Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold911

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: 11483
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31


Found at i:1405 original size:39 final size:40

Alignment explanation


    Indices: 1292--1435  Score: 184
    Period size: 39  Copynumber: 3.6  Consensus size: 40

       1282 TACTCGAATG

                                     *                
       1292 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
          1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT

             *      *                               
       1333 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
          1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT

                                        *      *   *
       1373 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGACC
          1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT

                     *     *        
       1412 ATATCCGGGTTAAGACCCGAAGGC
          1 ATATCCGGGCTAAGATCCGAAGGC

       1436 TTGTGCGAGT


Statistics
Matches: 91,  Mismatches: 10, Indels: 5
        0.86            0.09        0.05

Matches are distributed among these distances:
  39   35  0.38
  40   27  0.30
  41   28  0.31
  42    1  0.01

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


Consensus pattern (40 bp):   
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT

Found at i:9325 original size:39 final size:41

Alignment explanation


    Indices: 9216--9397  Score: 241
    Period size: 39  Copynumber: 4.6  Consensus size: 41

       9206 TACTCGAATG

                                    *                
       9216 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
          1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT

                                    *                
       9257 ATATCCGGGCTAAGT-CCGAAGGCTTTTGTGCTAAGCGACT
          1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT

             *      *                                
       9297 ACATCCGGACTAA-T-CCGAAGGCATTTGTGCT-AGCGACT
          1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT

                                        *       *   *
       9335 ATATCCGGGCTAAGTCCCGAA-GCATTTATGCT-AGTGACC
          1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT

                     *    *         
       9374 ATATCCGGGTTAAGACCCGAAGGC
          1 ATATCCGGGCTAAGTCCCGAAGGC

       9398 CTTGTGCGAG


Statistics
Matches: 128,  Mismatches: 10, Indels: 7
        0.88            0.07        0.05

Matches are distributed among these distances:
  38   18  0.14
  39   52  0.41
  40   43  0.34
  41   15  0.12

ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25


Consensus pattern (41 bp):   
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT

Done.