Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold8223.1

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: 5398
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31


Found at i:3497 original size:36 final size:36

Alignment explanation


    Indices: 3453--3523  Score: 133
    Period size: 36  Copynumber: 2.0  Consensus size: 36

       3443 TCTACCAATA

                                                
       3453 AAAGGTCTTAAAACGTGATTCATAAGCCTCATGAAT
          1 AAAGGTCTTAAAACGTGATTCATAAGCCTCATGAAT

                      *                        
       3489 AAAGGTCTTAGAACGTGATTCATAAGCCTCATGAA
          1 AAAGGTCTTAAAACGTGATTCATAAGCCTCATGAA

       3524 CGTGCTTGGG


Statistics
Matches: 34,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  36   34  1.00

ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27


Consensus pattern (36 bp):   
AAAGGTCTTAAAACGTGATTCATAAGCCTCATGAAT

Found at i:4338 original size:51 final size:51

Alignment explanation


    Indices: 4273--4375  Score: 197
    Period size: 51  Copynumber: 2.0  Consensus size: 51

       4263 ACTCATCTTT

                     *                                         
       4273 TTGTTTTTCTTCTTTTCTTCACTCTTTTCTTTATTCTTTTCATTTTTTTGC
          1 TTGTTTTTCCTCTTTTCTTCACTCTTTTCTTTATTCTTTTCATTTTTTTGC

                                                               
       4324 TTGTTTTTCCTCTTTTCTTCACTCTTTTCTTTATTCTTTTCATTTTTTTGC
          1 TTGTTTTTCCTCTTTTCTTCACTCTTTTCTTTATTCTTTTCATTTTTTTGC

             
       4375 T
          1 T

       4376 CTCTCTCGAT


Statistics
Matches: 51,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  51   51  1.00

ACGTcount: A:0.06, C:0.20, G:0.04, T:0.70


Consensus pattern (51 bp):   
TTGTTTTTCCTCTTTTCTTCACTCTTTTCTTTATTCTTTTCATTTTTTTGC

Found at i:5210 original size:30 final size:30

Alignment explanation


    Indices: 5174--5234  Score: 113
    Period size: 30  Copynumber: 2.0  Consensus size: 30

       5164 TTGGACTCTT

                                          
       5174 GCCCCCACTTAATCGTAGAAGAAGTATTAG
          1 GCCCCCACTTAATCGTAGAAGAAGTATTAG

                       *                  
       5204 GCCCCCACTTAGTCGTAGAAGAAGTATTAG
          1 GCCCCCACTTAATCGTAGAAGAAGTATTAG

             
       5234 G
          1 G

       5235 GAAAGAACGG


Statistics
Matches: 30,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  30   30  1.00

ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23


Consensus pattern (30 bp):   
GCCCCCACTTAATCGTAGAAGAAGTATTAG
Done.