[maq-help] Score in dump file with -H

[Jeong-Hyeon J. C. <je...@cg...>]

Hi,

I have question on dump output with the option -H.
The document said

A readID position strand score

1. What do scores in the last column mean?

2. Why are there the different scores for a read?

3. Is the position is the starting or end position for negative strand?

Thanks in advance.
Justin.