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Revision as of 07:13, 6 February 2011 (view source) Gnusnah (Talk | contribs) ← Older edit		Revision as of 08:30, 6 February 2011 (view source) Gnusnah (Talk | contribs) Newer edit →
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	*length: 5.8 kb		*length: 5.8 kb
	*[[Verr_Origin|Origin]]		*[[Verr_Origin|Origin]]
		+	=Sigletons=
		+	Singletons
		+	grep Singleton 454ReadStatus.txt > singles.txt
		+	sfffile -o singles.sff -i singles.txt ~/db/genome/~ ~/db/genome/~
		+	sffinfo -s singles.sff > singles.fna
		+	sffinfo -q singles.sff > singles.qual

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Revision as of 08:30, 6 February 2011

Verrucosispora sp.

Contents 1 Log 2 Read Libraries 3 Primers for gap filling 4 rRNA operon 5 One plasmid 6 Sigletons

Log

1. Illuminia PE -> ABySS -> Fake reads
2. Fake read + 454(2007.06,07) -> Newbler
3. Fake read + 454(2007.06,07,2010.09) -> Newbler

Read Libraries

• Illumina PE - 2007 8,046,794 X 2
• 454 - 2007.06 SE 249,640, 264,032
• 454 - 2007.07 SE 183,870, 187,022
• 454 - 2010.09 PE 235,916
• fake reads SE 15,379

Primers for gap filling

Primer_Verrucosispora_gap

rRNA operon

• copy number: 3
  • 5s : all same
  • 16s,23s : all different

One plasmid

• length: 5.8 kb
• Origin

Sigletons

Singletons

grep Singleton 454ReadStatus.txt > singles.txt
sfffile -o singles.sff -i singles.txt ~/db/genome/~ ~/db/genome/~
sffinfo -s singles.sff > singles.fna
sffinfo -q singles.sff > singles.qual