Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02209.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: 5023
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30


Found at i:2412 original size:143 final size:143

Alignment explanation


    Indices: 2151--2426  Score: 473
    Period size: 143  Copynumber: 1.9  Consensus size: 143

       2141 TTGATAGAAA

                             *      *                           *            
       2151 AGTGTAGGGAAACCATCTAGGCCAGAAGCTTTCAGAGGCACCATATCTTTCATTGCCACCTATAT
          1 AGTGTAGGGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCTATAT

               *       *                                    *                
       2216 TTCTTCCATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTTATACTCATTCGAACAT
         66 TTCCTCCATAGAAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACAT

                         
       2281 TCTTATTTGTGAT
        131 TCTTATTTGTGAT

                                                                          *  
       2294 AGTGTAGGGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCA-CTCGTA
          1 AGTGTAGGGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCT-ATA

                                                                             
       2358 TTTCCTCCATAGAAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACA
         65 TTTCCTCCATAGAAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACA

                
       2423 TTCT
        130 TTCT

       2427 CAAATATTAC


Statistics
Matches: 125,  Mismatches: 7, Indels: 2
        0.93            0.05        0.01

Matches are distributed among these distances:
 142    2  0.02
 143  123  0.98

ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34


Consensus pattern (143 bp):   
AGTGTAGGGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCTATAT
TTCCTCCATAGAAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACAT
TCTTATTTGTGAT

Found at i:3977 original size:20 final size:20

Alignment explanation


    Indices: 3952--3993  Score: 75
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       3942 ATTCCCAAAA

                           *    
       3952 TTACGCCGTATTGAATCACT
          1 TTACGCCGTATTGAAACACT

                                
       3972 TTACGCCGTATTGAAACACT
          1 TTACGCCGTATTGAAACACT

              
       3992 TT
          1 TT

       3994 TCTCATTCAT


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  20   21  1.00

ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36


Consensus pattern (20 bp):   
TTACGCCGTATTGAAACACT
Done.