Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00544.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, 231

Length: 386
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30


Found at i:278 original size:6 final size:6

Alignment explanation


    Indices: 259--369  Score: 98
    Period size: 6  Copynumber: 18.5  Consensus size: 6

        249 CCTGAAGGTC

                 *    *                     *            *   *  *  
        259 AAGCTC AAGTTG AAGCTG AAGCTG AAGCAG AAGCTG AAGTTG TAGTTG
          1 AAGCTG AAGCTG AAGCTG AAGCTG AAGCTG AAGCTG AAGCTG AAGCTG

               *              *      *       *     *      *         
        307 AAGGTG AAGCTG AAGCAG AAGCAG AAG-TT ATAGTTG AAGATG AAGCTG
          1 AAGCTG AAGCTG AAGCTG AAGCTG AAGCTG A-AGCTG AAGCTG AAGCTG

                             
        355 AAGCTG AAGCTG AAG
          1 AAGCTG AAGCTG AAG

        370 TTGAGCTTGG


Statistics
Matches: 87,  Mismatches: 16, Indels: 4
        0.81            0.15        0.04

Matches are distributed among these distances:
   5    1  0.01
   6   84  0.97
   7    2  0.02

ACGTcount: A:0.37, C:0.11, G:0.32, T:0.20


Consensus pattern (6 bp):   
AAGCTG

Found at i:315 original size:36 final size:36

Alignment explanation


    Indices: 266--372  Score: 169
    Period size: 36  Copynumber: 3.0  Consensus size: 36

        256 GTCAAGCTCA

                    *                           
        266 AGTTGAAGCTGAAGCTGAAGCAGAAGCTGAAGTTGT
          1 AGTTGAAGATGAAGCTGAAGCAGAAGCTGAAGTTGT

                    *                  *      * 
        302 AGTTGAAGGTGAAGCTGAAGCAGAAGCAGAAGTTAT
          1 AGTTGAAGATGAAGCTGAAGCAGAAGCTGAAGTTGT

                                 *             
        338 AGTTGAAGATGAAGCTGAAGCTGAAGCTGAAGTTG
          1 AGTTGAAGATGAAGCTGAAGCAGAAGCTGAAGTTG

        373 AGCTTGGTGG


Statistics
Matches: 64,  Mismatches: 7, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  36   64  1.00

ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21


Consensus pattern (36 bp):   
AGTTGAAGATGAAGCTGAAGCAGAAGCTGAAGTTGT
Done.