lofreq3
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Fix simple cases of invalid cigars
trafficstars
- i.e. leading/trailing indel before/after matches
- See e.g. 1I99M for EAS20_8_6_87_382_926 in spike-in.bam
- first classify problems in real data (spike-in.bam was massaged with bamsurgeon)
Possibly just BAMsurgeon artefacts