Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020184.1 Corchorus olitorius cultivar O-4 contig20217, 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: 1690
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34


Found at i:1402 original size:21 final size:21

Alignment explanation


    Indices: 1378--1444  Score: 66
    Period size: 21  Copynumber: 3.2  Consensus size: 21

       1368 AATTCTCTGT

                                 
       1378 AAATTAAGAAATACTCAACTC
          1 AAATTAAGAAATACTCAACTC

                *         *   * *  
       1399 AAATCATAGAAA-ATTCTTAGT-
          1 AAATTA-AGAAATACTC-AACTC

                                 
       1420 AAATTAAGAAATACTCAACTC
          1 AAATTAAGAAATACTCAACTC

                
       1441 AAAT
          1 AAAT

       1445 CCTGACCCTT


Statistics
Matches: 34,  Mismatches: 8, Indels: 8
        0.68            0.16        0.16

Matches are distributed among these distances:
  20    7  0.21
  21   20  0.59
  22    7  0.21

ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27


Consensus pattern (21 bp):   
AAATTAAGAAATACTCAACTC

Found at i:1424 original size:42 final size:42

Alignment explanation


    Indices: 1365--1445  Score: 146
    Period size: 42  Copynumber: 1.9  Consensus size: 42

       1355 GCTAAGTCTT

                                                      
       1365 GAAAATTCTCTGTAAATTAAGAAATACTCAACTCAAATCATA
          1 GAAAATTCTCTGTAAATTAAGAAATACTCAACTCAAATCATA

                                                    
       1407 GAAAATTCT-TAGTAAATTAAGAAATACTCAACTCAAATC
          1 GAAAATTCTCT-GTAAATTAAGAAATACTCAACTCAAATC

       1446 CTGACCCTTA


Statistics
Matches: 38,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
  41    1  0.03
  42   37  0.97

ACGTcount: A:0.48, C:0.16, G:0.07, T:0.28


Consensus pattern (42 bp):   
GAAAATTCTCTGTAAATTAAGAAATACTCAACTCAAATCATA
Done.