Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold958

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: 3874
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38


Found at i:2016 original size:50 final size:51

Alignment explanation


    Indices: 1948--2079  Score: 160
    Period size: 50  Copynumber: 2.6  Consensus size: 51

       1938 GTATGTTCTG

                *        *               *                      
       1948 CATTTAATAAAGTTATGCATTATGTAACTTCCATGCTAG-TTAAGTATGCAT
          1 CATTAAAT-AAGTCATGCATTATGTAACTCCCATGCTAGTTTAAGTATGCAT

                                               *          *     
       1999 CA-TAAATAATGTCATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
          1 CATTAAATAA-GTCATGCATTATGTAACTCCCATGCTAGTTTAAGTATGCAT

                          *       *       
       2050 CATTAAATTAAGTCTTGCATTAAGTAACTC
          1 CATTAAA-TAAGTCATGCATTATGTAACTC

       2080 ATTTGTCATT


Statistics
Matches: 70,  Mismatches: 7, Indels: 7
        0.83            0.08        0.08

Matches are distributed among these distances:
  49    2  0.03
  50   29  0.41
  51   15  0.21
  52   21  0.30
  53    3  0.04

ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38


Consensus pattern (51 bp):   
CATTAAATAAGTCATGCATTATGTAACTCCCATGCTAGTTTAAGTATGCAT

Found at i:3801 original size:36 final size:36

Alignment explanation


    Indices: 3761--3834  Score: 139
    Period size: 36  Copynumber: 2.1  Consensus size: 36

       3751 TGGAAATGGA

                                                
       3761 AATGATAGTTGAATGTGCATATTATAAATGTCTTAT
          1 AATGATAGTTGAATGTGCATATTATAAATGTCTTAT

                                      *         
       3797 AATGATAGTTGAATGTGCATATTATATATGTCTTAT
          1 AATGATAGTTGAATGTGCATATTATAAATGTCTTAT

              
       3833 AA
          1 AA

       3835 CAAAAACAGG


Statistics
Matches: 37,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  36   37  1.00

ACGTcount: A:0.36, C:0.05, G:0.16, T:0.42


Consensus pattern (36 bp):   
AATGATAGTTGAATGTGCATATTATAAATGTCTTAT
Done.