The R% is the recommended percentage of word occurrences after stop-words like "is, and, but, or, etc." are removed.
The A% is your current actual percentage. Red means you haven't used the word at all, Pink means you have used it but not at close to optimal percentages, and green means good.
In general, the most important thing is to get as many of the individual recommended words into the document as possible. It is the pattern of their co-occurrence that drives most of the nTopic score, so their joint presence will have a synergistic effect on your score more so than just making sure a couple of the words are properly proportionate.