Is the whole greater than the sum of its parts? De novo assembly strategies for bacterial genomes based on paired-end sequencing

Table 1 Summary of paired–end reads used in this study

Reference genome	Library size	Read number	Average quality^a	Q20^b	Q30^b	Group M^c
E. coli DH1	300 bp	1,894,068	34.31	90.15 %	85.27 %	71.59 %
E. coli DH1	400 bp	2,221,312	33.91	88.94 %	83.61 %	69.21 %
E. coli DH1	500 bp	2,093,116	33.50	87.63 %	81.87 %	25.12 %
E. coli DH1	600 bp	1,548,836	32.79	85.29 %	78.78 %	0.85 %
S. Parasanguinis FW213	300 bp	2,162,006	35.84	93.47 %	90.77 %	82.05 %
S. Parasanguinis FW213	400 bp	1,968,178	35.60	92.67 %	89.76 %	81.04 %
S. Parasanguinis FW213	500 bp	1,886,084	35.21	91.55 %	88.26 %	19.03 %
S. Parasanguinis FW213	600 bp	1,745,876	34.61	89.58 %	85.67 %	6.82 %

^aAverage Phred score
^bThe percentage of bases in the reads with a Phred score equal or larger than 20 or 30
^cPercentage of paired reads that can be merged

ISSN: 1471-2164