BWA-MEM or BWA-ALN + BWA-SAMSE for MGI sequencing

Hi, I just new to bioinformatics. I have some MGI single-ended NIPT sequencing, each fastq file contains multiple 50bp sequences after trimming. I have read about bwa-mem and bwa-aln + bwa-samse but I don't know what should I apply to my research. Because from what I read bwa-mem work good on > 70bp sequence and overall it has more accuracy but my sequences are just 50bp and I'm still not found any data about the effectiveness between aln and mem. Does anyone has experienced can give me advice? Thanh you very much


bwa


ali


sequencing

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