Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_393 ID=scaffold_393-JGI_221_v2.0

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: 7547
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32


Found at i:6242 original size:23 final size:23

Alignment explanation


    Indices: 6215--6313  Score: 155
    Period size: 23  Copynumber: 4.3  Consensus size: 23

       6205 AGTGTTATTG

                                   
       6215 ATCAGTGGTAGCTTCGGCTACAT
          1 ATCAGTGGTAGCTTCGGCTACAT

            *                      
       6238 TTCAGTGGTAGCTTCGGCTACA-
          1 ATCAGTGGTAGCTTCGGCTACAT

                          *         
       6260 ATTCAGTGGTAGCTACGGCTACAT
          1 A-TCAGTGGTAGCTTCGGCTACAT

                          *        
       6284 ATCAGTGGTAGCTTTGGCTACAT
          1 ATCAGTGGTAGCTTCGGCTACAT

                   
       6307 ATCAGTG
          1 ATCAGTG

       6314 TGGCACTTAT


Statistics
Matches: 69,  Mismatches: 5, Indels: 4
        0.88            0.06        0.05

Matches are distributed among these distances:
  23   68  0.99
  24    1  0.01

ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31


Consensus pattern (23 bp):   
ATCAGTGGTAGCTTCGGCTACAT

Done.