ALLMAPS: robust scaffold ordering based on multiple maps

Table 2 Summary statistics for three component maps and final consensus anchoring (‘Anchored’) in the Medicago study

	OpticalMap (w = 3)	GeneticMap (w = 2)	Chickpea (w = 1)	Anchored	Unplaced
Linkage groups	8	12	98	8	n.a.
Markers (unique)	25,491	2,125	16,275	43,833	58
Markers per Mb	70.2	5.8	43.2	114.0	1.6
N50 scaffolds	23	23	23	23	0
Scaffolds	123	200	229	284	4,522
Scaffolds with 1 marker	0	68	53	84	2
Scaffolds with 2 markers	0	21	26	26	1
Scaffolds with 3 markers	0	22	10	15	1
Scaffolds with ≥=4 markers	123	89	140	159	8
Total bases	363,160,642	363,369,814	376,760,724	384,460,302	36,076,813
(Percent of genome)	(86.4%)	(86.4%)	(89.6%)	(91.4%)	(8.6%)

Scaffolds with no markers, or ambiguous placements, are separately counted (‘Unplaced’). The marker density for the anchored and unplaced scaffolds represent the sum of unique markers from all input datasets.

ISSN: 1474-760X