Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2347

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: 14282
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30


Found at i:5019 original size:18 final size:18

Alignment explanation


    Indices: 4987--5047  Score: 70
    Period size: 18  Copynumber: 3.4  Consensus size: 18

       4977 GGGGAATACG

                *     *       
       4987 ACGTTTACGGTACTATTC
          1 ACGTATACGGCACTATTC

                   *          
       5005 ACGTATATGGCACTATT-
          1 ACGTATACGGCACTATTC

                      *   *   
       5022 ACGTATACGGTACTGTTC
          1 ACGTATACGGCACTATTC

                    
       5040 ACGTATAC
          1 ACGTATAC

       5048 AGTAGTTGGG


Statistics
Matches: 36,  Mismatches: 6, Indels: 2
        0.82            0.14        0.05

Matches are distributed among these distances:
  17   14  0.39
  18   22  0.61

ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34


Consensus pattern (18 bp):   
ACGTATACGGCACTATTC

Found at i:9700 original size:18 final size:18

Alignment explanation


    Indices: 9671--9727  Score: 69
    Period size: 18  Copynumber: 3.2  Consensus size: 18

       9661 TACGACTGTT

                 *            
       9671 TACGGTACTATTCACGTA
          1 TACGGCACTATTCACGTA

              *         *     
       9689 TATGGCACTATTTACGTA
          1 TACGGCACTATTCACGTA

                 *   *        
       9707 TACGGTACTGTTCACGTA
          1 TACGGCACTATTCACGTA

               
       9725 TAC
          1 TAC

       9728 AGTAGTTGGG


Statistics
Matches: 32,  Mismatches: 7, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  18   32  1.00

ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35


Consensus pattern (18 bp):   
TACGGCACTATTCACGTA
Done.