Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_1043 ID=scaffold_1043-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: 3883
ACGTcount: A:0.11, C:0.06, G:0.05, T:0.13

Warning! 2573 characters in sequence are not A, C, G, or T


Found at i:349 original size:23 final size:23

Alignment explanation


    Indices: 275--384  Score: 133
    Period size: 23  Copynumber: 5.0  Consensus size: 23

        265 ACCTGATCAG

                                   
        275 TATACGACACAT-AAGTGCCTGA
          1 TATACGACACATAAAGTGCCTGA

                        **          
        297 -A-ACGACACA-CGAGTTGCCTG-
          1 TATACGACACATAAAG-TGCCTGA

                                   
        317 -ATACGACACATAAAGTGCCTGA
          1 TATACGACACATAAAGTGCCTGA

                  *                
        339 TATACGGCACATAAAGTGCCTGA
          1 TATACGACACATAAAGTGCCTGA

                *                  
        362 TATATGACACATAAAGTGCCTGA
          1 TATACGACACATAAAGTGCCTGA

        385 CCGGCAAAGC


Statistics
Matches: 76,  Mismatches: 6, Indels: 11
        0.82            0.06        0.12

Matches are distributed among these distances:
  20   11  0.14
  21   21  0.28
  22    2  0.03
  23   42  0.55

ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21


Consensus pattern (23 bp):   
TATACGACACATAAAGTGCCTGA
Done.