Genome assembly3
From CSBLwiki
Verrucosispora sp.
Contents |
Circular view
Log
- Illuminia PE -> ABySS -> Fake reads
- Fake read + 454(2007.06,07) -> Newbler
- 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
rRNA operon
- copy number: 3
- 5s : all same
- 16s,23s : all different
One plasmid
- length: 5.8 kb
- Origin
Sigletons
Singletons
- 454
grep Singleton 454ReadStatus.txt > singles.txt sfffile -o singles.sff -i singles.txt ~/db/genome/Verrucosispora/SEP_2010_PE/GN0TVDJ01.sff ~/db/genome/Verrucosispora/verrucosispora_jem/R_2007_06_22_19_39_57_FLX03070147_adminrig_STACH01/D_2007_06_22_19_39_57_FLX03070147_adminrig_OTFAnalysis/sff/EQ4OWVR01.sff ~/db/genome/Verrucosispora/verrucosispora_jem/R_2007_06_22_19_39_57_FLX03070147_adminrig_STACH01/D_2007_06_22_19_39_57_FLX03070147_adminrig_OTFAnalysis/sff/EQ4OWVR02.sff ~/db/genome/Verrucosispora/verrucosispora_jem/R_2007_07_13_18_06_24_FLX03070147_adminrig_Stach02/D_2007_07_13_18_06_24_FLX03070147_adminrig_OTFAnalysis/sff/ESA5WYK01.sff ~/db/genome/Verrucosispora/verrucosispora_jem/R_2007_07_13_18_06_24_FLX03070147_adminrig_Stach02/D_2007_07_13_18_06_24_FLX03070147_adminrig_OTFAnalysis/sff/ESA5WYK02.sff sffinfo -s singles.sff > singles.fna sffinfo -q singles.sff > singles.qual
- solexa
maq
Submission
- check tool id1: JSID_01_45_130.14.22.21_9000
- check tool id2: JSID_01_46_130.14.22.21_9000
- check tool id3: JSID_01_47_130.14.22.21_9000