Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g01528.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, 1000

Length: 3913
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30


Found at i:3842 original size:16 final size:16

Alignment explanation


    Indices: 3819--3858  Score: 53
    Period size: 16  Copynumber: 2.5  Consensus size: 16

       3809 CGTTTGGTTC

                    *     * 
       3819 GCTGTAATGGAATAGA
          1 GCTGTAATAGAATAAA

             *              
       3835 GTTGTAATAGAATAAA
          1 GCTGTAATAGAATAAA

                    
       3851 GCTGTAAT
          1 GCTGTAAT

       3859 CAATAATTCA


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  16   20  1.00

ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30


Consensus pattern (16 bp):   
GCTGTAATAGAATAAA

Found at i:3895 original size:118 final size:118

Alignment explanation


    Indices: 3686--3913  Score: 332
    Period size: 118  Copynumber: 1.9  Consensus size: 118

       3676 AAGGAAACAC

                                                            *        *     * 
       3686 TTGCACATATGGTTCGCTGTAATGGAATAGAGTTGTAAAGGAATAAAGTTATAATCAGTAATTTA
          1 TTGCACATATGGTTCGCTGTAATGGAATAGAGTTGTAAAGGAATAAAGCTATAATCAATAATTCA

               *   *        *    *       *                       
       3751 ATTGTTTGGTTGAATGGAATGGAATAGAATTGTAATGATATTCTTATGTTTGG
         66 ATTATTTAGTTGAATGAAATGAAATAGAACTGTAATGATATTCTTATGTTTGG

                  * *                                          *             
       3804 TTGCACGTTTGGTTCGCTGTAATGGAATAGAGTTGTAATA-GAATAAAGCTGTAATCAATAATTC
          1 TTGCACATATGGTTCGCTGTAATGGAATAGAGTTGTAA-AGGAATAAAGCTATAATCAATAATTC

                                                 *        
       3868 AATTATTTAGTTGAATGAAATGAAATAGAACTGTAATTATATTCTT
         65 AATTATTTAGTTGAATGAAATGAAATAGAACTGTAATGATATTCTT


Statistics
Matches: 97,  Mismatches: 12, Indels: 2
        0.87            0.11        0.02

Matches are distributed among these distances:
 118   96  0.99
 119    1  0.01

ACGTcount: A:0.35, C:0.07, G:0.21, T:0.38


Consensus pattern (118 bp):   
TTGCACATATGGTTCGCTGTAATGGAATAGAGTTGTAAAGGAATAAAGCTATAATCAATAATTCA
ATTATTTAGTTGAATGAAATGAAATAGAACTGTAATGATATTCTTATGTTTGG
Done.