Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_2960

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: 20846
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:10075 original size:21 final size:24

Alignment explanation


    Indices: 10049--10091  Score: 65
    Period size: 24  Copynumber: 1.9  Consensus size: 24

      10039 TTGTTTCATT

                                    
      10049 AAAAA-TAA-TTT-TTAAAAATTC
          1 AAAAATTAATTTTATTAAAAATTC

                                  
      10070 AAAAATTAATTTTATTAAAAAT
          1 AAAAATTAATTTTATTAAAAAT

      10092 ATTTAATTTT


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  21    5  0.26
  22    3  0.16
  23    3  0.16
  24    8  0.42

ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40


Consensus pattern (24 bp):   
AAAAATTAATTTTATTAAAAATTC

Found at i:10091 original size:16 final size:17

Alignment explanation


    Indices: 10070--10120  Score: 52
    Period size: 17  Copynumber: 2.9  Consensus size: 17

      10060 TTAAAAATTC

                              
      10070 AAAAA-TTAATTTTATTA
          1 AAAAACTTAATTTT-TTA

                  *           
      10087 AAAATATTTAATTTTTT-
          1 AAAA-ACTTAATTTTTTA

                             
      10104 AAAAACTTAATCTTTTT
          1 AAAAACTTAAT-TTTTT

      10121 TGATAAGTCA


Statistics
Matches: 30,  Mismatches: 1, Indels: 6
        0.81            0.03        0.16

Matches are distributed among these distances:
  16    6  0.20
  17   13  0.43
  18    3  0.10
  19    8  0.27

ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51


Consensus pattern (17 bp):   
AAAAACTTAATTTTTTA
Done.