Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Tc04v2_t003410.1

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: 1869
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27


Found at i:550 original size:27 final size:27

Alignment explanation


    Indices: 520--572  Score: 88
    Period size: 27  Copynumber: 2.0  Consensus size: 27

        510 GAGCCTGCCG

                                       
        520 CCACAACCCCAACAACACCACCAACAT
          1 CCACAACCCCAACAACACCACCAACAT

                             *  *     
        547 CCACAACCCCAACAACAGCAGCAACA
          1 CCACAACCCCAACAACACCACCAACA

        573 GCCTCAAAAC


Statistics
Matches: 24,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  27   24  1.00

ACGTcount: A:0.45, C:0.49, G:0.04, T:0.02


Consensus pattern (27 bp):   
CCACAACCCCAACAACACCACCAACAT

Found at i:1342 original size:6 final size:6

Alignment explanation


    Indices: 1323--1361  Score: 51
    Period size: 6  Copynumber: 6.5  Consensus size: 6

       1313 AGGCTAGGGT

                      *      *             *             
       1323 GCACCA GCAACA GCAGCA GCACCA GCAGCA GCACCA GCA
          1 GCACCA GCACCA GCACCA GCACCA GCACCA GCACCA GCA

       1362 ACAACCCCCT


Statistics
Matches: 28,  Mismatches: 5, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
   6   28  1.00

ACGTcount: A:0.36, C:0.41, G:0.23, T:0.00


Consensus pattern (6 bp):   
GCACCA

Found at i:1348 original size:12 final size:12

Alignment explanation


    Indices: 1327--1361  Score: 61
    Period size: 12  Copynumber: 2.9  Consensus size: 12

       1317 TAGGGTGCAC

                 *      
       1327 CAGCAACAGCAG
          1 CAGCACCAGCAG

                        
       1339 CAGCACCAGCAG
          1 CAGCACCAGCAG

                       
       1351 CAGCACCAGCA
          1 CAGCACCAGCA

       1362 ACAACCCCCT


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  12   22  1.00

ACGTcount: A:0.37, C:0.40, G:0.23, T:0.00


Consensus pattern (12 bp):   
CAGCACCAGCAG
Done.