Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016271.1 Corchorus olitorius cultivar O-4 contig16304, 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: 7310
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36


Found at i:1273 original size:13 final size:13

Alignment explanation


    Indices: 1255--1280  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       1245 AAAGTAATAA

                         
       1255 TACTATTATTAAT
          1 TACTATTATTAAT

                         
       1268 TACTATTATTAAT
          1 TACTATTATTAAT

       1281 ACCATTTCAA


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:0.38, C:0.08, G:0.00, T:0.54


Consensus pattern (13 bp):   
TACTATTATTAAT

Found at i:3554 original size:2 final size:2

Alignment explanation


    Indices: 3547--3575  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

       3537 CATGAGAATA

                                                       
       3547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       3576 CACACTCAAA


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:4927 original size:33 final size:33

Alignment explanation


    Indices: 4847--4932  Score: 127
    Period size: 36  Copynumber: 2.5  Consensus size: 33

       4837 TAGTTGTGTA

                       *     *               
       4847 CATCTTTATTTCAGAAAGTCTAAAGCCTAAACT
          1 CATCTTTATTTTAGAAACTCTAAAGCCTAAACT

                                                
       4880 CATCATCTTAATTTTAGAAACTCTAAAGCCTAAACT
          1 CATC-T-TT-ATTTTAGAAACTCTAAAGCCTAAACT

                             
       4916 CATCTTTATTTTAGAAA
          1 CATCTTTATTTTAGAAA

       4933 GAAGGTAGAT


Statistics
Matches: 48,  Mismatches: 2, Indels: 6
        0.86            0.04        0.11

Matches are distributed among these distances:
  33   14  0.29
  34    3  0.06
  35    3  0.06
  36   28  0.58

ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36


Consensus pattern (33 bp):   
CATCTTTATTTTAGAAACTCTAAAGCCTAAACT
Done.