Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold11846.1

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: 2547
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35


Found at i:2135 original size:13 final size:13

Alignment explanation


    Indices: 2117--2166  Score: 86
    Period size: 13  Copynumber: 4.0  Consensus size: 13

       2107 CTAGCTCTCT

                         
       2117 TTTTTTTTCACAA
          1 TTTTTTTTCACAA

                         
       2130 TTTTTTTTCACAA
          1 TTTTTTTTCACAA

                         
       2143 TTTTTTTTCA-AA
          1 TTTTTTTTCACAA

                         
       2155 TTTTTTTT-ACAA
          1 TTTTTTTTCACAA

       2167 CTTGATATCC


Statistics
Matches: 36,  Mismatches: 0, Indels: 3
        0.92            0.00        0.08

Matches are distributed among these distances:
  11    1  0.03
  12   12  0.33
  13   23  0.64

ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64


Consensus pattern (13 bp):   
TTTTTTTTCACAA

Found at i:2250 original size:13 final size:12

Alignment explanation


    Indices: 2204--2249  Score: 56
    Period size: 12  Copynumber: 3.8  Consensus size: 12

       2194 TGGAAACTAG

                      *  
       2204 TTTTTTTTTCAAA
          1 TTTTTTTTT-GAA

            *           
       2217 CTTTTTTTTGAA
          1 TTTTTTTTTGAA

                       *
       2229 TTTTTTTTTGAG
          1 TTTTTTTTTGAA

                     
       2241 TTTTTTTTT
          1 TTTTTTTTT

       2250 TCGAGAAACT


Statistics
Matches: 29,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  12   21  0.72
  13    8  0.28

ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76


Consensus pattern (12 bp):   
TTTTTTTTTGAA
Done.