Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1926

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: 23225
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35


Found at i:528 original size:16 final size:16

Alignment explanation


    Indices: 489--531  Score: 54
    Period size: 16  Copynumber: 2.8  Consensus size: 16

        479 GATCACTAAG

                            
        489 TTATATTAA-T-ATGT
          1 TTATATTAATTAATGT

               *             
        503 TTGTTATTAATTAATGT
          1 TT-ATATTAATTAATGT

                        
        520 TTATATTAATTA
          1 TTATATTAATTA

        532 GGATTTATTA


Statistics
Matches: 24,  Mismatches: 2, Indels: 4
        0.80            0.07        0.13

Matches are distributed among these distances:
  14    2  0.08
  15    6  0.25
  16   10  0.42
  17    6  0.25

ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58


Consensus pattern (16 bp):   
TTATATTAATTAATGT

Found at i:5423 original size:20 final size:21

Alignment explanation


    Indices: 5400--5448  Score: 59
    Period size: 20  Copynumber: 2.5  Consensus size: 21

       5390 GCATGGTTGA

                                 
       5400 TAGTTGTTGGTGGGC-TTTGT
          1 TAGTTGTTGGTGGGCGTTTGT

                 *  *            
       5420 TAGTTTTTTGTGGGCGTTTGT
          1 TAGTTGTTGGTGGGCGTTTGT

                      
       5441 T-G-TGTTGG
          1 TAGTTGTTGG

       5449 GACTTGTACT


Statistics
Matches: 24,  Mismatches: 4, Indels: 3
        0.77            0.13        0.10

Matches are distributed among these distances:
  19    4  0.17
  20   14  0.58
  21    6  0.25

ACGTcount: A:0.04, C:0.04, G:0.39, T:0.53


Consensus pattern (21 bp):   
TAGTTGTTGGTGGGCGTTTGT

Done.