Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1934

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: 4260
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:2223 original size:13 final size:13

Alignment explanation


    Indices: 2205--2243  Score: 69
    Period size: 13  Copynumber: 3.0  Consensus size: 13

       2195 ATAATCACCC

                        *
       2205 TGTATCGATACAG
          1 TGTATCGATACAA

                         
       2218 TGTATCGATACAA
          1 TGTATCGATACAA

                         
       2231 TGTATCGATACAA
          1 TGTATCGATACAA

       2244 AGAAAAATGT


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

Matches are distributed among these distances:
  13   25  1.00

ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31


Consensus pattern (13 bp):   
TGTATCGATACAA

Found at i:2254 original size:20 final size:20

Alignment explanation


    Indices: 2229--2307  Score: 70
    Period size: 20  Copynumber: 3.7  Consensus size: 20

       2219 GTATCGATAC

                                
       2229 AATGTATCGATACAAAGAAA
          1 AATGTATCGATACAAAGAAA

                          *          
       2249 AATGTATCGATACATAGAATTTCCA
          1 AATGTATCGATACAAAGAA-----A

            *                    
       2274 GATGTATCGATACACAA-AAA
          1 AATGTATCGATACA-AAGAAA

            *             
       2294 CATGTATCGATACA
          1 AATGTATCGATACA

       2308 TTTTGGACAT


Statistics
Matches: 49,  Mismatches: 4, Indels: 12
        0.75            0.06        0.18

Matches are distributed among these distances:
  20   32  0.65
  25   16  0.33
  26    1  0.02

ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25


Consensus pattern (20 bp):   
AATGTATCGATACAAAGAAA
Done.