Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00210.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, 497

Length: 829
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30


Found at i:477 original size:28 final size:25

Alignment explanation


    Indices: 435--508  Score: 85
    Period size: 25  Copynumber: 2.8  Consensus size: 25

        425 AAAAGTAGCT

                    * *                 
        435 AAATTACTATAATACCCCTATGTATGGA
          1 AAATTACTGTTATACCCCTA-G-AT-GA

                                 *   
        463 AAATTACTGTTATACCCCTAGGTGA
          1 AAATTACTGTTATACCCCTAGATGA

                   *             
        488 AAATTACCGTTATACCCCTAG
          1 AAATTACTGTTATACCCCTAG

        509 GGTTAATTTT


Statistics
Matches: 42,  Mismatches: 4, Indels: 3
        0.86            0.08        0.06

Matches are distributed among these distances:
  25   22  0.52
  26    1  0.02
  27    1  0.02
  28   18  0.43

ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31


Consensus pattern (25 bp):   
AAATTACTGTTATACCCCTAGATGA

Found at i:499 original size:25 final size:25

Alignment explanation


    Indices: 461--509  Score: 89
    Period size: 25  Copynumber: 2.0  Consensus size: 25

        451 CCTATGTATG

                     *               
        461 GAAAATTACTGTTATACCCCTAGGT
          1 GAAAATTACCGTTATACCCCTAGGT

                                    
        486 GAAAATTACCGTTATACCCCTAGG
          1 GAAAATTACCGTTATACCCCTAGG

        510 GTTAATTTTG


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  25   23  1.00

ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29


Consensus pattern (25 bp):   
GAAAATTACCGTTATACCCCTAGGT

Found at i:653 original size:27 final size:27

Alignment explanation


    Indices: 612--765  Score: 200
    Period size: 27  Copynumber: 5.7  Consensus size: 27

        602 AAGGAAGCGT

                      *              * 
        612 TCTGGTGGCTATGCCACAAATATCTAA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                                       
        639 TCTGGTGGCTCTGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                                       
        666 TCTGGTGGCTCTGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

             *    *           *       *
        693 TTTGGTAGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                             * *        
        720 TCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                *  *     *    
        748 TCTGATGACTCTGTCACA
          1 TCTGGTGGCTCTGCCACA

        766 TTTATGGCAG


Statistics
Matches: 110,  Mismatches: 16, Indels: 1
        0.87            0.13        0.01

Matches are distributed among these distances:
  27   96  0.87
  28   14  0.13

ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Done.