Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00254.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, 601

Length: 1002
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33


Found at i:926 original size:24 final size:24

Alignment explanation


    Indices: 899--974  Score: 68
    Period size: 24  Copynumber: 3.2  Consensus size: 24

        889 TAAATGAGTC

                                    
        899 TTAACATGAATATGTATTTGGATG
          1 TTAACATGAATATGTATTTGGATG

                  *  *    *      *     
        923 TTAA-AAGTCATATTTA-TT-CATTAG
          1 TTAACATG-AATATGTATTTGGA-T-G

                                    
        947 TTAACATGAATATGTATTTGGATG
          1 TTAACATGAATATGTATTTGGATG

                
        971 TTAA
          1 TTAA

        975 AAGTCATATT


Statistics
Matches: 38,  Mismatches: 8, Indels: 12
        0.66            0.14        0.21

Matches are distributed among these distances:
  22    1  0.03
  23    5  0.13
  24   26  0.68
  25    5  0.13
  26    1  0.03

ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43


Consensus pattern (24 bp):   
TTAACATGAATATGTATTTGGATG

Found at i:970 original size:48 final size:48

Alignment explanation


    Indices: 899--994  Score: 192
    Period size: 48  Copynumber: 2.0  Consensus size: 48

        889 TAAATGAGTC

                                                            
        899 TTAACATGAATATGTATTTGGATGTTAAAAGTCATATTTATTCATTAG
          1 TTAACATGAATATGTATTTGGATGTTAAAAGTCATATTTATTCATTAG

                                                            
        947 TTAACATGAATATGTATTTGGATGTTAAAAGTCATATTTATTCATTAG
          1 TTAACATGAATATGTATTTGGATGTTAAAAGTCATATTTATTCATTAG

        995 GGCAAACT


Statistics
Matches: 48,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  48   48  1.00

ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44


Consensus pattern (48 bp):   
TTAACATGAATATGTATTTGGATGTTAAAAGTCATATTTATTCATTAG

Found at i:983 original size:24 final size:24

Alignment explanation


    Indices: 908--988  Score: 69
    Period size: 24  Copynumber: 3.4  Consensus size: 24

        898 CTTAACATGA

                                    
        908 ATATGTATTTGGATGTTAAAAGTC
          1 ATATGTATTTGGATGTTAAAAGTC

                *      *         *    *
        932 ATATTTA-TT-CATTAGTTAACA-TGA
          1 ATATGTATTTGGA-T-GTTAAAAGT-C

                                    
        956 ATATGTATTTGGATGTTAAAAGTC
          1 ATATGTATTTGGATGTTAAAAGTC

                *    
        980 ATATTTATT
          1 ATATGTATT

        989 CATTAGGGCA


Statistics
Matches: 42,  Mismatches: 9, Indels: 12
        0.67            0.14        0.19

Matches are distributed among these distances:
  22    1  0.02
  23    4  0.10
  24   32  0.76
  25    4  0.10
  26    1  0.02

ACGTcount: A:0.35, C:0.05, G:0.15, T:0.46


Consensus pattern (24 bp):   
ATATGTATTTGGATGTTAAAAGTC
Done.