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Hello!
I am studying the interaction of bacteria with plasmids and bacteriophages. I have faced with the following problem. I have 30-bp reads of plasmids and phages, that infect a bacteria
(genome of host bacteria was eliminated). I need to assemble at least a very short contigs, so I could send them to the Blast. The problem is that some genomes are presented with a very low coverage, but I would not want to throw them out of my analysis.
I need a not picky assembler, which could cope with this task. Could you advise me something suitable?
Thanks in advance.
I am studying the interaction of bacteria with plasmids and bacteriophages. I have faced with the following problem. I have 30-bp reads of plasmids and phages, that infect a bacteria
(genome of host bacteria was eliminated). I need to assemble at least a very short contigs, so I could send them to the Blast. The problem is that some genomes are presented with a very low coverage, but I would not want to throw them out of my analysis.
I need a not picky assembler, which could cope with this task. Could you advise me something suitable?
Thanks in advance.
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