Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020303.1 Corchorus olitorius cultivar O-4 contig20336, 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: 5986
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32


Found at i:4209 original size:7 final size:6

Alignment explanation


    Indices: 4188--4224  Score: 65
    Period size: 6  Copynumber: 6.0  Consensus size: 6

       4178 ATAGAGTAAT

                                                      
       4188 AAAAGA AAAAGA AAAAGA AAAAGAA AAAAGA AAAAGA
          1 AAAAGA AAAAGA AAAAGA AAAAG-A AAAAGA AAAAGA

       4225 TTAGCATTAA


Statistics
Matches: 30,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   6   24  0.80
   7    6  0.20

ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00


Consensus pattern (6 bp):   
AAAAGA

Found at i:4215 original size:13 final size:13

Alignment explanation


    Indices: 4188--4224  Score: 67
    Period size: 13  Copynumber: 2.9  Consensus size: 13

       4178 ATAGAGTAAT

                         
       4188 AAAAGAAAAAG-A
          1 AAAAGAAAAAGAA

                         
       4200 AAAAGAAAAAGAA
          1 AAAAGAAAAAGAA

                        
       4213 AAAAGAAAAAGA
          1 AAAAGAAAAAGA

       4225 TTAGCATTAA


Statistics
Matches: 24,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  12   11  0.46
  13   13  0.54

ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00


Consensus pattern (13 bp):   
AAAAGAAAAAGAA
Done.