Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020417.1 Corchorus olitorius cultivar O-4 contig20450, 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: 7416
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31


Found at i:278 original size:22 final size:24

Alignment explanation


    Indices: 243--301  Score: 61
    Period size: 22  Copynumber: 2.5  Consensus size: 24

        233 ATAAATGTTG

                            *      *
        243 CTGATAA-TCTTCT-CTTTTATCT
          1 CTGATAATTCTTCTCCATTTATCA

                                    
        265 CTGATAATTC-TCTCCATTTATCA
          1 CTGATAATTCTTCTCCATTTATCA

                          
        288 CTTGATAATATCTT
          1 C-TGATAAT-TCTT

        302 GCCAGATAAA


Statistics
Matches: 30,  Mismatches: 2, Indels: 6
        0.79            0.05        0.16

Matches are distributed among these distances:
  22   10  0.33
  23   10  0.33
  24    7  0.23
  25    2  0.07
  26    1  0.03

ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49


Consensus pattern (24 bp):   
CTGATAATTCTTCTCCATTTATCA

Found at i:7389 original size:2 final size:2

Alignment explanation


    Indices: 7384--7415  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       7374 AAAGAGTTTT

                                                           
       7384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       7416 C


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

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


Consensus pattern (2 bp):   
TA

Done.