Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2176

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, 634

Length: 1057
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.23

Warning! 44 characters in sequence are not A, C, G, or T


Found at i:268 original size:1 final size:1

Alignment explanation


    Indices: 262--309  Score: 60
    Period size: 1  Copynumber: 48.0  Consensus size: 1

        252 NNNNNNNNNN

                         *       **        *                
        262 AAAAAAAAAAAAAGAAAAAAAGTAAAAAAAAGAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

        310 TGAAACTCCG


Statistics
Matches: 40,  Mismatches: 7, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
   1   40  1.00

ACGTcount: A:0.92, C:0.00, G:0.06, T:0.02


Consensus pattern (1 bp):   
A

Found at i:290 original size:18 final size:17

Alignment explanation


    Indices: 262--314  Score: 79
    Period size: 18  Copynumber: 3.0  Consensus size: 17

        252 NNNNNNNNNN

                             
        262 AAAAAAAAAAAAAGAAA
          1 AAAAAAAAAAAAAGAAA

                 *            
        279 AAAAGTAAAAAAAAGAAA
          1 AAAA-AAAAAAAAAGAAA

                              
        297 AAAAAAAAAAAAATGAAA
          1 AAAAAAAAAAAAA-GAAA

        315 CTCCGCCTGG


Statistics
Matches: 32,  Mismatches: 2, Indels: 3
        0.86            0.05        0.08

Matches are distributed among these distances:
  17   12  0.38
  18   20  0.62

ACGTcount: A:0.89, C:0.00, G:0.08, T:0.04


Consensus pattern (17 bp):   
AAAAAAAAAAAAAGAAA

Done.