Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00834.F4

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: 3164
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30


Found at i:1459 original size:33 final size:33

Alignment explanation


    Indices: 1336--1478  Score: 121
    Period size: 33  Copynumber: 4.3  Consensus size: 33

       1326 TGTTGACTAC

                           *                 * 
       1336 TGGGGAGGGTGATGTTGAAG-GGTTAGAAGT-TCA
          1 TGGGGAGGGTGATGTAGAAGAGG-TAGAA-TCTGA

                                 *            
       1369 TGGGGAGGGTGATG-ATGAAGGGGTAGAATCTGA
          1 TGGGGAGGGTGATGTA-GAAGAGGTAGAATCTGA

               *  * *    *     *            *
       1402 TGGTGAAGATGATCTAGAAAAGGTAGAATCTGG
          1 TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA

                             *       *  *    
       1435 TGGGGAGGGTGATGTAGGAGAGGTACAAGCTGA
          1 TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA

               *       
       1468 TGGAGAGGGTG
          1 TGGGGAGGGTG

       1479 TTTCTGCTAC


Statistics
Matches: 87,  Mismatches: 19, Indels: 8
        0.76            0.17        0.07

Matches are distributed among these distances:
  32    1  0.01
  33   83  0.95
  34    3  0.03

ACGTcount: A:0.28, C:0.04, G:0.45, T:0.22


Consensus pattern (33 bp):   
TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA

Found at i:1654 original size:51 final size:51

Alignment explanation


    Indices: 1582--1738  Score: 208
    Period size: 51  Copynumber: 3.1  Consensus size: 51

       1572 GTGAAGTTGC

                *                     * *              *       
       1582 TGCTAATGAATAT-CTGGTGATTTTGTACCATCAGATGGAGTGAATAATGT
          1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT

                          *                 *      *           
       1632 TGCTGATGAATATGTTGGTGATTTTGCAACATTAGATGGTGTGGATAATGT
          1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT

                             *               *   *  *          
       1683 TGCTGATGAATATGCTGATGATTTTGCAACATCTGATAGACTGGATAATGT
          1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT

                 
       1734 TGCTG
          1 TGCTG

       1739 CTGCACGTAC


Statistics
Matches: 92,  Mismatches: 14, Indels: 1
        0.86            0.13        0.01

Matches are distributed among these distances:
  50   12  0.13
  51   80  0.87

ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37


Consensus pattern (51 bp):   
TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
Done.