BLAST
- http://www.ncbi.nih.gov/BLAST/
- Debian 套件: blast2
【安裝】
apt-get install blast2
【測試】
資料庫:
- ftp://ftp.ncbi.nih.gov/blast/executables/LATEST/
- ftp://ftp.ncbi.nih.gov/blast/executables/LATEST/blast-2.2.21-ia32-linux.tar.gz
- 指令:
bl2seq -i nt.2655203 -j nt.3283410 -p blastn -o bl2seq.out
輸出檔案:bl2seq.out - 指令:
formatdb -i nt.ests -p F -o T -n test.nt
輸出檔案:- test.nt.nhr test.nt.nsd
- test.nt.nin test.nt.nsi
- test.nt.nnd test.nt.nsq
- test.nt.nni formatdb.log
- 指令:
fastacmd -d test.nt -s 5986
畫面:CTTGAAGTTNTCGATAACAAATTTNTNATCCCAGAGAGAAAAGTGAACGAGGAGCCAATGTTTGCAGCGGANACGTTTAC TCGATCGTNGGGCGTGGAACAGTTATCACTGGAAAGCTTGAGAGAGGAATTTTNAAGAGAGGAGATAAGATTGAAATTNT TGGAGGAACAAAAGATGGAACCACTGTGAAATCAGTAATCTCTGGATTAGAATCCTTCCGTAAAACTGTCGATCAAGCCG AGCCTGGAGATCAATTGGNTGTGCTTCTTCGTGGTTTAGGNCCAAAAGATGTTCGTAGAGGATGTGTTTTACTTCCACAA GGNCACAAACATAAGGTCACTGATAAGGTTAAAGCTCAACTTTATGTGCTCAAAGAGAGC
- 指令:
blastall -p blastn -d test.nt -i test.ests -e 0.1 -o blastall.out
輸出檔案:blastall.outQuery: 1 cttgaagttntcgataacaaatttntnatcccagagagaaaagtgaacgaggagccaatg 60 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1 cttgaagttntcgataacaaatttntnatcccagagagaaaagtgaacgaggagccaatg 60 Query: 61 tttgcagcgganacgtttactcgatcgtngggcgtggaacagttatcactggaaagcttg 120 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 61 tttgcagcgganacgtttactcgatcgtngggcgtggaacagttatcactggaaagcttg 120 Query: 121 agagaggaattttnaagagaggagataagattgaaattnttggaggaacaaaagatggaa 180 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 121 agagaggaattttnaagagaggagataagattgaaattnttggaggaacaaaagatggaa 180
Last modified 15 years ago
Last modified on Nov 11, 2009, 6:25:23 AM
Attachments (1)
- blast_test-1.7z (215.1 KB) - added by wade 15 years ago.
Download all attachments as: .zip