Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005887.1 Corchorus olitorius cultivar O-4 contig05912, 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: 9975
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34


Found at i:2026 original size:13 final size:13

Alignment explanation


    Indices: 2008--2033  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       1998 ATGAAAGAAA

                         
       2008 CTGACACAGTTTG
          1 CTGACACAGTTTG

                         
       2021 CTGACACAGTTTG
          1 CTGACACAGTTTG

       2034 GTAAACAGCT


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:0.23, C:0.23, G:0.23, T:0.31


Consensus pattern (13 bp):   
CTGACACAGTTTG

Found at i:5788 original size:20 final size:21

Alignment explanation


    Indices: 5747--5788  Score: 68
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       5737 TCATTATGTG

                      *          
       5747 TGCTGAAATGTATGTGAGAAT
          1 TGCTGAAATGGATGTGAGAAT

                                 
       5768 TGCTGAAATGGATGT-AGAAT
          1 TGCTGAAATGGATGTGAGAAT

             
       5788 T
          1 T

       5789 TGTAGAGGAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  20    6  0.30
  21   14  0.70

ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33


Consensus pattern (21 bp):   
TGCTGAAATGGATGTGAGAAT
Done.