Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013663.1 Corchorus olitorius cultivar O-4 contig13696, 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: 14445
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32


Found at i:8 original size:3 final size:3

Alignment explanation


    Indices: 1--105  Score: 210
    Period size: 3  Copynumber: 35.0  Consensus size: 3

                                                                           
          1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
          1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT

                                                                           
         49 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
          1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT

                       
         97 TAT TAT TAT
          1 TAT TAT TAT

        106 CTATATTTGA


Statistics
Matches: 102,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3  102  1.00

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (3 bp):   
TAT

Found at i:3172 original size:2 final size:2

Alignment explanation


    Indices: 3165--3220  Score: 85
    Period size: 2  Copynumber: 28.0  Consensus size: 2

       3155 AAGTTCCATT

                                                            **          * 
       3165 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CC TA TA TA GA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                                
       3207 TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA

       3221 CCTATTTTTT


Statistics
Matches: 48,  Mismatches: 6, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
   2   48  1.00

ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46


Consensus pattern (2 bp):   
TA

Done.