fRNAdb::Blast

Enter one or more query sequence(s)

The query sequence is filtered for low complexity regions by default.
Filter Low complexity
Search Category Search Length

execution value
Cost to open a gap [Integer]
"auto": 5 for a query > 50 nt. Otherwise gapped alignment is disabled.
Cost to extend a gap [Integer]
"auto": 2 for a query > 50 nt. Otherwise gapped alignment is disabled.
Penalty for a mismatch in the blast portion of run [Integer]
"auto": -3
Reward for a match in the blast portion of run [Integer]
"auto": 1
Expectation value [Real]
"auto": 0.0001 for a query > 50 bases, 1 for a query >= 25 nt and <= 50 nt, and 100 for query < 25 nt.
Word size [Integer]
"auto": 11 for a query > 50 nt. Otherwise 7.
Number of one-line descriptions [Integer]
"auto": 20
Number of alignments to show [Integer]
"auto": 20