'Not Proofread' means that the program did not successfully proofread the choreography in the sequence.
If you wish to proofread the sequences in CSDS, from the main menu, select 'Sequence | Proofread | Specify'. Sequences will automatically be parsed as they are proofread.
If the first line of a sequence is a comment such as (ROT-31 22-Jul-2009 Not Proofread) you can edit the sequence and remove the line.