Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01935.F2

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, 771

Length: 1285
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36


Found at i:431 original size:3 final size:3

Alignment explanation


    Indices: 423--454  Score: 64
    Period size: 3  Copynumber: 10.7  Consensus size: 3

        413 TCTAAAATTT

                                                      
        423 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
          1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT

        455 TTTTTCTCTT


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   29  1.00

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


Consensus pattern (3 bp):   
TTC

Found at i:1237 original size:21 final size:21

Alignment explanation


    Indices: 1211--1254  Score: 88
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       1201 CAGAAAAAAG

                                 
       1211 TTATGTACTAAAATTTGATCA
          1 TTATGTACTAAAATTTGATCA

                                 
       1232 TTATGTACTAAAATTTGATCA
          1 TTATGTACTAAAATTTGATCA

              
       1253 TT
          1 TT

       1255 CTGCATAAAA


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

Matches are distributed among these distances:
  21   23  1.00

ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45


Consensus pattern (21 bp):   
TTATGTACTAAAATTTGATCA

Found at i:1265 original size:21 final size:21

Alignment explanation


    Indices: 1211--1264  Score: 74
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       1201 CAGAAAAAAG

                 *               
       1211 TTATGTACTAAAATTTGATCA
          1 TTATGCACTAAAATTTGATCA

                 *               
       1232 TTATGTACTAAAATTTGATCA
          1 TTATGCACTAAAATTTGATCA

              *          
       1253 TTCTGCA-TAAAA
          1 TTATGCACTAAAA

       1265 AATAATAGGT


Statistics
Matches: 31,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
  20    5  0.16
  21   26  0.84

ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41


Consensus pattern (21 bp):   
TTATGCACTAAAATTTGATCA
Done.