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hi all
Iv sequenced a bacterial genome using the iontorrent 400nt sequencing kit (unpaired reads) and have a difficult genome that has many repetitive regions and low similarity reference genomes.
I was thinking of sequencing the genome again in order to generate mate pair reads so I can accurately build a scaffold and then use the unpaired reads to further extend the genome.
Or I was thinking of going for a pacbio sequencing service as the data would provide a similar type of end result, as the pacbio reads are most likely long enough to span across repetitive regions.
Do you guys think this is a sound plan and if so which one is better and can anyone suggest a cheap sequencing service that can sequence my bacterial genome and produce mate pair reads??.
Any other ideas would be appreciated.
thanks
Iv sequenced a bacterial genome using the iontorrent 400nt sequencing kit (unpaired reads) and have a difficult genome that has many repetitive regions and low similarity reference genomes.
I was thinking of sequencing the genome again in order to generate mate pair reads so I can accurately build a scaffold and then use the unpaired reads to further extend the genome.
Or I was thinking of going for a pacbio sequencing service as the data would provide a similar type of end result, as the pacbio reads are most likely long enough to span across repetitive regions.
Do you guys think this is a sound plan and if so which one is better and can anyone suggest a cheap sequencing service that can sequence my bacterial genome and produce mate pair reads??.
Any other ideas would be appreciated.
thanks