Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g01067.F1

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: 3869
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34


Found at i:1195 original size:20 final size:20

Alignment explanation


    Indices: 1170--1214  Score: 63
    Period size: 20  Copynumber: 2.2  Consensus size: 20

       1160 CTTTGGTTTG

                       **  *    
       1170 TTTTTATTTTATTTTTATTA
          1 TTTTTATTTTAACTTCATTA

                                
       1190 TTTTTATTTTAACTTCATTA
          1 TTTTTATTTTAACTTCATTA

                 
       1210 TTTTT
          1 TTTTT

       1215 CATGATTTTC


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  20   22  1.00

ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76


Consensus pattern (20 bp):   
TTTTTATTTTAACTTCATTA

Found at i:1781 original size:36 final size:36

Alignment explanation


    Indices: 1741--1812  Score: 144
    Period size: 36  Copynumber: 2.0  Consensus size: 36

       1731 TAATGCATAA

                                                
       1741 GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT
          1 GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT

                                                
       1777 GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT
          1 GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT

       1813 CATAAAATTC


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  36   36  1.00

ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36


Consensus pattern (36 bp):   
GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT

Found at i:2216 original size:27 final size:27

Alignment explanation


    Indices: 2180--2233  Score: 108
    Period size: 27  Copynumber: 2.0  Consensus size: 27

       2170 CACATTTGAA

                                       
       2180 GAATGTCCACCCAATCCCGAATATATT
          1 GAATGTCCACCCAATCCCGAATATATT

                                       
       2207 GAATGTCCACCCAATCCCGAATATATT
          1 GAATGTCCACCCAATCCCGAATATATT

       2234 TACTCTGTGG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  27   27  1.00

ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26


Consensus pattern (27 bp):   
GAATGTCCACCCAATCCCGAATATATT
Done.