TUGAS BIOINFORMATIKA
DESIGN PRIMER
Nama : Diana Putri Hapsari
NIM : M041018
JURUSAN BIOLOGI
FAKULTAS MATEMATIKA DAN ILMU
PENGETAHUAN ALAM
UNIVERSITAS SEBELAS MARET
SURAKARTA
2012
Saccharomyces
cerevisiae
NC_001139
Primer3
Output:
No
mispriming library specified
Using
1-based sequence positions
OLIGO start
len tm gc%
any 3' seq
LEFT
PRIMER 120 20
57.98 45.00 3.00
2.00 TTTACAAGCCGTTACCAAGC
RIGHT
PRIMER 1240 20
58.06 50.00 8.00
0.00 TGTGACCGGTCTTGTAACCT
SEQUENCE
SIZE: 1461
INCLUDED
REGION SIZE: 1461
ADDITIONAL
OLIGOS
start
len tm gc%
any 3' seq
1 LEFT PRIMER 166
20 58.05 45.00
4.00 1.00 TTGTCCAAGAAGGGTGGTAA
RIGHT PRIMER 1240
20 58.06 50.00
8.00 0.00 TGTGACCGGTCTTGTAACCT
PRODUCT SIZE: 1075, PAIR ANY COMPL: 6.00,
PAIR 3' COMPL: 2.00
2 LEFT PRIMER 165
20 58.05 45.00
4.00 2.00 TTTGTCCAAGAAGGGTGGTA
RIGHT PRIMER 1240
20 58.06 50.00
8.00 0.00 TGTGACCGGTCTTGTAACCT
PRODUCT SIZE: 1076, PAIR ANY COMPL: 6.00,
PAIR 3' COMPL: 1.00
3 LEFT PRIMER 159
20 58.15 45.00
4.00 0.00 AAAGGGTTTGTCCAAGAAGG
RIGHT PRIMER 1240
20 58.06 50.00
8.00 0.00 TGTGACCGGTCTTGTAACCT
PRODUCT SIZE: 1082, PAIR ANY COMPL: 5.00,
PAIR 3' COMPL: 3.00
4 LEFT PRIMER 226
20 57.85 45.00
5.00 3.00 GGTAAGGAATCCGGTGATTT
RIGHT PRIMER 1240
20 58.06 50.00
8.00 0.00 TGTGACCGGTCTTGTAACCT
PRODUCT SIZE: 1015, PAIR ANY COMPL: 5.00,
PAIR 3' COMPL: 1.00
Output
FastPCR:
_______________________________
In silico Primer(s) search for: 1
primer forward
5'-tttacaagccgttaccaagc
Position: 120->139 20bp 100% Tm = 52,7°C
5-tttacaagccgttaccaagc->
||||||||||||||||||||
actttacaagccgttaccaagcactt
primer reverse (reverse complement) 5'-tgtgaccggtcttgtaacct
Position: 1221<-1240 20bp 100% Tm = 55,2°C
<-tccaatgttctggccagtgt-5
||||||||||||||||||||
agaggttacaagaccggtcacatc
primer forward
5'-tttacaagccgttaccaagc
primer reverse (reverse complement) 5'-tgtgaccggtcttgtaacct
PCR
product size: 1121bp Ta=61°C
DNA
Calculator Primer Forward:
Minimum base pairs
required for single primer self-dimerization: 5.
Minimum base pairs
required for a hairpin: 4.
Sorry, the hairpin
loop calculation is only available if you are using Netscape or IE 4.0 or
higher!
3'
Complementarity:
None !
All potential
self-annealing sites are marked in red (allowing 1 mis-match):
None !
DNA
Calculator Primer Reverse:
Minimum base pairs
required for single primer self-dimerization: 5.
Minimum base pairs
required for a hairpin: 4.
Sorry, the hairpin
loop calculation is only available if you are using Netscape or IE 4.0 or
higher!
3'
Complementarity:
None !
All potential self-annealing
sites are marked in red (allowing 1 mis-match):
None !
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