Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022423.1 Corchorus olitorius cultivar O-4 contig22456, 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: 19384
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


Found at i:3086 original size:16 final size:16

Alignment explanation


    Indices: 3065--3098  Score: 68
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       3055 CTATTTGACA

                            
       3065 ACTCAAAAACTATTGT
          1 ACTCAAAAACTATTGT

                            
       3081 ACTCAAAAACTATTGT
          1 ACTCAAAAACTATTGT

              
       3097 AC
          1 AC

       3099 ATACAATTAA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29


Consensus pattern (16 bp):   
ACTCAAAAACTATTGT

Found at i:4477 original size:24 final size:24

Alignment explanation


    Indices: 4450--4516  Score: 134
    Period size: 24  Copynumber: 2.8  Consensus size: 24

       4440 TCAAGATATC

                                    
       4450 GAGTCTAACAATAACATATTTATA
          1 GAGTCTAACAATAACATATTTATA

                                    
       4474 GAGTCTAACAATAACATATTTATA
          1 GAGTCTAACAATAACATATTTATA

                               
       4498 GAGTCTAACAATAACATAT
          1 GAGTCTAACAATAACATAT

       4517 CTCCATTCCA


Statistics
Matches: 43,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   43  1.00

ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31


Consensus pattern (24 bp):   
GAGTCTAACAATAACATATTTATA

Found at i:19355 original size:2 final size:2

Alignment explanation


    Indices: 19348--19382  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

      19338 TAATATAGTG

                                                                
      19348 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

      19383 GT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   33  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Done.