Interleaved mate pair fastq after quality filtering

[natstreet]

I am looking for a script that can produce an interleaved fastq file and a file of orphaned [single end] reads from two input fastq files. The two read pairs have been quality filtered using fastx-toolkit 'fastq_quality_filter', which breaks the exact pairing that previously existed.

Has anyone come across a script to do this rather than just to interleave two perfectly paired sets of fastq files?

[maubp]

There are some replies on the cross-post,

http://seqanswers.com/forums/showthread.php?p=23304