Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03780.P1

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: 8571
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31


Found at i:6578 original size:30 final size:30

Alignment explanation


    Indices: 6542--6601  Score: 86
    Period size: 30  Copynumber: 2.0  Consensus size: 30

       6532 TTCCCGAGCC

                                           
       6542 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
          1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT

                               *   *      
       6572 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
          1 TAGGGGCAAAATGGTAATTATGCAAAAGTT

       6602 CGTATTAAGG


Statistics
Matches: 27,  Mismatches: 2, Indels: 2
        0.87            0.06        0.06

Matches are distributed among these distances:
  30   26  0.96
  31    1  0.04

ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28


Consensus pattern (30 bp):   
TAGGGGCAAAATGGTAATTATGCAAAAGTT

Found at i:7074 original size:47 final size:46

Alignment explanation


    Indices: 7023--7199  Score: 218
    Period size: 47  Copynumber: 3.8  Consensus size: 46

       7013 TGGTTGAGCA

                                                           
       7023 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
          1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG

                                          * *                
       7070 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
          1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G

                                                      *   * 
       7115 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
          1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG

            *    *                               
       7163 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
          1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG

       7200 GCGGGTTACA


Statistics
Matches: 113,  Mismatches: 8, Indels: 19
        0.81            0.06        0.14

Matches are distributed among these distances:
  42    2  0.02
  43    1  0.01
  44    5  0.04
  45    1  0.01
  46   37  0.33
  47   58  0.51
  48    3  0.03
  50    4  0.04
  51    2  0.02

ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29


Consensus pattern (46 bp):   
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Done.