Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g02721.F12

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: 3918
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31


Found at i:1269 original size:69 final size:69

Alignment explanation


    Indices: 1154--1285  Score: 167
    Period size: 69  Copynumber: 1.9  Consensus size: 69

       1144 GCCGCTTACG

                        **       *     *     *                    *  *       
       1154 GTGGATAATGTTGTCTCTGCTTCTGCTGAAGTTTCCCCAAGCCCTCACCCTTGCGCTGACAAAGG
          1 GTGGATAATGTTACCTCTGCTGCTGCTCAAGTTCCCCCAAGCCCTCACCCTTGCACTAACAAAGG

                
       1219 GAAC
         66 GAAC

                                                      *     *               
       1223 GTGGATAATGTTACCTCTGCTGCTGCTCAAG-TCCCCTCAAGTCCTCATCCTTGCACTAACAAA
          1 GTGGATAATGTTACCTCTGCTGCTGCTCAAGTTCCCC-CAAGCCCTCACCCTTGCACTAACAAA

       1286 AAGAACAAGA


Statistics
Matches: 53,  Mismatches: 9, Indels: 2
        0.83            0.14        0.03

Matches are distributed among these distances:
  68    4  0.08
  69   49  0.92

ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28


Consensus pattern (69 bp):   
GTGGATAATGTTACCTCTGCTGCTGCTCAAGTTCCCCCAAGCCCTCACCCTTGCACTAACAAAGG
GAAC

Found at i:2235 original size:243 final size:243

Alignment explanation


    Indices: 1807--2293  Score: 884
    Period size: 243  Copynumber: 2.0  Consensus size: 243

       1797 CAAGTGTTGT

                         *                                                   
       1807 TGATTTGACAGCTTCTGTTACTGATCCCCTCCCTAAAGCCTTAGAAGTTGCTGAGAGATTAGTAT
          1 TGATTTGACAGCTACTGTTACTGATCCCCTCCCTAAAGCCTTAGAAGTTGCTGAGAGATTAGTAT

                                         *                                   
       1872 CTTTCATGGAAGCAGCTAAAAGTTTAAGTGCAGAAGGTGCTGAAGGGGATGTAAGGAAGGAAAAG
         66 CTTTCATGGAAGCAGCTAAAAGTTTAAGTACAGAAGGTGCTGAAGGGGATGTAAGGAAGGAAAAG

                                                 *                           
       1937 GGTGTTCCTGCAGCACCTATGAATTGTAATTTTGAACGGGCTCAAGCTGAGAGGAGGGAACCTGA
        131 GGTGTTCCTGCAGCACCTATGAATTGTAATTTTGAACAGGCTCAAGCTGAGAGGAGGGAACCTGA

                                                            
       2002 CAAGGCCATCAGAGAAGACCAGGACAAGATGAACAGGAGTGTTCCTGC
        196 CAAGGCCATCAGAGAAGACCAGGACAAGATGAACAGGAGTGTTCCTGC

                               *     *                                       
       2050 TGATTTGACAGCTACTGTTGCTGATTCCCTCCCTAAAGCCTTAGAAGTTGCTGAGAGATTAGTAT
          1 TGATTTGACAGCTACTGTTACTGATCCCCTCCCTAAAGCCTTAGAAGTTGCTGAGAGATTAGTAT

                     *                     *                                 
       2115 CTTTCATGGCAGCAGCTAAAAGTTTAAGTACTGAAGGTGCTGAAGGGGATGTAAGGAAGGAAAAG
         66 CTTTCATGGAAGCAGCTAAAAGTTTAAGTACAGAAGGTGCTGAAGGGGATGTAAGGAAGGAAAAG

                                                                      *      
       2180 GGTGTTCCTGCAGCACCTATGAATTGTAATTTTGAACAGGCTCAAGCTGAGAGGAGGGCACCTGA
        131 GGTGTTCCTGCAGCACCTATGAATTGTAATTTTGAACAGGCTCAAGCTGAGAGGAGGGAACCTGA

                                           **               
       2245 CAAGGCCATCAGAGAAGACCAGGACAAGATGGGCAGGAGTGTTCCTGC
        196 CAAGGCCATCAGAGAAGACCAGGACAAGATGAACAGGAGTGTTCCTGC

             
       2293 T
          1 T

       2294 TCGTCTGTTG


Statistics
Matches: 234,  Mismatches: 10, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 243  234  1.00

ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24


Consensus pattern (243 bp):   
TGATTTGACAGCTACTGTTACTGATCCCCTCCCTAAAGCCTTAGAAGTTGCTGAGAGATTAGTAT
CTTTCATGGAAGCAGCTAAAAGTTTAAGTACAGAAGGTGCTGAAGGGGATGTAAGGAAGGAAAAG
GGTGTTCCTGCAGCACCTATGAATTGTAATTTTGAACAGGCTCAAGCTGAGAGGAGGGAACCTGA
CAAGGCCATCAGAGAAGACCAGGACAAGATGAACAGGAGTGTTCCTGC
Done.