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. 2015 May 24;11:97–104. doi: 10.4137/EBO.S23873

Table 3.

Summary of the de novo annotation step for the four assembled transcriptomes.

S. pombe C. sinensis O. sativa D. melanogaster
# transcripts 9,370 201,892 166,512 80,999
# Blast Hits 8,257 72,559 66,129 29,924
# Annotations 3,922 51,272 50,721 22,534
% of annotated transcripts 42% 25% 30% 28%
# HMMER hits 5,588 34,689 28,736 16,552
User time 11 h 3 d 19 h 6 d 8 h 4 d 15 h

Notes: # Transcripts, number of transcripts assembled by Trinity; # Blast hits, number of transcripts with at least one hit against the NCBI nr database (e-value <10−6); # Annotation, number of transcripts with at least one annotation after Blast2GO analysis; # HMMER hits, number of transcripts with at least one hit against the Pfam A database (e-value <10−6); User time, time needed to perform the complete pipeline (cleaning, assembly, annotation, and expression quantification).