Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold720

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: 8723
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34


Found at i:1960 original size:23 final size:23

Alignment explanation


    Indices: 1917--1960  Score: 63
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       1907 TGAAGTTTTA

                           *       
       1917 AAAGAAATGTCACACGTTATACT
          1 AAAGAAATGTCACACCTTATACT

                                  
       1940 AAAGAAATGTCA-ACCTCTATA
          1 AAAGAAATGTCACACCT-TATA

       1961 TCAGCATCAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  22    3  0.16
  23   16  0.84

ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25


Consensus pattern (23 bp):   
AAAGAAATGTCACACCTTATACT

Found at i:2503 original size:24 final size:25

Alignment explanation


    Indices: 2476--2522  Score: 60
    Period size: 24  Copynumber: 1.9  Consensus size: 25

       2466 TTAATATACT

                 *                   
       2476 ATTTGGTACATGA-TTTTTTTTTCA
          1 ATTTGATACATGAGTTTTTTTTTCA

                    **             
       2500 ATTTGATATTTGAGTTTTTTTTT
          1 ATTTGATACATGAGTTTTTTTTT

       2523 TATTCTAATT


Statistics
Matches: 19,  Mismatches: 3, Indels: 1
        0.83            0.13        0.04

Matches are distributed among these distances:
  24   10  0.53
  25    9  0.47

ACGTcount: A:0.19, C:0.04, G:0.13, T:0.64


Consensus pattern (25 bp):   
ATTTGATACATGAGTTTTTTTTTCA
Done.