Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02460.C1

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: 2146
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31


Found at i:1554 original size:4 final size:4

Alignment explanation


    Indices: 1545--1595  Score: 59
    Period size: 4  Copynumber: 12.8  Consensus size: 4

       1535 TAAGAACAGA

                                            *      *       *            
       1545 GTAT GTAT GTAT GCT-T GTAT GTAT GCAT GTAG GTAT GCAT GTAT GTAT
          1 GTAT GTAT GTAT G-TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT

               
       1593 GTA
          1 GTA

       1596 CATGATTCCT


Statistics
Matches: 39,  Mismatches: 6, Indels: 4
        0.80            0.12        0.08

Matches are distributed among these distances:
   3    1  0.03
   4   37  0.95
   5    1  0.03

ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43


Consensus pattern (4 bp):   
GTAT

Found at i:1565 original size:12 final size:12

Alignment explanation


    Indices: 1547--1593  Score: 76
    Period size: 12  Copynumber: 3.9  Consensus size: 12

       1537 AGAACAGAGT

                        
       1547 ATGTATGTATGC
          1 ATGTATGTATGC

            *           
       1559 TTGTATGTATGC
          1 ATGTATGTATGC

                 *      
       1571 ATGTAGGTATGC
          1 ATGTATGTATGC

                       
       1583 ATGTATGTATG
          1 ATGTATGTATG

       1594 TACATGATTC


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  12   31  1.00

ACGTcount: A:0.23, C:0.06, G:0.28, T:0.43


Consensus pattern (12 bp):   
ATGTATGTATGC

Done.