Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g01845.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: 4328
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38


Found at i:1978 original size:127 final size:125

Alignment explanation


    Indices: 1623--2157  Score: 579
    Period size: 127  Copynumber: 4.2  Consensus size: 125

       1613 GTTCAAGAAA

                                    *     * *                                
       1623 TCGTGCCCAATCGTGCTGGGTTTCGATTTTTCGTTC-AGCTAAAATACGGAATATCCTTTCGAAA
          1 TCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGA-CTAAAATACGGAATATCCTTTCGAAA

                           *                                   *           
       1687 TTTCATCCATGTTTTGTTAAAATTAAAATGAGGCAATATTTCGTATTTGGGGAGTTTGGGAAG
         65 TTTCATCCATGTTTTCTT-AAATTAAAATGAGGCAATATTTCGTATTT-GGAAGTTTGGGAAG

                *         **                               * *           *   
       1750 TCGTACCCAATCGTATTGGGTTTCAATTTTCCATTCGACTAAAAATATGAAATATCCTTTTTGAA
          1 TCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGACT-AAAATACGGAATATCC-TTTCGAA

                *     **          *     *               *                  
       1815 ATTTTATCCACATTTTCTTAAAATAAAACGAGGCAATATTTCGTGTTTGGAAGTTTTGGGAAG
         64 ATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAG-TTTGGGAAG

              *          *      *                         *         *   *    
       1878 TCCTGCCCAATCGCGCTGGGCTTCAATTTTCCATTCGACTAAAATATGGAATATCTTTTTTGAAA
          1 TCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGACTAAAATACGGAATATC-CTTTCGAAA

                                 *        *        *   *            *    
       1943 TTTCATCCATGTTTTCTTAAACTAAAATGATGCAATATTCCGTGTTTGGAAGTTTGAG-AG
         65 TTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTTGGGAAG

                        *            **    **     *    *               *   * 
       2003 ATCGTGCCCAATTGTGCTGGGTTTCGTTTTTTTATTCGGCTAAGATACGGAATATCCTTCCGACA
          1 -TCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGACTAAAATACGGAATATCCTTTCGAAA

                             *                  *              *  * **  *
       2068 TTTCATCCATGTTTTCTCAAATTAAAATGAGGCAATGTTTCGTATTTGGAAATTCGATAAA
         65 TTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTTGGGAAG

                                    *    
       2129 TCGTGCCCAATCGTGCTGGGTTTCGATTT
          1 TCGTGCCCAATCGTGCTGGGTTTCAATTT

       2158 ACCGTTTGGG


Statistics
Matches: 341,  Mismatches: 60, Indels: 16
        0.82            0.14        0.04

Matches are distributed among these distances:
 125   83  0.24
 126   50  0.15
 127  103  0.30
 128   84  0.25
 129   21  0.06

ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38


Consensus pattern (125 bp):   
TCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGACTAAAATACGGAATATCCTTTCGAAAT
TTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTTGGGAAG

Found at i:2275 original size:103 final size:103

Alignment explanation


    Indices: 2147--2360  Score: 401
    Period size: 103  Copynumber: 2.1  Consensus size: 103

       2137 AATCGTGCTG

                          *                                                  
       2147 GGTTTCGATTTACCGTTTGGGCCGAAGGGCCGAATAGCCAAATATCCTTTTTAAAAGTTTTAAGT
          1 GGTTTCGATTTACCATTTGGGCCGAAGGGCCGAATAGCCAAATATCCTTTTTAAAAGTTTTAAGT

                                         *        
       2212 GCATGTGTTTTGGAAATCTTGAGATGATCTTGTGTCGA
         66 GCATGTGTTTTGGAAATCTTGAGATGATCCTGTGTCGA

                                                                             
       2250 GGTTTCGATTTACCATTTGGGCCGAAGGGCCGAATAGCCAAATATCCTTTTTAAAAGTTTTAAGT
          1 GGTTTCGATTTACCATTTGGGCCGAAGGGCCGAATAGCCAAATATCCTTTTTAAAAGTTTTAAGT

                                               *  
       2315 GCATGTGTTTTGGAAATCTTGAGATGATCCTGTGTTGA
         66 GCATGTGTTTTGGAAATCTTGAGATGATCCTGTGTCGA

                    
       2353 GGTTTCGA
          1 GGTTTCGA

       2361 AATATTGTAT


Statistics
Matches: 108,  Mismatches: 3, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
 103  108  1.00

ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36


Consensus pattern (103 bp):   
GGTTTCGATTTACCATTTGGGCCGAAGGGCCGAATAGCCAAATATCCTTTTTAAAAGTTTTAAGT
GCATGTGTTTTGGAAATCTTGAGATGATCCTGTGTCGA
Done.