Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019567.1 Corchorus olitorius cultivar O-4 contig19600, 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: 9605
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31


Found at i:2935 original size:23 final size:23

Alignment explanation


    Indices: 2905--2951  Score: 85
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       2895 AACAACTACA

                     *             
       2905 AAAAATATAGCCCTAATAAGGAG
          1 AAAAATATAACCCTAATAAGGAG

                                   
       2928 AAAAATATAACCCTAATAAGGAG
          1 AAAAATATAACCCTAATAAGGAG

             
       2951 A
          1 A

       2952 TGACTGCAGC


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  23   23  1.00

ACGTcount: A:0.55, C:0.13, G:0.15, T:0.17


Consensus pattern (23 bp):   
AAAAATATAACCCTAATAAGGAG

Found at i:3219 original size:13 final size:13

Alignment explanation


    Indices: 3201--3226  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       3191 ATTGCAAGAG

                         
       3201 ATTTTTATTTTTT
          1 ATTTTTATTTTTT

                         
       3214 ATTTTTATTTTTT
          1 ATTTTTATTTTTT

       3227 TGGTGAAAGT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85


Consensus pattern (13 bp):   
ATTTTTATTTTTT

Found at i:8457 original size:24 final size:24

Alignment explanation


    Indices: 8425--8496  Score: 135
    Period size: 24  Copynumber: 3.0  Consensus size: 24

       8415 GCATTGGTCT

                                    
       8425 AATCTCACGACCACTATGTGGCCG
          1 AATCTCACGACCACTATGTGGCCG

                                    
       8449 AATCTCACGACCACTATGTGGCCG
          1 AATCTCACGACCACTATGTGGCCG

                   *                
       8473 AATCTCATGACCACTATGTGGCCG
          1 AATCTCACGACCACTATGTGGCCG

       8497 TGTGATTTTC


Statistics
Matches: 47,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  24   47  1.00

ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22


Consensus pattern (24 bp):   
AATCTCACGACCACTATGTGGCCG
Done.