Example for scaffolding of 454 contigs by Illumina MPs: (top) effective scaffolding of 390L10 (3 scaffolds comprising 18 out of 21 contigs and 105 out of 108 kb); (bottom) ineffective scaffolding of 601I24 due to multiple bridging options (2 scaffold comprising 4 out of 15 contigs and 20 out of 102 kb). Contigs are represented by arrows in 5' to 3' direction. Numbers on the connecting lines indicate the normalized MP values (MP per gap/MP per BAC) supporting the gap bridging. Scaffolding was omitted for values below the threshold of 0.02 (orange rectangles). Contigs marked by a blue rectangle remain unscaffolded either by lack of MPs or bridging support below the threshold.