Hi everyone,
I’m assembling an eukaryotic genome (2n=22) for the first time, working in a non-model plant species, and I could use some insight: my data consists of reads from a full lane of Illumina HiSeq 2x151 sequences with insert size ~350. from several literature, the estimation of haploid genome size of this plant was about 400Mb. However, kmer-counting programs such as Jellyfish have predicted an assembly size of less than half that number, at about 210Mb.
Does anyone have any idea why the nuclear genome size is so much larger than that of kmer one?
Any related thoughts/comments would be, by me, appreciated!
I’m assembling an eukaryotic genome (2n=22) for the first time, working in a non-model plant species, and I could use some insight: my data consists of reads from a full lane of Illumina HiSeq 2x151 sequences with insert size ~350. from several literature, the estimation of haploid genome size of this plant was about 400Mb. However, kmer-counting programs such as Jellyfish have predicted an assembly size of less than half that number, at about 210Mb.
Does anyone have any idea why the nuclear genome size is so much larger than that of kmer one?
Any related thoughts/comments would be, by me, appreciated!
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