Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g02506.F1

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: 3394
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30


Found at i:3066 original size:6 final size:6

Alignment explanation


    Indices: 3040--3123  Score: 60
    Period size: 6  Copynumber: 14.0  Consensus size: 6

       3030 TGGGATGCGC

                      **    *                  *         **    *   
       3040 ATTCCA ATTTGA ATCCCA ATTCCA ATTCCA TTTCCA ATTTGA ATCCCA
          1 ATTCCA ATTCCA ATTCCA ATTCCA ATTCCA ATTCCA ATTCCA ATTCCA

            *      *         **    *                 
       3088 GTTCCA GTTCCA ATTTGA ATCCCA ATTCCA ATTCCA
          1 ATTCCA ATTCCA ATTCCA ATTCCA ATTCCA ATTCCA

       3124 GCTCCCTGAG


Statistics
Matches: 56,  Mismatches: 22, Indels: 0
        0.72            0.28        0.00

Matches are distributed among these distances:
   6   56  1.00

ACGTcount: A:0.30, C:0.30, G:0.06, T:0.35


Consensus pattern (6 bp):   
ATTCCA

Found at i:3075 original size:30 final size:30

Alignment explanation


    Indices: 3041--3124  Score: 108
    Period size: 30  Copynumber: 3.0  Consensus size: 30

       3031 GGGATGCGCA

                                         *
       3041 TTCCAATTTGAATCCCAATTCCAATTCCAT
          1 TTCCAATTTGAATCCCAATTCCAATTCCAG

                                   *      
       3071 TTCCAATTTGAAT--C----CCAGTTCCAG
          1 TTCCAATTTGAATCCCAATTCCAATTCCAG

                                          
       3095 TTCCAATTTGAATCCCAATTCCAATTCCAG
          1 TTCCAATTTGAATCCCAATTCCAATTCCAG

       3125 CTCCCTGAGT


Statistics
Matches: 45,  Mismatches: 3, Indels: 12
        0.75            0.05        0.20

Matches are distributed among these distances:
  24   21  0.47
  26    1  0.02
  28    1  0.02
  30   22  0.49

ACGTcount: A:0.29, C:0.30, G:0.07, T:0.35


Consensus pattern (30 bp):   
TTCCAATTTGAATCCCAATTCCAATTCCAG

Found at i:3092 original size:24 final size:24

Alignment explanation


    Indices: 3061--3123  Score: 99
    Period size: 24  Copynumber: 2.6  Consensus size: 24

       3051 AATCCCAATT

                     *              
       3061 CCAATTCCATTTCCAATTTGAATC
          1 CCAATTCCAATTCCAATTTGAATC

               *     *              
       3085 CCAGTTCCAGTTCCAATTTGAATC
          1 CCAATTCCAATTCCAATTTGAATC

                           
       3109 CCAATTCCAATTCCA
          1 CCAATTCCAATTCCA

       3124 GCTCCCTGAG


Statistics
Matches: 35,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  24   35  1.00

ACGTcount: A:0.29, C:0.32, G:0.06, T:0.33


Consensus pattern (24 bp):   
CCAATTCCAATTCCAATTTGAATC
Done.