Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold697

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: 9679
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33


Found at i:4138 original size:122 final size:123

Alignment explanation


    Indices: 3909--4155  Score: 487
    Period size: 122  Copynumber: 2.0  Consensus size: 123

       3899 TTTTAGTGGT

                                                                             
       3909 GTCAAAACTAGTGGTTTCGGGACAACAATTTTGACAGGTGAGTCAGTAAATATTATTTATTTAAT
          1 GTCAAAACTAGTGGTTTCGGGACAACAATTTTGACAGGTGAGTCAGTAAATATTATTTATTTAAT

                                                                      
       3974 ATTTAAAAATATTTATTAGTGTCATATTAAAATTTGGTGAAGAAATTTTGAATTTTTA
         66 ATTTAAAAATATTTATTAGTGTCATATTAAAATTTGGTGAAGAAATTTTGAATTTTTA

                                                                             
       4032 GTCAAAACTAG-GGTTTCGGGACAACAATTTTGACAGGTGAGTCAGTAAATATTATTTATTTAAT
          1 GTCAAAACTAGTGGTTTCGGGACAACAATTTTGACAGGTGAGTCAGTAAATATTATTTATTTAAT

                                                                      
       4096 ATTTAAAAATATTTATTAGTGTCATATTAAAATTTGGTGAAGAAATTTTGAATTTTTA
         66 ATTTAAAAATATTTATTAGTGTCATATTAAAATTTGGTGAAGAAATTTTGAATTTTTA

              
       4154 GT
          1 GT

       4156 TAGTTAATTA


Statistics
Matches: 124,  Mismatches: 0, Indels: 1
        0.99            0.00        0.01

Matches are distributed among these distances:
 122  113  0.91
 123   11  0.09

ACGTcount: A:0.36, C:0.06, G:0.17, T:0.40


Consensus pattern (123 bp):   
GTCAAAACTAGTGGTTTCGGGACAACAATTTTGACAGGTGAGTCAGTAAATATTATTTATTTAAT
ATTTAAAAATATTTATTAGTGTCATATTAAAATTTGGTGAAGAAATTTTGAATTTTTA

Found at i:8056 original size:26 final size:26

Alignment explanation


    Indices: 8022--8073  Score: 95
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       8012 AATAAAAGAA

                                      
       8022 AACATTCAATATTTCAGTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

                          *           
       8048 AACATTCAATATTTTAGTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

       8074 CATTAATTTT


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  26   25  1.00

ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44


Consensus pattern (26 bp):   
AACATTCAATATTTCAGTTTAATTAG
Done.