For everyone feeling confused and/or misinformed, CNET has put together a FAQ on the dispute:
http://news.cnet.com/8301-30686_3-20024197-266.html
This all comes across as a giant net-neutrality evil-corporation clusterfuck, but it's actually pretty simple at its core. Here's the general gist (from what I've gathered):
1) Comcast/Level 3 have had a peering agreement for a while now. Currently, the ratio of traffic flow is 2:1 (L3:Comcast). Under the terms of their agreement, this is considered "even", and no money was exchanged between either party for this particular arrangement.
2) Netflix used to be delivered through Akamai (a CDN) but is now delivered by L3. Taking into account the increase in traffic from providing Netflix, the ratio of data flow would increase to approximately 5:1 (still L3:Comcast). This violates the terms of the peering agreement.
3) Because the traffic through Comcast's network would double, Comcast wants to charge L3 for the increased traffic.
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Now, to address a few other things.
This does not have anything to do with net neutrality. I generally don't agree with Patranus, but he's absolutely right. For reference, the definition of net neutrality (according to Wikipedia):
Network neutrality (also net neutrality, Internet neutrality) is a principle proposed for user access networks participating in the Internet that advocates no restrictions by Internet service providers and governments on content, sites, platforms, the kinds of equipment that may be attached, and the modes of communication.
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There are no restrictions being placed on anything in this situation. Comcast isn't telling Level 3 that they can't provide certain content (for whatever reason), or vice versa. Comcast is only asking that they be compensated for an increase in traffic on their networks, which would be caused by L3.
Additionally, this has absolutely NOTHING to do with Netflix or even the type of content that is being provided and passed through these networks. The issue here is the amount of TRAFFIC that is passing through the networks. Comcast is targeting the overall increase in traffic, not a specific type of traffic.