Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014648.1 Corchorus olitorius cultivar O-4 contig14681, 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: 9872
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:2985 original size:2 final size:2

Alignment explanation


    Indices: 2980--3009  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

       2970 GAACTGCAGC

                                                        
       2980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       3010 TATTACTTTC


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:8522 original size:21 final size:22

Alignment explanation


    Indices: 8473--8520  Score: 64
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       8463 AAAAAAATAA

                                   
       8473 AAAAATCA-AAAATGTATTTTTT
          1 AAAAAT-ATAAAATGTATTTTTT

                                   
       8495 AAAAATATAAAAT-TATTTATTT
          1 AAAAATATAAAATGTATTT-TTT

                
       8517 AAAA
          1 AAAA

       8521 TAAAGAATTT


Statistics
Matches: 24,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  21    6  0.25
  22   18  0.75

ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40


Consensus pattern (22 bp):   
AAAAATATAAAATGTATTTTTT

Found at i:8529 original size:21 final size:20

Alignment explanation


    Indices: 8473--8534  Score: 65
    Period size: 21  Copynumber: 3.0  Consensus size: 20

       8463 AAAAAAATAA

                                  
       8473 AAAAATCAAAAATGTATTTTTT
          1 AAAAAT-AAAAAT-TATTTTTT

                                  
       8495 AAAAATATAAAATTATTTATTT
          1 AAAAATA-AAAATTATTT-TTT

                                
       8517 -AAAATAAAGAATT-TTTTT
          1 AAAAATAAA-AATTATTTTT

       8535 CTTACGAACA


Statistics
Matches: 37,  Mismatches: 0, Indels: 9
        0.80            0.00        0.20

Matches are distributed among these distances:
  19    2  0.05
  20    5  0.14
  21   16  0.43
  22   14  0.38

ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44


Consensus pattern (20 bp):   
AAAAATAAAAATTATTTTTT
Done.