Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g01035.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: 5378
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28


Found at i:4597 original size:33 final size:33

Alignment explanation


    Indices: 4504--4630  Score: 82
    Period size: 33  Copynumber: 3.8  Consensus size: 33

       4494 TTCCAACTAA

                                    *     **  
       4504 CTTGGATGAAGAAACTCC-TACTGATCCTGTGAC
          1 CTTGGATGAAGAAACTCCAT-CTGTTCCTGAAAC

                      *      *    * *          
       4537 CTTGGCA-GAGGAAAGCCCCA-GTATTCCTGAAAC
          1 CTTGG-ATGAAGAAA-CTCCATCTGTTCCTGAAAC

                                        **   
       4570 CTTGGATGAAGAAACTCCATCTGTTCCTCCAAC
          1 CTTGGATGAAGAAACTCCATCTGTTCCTGAAAC

            *   *               *        
       4603 ATT-CAGTGAAGAAACTCCAGCTGTTCCT
          1 CTTGGA-TGAAGAAACTCCATCTGTTCCT

       4631 CCGTCATACA


Statistics
Matches: 72,  Mismatches: 16, Indels: 12
        0.72            0.16        0.12

Matches are distributed among these distances:
  32    6  0.08
  33   62  0.86
  34    4  0.06

ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25


Consensus pattern (33 bp):   
CTTGGATGAAGAAACTCCATCTGTTCCTGAAAC

Found at i:4631 original size:33 final size:33

Alignment explanation


    Indices: 4576--4651  Score: 107
    Period size: 33  Copynumber: 2.3  Consensus size: 33

       4566 AAACCTTGGA

                         *               *   
       4576 TGAAGAAACTCCATCTGTTCCTCCAACATTCAG
          1 TGAAGAAACTCCAGCTGTTCCTCCAACATACAG

                                    **       
       4609 TGAAGAAACTCCAGCTGTTCCTCCGTCATACAG
          1 TGAAGAAACTCCAGCTGTTCCTCCAACATACAG

                 *    
       4642 TGAAGGAACT
          1 TGAAGAAACT

       4652 ACTATTCCTC


Statistics
Matches: 38,  Mismatches: 5, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  33   38  1.00

ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25


Consensus pattern (33 bp):   
TGAAGAAACTCCAGCTGTTCCTCCAACATACAG
Done.