Carmel Ab Assembly Annotation

Fasta

http://eagle.fish.washington.edu/cnidarian/BlackAbalone_Contigs_v3.fa

./blastx -query /Volumes/web-1/cnidarian/BlackAbalone_Contigs_v3.fa -db /Volumes/web-1/whale/fish546/blast/db/nr -out /Volumes/web-1/cnidarian/lft_BlackAbalone_v3_nr_blastout -outfmt 6 -evalue 1E-5 -max_target_seqs 1 -num_threads 4

./blastn -query /Volumes/web-1/cnidarian/BlackAbalone_Contigs_v3.fa -db /Volumes/web-1/whale/fish546/blast/db/Haliotis_kam_transcriptome -out /Volumes/web-1/cnidarian/lft_BlackAbalone_v3_Hal_kam_blastout -outfmt 6 -evalue 1E-5 -max_target_seqs 1 -num_threads 2 -task blastn

./blastn -query /Volumes/web-1/cnidarian/BlackAbalone_Contigs_v3.fa -db /Volumes/web-1/whale/fish546/blast/db/Haliotis_midae_franchini -out /Volumes/web-1/cnidarian/lft_BlackAbalone_v3_Hal_midae_blastout -outfmt 6 -evalue 1E-5 -max_target_seqs 1 -num_threads 2 -task blastn

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using 2.2.28 to see new taxonomy / query coverage options

./blastn -query /Volumes/web-1/cnidarian/BlackAbalone_Contigs_v3.fa -db /Volumes/CLC_blastdatabases/nt -out /Volumes/web-1/cnidarian/lft_BlackAbalone_v3_nt_blastout_taxa1 -outfmt "6 qseqid sseqid sallseqid pident length evalue bitscore staxids sscinames scomnames sblastnames qcovs" -evalue 1E-5 -max_target_seqs 1 -num_threads 10 -task blastn

(not getting any taxa data)

./blastx -query /Volumes/web-1/cnidarian/BlackAbalone_Contigs_v3.fa -db /Volumes/web-1/whale/fish546/blast/db/swissprot -out /Volumes/web-1/cnidarian/lft_BlackAbalone_v3_swissprot_blastout_taxa1 -outfmt "6 qseqid sseqid sallseqid pident length evalue bitscore staxids sscinames scomnames sblastnames qcovs" -evalue 1E-5 -max_target_seqs 1 -num_threads 4

(not getting any taxa data)