Primer Blast Results
4
Primer-BLAST Primer-Blast results NCBI/ Primer-BLAST : results: Job id=JSID_01_151677_130.14.22.10_9002_primertool more... Input PCR template Range 1 - 1782 Specificity of primers primer specificity was not determined as specificity checking option was not selected. Other reports Search Summary Search parameters and other details Search parameter name Search parameter value Number of Blast hits analyzed 0 Entrez query Min total mismatches 2 Min 3' end mismatches 2 Defined 3' end region length 5 Mismatch threshold to ignore targets 6 Misprimed product size deviation 4000 Max number of Blast target sequences 50000 Blast E value 30000 Blast word size 7 Max candidate primer pairs 500 Min PCR product size 70 Max PCR product size 400 Min Primer size 15 Opt Primer size 20 Max Primer size 25 Min Tm 57 Opt Tm 60 Max Tm 63 Max Tm difference 3 Repeat filter AUTO Low complexity filter Yes Graphical view of primer pairs Detailed primer reports Primer pair 1 Sequence (5'->3') Template Length Start Stop Tm GC% Self Self 3' Primer pairs for submitted sequence Primer-Blast results http://www.ncbi.nlm.nih.gov/tools/primer-blast/primertool.cgi 1 of 4 1/13/2014 5:15 PM
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Transcript of Primer Blast Results
Primer-BLAST Primer-Blast resultsNCBI/ Primer-BLAST : results: Job id=JSID_01_151677_130.14.22.10_9002_primertool more...
Input PCR template Range1 - 1782Specificity of primersprimer specificity was not determined as specificity checking option was not selected.Other reportsSearch SummarySearch parameters and other detailsSearch parameter name Search parameter valueNumber of Blast hits analyzed 0Entrez queryMin total mismatches 2Min 3' end mismatches 2Defined 3' end region length 5Mismatch threshold to ignore targets 6Misprimed product size deviation 4000Max number of Blast target sequences 50000Blast E value 30000Blast word size 7Max candidate primer pairs 500Min PCR product size 70Max PCR product size 400Min Primer size 15Opt Primer size 20Max Primer size 25Min Tm 57Opt Tm 60Max Tm 63Max Tm difference 3Repeat filter AUTOLow complexity filter YesGraphical view of primer pairs
Detailed primer reports
Primer pair 1
Sequence (5'->3') Template Length Start Stop Tm GC% Self Self 3'
Primer pairs for submitted sequence
Primer-Blast results http://www.ncbi.nlm.nih.gov/tools/primer-blast/primertool.cgi
1 of 4 1/13/2014 5:15 PM
strand complementarity complementarityForwardprimer
CGTAAGCACAACCAGGGGAT Plus 20 967 986 60.04 55.00 3.00 2.00
Reverseprimer
TAAGTGCGCCTTCGGTCTTT Minus 20 1184 1165 59.97 50.00 6.00 0.00
Internaloligo
Plus
Productlength
218
Product TmProduct Tm-min(OLIGOTm)ExonjunctionTotal intronsizeProducts on intended target
Products on allowed transcript variants
Products on potentially unintended templates
Products on target templates
Primer pair 2
Sequence (5'->3')Templatestrand
Length Start Stop Tm GC%Selfcomplementarity
Self 3'complementarity
Forwardprimer
CTGCCAACATCCTCCGACTT Plus 20 489 508 60.04 55.00 3.00 0.00
Reverseprimer
CTTCCCAACTGCCACTGCTA Minus 20 589 570 59.96 55.00 3.00 2.00
Internaloligo
Plus
Productlength
101
Product TmProduct Tm- min(OLIGOTm)ExonjunctionTotal intronsizeProducts on intended target
Products on allowed transcript variants
Products on potentially unintended templates
Products on target templates
Primer pair 3
Sequence (5'->3')Templatestrand
Length Start Stop Tm GC%Selfcomplementarity
Self 3'complementarity
Primer-Blast results http://www.ncbi.nlm.nih.gov/tools/primer-blast/primertool.cgi
2 of 4 1/13/2014 5:15 PM
Forwardprimer
TTATTGGCGGTGTGGCTCTT Plus 20 408 427 59.96 50.00 2.00 0.00
Reverseprimer
AAGTCGGAGGATGTTGGCAG Minus 20 508 489 60.04 55.00 3.00 1.00
Internaloligo
Plus
Productlength
101
Product TmProduct Tm-min(OLIGOTm)ExonjunctionTotal intronsizeProducts on intended target
Products on allowed transcript variants
Products on potentially unintended templates
Products on target templates
Primer pair 4
Sequence (5'->3')Templatestrand
Length Start Stop Tm GC%Selfcomplementarity
Self 3'complementarity
Forwardprimer
GCTTGAGCGGCAATACATCG Plus 20 1131 1150 60.04 55.00 4.00 2.00
Reverseprimer
CGAATTCCCCACTGAGCCTT Minus 20 1367 1348 60.04 55.00 6.00 1.00
Internaloligo
Plus
Productlength
237
Product TmProduct Tm- min(OLIGOTm)ExonjunctionTotal intronsizeProducts on intended target
Products on allowed transcript variants
Products on potentially unintended templates
Products on target templates
Primer pair 5
Sequence (5'->3')Templatestrand
Length Start Stop Tm GC%Selfcomplementarity
Self 3'complementarity
Forwardprimer
TCCATTGATGGCAGGCCTTT Plus 20 137 156 59.96 50.00 6.00 2.00
Primer-Blast results http://www.ncbi.nlm.nih.gov/tools/primer-blast/primertool.cgi
3 of 4 1/13/2014 5:15 PM
Reverseprimer
AAGAGCCACACCGCCAATAA Minus 20 427 408 59.96 50.00 2.00 1.00
Internaloligo
Plus
Productlength
291
Product TmProduct Tm- min(OLIGOTm)ExonjunctionTotal intronsizeProducts on intended target
Products on allowed transcript variants
Products on potentially unintended templates
Products on target templates
Primer-Blast results http://www.ncbi.nlm.nih.gov/tools/primer-blast/primertool.cgi
4 of 4 1/13/2014 5:15 PM
