Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g02484.N3

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, 846

Length: 1411
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32


Found at i:492 original size:25 final size:25

Alignment explanation


    Indices: 464--513  Score: 100
    Period size: 25  Copynumber: 2.0  Consensus size: 25

        454 TTATCCCCTT

                                     
        464 AAATGATATCCATTAAAAGCAGGAG
          1 AAATGATATCCATTAAAAGCAGGAG

                                     
        489 AAATGATATCCATTAAAAGCAGGAG
          1 AAATGATATCCATTAAAAGCAGGAG

        514 CTTGTTCAAG


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   25  1.00

ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20


Consensus pattern (25 bp):   
AAATGATATCCATTAAAAGCAGGAG

Found at i:806 original size:43 final size:44

Alignment explanation


    Indices: 745--837  Score: 154
    Period size: 43  Copynumber: 2.2  Consensus size: 44

        735 TCCTAATTGG

                                                        
        745 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
          1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA

                                 *             *        
        788 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
          1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA

                   
        832 -AAAATA
          1 GAAAATA

        838 TTTCTAGAAT


Statistics
Matches: 47,  Mismatches: 2, Indels: 2
        0.92            0.04        0.04

Matches are distributed among these distances:
  43   46  0.98
  44    1  0.02

ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28


Consensus pattern (44 bp):   
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA

Found at i:881 original size:19 final size:18

Alignment explanation


    Indices: 859--898  Score: 55
    Period size: 19  Copynumber: 2.2  Consensus size: 18

        849 TGAATAAAAC

                                
        859 TTATCTA-CTCAAATAAGAT
          1 TTATCTACCT-AAATAA-AT

                              
        878 TTATCTACCTAAATAAAT
          1 TTATCTACCTAAATAAAT

               
        896 TTA
          1 TTA

        899 AAATATATAC


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

Matches are distributed among these distances:
  18    5  0.25
  19   13  0.65
  20    2  0.10

ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40


Consensus pattern (18 bp):   
TTATCTACCTAAATAAAT
Done.