Table 3.

Mapping metrics for assemblies

Assembler	Sequencing data	FR reads	RF reads	Tandem	Median insert Size ± Abs. Dev.	Mean insert Size ± St. Dev.
CA	Illumina MiSeq	7,163,609	690	739	470 ± 45	480 ± 72
MaSurCA	Illumina MiSeq	7,315,963	340	137	469 ± 44	478 ± 71
CLCBio	Illumina MiSeq	6,917,178	103	29	466 ± 44	475 ± 72
CA	Illumina-corrected PacBio reads	7,292,995	694	298	470 ± 44	479 ± 71
CA	Illumina- and 454-corrected PacBio reads	7,459,123	600	288	470 ± 44	480 ± 71
HGAP2	PacBio reads	7,544,255	696	826	471 ± 45	480 ± 71
HGAP2 with trimming	PacBio reads	7,564,549	697	827	471 ± 45	480 ± 71

This table provides the statistics about the mapping of all of the Illumina read pairs against all of the contigs generated by various combinations of assemblers and data sets as assessed by PICARD. The statistics reported include the number of FR reads, the number of RF reads, the number of tandem reads, the median insert ± on absolute deviation, and the mean insert size ± one absolute deviation.