Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1327

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: 4432
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28


Found at i:1989 original size:21 final size:21

Alignment explanation


    Indices: 1956--2000  Score: 56
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       1946 TTGCAAGTTG

                         *        
       1956 AAATAAAGAAGTTGGCTAATGA
          1 AAATAAAGAAGTTAGCTAA-GA

                  *              
       1978 AAATAATG-AGTTAGCTAAGA
          1 AAATAAAGAAGTTAGCTAAGA

               
       1998 AAA
          1 AAA

       2001 ATGAAAATTG


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  20    5  0.24
  21    9  0.43
  22    7  0.33

ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22


Consensus pattern (21 bp):   
AAATAAAGAAGTTAGCTAAGA

Found at i:3814 original size:15 final size:15

Alignment explanation


    Indices: 3794--3824  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       3784 TAAAAATGTC

                    *      
       3794 CAAAATGAGGAAGCT
          1 CAAAATGAAGAAGCT

                           
       3809 CAAAATGAAGAAGCT
          1 CAAAATGAAGAAGCT

             
       3824 C
          1 C

       3825 CAAACGAAAT


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13


Consensus pattern (15 bp):   
CAAAATGAAGAAGCT
Done.