Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2781

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, 509

Length: 849
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33


Found at i:213 original size:15 final size:14

Alignment explanation


    Indices: 208--247  Score: 71
    Period size: 15  Copynumber: 2.8  Consensus size: 14

        198 TTCTTTCAAG

                          
        208 TTTTTTTTCAAATT
          1 TTTTTTTTCAAATT

                           
        222 TTTTTTTTCAAACTT
          1 TTTTTTTTCAAA-TT

                       
        237 TTTTTTTTCAA
          1 TTTTTTTTCAA

        248 TTCACGAACC


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

Matches are distributed among these distances:
  14   12  0.48
  15   13  0.52

ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70


Consensus pattern (14 bp):   
TTTTTTTTCAAATT

Found at i:216 original size:12 final size:12

Alignment explanation


    Indices: 195--242  Score: 51
    Period size: 13  Copynumber: 3.7  Consensus size: 12

        185 ATACAATTTT

                        *
        195 TTTTTCTTTCAAG
          1 TTTTT-TTTCAAA

                        
        208 TTTTTTTTCAAA
          1 TTTTTTTTCAAA

                          
        220 TTTTTTTTTTCAAA
          1 --TTTTTTTTCAAA

                     
        234 CTTTTTTTT
          1 -TTTTTTTT

        243 TTCAATTCAC


Statistics
Matches: 31,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  12    6  0.19
  13   13  0.42
  14   12  0.39

ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71


Consensus pattern (12 bp):   
TTTTTTTTCAAA

Found at i:224 original size:13 final size:14

Alignment explanation


    Indices: 208--243  Score: 63
    Period size: 14  Copynumber: 2.6  Consensus size: 14

        198 TTCTTTCAAG

                        * 
        208 TTTTTTTTCAAATT
          1 TTTTTTTTCAAACT

                          
        222 TTTTTTTTCAAACT
          1 TTTTTTTTCAAACT

                    
        236 TTTTTTTT
          1 TTTTTTTT

        244 TCAATTCACG


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  14   21  1.00

ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75


Consensus pattern (14 bp):   
TTTTTTTTCAAACT
Done.