Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold655

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: 10683
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31


Found at i:8295 original size:40 final size:40

Alignment explanation


    Indices: 8209--8424  Score: 307
    Period size: 40  Copynumber: 5.5  Consensus size: 40

       8199 CGGATGATAA

                                     *  *            
       8209 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAG-TACTAGT-T
          1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT

                                                    
       8248 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
          1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT

                                 *                  
       8288 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
          1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT

                                   *                
       8328 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
          1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT

                    *                *               
       8368 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
          1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT

                 *   *         
       8407 CC-GGTTAAATCCCGAAGG
          1 CCGGGCTAAGTCCCGAAGG

       8425 TACTTGGCTT


Statistics
Matches: 163,  Mismatches: 11, Indels: 7
        0.90            0.06        0.04

Matches are distributed among these distances:
  38   15  0.09
  39   45  0.28
  40  103  0.63

ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25


Consensus pattern (40 bp):   
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT

Done.