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Table 1 Features of the Opisthorchis viverrini EST catalogue.

From: Gene discovery for the carcinogenic human liver fluke, Opisthorchis viverrini

Feature

Number

Initial Sequences

5159

Usable sequencesa

4241

Contigs

1995 (1632 singletons; 363 clusters)

Contigs after clean-upb

1932

Contigs identical to known proteinsc

68

Contigs similar to other proteinsd

794

Contigs with gene ontology assignments

383

Novel contigs

1070

Novel contigs with signal sequences

75 (29 signal peptides; 46 signal anchors)

Average insert size

548 bp (ESTs); 660 bp (contigs)

Percentage of recombinant clones

95%

Number of ribosomal seqs

1184 ESTs; 136 clusters

  1. aUsable sequences were determined using seqclean – sequences that were removed were either non-recombinant, of low complexity and/or quality and those of < 100 nt in length.
  2. bclean-up refers to removal of sequences from contaminating sources; eg. Mycoplasma
  3. cidentity determined by ≥ 95% identity over ≥ 50 amino acids.
  4. dbased on BLASTx and tBLASTx searchers of GenBank nr and dbEST respectively.