ZS:Z: Novoalign alignment status. Not present for unique alignments.
ZS:Z:R Multiple alignments with similar score were found.
ZS:Z:QC The read was not aligned as it bases qualities were too low or it was a homopolymer read.
ZS:Z:NM No alignment was found.
ZS:Z:QL An alignment was found but it was below the quality threshold.
ZN:i: Number of alignments to read. Only present if there was more than one alignment.
ZO:Z: Indictaes long or short insert fragment for mate pair alignments when short insert has been enabled.
'+' Indicates pair was aligned as a short insert fragment.
'+' Pair was aligned as a long insert fragment.
This tag is only present for Illumina mate pairs when a short fragment length size has been specified with the i option and reads are aligned as a proper pair .
ZH:i: Hairpin score for miRNA a
ZL:i: In miRNA mode this is the alignment location for adjacent opposite strand alignment.
Examples:
ZS:Z:R ZN:i:2 Indicates a read aligned to two locations.
ZS:Z:NM No alignment was found.
ZS:Z:QC The read failed quality checks and was not aligned.
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