Dear all-
following assembly of short illumina reads- have got the draft genome and when aligned with the reference using mauve- it shows high similarity among each other but the draft genome has unique sequence within the genome that is missing from the reference- when I blasted this unique sequence, it did not give good similarity with other sequence (some hypothetical proteins)- what should be the next step to find out what is this unique sequence?
(I think it might be a sequence of a bacteriophage as it is about 40kb?)
I do not think it is a plasmid since it is integrated within the bacterial genome (not at the end of the assembly)
following assembly of short illumina reads- have got the draft genome and when aligned with the reference using mauve- it shows high similarity among each other but the draft genome has unique sequence within the genome that is missing from the reference- when I blasted this unique sequence, it did not give good similarity with other sequence (some hypothetical proteins)- what should be the next step to find out what is this unique sequence?
(I think it might be a sequence of a bacteriophage as it is about 40kb?)
I do not think it is a plasmid since it is integrated within the bacterial genome (not at the end of the assembly)
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