Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00672.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: 4009
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28


Found at i:2150 original size:24 final size:24

Alignment explanation


    Indices: 2121--2172  Score: 104
    Period size: 24  Copynumber: 2.2  Consensus size: 24

       2111 CATATACTTG

                                    
       2121 TGATAATGCCTCAGCAGTTTTTGA
          1 TGATAATGCCTCAGCAGTTTTTGA

                                    
       2145 TGATAATGCCTCAGCAGTTTTTGA
          1 TGATAATGCCTCAGCAGTTTTTGA

                
       2169 TGAT
          1 TGAT

       2173 GAAGGTACTT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   28  1.00

ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38


Consensus pattern (24 bp):   
TGATAATGCCTCAGCAGTTTTTGA

Found at i:3385 original size:108 final size:102

Alignment explanation


    Indices: 3018--3401  Score: 475
    Period size: 102  Copynumber: 3.7  Consensus size: 102

       3008 ATTTTGATTC

                           *        *            *         *           *     
       3018 AGGAAATAGTGATTCCGATGAAGAACTTCCTAAAACACGTTCAAAGGTTCATTCAAGCATTGGTT
          1 AGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAAAGGCTCATTCAAGCACTGGTT

                     *            *  *   *  *    
       3083 TTTCTCACAAGACAACTGCCTCCCCGAATTCAGGAAA
         66 TTTCTCACAGGACAACTGCCTCTCCAAATGCAAGAAA

                                                              *         ***  
       3120 AGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAAAGGCTCGTTCAAGCACAATTT
          1 AGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAAAGGCTCATTCAAGCACTGGTT

                   *                              
       3185 TTTCTCATAGGACAACTGCCTCTCCAAATGCACA-AAA
         66 TTTCTCACAGGACAACTGCCTCTCCAAATGCA-AGAAA

                                                          *   *            * 
       3222 AGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAAAGACTCGTTCAAGCA-TGATT
          1 AGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAAAGGCTCATTCAAGCACTG-GT

                    *                              
       3286 TTTTCTCAGAGGACAACTGCCTCTCCAAATGCAAGAAGA
         65 TTTTCTCACAGGACAACTGCCTCTCCAAATGCAAGAA-A

                       *    *                  **                            
       3325 GGTCCAGGAAACAGTGGTTCTGATGAAGATCTTCCGGAAACAAGTTCAAAGGCTCATTCAAGCAC
          1 -----AGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAAAGGCTCATTCAAGCAC

                        
       3390 TGGTTTTTCTCA
         61 TGGTTTTTCTCA

       3402 TAAGAGAAAA


Statistics
Matches: 246,  Mismatches: 26, Indels: 14
        0.86            0.09        0.05

Matches are distributed among these distances:
 101    1  0.00
 102  180  0.73
 103    1  0.00
 108   62  0.25
 109    2  0.01

ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26


Consensus pattern (102 bp):   
AGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAAAGGCTCATTCAAGCACTGGTT
TTTCTCACAGGACAACTGCCTCTCCAAATGCAAGAAA
Done.