Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g01290.P1

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: 5416
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36


Found at i:1001 original size:212 final size:211

Alignment explanation


    Indices: 505--1134  Score: 921
    Period size: 212  Copynumber: 3.0  Consensus size: 211

        495 GAATGAGAAG

                                                              *     *      * 
        505 CTTTTATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGGATGATATTCAATCC
          1 CTTTTATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAATTC

                                           *                    * *     * *  
        570 TTTCATGTACTTTATTTCCCATTGAATGTGGCTTTTTCAATTTGTTTTCATTGCATCATTCGGTA
         66 TTTCATGTACTTTATTTCCCATTGAATGTGGTTTTTTCAATTTGTTTTCATTACTTCATTTGATA

                                  *           * *            *    *          
        635 TGAGCTATGTTACCCAGGCTC-GGTGGATCTTGGTTTCTGACATTTGTCTAACATTGATATGCTA
        131 TGAGCTATGTTACCCAGGCTCAAGT-GATCTTGGATGCTGACATTTGTCCAACACTGATATGCTA

                              
        699 AACCTTT-TAAAGTGAAT
        195 AACCTTTCT-AAGTGAAT

                           *                                             *   
        716 C-TTTATTTGTTTGCATCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAGTTC
          1 CTTTTATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAATTC

             *          *                                                    
        780 TCTCATGTACTTCATTTCCCATTGAATGTGGTTTTTTCAATTTGTTTTCATTACTTCATTTGATA
         66 TTTCATGTACTTTATTTCCCATTGAATGTGGTTTTTTCAATTTGTTTTCATTACTTCATTTGATA

                           *                          *              *       
        845 TGAGCTATGTTACCCGGGCTCAAGTGACTCTTGGATGCTGACTTTTGTCCAACACTGGTATGCTA
        131 TGAGCTATGTTACCCAGGCTCAAGTGA-TCTTGGATGCTGACATTTGTCCAACACTGATATGCTA

                      *      
        910 AACCTTTCTAGGTGAAT
        195 AACCTTTCTAAGTGAAT

                                                                             
        927 CTTTTATTTGTTTGCTTCACTGCTTGGGTTGAATCCAA-GATTGCAAAAAGAATGATCTTCAATT
          1 CTTTTATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATG-TTGCAAAAAGAATGATCTTCAATT

                                                               *   *       * 
        991 CTTTCATGTACTTTATTTCCCATTGAATGTGGTTTTTTCAAATTT-TTTTCTTTATTTCA-TTCA
         65 CTTTCATGTACTTTATTTCCCATTGAATGTGGTTTTTTC-AATTTGTTTTCATTACTTCATTTGA

                   *                     *                                   
       1054 GTATGAGGTATGTTACCCAGGCTCAAGTCAATCTTGGATGCTGACATTTGTCCAACACTGATATG
        129 -TATGAGCTATGTTACCCAGGCTCAAGT-GATCTTGGATGCTGACATTTGTCCAACACTGATATG

                            
       1119 CTAAACCTTTCTAAGT
        192 CTAAACCTTTCTAAGT

       1135 TTTTCATATA


Statistics
Matches: 377,  Mismatches: 34, Indels: 15
        0.88            0.08        0.04

Matches are distributed among these distances:
 210  138  0.37
 211   53  0.14
 212  180  0.48
 213    6  0.02

ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42


Consensus pattern (211 bp):   
CTTTTATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAATTC
TTTCATGTACTTTATTTCCCATTGAATGTGGTTTTTTCAATTTGTTTTCATTACTTCATTTGATA
TGAGCTATGTTACCCAGGCTCAAGTGATCTTGGATGCTGACATTTGTCCAACACTGATATGCTAA
ACCTTTCTAAGTGAAT

Found at i:1360 original size:34 final size:34

Alignment explanation


    Indices: 1322--1389  Score: 136
    Period size: 34  Copynumber: 2.0  Consensus size: 34

       1312 TTAGTTGATT

                                              
       1322 TCTCCTTTATGAATGTAAAAAGTCTTTGAAACTA
          1 TCTCCTTTATGAATGTAAAAAGTCTTTGAAACTA

                                              
       1356 TCTCCTTTATGAATGTAAAAAGTCTTTGAAACTA
          1 TCTCCTTTATGAATGTAAAAAGTCTTTGAAACTA

       1390 ACTTCCTCCT


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  34   34  1.00

ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38


Consensus pattern (34 bp):   
TCTCCTTTATGAATGTAAAAAGTCTTTGAAACTA
Done.