Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00180.F3

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: 2564
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26


Found at i:34 original size:14 final size:15

Alignment explanation


    Indices: 6--34  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

          1 GCTAC

                           
          6 AAAGGAGAGGAAAGA
          1 AAAGGAGAGGAAAGA

                           
         21 AAAGGAGA-GAAAGA
          1 AAAGGAGAGGAAAGA

         35 GACGACAGAC


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    6  0.43
  15    8  0.57

ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00


Consensus pattern (15 bp):   
AAAGGAGAGGAAAGA

Found at i:88 original size:5 final size:5

Alignment explanation


    Indices: 78--115  Score: 67
    Period size: 5  Copynumber: 7.6  Consensus size: 5

         68 CATATACAGC

                                     *                   
         78 AAGAA AAGAA AAGAA AAGAA AGGAA AAGAA AAGAA AAG
          1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAG

        116 CAGGGAATTG


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   5   31  1.00

ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00


Consensus pattern (5 bp):   
AAGAA

Found at i:2427 original size:13 final size:13

Alignment explanation


    Indices: 2409--2438  Score: 51
    Period size: 13  Copynumber: 2.3  Consensus size: 13

       2399 CCATCTTGAT

                       * 
       2409 TTTTTTTTTTTGC
          1 TTTTTTTTTTTCC

                         
       2422 TTTTTTTTTTTCC
          1 TTTTTTTTTTTCC

                
       2435 TTTT
          1 TTTT

       2439 GATAAACGTA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  13   16  1.00

ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87


Consensus pattern (13 bp):   
TTTTTTTTTTTCC
Done.