Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01822.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: 2583
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27


Found at i:2294 original size:15 final size:15

Alignment explanation


    Indices: 2271--2309  Score: 60
    Period size: 15  Copynumber: 2.6  Consensus size: 15

       2261 TCCTCAGAAG

                           
       2271 AAGTTATCGACGAGA
          1 AAGTTATCGACGAGA

              *          * 
       2286 AATTTATCGACGATA
          1 AAGTTATCGACGAGA

                     
       2301 AAGTTATCG
          1 AAGTTATCG

       2310 CTGAAAATGG


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  15   21  1.00

ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28


Consensus pattern (15 bp):   
AAGTTATCGACGAGA

Found at i:2487 original size:25 final size:26

Alignment explanation


    Indices: 2444--2493  Score: 93
    Period size: 25  Copynumber: 2.0  Consensus size: 26

       2434 GCATATGGTA

                                      
       2444 TTGTCTTATTTTTTTGTTTTTATTTG
          1 TTGTCTTATTTTTTTGTTTTTATTTG

                                     
       2470 TTGTCTTA-TTTTTTGTTTTTATTT
          1 TTGTCTTATTTTTTTGTTTTTATTT

       2494 TATGTTAATT


Statistics
Matches: 24,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  25   16  0.67
  26    8  0.33

ACGTcount: A:0.08, C:0.04, G:0.10, T:0.78


Consensus pattern (26 bp):   
TTGTCTTATTTTTTTGTTTTTATTTG

Found at i:2494 original size:13 final size:13

Alignment explanation


    Indices: 2453--2499  Score: 60
    Period size: 13  Copynumber: 3.7  Consensus size: 13

       2443 ATTGTCTTAT

                         
       2453 TTTTTTGTTTTTA
          1 TTTTTTGTTTTTA

               *     *   
       2466 TTTGTTG-TCTTA
          1 TTTTTTGTTTTTA

                         
       2478 TTTTTTGTTTTTA
          1 TTTTTTGTTTTTA

                *    
       2491 TTTTATGTT
          1 TTTTTTGTT

       2500 AATTGAATAG


Statistics
Matches: 28,  Mismatches: 5, Indels: 2
        0.80            0.14        0.06

Matches are distributed among these distances:
  12   10  0.36
  13   18  0.64

ACGTcount: A:0.09, C:0.02, G:0.11, T:0.79


Consensus pattern (13 bp):   
TTTTTTGTTTTTA
Done.