Joining of supercontigs. Three supercontigs (a, b, c) are seen off the end of supercontig s. There are two or more read pair links from s to each of them. Each has an optimal position relative to s, determined by the insert lengths corresponding to the read pairs. However, each insert length has a standard deviation associated to it, and so the positions of a, b, and c relative to s also have standard deviations. Supposing that we allow each of them to slide from their optimal positions by up to 2.5 standard deviations, but that we do not allow overlap between any of the supercontigs, is there more than one possible order for the supercontigs? Among the possible orders, does a always appear first (after s)? If so, we join supercontig s to supercontig a.
