Google Suggest isn’t exactly a tool, but I’ve found that it can be useful for identifying potential keywords. As you type a query on, Google Suggest recommends search queries based on other users’ search activities. These searches are algorithmically determined based on a number of purely objective factors (including popularity of search terms) without human intervention. The Suggest dataset is updated frequently to offer search queries that seem to be trending upwards. This feature is largely one of the reasons that you may see repeat traffic of seemingly long tail keywords. By identifying these long tail keywords and optimizing for them, marketers can capitalize on seemingly obscure keywords with little competition.
Scout is an easy to use extension tool for chrome browsers that turns your website into a significant keyword generator. By a click of mouse, you can uncover relevant keywords in your industry by choosing a website that is successful and attractive to your audience. You will be able to understand the true language of your successful audience and generate keyword ideas that you can use in your marketing strategy.
When I finally made the decision the get Long Tail Pro way back in December of 2012 – I honestly had no idea how much this one piece of software would impact everything I do online. I knew that it would help me find more and better keywords right off the bat. But I didn’t know exactly how much it would positively affect my ability to actually make money online. I can say with confidence, that Long Tail Pro is the one tool that has made the biggest difference (by far), in my ability to get traffic to websites and actually earn money online.
You can try DeepMiner. It is good for scrapping, rank position, generating long tails and keyword suggestions. You can export the data to document for later analytics. You can find popular keywords that people are searching for. 7 major engines are supported, Google, Yahoo, AOL, Amazon, YouTube, Ask, Bing. It supports multi-threading so it is very very fast scrapper. BTW you must use proxy list if you plan to scrap thousands and thousands of keywords.
The limit on manual keywords could be higher.  I personally wish we could input 10,000 keywords at a time, instead of 200.  However, I understand the costs that Long Tail Pro has to maintain each time a new manual keyword is input.  Not a deal breaker, I just wish the limit was higher. (To be fair, I don't think most keyword tools have a bulk manual option at all).