Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01406.N1

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: 4351
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35


Found at i:703 original size:40 final size:39

Alignment explanation


    Indices: 583--716  Score: 110
    Period size: 40  Copynumber: 3.4  Consensus size: 39

        573 ACTTCGAGTT

                     * * *                 *       * 
        583 GATGAGACATTAGTTGTCAATCTATTACTTCAAATTAATTC
          1 GATGAGACACTGGGTGTCAAT-TATTACTTCGAATT-ATCC

             *           *                 **   *  
        624 GGTGAGACACTGGATGTCAA-T-TTACTTCGGGTTAACC
          1 GATGAGACACTGGGTGTCAATTATTACTTCGAATTATCC

               *                                    
        661 GATAAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
          1 GATGAGACACTGGGTGTC-AATTATTACTTCGAATTATCC

                  *    *    
        701 GATGAGGCACTAGGTG
          1 GATGAGACACTGGGTG

        717 CCAAACTAGT


Statistics
Matches: 72,  Mismatches: 18, Indels: 7
        0.74            0.19        0.07

Matches are distributed among these distances:
  37   17  0.24
  38   11  0.15
  39    2  0.03
  40   26  0.36
  41   16  0.22

ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32


Consensus pattern (39 bp):   
GATGAGACACTGGGTGTCAATTATTACTTCGAATTATCC

Found at i:2531 original size:21 final size:21

Alignment explanation


    Indices: 2505--2556  Score: 104
    Period size: 21  Copynumber: 2.5  Consensus size: 21

       2495 GTCAGCTAAA

                                 
       2505 AATGCATGATCACAATTATTC
          1 AATGCATGATCACAATTATTC

                                 
       2526 AATGCATGATCACAATTATTC
          1 AATGCATGATCACAATTATTC

                      
       2547 AATGCATGAT
          1 AATGCATGAT

       2557 TTAAAGTTAG


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   31  1.00

ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33


Consensus pattern (21 bp):   
AATGCATGATCACAATTATTC
Done.