Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_737 ID=scaffold_737-JGI_221_v2.0

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: 4161
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31


Found at i:241 original size:81 final size:81

Alignment explanation


    Indices: 151--301  Score: 293
    Period size: 81  Copynumber: 1.9  Consensus size: 81

        141 TATACTTCTT

                                           *                                 
        151 TTATTTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTATTAGAA
          1 TTATTTTATTTTAGAATAAGGTTTTTTAAACATTATTAAACTCCATCTATTTGATATTATTAGAA

                            
        216 TAAGGTTTTTTAAACC
         66 TAAGGTTTTTTAAACC

                                                                             
        232 TTATTTTATTTTAGAATAAGGTTTTTTAAACATTATTAAACTCCATCTATTTGATATTATTAGAA
          1 TTATTTTATTTTAGAATAAGGTTTTTTAAACATTATTAAACTCCATCTATTTGATATTATTAGAA

                 
        297 TAAGG
         66 TAAGG

        302 AGTTTCACTC


Statistics
Matches: 69,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  81   69  1.00

ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48


Consensus pattern (81 bp):   
TTATTTTATTTTAGAATAAGGTTTTTTAAACATTATTAAACTCCATCTATTTGATATTATTAGAA
TAAGGTTTTTTAAACC

Found at i:246 original size:32 final size:33

Alignment explanation


    Indices: 205--268  Score: 112
    Period size: 32  Copynumber: 2.0  Consensus size: 33

        195 ATCTATTTGA

                                      *      
        205 TATTATTAGAATAAGGTTTTTTAAACCTTATTT
          1 TATTATTAGAATAAGGTTTTTTAAACATTATTT

                                            
        238 TATT-TTAGAATAAGGTTTTTTAAACATTATT
          1 TATTATTAGAATAAGGTTTTTTAAACATTATT

        269 AAACTCCATC


Statistics
Matches: 30,  Mismatches: 1, Indels: 1
        0.94            0.03        0.03

Matches are distributed among these distances:
  32   26  0.87
  33    4  0.13

ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52


Consensus pattern (33 bp):   
TATTATTAGAATAAGGTTTTTTAAACATTATTT
Done.