Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02473.M2

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: 8940
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29


Found at i:1602 original size:93 final size:93

Alignment explanation


    Indices: 1455--1628  Score: 296
    Period size: 93  Copynumber: 1.9  Consensus size: 93

       1445 GCTTCTTGTG

                                 **  *                       *               
       1455 TGAATGTTGATGATGAGAAGACTCCTGTTGCATCTCCAACAGGTTCATCTGCTGAAAGGAAGTTA
          1 TGAATGTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA

                                        
       1520 ACTCCTGTAGCTGGTGGTTCATCATGTA
         66 ACTCCTGTAGCTGGTGGTTCATCATGTA

                                                                             
       1548 TGAATGTTGATGATG-GAATGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
          1 TGAATGTTGATGATGAGAA-GAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT

                             
       1612 AACTCCTGTAGCTGGTG
         65 AACTCCTGTAGCTGGTG

       1629 AGGTTTTGTC


Statistics
Matches: 76,  Mismatches: 4, Indels: 2
        0.93            0.05        0.02

Matches are distributed among these distances:
  92    3  0.04
  93   73  0.96

ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29


Consensus pattern (93 bp):   
TGAATGTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
ACTCCTGTAGCTGGTGGTTCATCATGTA

Found at i:8621 original size:17 final size:18

Alignment explanation


    Indices: 8599--8637  Score: 55
    Period size: 17  Copynumber: 2.2  Consensus size: 18

       8589 ATAATTAAGT

                               
       8599 AAATT-AATATAAAA-TAA
          1 AAATTAAAT-TAAAATTAA

                              
       8616 AAATTAAATTAAAATTAA
          1 AAATTAAATTAAAATTAA

                
       8634 AAAT
          1 AAAT

       8638 ATTATATTTT


Statistics
Matches: 20,  Mismatches: 0, Indels: 3
        0.87            0.00        0.13

Matches are distributed among these distances:
  17   10  0.50
  18   10  0.50

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


Consensus pattern (18 bp):   
AAATTAAATTAAAATTAA
Done.