CAR: contig assembly of prokaryotic draft genomes using rearrangements

BMC Bioinformatics

Table 1 Draft chromosomal genomes used in the testing dataset

Organism	Accession no.	Size (bp)	# Contig	COV (%)
Aciduliprofundum boonei T469	NC_013926	1,486,778	35	98.63
Bacillus subtilis 168	NC_000964	4,215,606	5	99.97
Bifidobacterium longum DJO 10A	NC_010816	2,375,792	58	85.47
Brucella melitensis bv 1 16M (I)	NC_003317	2,117,144	41	90.83
Brucella melitensis bv 1 16M (II)	NC_003318	1,177,787	12	99.77
Brucella pinnipedialis B2 94 (I)	NC_015857	2,138,342	55	87.47
Brucella pinnipedialis B2 94 (II)	NC_015858	1,260,926	34	84.38
Burkholderia thailandensis E264 (II)	NC_007650	2,914,771	15	70.34
Burkholderia thailandensis E264 (I)	NC_007651	3,809,201	28	89.90
Chlamydia muridarum Nigg	NC_002620	1,072,950	4	99.09
Clostridium cellulovorans 743B	NC_014393	5,262,222	297	96.54
Corynebacterium aurimucosum ATCC 700975	NC_012590	2,790,189	90	92.94
Corynebacterium efficiens YS 314	NC_004369	3,147,090	118	95.09
Micrococcus luteus NCTC 2665	NC_012803	2,501,097	126	86.25
Mycobacterium tuberculosis H37Ra	NC_009525	4,419,977	220	76.84
Mycoplasma genitalium G37	NC_000908	580,076	24	78.54
Saccharopolyspora erythraea NRRL 2338	NC_009142	8,212,805	238	97.10
Selenomonas sputigena ATCC 35185	NC_015437	2,568,361	53	94.01
Stigmatella aurantiaca DW 431	NC_014623	10,260,756	472	99.10
Streptococcus pneumoniae TIGR4	NC_003028	2,160,842	209	90.31
Vibrio Ex25 (I)	NC_013456	3,259,580	176	91.43
Vibrio Ex25 (II)	NC_013457	1,829,445	33	95.31
Yersinia pestis Nepal 516	NC_008149	4,534,590	17	83.86

The column “# Contig” shows the number of contigs selected for experiments of contig assembly by excluding, for example, those contigs not mapped to reference chromosome. The column “COV” gives the fraction of each genome or chromosome covered by selected contigs.

ISSN: 1471-2105