This issue is not related to any particular assembly.
Can you clarify for me how a PSL line for a query sequence that has non-contiguous alignments to both the plus and minus strands of the target. I am referring, specifically, to Example 7 in your on-line description of how to prepare custom annotation tracks. I have read the information and get the part about how the align block starts and sizes for the alignments to the minus strand should be reversed. What's not clear to me is what the final PSL line for this alignment would look like. First, would the data for the alignments to the plus and minus strands be combined into a single line of reported on separate lines? If the data are to be combined, then: 1. What would be reported as the strand? 2. How would the align block data be combined to report the starts and sizes? It would be a real help if you could show me what the line (or lines) for Example 7 (or an equivalent example) would look like. Thanks very much for your help. Regards, Phil _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
