Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00391.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: 5416
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Found at i:304 original size:72 final size:72

Alignment explanation


    Indices: 228--361  Score: 198
    Period size: 72  Copynumber: 1.9  Consensus size: 72

        218 CGTTGAATAC

                                *                                            
        228 TTCCAGAAATGTAAGATTTGTTAATTCTGGACAT-AGTTCACCAAAGAGCTTGTTATGGGAGACA
          1 TTCCAGAAATGTAAGATTTGCTAATTCTGGA-ATCAGTTCACCAAAGAGCTTGTTATGGGAGACA

                    
        292 TCCAACGA
         65 TCCAACGA

                   **      *               *                      *       
        300 TTCCAGATCTGTAAGTTTTGCTAATTCTGGAGTCAGTTCACCAAAGAGCTTGTTCTGGGAGA
          1 TTCCAGAAATGTAAGATTTGCTAATTCTGGAATCAGTTCACCAAAGAGCTTGTTATGGGAGA

        362 GATTCAACAC


Statistics
Matches: 55,  Mismatches: 6, Indels: 2
        0.87            0.10        0.03

Matches are distributed among these distances:
  71    1  0.02
  72   54  0.98

ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31


Consensus pattern (72 bp):   
TTCCAGAAATGTAAGATTTGCTAATTCTGGAATCAGTTCACCAAAGAGCTTGTTATGGGAGACAT
CCAACGA

Found at i:2433 original size:15 final size:16

Alignment explanation


    Indices: 2410--2439  Score: 53
    Period size: 15  Copynumber: 1.9  Consensus size: 16

       2400 TCTCATATTG

                            
       2410 TTTTCTCTTTTTTTTC
          1 TTTTCTCTTTTTTTTC

                           
       2426 TTTT-TCTTTTTTTT
          1 TTTTCTCTTTTTTTT

       2440 GTTAAAAGAT


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

Matches are distributed among these distances:
  15   10  0.71
  16    4  0.29

ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87


Consensus pattern (16 bp):   
TTTTCTCTTTTTTTTC
Done.