Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2399

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: 8111
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32


Found at i:2004 original size:21 final size:22

Alignment explanation


    Indices: 1978--2018  Score: 59
    Period size: 21  Copynumber: 1.9  Consensus size: 22

       1968 GAGGAAAAAG

                                   
       1978 AAAAAGAGAA-TGAA-AAAGAGC
          1 AAAAAGA-AATTGAAGAAAGAGC

                                
       1999 AAAAAGAAATTGAAGAAAGA
          1 AAAAAGAAATTGAAGAAAGA

       2019 AGAGAAAATG


Statistics
Matches: 18,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  20    2  0.11
  21   11  0.61
  22    5  0.28

ACGTcount: A:0.68, C:0.02, G:0.22, T:0.07


Consensus pattern (22 bp):   
AAAAAGAAATTGAAGAAAGAGC

Found at i:4191 original size:44 final size:46

Alignment explanation


    Indices: 4136--4225  Score: 166
    Period size: 44  Copynumber: 2.0  Consensus size: 46

       4126 AGATCTGGAA

                                                          
       4136 ATTCAAAAGTTCTAATCTTTTAATTTTTCTGTTTCGTTTC-GATCT
          1 ATTCAAAAGTTCTAATCTTTTAATTTTTCTGTTTCGTTTCGGATCT

                                                          
       4181 ATTC-AAAGTTCTAATCTTTTAATTTTTCTGTTTCGTTTCGGATCT
          1 ATTCAAAAGTTCTAATCTTTTAATTTTTCTGTTTCGTTTCGGATCT

       4226 GATTGTTTAG


Statistics
Matches: 44,  Mismatches: 0, Indels: 2
        0.96            0.00        0.04

Matches are distributed among these distances:
  44   35  0.80
  45    9  0.20

ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53


Consensus pattern (46 bp):   
ATTCAAAAGTTCTAATCTTTTAATTTTTCTGTTTCGTTTCGGATCT
Done.