Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1298

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: 2620
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35


Found at i:335 original size:22 final size:21

Alignment explanation


    Indices: 310--363  Score: 56
    Period size: 21  Copynumber: 2.5  Consensus size: 21

        300 GTCTAAATAA

                               ** 
        310 AAAATTTTAAATTCATGAATTT
          1 AAAATTTTAAATT-ATGAAACT

                          *       
        332 AAAA-TTTATAATTTTGAAACT
          1 AAAATTTTA-AATTATGAAACT

                       
        353 AAAATTTTAAA
          1 AAAATTTTAAA

        364 ATTAAAATCT


Statistics
Matches: 27,  Mismatches: 3, Indels: 5
        0.77            0.09        0.14

Matches are distributed among these distances:
  21   15  0.56
  22   12  0.44

ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43


Consensus pattern (21 bp):   
AAAATTTTAAATTATGAAACT

Found at i:2476 original size:2 final size:2

Alignment explanation


    Indices: 2463--2500  Score: 67
    Period size: 2  Copynumber: 19.0  Consensus size: 2

       2453 TCATGAAACC

                   *                                                
       2463 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       2501 GTATGTACAC


Statistics
Matches: 34,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47


Consensus pattern (2 bp):   
AT

Done.