Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00997.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: 4007
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:3397 original size:40 final size:40

Alignment explanation


    Indices: 3320--3502  Score: 280
    Period size: 40  Copynumber: 4.6  Consensus size: 40

       3310 AACCCAAGTA

                     *                     *         
       3320 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
          1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG

                    *                        *      
       3359 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCGCAAATG
          1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG

                                              *     
       3399 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
          1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG

                                                  * 
       3439 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
          1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG

             *                      
       3479 CTTTCGGGACTTAGCCCGGATATA
          1 CCTTCGGGACTTAGCCCGGATATA

       3503 ATAATCATGC


Statistics
Matches: 132,  Mismatches: 10, Indels: 3
        0.91            0.07        0.02

Matches are distributed among these distances:
  39   12  0.09
  40  119  0.90
  41    1  0.01

ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23


Consensus pattern (40 bp):   
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG

Done.