Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00443.N3

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: 2040
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28


Found at i:177 original size:41 final size:41

Alignment explanation


    Indices: 132--214  Score: 157
    Period size: 41  Copynumber: 2.0  Consensus size: 41

        122 AGAGAAGATG

                                  *                  
        132 AAGTAGAGGTTCTAGAGAATATTTTCATCAATTTAGAAGCA
          1 AAGTAGAGGTTCTAGAGAATATGTTCATCAATTTAGAAGCA

                                                     
        173 AAGTAGAGGTTCTAGAGAATATGTTCATCAATTTAGAAGCA
          1 AAGTAGAGGTTCTAGAGAATATGTTCATCAATTTAGAAGCA

             
        214 A
          1 A

        215 GAAAATAGTA


Statistics
Matches: 41,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  41   41  1.00

ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30


Consensus pattern (41 bp):   
AAGTAGAGGTTCTAGAGAATATGTTCATCAATTTAGAAGCA

Found at i:952 original size:12 final size:13

Alignment explanation


    Indices: 930--959  Score: 53
    Period size: 12  Copynumber: 2.4  Consensus size: 13

        920 GTACAGGCTT

                         
        930 CCATGAGAACCCA
          1 CCATGAGAACCCA

                         
        943 CCAT-AGAACCCA
          1 CCATGAGAACCCA

                 
        955 CCATG
          1 CCATG

        960 GAGTTTGTTT


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  12   12  0.75
  13    4  0.25

ACGTcount: A:0.37, C:0.40, G:0.13, T:0.10


Consensus pattern (13 bp):   
CCATGAGAACCCA
Done.