Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00049.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: 2420
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32


Found at i:1467 original size:82 final size:81

Alignment explanation


    Indices: 1318--1572  Score: 277
    Period size: 81  Copynumber: 3.2  Consensus size: 81

       1308 TTCCCACATA

                       *           *             *  * *     *        *       
       1318 TGGTTATA-CCTCTTTGCATGTTGGTATA-T-GTATATTGTACATTGTTAGACAAAAGGAGCCCA
          1 TGGTTATATCCCCTTTGCATGTTTGTATATTAGTATAATGAATATTGTGAGACAAAAAGAGCCCA

                            
       1380 CGAAGGTTTCTTGCGG
         66 CGAAGGTTTCTTGCGG

                                                              *  *          *
       1396 ATGGTTATATCCCCTTTGCATGTTTGTATATTAGTATAATGAATATTGTGGGATAAAAAGAGCCT
          1 -TGGTTATATCCCCTTTGCATGTTTGTATATTAGTATAATGAATATTGTGAGACAAAAAGAGCCC

            **           *     
       1461 GTGAAGGATTCTCATG-GG
         65 ACGAAGG-TT-TCTTGCGG

                             *             *                        *        
       1479 TGGTTATA-CCCCTTTGTATGTTTGTATATTTGTATAATGAATATTGTGAGACAAAGAGAGCCCA
          1 TGGTTATATCCCCTTTGCATGTTTGTATATTAGTATAATGAATATTGTGAGACAAAAAGAGCCCA

               *  *          
       1543 CGAGGGGTTCTTGCAGG
         66 CGAAGGTTTCTTGC-GG

                         
       1560 TGGTTATATCCCC
          1 TGGTTATATCCCC

       1573 CGGCATGTAT


Statistics
Matches: 144,  Mismatches: 24, Indels: 13
        0.80            0.13        0.07

Matches are distributed among these distances:
  79   12  0.08
  80   19  0.13
  81   64  0.44
  82   41  0.28
  83    4  0.03
  84    4  0.03

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


Consensus pattern (81 bp):   
TGGTTATATCCCCTTTGCATGTTTGTATATTAGTATAATGAATATTGTGAGACAAAAAGAGCCCA
CGAAGGTTTCTTGCGG

Found at i:2303 original size:29 final size:29

Alignment explanation


    Indices: 2255--2313  Score: 82
    Period size: 29  Copynumber: 2.0  Consensus size: 29

       2245 TCGTCACATC

                           *       *     
       2255 CGTCAACAACCTAGTTAGGTTGCTATACT
          1 CGTCAACAACCTAGTCAGGTTGCCATACT

                    *   *                
       2284 CGTCAACATCCTGGTCAGGTTGCCATACT
          1 CGTCAACAACCTAGTCAGGTTGCCATACT

             
       2313 C
          1 C

       2314 TTCATCCTTT


Statistics
Matches: 26,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  29   26  1.00

ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29


Consensus pattern (29 bp):   
CGTCAACAACCTAGTCAGGTTGCCATACT
Done.