Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1082

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: 2896
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.28

Warning! 372 characters in sequence are not A, C, G, or T


Found at i:2218 original size:174 final size:172

Alignment explanation


    Indices: 1970--2335  Score: 529
    Period size: 174  Copynumber: 2.1  Consensus size: 172

       1960 GGGGGGGGGC

                *                      *                                     
       1970 TTGGAGGGGTCCCCATGATTGGTCGAGGGGGCAAATTTGGATTCTCGTTAAGAACTCCCTATAGA
          1 TTGGGGGGGTCCCCATGATTGGTCGAGAGGGCAAATTTGGATTCTCGTTAAGAACTCCCTATAGA

                                                           *     *           
       2035 TGAGAAATTAAATGAGAAAAAAA-GTTCTGCTCCCAAAACATGCGATGGTAGCCGAAAAACGAGA
         66 TGAGAAATTAAATGAGAAAAAAATG-TCTGCTCCCAAAACATGCGATAGTAGCAGAAAAACGAGA

                      *    *                              
       2099 GAAAATAACCGATTTTTGACAGTTGTTTCGAT-TATGGAGGGGTTT
        130 GAAAATAACCAATTTCTGACAGTTGTTTCGATGT-T-G-GGGGTTT

                                          *                                  
       2144 TTGGGGGGGTCCCCATGATTGGTCGAGAGGTCAAATTTGGATTCTCGTTAAGAACTCCCTATAGA
          1 TTGGGGGGGTCCCCATGATTGGTCGAGAGGGCAAATTTGGATTCTCGTTAAGAACTCCCTATAGA

                      *                     *      *    *           *        
       2209 TGAGAAATTATATGAGAAAAAAATGTCTGCTCTCAAAACGTGCGCTAGTAGCAGAACAACGAGAG
         66 TGAGAAATTAAATGAGAAAAAAATGTCTGCTCCCAAAACATGCGATAGTAGCAGAAAAACGAGAG

                               *   *   *              
       2274 AAAATAACCAATTTCTGACTGTTTTTTTGATGTTGGGGGTTT
        131 AAAATAACCAATTTCTGACAGTTGTTTCGATGTTGGGGGTTT

             *        *         
       2316 TCGGGGGGGTTCCCATGATT
          1 TTGGGGGGGTCCCCATGATT

       2336 TTTGGGTTCC


Statistics
Matches: 173,  Mismatches: 17, Indels: 6
        0.88            0.09        0.03

Matches are distributed among these distances:
 172   25  0.14
 173    1  0.01
 174  145  0.84
 175    2  0.01

ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28


Consensus pattern (172 bp):   
TTGGGGGGGTCCCCATGATTGGTCGAGAGGGCAAATTTGGATTCTCGTTAAGAACTCCCTATAGA
TGAGAAATTAAATGAGAAAAAAATGTCTGCTCCCAAAACATGCGATAGTAGCAGAAAAACGAGAG
AAAATAACCAATTTCTGACAGTTGTTTCGATGTTGGGGGTTT
Done.