-- dump date   	20140620_072050
-- class       	Genbank::Contig
-- table       	contig_comment
-- id	comment
NC_008036.1	PROVISIONAL REFSEQ: This record has not yet been subject to finalPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.govPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick CavicchioliPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-StanfordPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGFPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNLPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps withPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. EachPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total errorPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for thePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by thePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data toPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of thisPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborativePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes:PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kbPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coveragePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin becausePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It canPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising aPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of thePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb ofPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 ofPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 of transposase and perfect inverted repeats.  However, we have beenPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 of transposase and perfect inverted repeats.  However, we have been unsuccessful in circularizing the 28.5 kb fragment with pcr,PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 of transposase and perfect inverted repeats.  However, we have been unsuccessful in circularizing the 28.5 kb fragment with pcr, perhaps because of the low representation in the genome.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000357. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 of transposase and perfect inverted repeats.  However, we have been unsuccessful in circularizing the 28.5 kb fragment with pcr, perhaps because of the low representation in the genome. COMPLETENESS: full length.
NC_008048.1	PROVISIONAL REFSEQ: This record has not yet been subject to finalPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.govPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick CavicchioliPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-StanfordPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGFPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNLPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps withPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. EachPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total errorPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for thePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by thePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data toPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of thisPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborativePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes:PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kbPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coveragePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin becausePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It canPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising aPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of thePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb ofPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 ofPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 of transposase and perfect inverted repeats.  However, we have beenPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 of transposase and perfect inverted repeats.  However, we have been unsuccessful in circularizing the 28.5 kb fragment with pcr,PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 of transposase and perfect inverted repeats.  However, we have been unsuccessful in circularizing the 28.5 kb fragment with pcr, perhaps because of the low representation in the genome.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000356. URL -- http://www.jgi.doe.gov JGI Project ID: 3634495 Source DNA and bacteria available from Rick Cavicchioli (rcavicchioli@unsw.edu.au) Contacts: Rick Cavicchioli (rcavicchioli@unsw.edu.au)           Paul Richardson (microbes@cuba.jgi-psf.org) Quality assurance done by JGI-Stanford Annotation done by JGI-ORNL and JGI-PGF Finishing done by JGI-LLNL Finished microbial genomes have been curated to close all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376) Additional Notes: Sphingopyxis alaskensis RB2256 appears to have about a 28.5kb extrachromosomal piece of DNA with significantly lower coverage than the chromosome.  It appears to be of F plasmid origin because of the presence of traA gene, a conjugal transfer protein.  It can be integrated into the genome between 856688 and 859197, excising a piece of chromosomal DNA 2517 bp long. Perhaps a fraction of the population has this 28.5 kb fragment integrated.  Within 2 kb of the excision point is an IS21 element with ORF1 and ORF2 of transposase and perfect inverted repeats.  However, we have been unsuccessful in circularizing the 28.5 kb fragment with pcr, perhaps because of the low representation in the genome. COMPLETENESS: full length.