Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold9318.1

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: 4482
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34


Found at i:1275 original size:7 final size:8

Alignment explanation


    Indices: 1250--1279  Score: 51
    Period size: 8  Copynumber: 3.6  Consensus size: 8

       1240 TTATTTTGAC

                     
       1250 TTTGATTTT
          1 TTTGA-TTT

                    
       1259 TTTGATTT
          1 TTTGATTT

                    
       1267 TTTGATTT
          1 TTTGATTT

                 
       1275 TTTGA
          1 TTTGA

       1280 ATTCATGAGA


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

Matches are distributed among these distances:
   8   16  0.76
   9    5  0.24

ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73


Consensus pattern (8 bp):   
TTTGATTT

Found at i:3862 original size:19 final size:20

Alignment explanation


    Indices: 3833--3881  Score: 57
    Period size: 19  Copynumber: 2.5  Consensus size: 20

       3823 CACTTCGTGA

                *       *       
       3833 AAATCTAATGCATATG-ATG
          1 AAATGTAATGCAAATGCATG

            *                   
       3852 CAATGTAATGCAAATGCATG
          1 AAATGTAATGCAAATGCATG

                       
       3872 AAATG-AATGC
          1 AAATGTAATGC

       3882 CTAAAGAGAC


Statistics
Matches: 25,  Mismatches: 4, Indels: 2
        0.81            0.13        0.06

Matches are distributed among these distances:
  19   18  0.72
  20    7  0.28

ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27


Consensus pattern (20 bp):   
AAATGTAATGCAAATGCATG
Done.