Hi,
1. Your questionnaire is actually a 3-point scale, no matter what you call the anchor (1, 2, 3 or 1, 5, 10) and actually represents the degree of separation from 'No' to 'Yes'. Hence, you can safely code all your responses as either 1, 2, 3, or stick to your anchors of 1, 5, 10; it does not matter.
2. You can put codes such as R1, R2, R3, etc., in columns of Excel and put codes for samples in the 1st row, and you will have raw data.
3. Ensure that there is no missing data in any of the questions; otherwise, do not include that in your analysis.
4. The aggregated score (average of R1-R12) will give you a score for an employee's perception about their roles and responsibilities. Similarly, you get a score for all the other parameters.
5. You can group your data department-wise, level-wise as per your organizational norms and tinker to see if the mean values change.
6. You can represent your data through charts (number who respond to 1, number who respond to 5, and number who respond to 10).
7. Do a self-study on how to calculate mean difference - i.e., if the mean on R&R for Executives is 3 and the mean on R&R for Supervisors is 3.5, then is there a 'significant' difference between the two? Otherwise, 3.5 > 3 does not give you any meaningful analysis if the mean difference is not significant, and they are actually at the same level of perception.
8. There are a host of possibilities for treating your data - but I guess from your responses you are at present not equipped to deal with them. Do study further on Research Methods if you want to embark on a journey of greater data crunching.
Best of luck