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lh3 / miniasm

Ultrafast de novo assembly for long noisy reads (though having no consensus step)
MIT License
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PAF Format detail #86

Closed sd880131 closed 4 years ago

sd880131 commented 4 years ago

Hi, I'm not sure what does the "Alignment block length" means. I have a paf like this "cc8e67f7-a22b-40c7-acdb-2ec1ed779e2e 3076 7 3053 + Tu6 627309815 68028982 68032161 2378 3181 60 tp:A:P cm:i:336 s1:i:2366 s2:i:215 dv:f:0.0338". It's seems that alignment block length is larger than query sequence length. where should I get more detail information of the PAF file?

lh3 commented 4 years ago

Block length includes insertions and deletions. That is the blast definition.