Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4622

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, 304

Length: 508
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24


Found at i:151 original size:41 final size:41

Alignment explanation


    Indices: 89--176  Score: 158
    Period size: 41  Copynumber: 2.1  Consensus size: 41

         79 CCTAGCCCAC

                                                      
         89 TTTCTCCATCAAATCATCATAATTTTGTGAATATACACTAAT
          1 TTTC-CCATCAAATCATCATAATTTTGTGAATATACACTAAT

                                               *     
        131 TTTCCCATCAAATCATCATAATTTTGTGAATATACCCTAAT
          1 TTTCCCATCAAATCATCATAATTTTGTGAATATACACTAAT

                 
        172 TTTCC
          1 TTTCC

        177 TGAAACACTC


Statistics
Matches: 45,  Mismatches: 1, Indels: 1
        0.96            0.02        0.02

Matches are distributed among these distances:
  41   41  0.91
  42    4  0.09

ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41


Consensus pattern (41 bp):   
TTTCCCATCAAATCATCATAATTTTGTGAATATACACTAAT

Found at i:332 original size:17 final size:15

Alignment explanation


    Indices: 310--353  Score: 56
    Period size: 13  Copynumber: 2.9  Consensus size: 15

        300 CGGTCATTAG

                            
        310 CGGGAGGGAATCGGAT
          1 CGGGAGGGAATCGG-T

                            
        326 CCGGGAGGGAATC--T
          1 -CGGGAGGGAATCGGT

                          
        340 CGGGAGGGAATCGG
          1 CGGGAGGGAATCGG

        354 GTGCCGCCCC


Statistics
Matches: 25,  Mismatches: 0, Indels: 6
        0.81            0.00        0.19

Matches are distributed among these distances:
  13   12  0.48
  14    1  0.04
  17   12  0.48

ACGTcount: A:0.23, C:0.16, G:0.50, T:0.11


Consensus pattern (15 bp):   
CGGGAGGGAATCGGT

Done.