Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g01133.R1

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: 3012
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32


Found at i:51 original size:3 final size:3

Alignment explanation


    Indices: 37--86  Score: 52
    Period size: 3  Copynumber: 17.3  Consensus size: 3

         27 TCCCGCCCTT

                     *                                       *              
         37 TTC TTC TCC TTC TTC TTC TTC -TC TTC TT- TTC TTC TCC TTC -TC TTTC
          1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC

                 
         83 TTC T
          1 TTC T

         87 CCTTTACTCA


Statistics
Matches: 39,  Mismatches: 4, Indels: 8
        0.76            0.08        0.16

Matches are distributed among these distances:
   2    6  0.15
   3   31  0.79
   4    2  0.05

ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64


Consensus pattern (3 bp):   
TTC

Found at i:57 original size:15 final size:15

Alignment explanation


    Indices: 37--90  Score: 78
    Period size: 15  Copynumber: 3.7  Consensus size: 15

         27 TCCCGCCCTT

                           
         37 TTCTTCTCCTTCTTC
          1 TTCTTCTCCTTCTTC

                           
         52 TTCTTCT-CTTCTT-
          1 TTCTTCTCCTTCTTC

                           
         65 TTCTTCTCCTTC-TC
          1 TTCTTCTCCTTCTTC

                        
         79 TTTCTTCTCCTT
          1 -TTCTTCTCCTT

         91 TACTCACTAG


Statistics
Matches: 36,  Mismatches: 0, Indels: 6
        0.86            0.00        0.14

Matches are distributed among these distances:
  13    8  0.22
  14   10  0.28
  15   18  0.50

ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63


Consensus pattern (15 bp):   
TTCTTCTCCTTCTTC

Found at i:65 original size:28 final size:28

Alignment explanation


    Indices: 34--87  Score: 92
    Period size: 28  Copynumber: 1.9  Consensus size: 28

         24 CCTTCCCGCC

                                         
         34 CTTTTCTTCTCCTTCT-TCTTCTTCTCTT
          1 CTTTTCTTCTCCTTCTCT-TTCTTCTCTT

                                      
         62 CTTTTCTTCTCCTTCTCTTTCTTCTC
          1 CTTTTCTTCTCCTTCTCTTTCTTCTC

         88 CTTTACTCAC


Statistics
Matches: 25,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
  28   24  0.96
  29    1  0.04

ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63


Consensus pattern (28 bp):   
CTTTTCTTCTCCTTCTCTTTCTTCTCTT
Done.