2399 AAAATTACCGTTTTGCCC-CTGTAGA
          1 AAAATTACCGTTTTGCCCTCTGTAGA

       2424 CCTAAAATAA


Statistics
Matches: 23,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  27    5  0.22
  28   18  0.78

ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36


Consensus pattern (28 bp):   
AAAATTACCGTTTTGCCCTCTGTAGAAT
Done.