The general rule for running while sick is this: if you're sick above the neck, run anyway. Sick below the neck - especially if your lungs aren't clear! - no run.
I don't see anything wrong with skipping an extra day and either re-starting the week, or just taking the day off and then re-order your runs. There were more times than I'd like to admit that I didn't get two days of rest after my long runs.
Here's a secret... I've run with migraines. I've run with digestive problems. I've run in the snow. I've run in 40+ MPH winds. I've run in heavy rains. I've run through all kinds of pains and ickyness and in all kinds of gross weather.
And I don't really feel like any more of a badass because of it. =P Yes, I'll still run in rain and snow and terrible winds and stuff when it's a question of getting the miles in. But if you're not in an extreme crunch and HAVE to get the miles in every week, I wouldn't worry too much about it. I don't when I'm not training and am just running just to run. Shuffle things around, skip a day here... the world won't end because of it.