Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022685.1 Corchorus olitorius cultivar O-4 contig22718, 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: 6108
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32


Found at i:2330 original size:28 final size:28

Alignment explanation


    Indices: 2298--2360  Score: 126
    Period size: 28  Copynumber: 2.2  Consensus size: 28

       2288 CGGATAACCG

                                        
       2298 GGCAGGCGGCGCGGATGGCGCGGAAGAA
          1 GGCAGGCGGCGCGGATGGCGCGGAAGAA

                                        
       2326 GGCAGGCGGCGCGGATGGCGCGGAAGAA
          1 GGCAGGCGGCGCGGATGGCGCGGAAGAA

                   
       2354 GGCAGGC
          1 GGCAGGC

       2361 TCGACCGGGC


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  28   35  1.00

ACGTcount: A:0.21, C:0.22, G:0.54, T:0.03


Consensus pattern (28 bp):   
GGCAGGCGGCGCGGATGGCGCGGAAGAA

Found at i:5545 original size:15 final size:16

Alignment explanation


    Indices: 5525--5562  Score: 60
    Period size: 15  Copynumber: 2.4  Consensus size: 16

       5515 TGATTGACAG

                            
       5525 AAAACAATTAAAC-AA
          1 AAAACAATTAAACTAA

                           *
       5540 AAAACAATTAAACTAG
          1 AAAACAATTAAACTAA

                   
       5556 AAAACAA
          1 AAAACAA

       5563 AGCAGAGTAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  15   13  0.62
  16    8  0.38

ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13


Consensus pattern (16 bp):   
AAAACAATTAAACTAA
Done.