Denoising PCR-amplified metagenome data

BMC Bioinformatics

Table 4 Titanium genotypes with more error-containing than Sanger sequence matching reads

Reads of nearby pyrosequence	Reads of sanger sequence	Errors
5	0	G 8→G 7 (301),
		G 5→G 4 (354)
70	0	G 6→G 5 (133)
75	1	C 7→C 6 (313)
21	18	G 6→G 5 (133)
14	0	G 6→G 5 (133)
80	0	G 6→G 5 (133)
77	3	G 6→G 5 (133)
80	1	G 6→G 5 (133)

The difference between the Sanger and 454 sequences and their locations are given. For example, G 6→G 5 (133) means that a homopolymer beginning at the 133^rdbase with 6 G s in a Sanger sequence showed up as 5 G s in most of the pyrosequence reads. All disagreements consist of deletions in the 454 reads on long G/C homopolymers relative to the Sanger sequences, and the majority of the disagreements occurred on one locus, site 133.

ISSN: 1471-2105