+ reads_prime.seq
+ reads_closure.seq

        The sequences produced by the random (whole genome shotgun) phase and
        the closure (finishing) phase of the sequencing project. 

        These files are in multi-FastA format, with whitespace delimited
	sequence information placed in the FastA headers. The 6 fields in the
        header are:

        ID, MINL, MAXL, MEANL, CLEARL, CLEARR

        ID      - A unique sequence identifier

        MINL    - Estimated minimum insert size

        MAXL    - Estimated maximum insert size

        MEANL   - Estimated mean insert size

        CLEARL  - The leftmost position of the trimmed sequence.  We have
                  already trimmed all sequences to remove vector and
                  low-quality basecalls.  The sequence files contain the
                  entire read; to get the trimmed data, use the range from
                  CLEARL through CLEARR. CLEARL and CLEARR are inclusive range
		  bounds, and use a 1 based coordinate system.

        CLEARR  - The rightmost position of the trimmed sequence.



+ reads_prime.xml
+ reads_closure.xml

        The ancillary information in trace archive XML format. For each
        sequencing read, there is a <trace> record which describes the
        following fields:

        <trace_name>    - A unique sequence identifier. Same as the ID field
                          in the seq files.

        <template_id>   - The insert ID this read was sequenced from. Reads
                          from the same insert can be grouped to form mate-pair
                          information for the assembly process.

        <trace_end>     - Direction of the sequencing reaction. Useful in
                          determining the orientation of the mate sequences.

        <library_id>    - The library ID this insert was taken from. Reads from
                          the same library will share the same size
                          distribution.

        <insert_size>   - Estimated insert size from this insert.

        <insert_stdev>  - Standard deviation of the estimated insert size.

        <type>          - Type of read, either "closure" or "paired_production"
                          Meaning the read is a closure walk or an end-paired
                          sequence.

+reads_prime.qual
+reads_closure.qual

	The quality values for the each of the above sequences files, in two
        digit integer format, separated by a single whitespace. Each quality
        sequence is headed by the same FastA ID found in the seq files.