Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01997.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: 2789
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36


Found at i:863 original size:53 final size:53

Alignment explanation


    Indices: 783--888  Score: 212
    Period size: 53  Copynumber: 2.0  Consensus size: 53

        773 TCAGATCCTG

                                                                 
        783 AGGGTGCTTAGTTAGGATCAGTTCCAGTGCTGTTTCCATAAATAAACAAACTT
          1 AGGGTGCTTAGTTAGGATCAGTTCCAGTGCTGTTTCCATAAATAAACAAACTT

                                                                 
        836 AGGGTGCTTAGTTAGGATCAGTTCCAGTGCTGTTTCCATAAATAAACAAACTT
          1 AGGGTGCTTAGTTAGGATCAGTTCCAGTGCTGTTTCCATAAATAAACAAACTT

        889 TGTATGGACA


Statistics
Matches: 53,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  53   53  1.00

ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32


Consensus pattern (53 bp):   
AGGGTGCTTAGTTAGGATCAGTTCCAGTGCTGTTTCCATAAATAAACAAACTT

Found at i:1263 original size:21 final size:21

Alignment explanation


    Indices: 1219--1264  Score: 56
    Period size: 21  Copynumber: 2.2  Consensus size: 21

       1209 CTCGGAAGGT

                  *     *   *  * 
       1219 TTCAGGTTTCAATGTTTAGGG
          1 TTCAGGGTTCAAGGTTAAGAG

                                 
       1240 TTCAGGGTTCAAGGTTAAGAG
          1 TTCAGGGTTCAAGGTTAAGAG

                
       1261 TTCA
          1 TTCA

       1265 AGTTAAAAAA


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37


Consensus pattern (21 bp):   
TTCAGGGTTCAAGGTTAAGAG

Found at i:2045 original size:3 final size:3

Alignment explanation


    Indices: 2039--2064  Score: 52
    Period size: 3  Copynumber: 8.7  Consensus size: 3

       2029 GTGGTGAGAG

                                              
       2039 TTA TTA TTA TTA TTA TTA TTA TTA TT
          1 TTA TTA TTA TTA TTA TTA TTA TTA TT

       2065 TAAATCAGTT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   23  1.00

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (3 bp):   
TTA

Done.