Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022236.1 Corchorus olitorius cultivar O-4 contig22269, 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: 4405
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30


Found at i:489 original size:2 final size:2

Alignment explanation


    Indices: 482--516  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

        472 TAGTAGTAAG

                                                                
        482 AT AT AT 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 AT AT AT A

        517 AAATCCGATT


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


Consensus pattern (2 bp):   
AT

Found at i:4339 original size:2 final size:2

Alignment explanation


    Indices: 4332--4358  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       4322 CAAAACTTAA

                                                    
       4332 AC AC AC AC AC AC AC AC AC AC AC AC AC A
          1 AC AC AC AC AC AC AC AC AC AC AC AC AC A

       4359 TATATATATA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

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


Consensus pattern (2 bp):   
AC

Found at i:4363 original size:2 final size:2

Alignment explanation


    Indices: 4358--4396  Score: 62
    Period size: 2  Copynumber: 19.5  Consensus size: 2

       4348 ACACACACAC

                                                                       
       4358 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT ACT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A

       4397 AGTCTAAAC


Statistics
Matches: 35,  Mismatches: 0, Indels: 4
        0.90            0.00        0.10

Matches are distributed among these distances:
   1    1  0.03
   2   32  0.91
   3    2  0.06

ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46


Consensus pattern (2 bp):   
AT

Done.