Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold11366.1

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: 2871
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:1484 original size:72 final size:72

Alignment explanation


    Indices: 1385--1623  Score: 365
    Period size: 72  Copynumber: 3.3  Consensus size: 72

       1375 AAATGCTAAA

                              *                                              
       1385 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
          1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT

                   
       1450 GTGTAAT
         66 GTGTAAT

                          * *     *                             *            
       1457 CTAGTTTTATCAATGGCTGTTTTTGTTTGGTTTTTGGATATTGAATTTATGTACTACTTATTTAT
          1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT

                   
       1522 GTGTAAT
         66 GTGTAAT

               *      *                    *                                 
       1529 CTACTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
          1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT

             *  *   
       1594 ACT-AAAT
         66 -GTGTAAT

                                    
       1601 -TAGTTTTATCAATAGTTGTTTAT
          1 CTAGTTTTATCAATAGTTGTTTAT

       1624 ATATGATTTT


Statistics
Matches: 150,  Mismatches: 16, Indels: 3
        0.89            0.09        0.02

Matches are distributed among these distances:
  71   21  0.14
  72  128  0.85
  73    1  0.01

ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55


Consensus pattern (72 bp):   
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT

Found at i:2517 original size:53 final size:52

Alignment explanation


    Indices: 2453--2558  Score: 203
    Period size: 53  Copynumber: 2.0  Consensus size: 52

       2443 AGGATCGGCA

                                                                
       2453 CATGACACTAGAATATTTCTTGATGCAATTCGAGATCCAAAATATAAATTTC
          1 CATGACACTAGAATATTTCTTGATGCAATTCGAGATCCAAAATATAAATTTC

                                                                 
       2505 CNATGACACTAGAATATTTCTTGATGCAATTCGAGATCCAAAATATAAATTTC
          1 C-ATGACACTAGAATATTTCTTGATGCAATTCGAGATCCAAAATATAAATTTC

             
       2558 C
          1 C

       2559 GCACCCACCA


Statistics
Matches: 53,  Mismatches: 0, Indels: 1
        0.98            0.00        0.02

Matches are distributed among these distances:
  52    1  0.02
  53   52  0.98

ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32


Consensus pattern (52 bp):   
CATGACACTAGAATATTTCTTGATGCAATTCGAGATCCAAAATATAAATTTC
Done.