Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00702.F3

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: 1788
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31


Found at i:1295 original size:15 final size:15

Alignment explanation


    Indices: 1277--1375  Score: 63
    Period size: 15  Copynumber: 6.6  Consensus size: 15

       1267 AGCTTGATAT

                           
       1277 AGATGACGATGAAGA
          1 AGATGACGATGAAGA

                        *  
       1292 AGATGACGATGATGA
          1 AGATGACGATGAAGA

            *     *  *     
       1307 TGATGAGGAGGAAGA
          1 AGATGACGATGAAGA

            *     *  *     
       1322 GGATGATGAGGAAGA
          1 AGATGACGATGAAGA

            *     *    **  
       1337 GGATGAGGATGCTGA
          1 AGATGACGATGAAGA

            *     *     *  
       1352 CGATGAGGATGAGGA
          1 AGATGACGATGAAGA

            *        
       1367 TGATGACGA
          1 AGATGACGA

       1376 AGGAAGTAAG


Statistics
Matches: 68,  Mismatches: 16, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  15   68  1.00

ACGTcount: A:0.37, C:0.05, G:0.41, T:0.16


Consensus pattern (15 bp):   
AGATGACGATGAAGA

Found at i:1326 original size:21 final size:21

Alignment explanation


    Indices: 1284--1377  Score: 98
    Period size: 21  Copynumber: 4.5  Consensus size: 21

       1274 TATAGATGAC

                 *     *  *  *   
       1284 GATGAAGAAGATGACGATGAT
          1 GATGACGAAGAGGATGAGGAT

                 *  *     *      
       1305 GATGATGAGGAGGAAGAGGAT
          1 GATGACGAAGAGGATGAGGAT

                 *               
       1326 GATGAGGAAGAGGATGAGGAT
          1 GATGACGAAGAGGATGAGGAT

             *      *            
       1347 GCTGACGATGAGGATGAGGAT
          1 GATGACGAAGAGGATGAGGAT

                      
       1368 GATGACGAAG
          1 GATGACGAAG

       1378 GAAGTAAGAC


Statistics
Matches: 60,  Mismatches: 13, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  21   60  1.00

ACGTcount: A:0.37, C:0.04, G:0.43, T:0.16


Consensus pattern (21 bp):   
GATGACGAAGAGGATGAGGAT
Done.