Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00890.N3

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: 3534
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34


Found at i:428 original size:25 final size:25

Alignment explanation


    Indices: 400--474  Score: 87
    Period size: 25  Copynumber: 3.0  Consensus size: 25

        390 TCCGCATCGT

                      *              
        400 CGTTGGCAGCTCTATGCTACATCTC
          1 CGTTGGCAGCCCTATGCTACATCTC

                    *    *           
        425 CGTTGGCATCCCTCTGCTACATCTC
          1 CGTTGGCAGCCCTATGCTACATCTC

               *    *    *      *    
        450 CGTCGGCATCCCTCTGCTACTTCTC
          1 CGTTGGCAGCCCTATGCTACATCTC

        475 TAGTTTTCTG


Statistics
Matches: 45,  Mismatches: 5, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  25   45  1.00

ACGTcount: A:0.12, C:0.39, G:0.17, T:0.32


Consensus pattern (25 bp):   
CGTTGGCAGCCCTATGCTACATCTC

Found at i:1179 original size:43 final size:43

Alignment explanation


    Indices: 1121--1291  Score: 236
    Period size: 43  Copynumber: 4.0  Consensus size: 43

       1111 TATCGAAATG

                                    *          *        
       1121 TGATATACGGGCTTCGGGCCTAGCTGGCTATAATGTCGGTGAAA
          1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA

                                                     * 
       1165 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGA
          1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA

             *     *   *                               
       1208 TAATATCAGGCCTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
          1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA

            *             **           *              
       1251 CGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
          1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA

       1292 TGAATTCAGA


Statistics
Matches: 113,  Mismatches: 14, Indels: 2
        0.88            0.11        0.02

Matches are distributed among these distances:
  42   12  0.11
  43   95  0.84
  44    6  0.05

ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22


Consensus pattern (43 bp):   
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Done.