-- dump date   	20140619_105016
-- class       	Genbank::Contig
-- table       	contig_comment
-- id	comment
NC_006298.1	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 CP000019.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of aPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease DiagnosticPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributesPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle,PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion andPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, andPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGIPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGI Production Genomics Facility (JGI-PGF) in WalnutCreek, CA. to aPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGI Production Genomics Facility (JGI-PGF) in WalnutCreek, CA. to a coverage of 6x.  Draft reads produced one contig with reads fromPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGI Production Genomics Facility (JGI-PGF) in WalnutCreek, CA. to a coverage of 6x.  Draft reads produced one contig with reads from only plasmid libraries and one gap closed by PCR. Gene predictionsPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGI Production Genomics Facility (JGI-PGF) in WalnutCreek, CA. to a coverage of 6x.  Draft reads produced one contig with reads from only plasmid libraries and one gap closed by PCR. Gene predictions were performed using Glimmer and basic analysis was performed byPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGI Production Genomics Facility (JGI-PGF) in WalnutCreek, CA. to a coverage of 6x.  Draft reads produced one contig with reads from only plasmid libraries and one gap closed by PCR. Gene predictions were performed using Glimmer and basic analysis was performed by searching the coding sequences against the Pfam, BLOCKS, COGS andPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGI Production Genomics Facility (JGI-PGF) in WalnutCreek, CA. to a coverage of 6x.  Draft reads produced one contig with reads from only plasmid libraries and one gap closed by PCR. Gene predictions were performed using Glimmer and basic analysis was performed by searching the coding sequences against the Pfam, BLOCKS, COGS and PDB databases. Six genes have been annotated and two plasmidPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGI Production Genomics Facility (JGI-PGF) in WalnutCreek, CA. to a coverage of 6x.  Draft reads produced one contig with reads from only plasmid libraries and one gap closed by PCR. Gene predictions were performed using Glimmer and basic analysis was performed by searching the coding sequences against the Pfam, BLOCKS, COGS and PDB databases. Six genes have been annotated and two plasmid replication proteins identified.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000019. Haemophilus somnus strain 129Pt was isolated from the prepuce of a healthy bull at the Washington State Animal Disease Diagnostic Laboratory.  This strain lacks several known virulence attributes and is relatively avirulent in challenge models. In general H. somnus is the cause of a variety of systemic diseases in cattle, including thrombotic-meningoencephalitis, pneumonia, abortion and other reproductive diseases, arthritis, myocarditis, and septicemia. Plasmid and fosmid libraries of H.somnus (strain 129Pt) were prepared and shotgun sequencing was performed at the JGI Production Genomics Facility (JGI-PGF) in WalnutCreek, CA. to a coverage of 6x.  Draft reads produced one contig with reads from only plasmid libraries and one gap closed by PCR. Gene predictions were performed using Glimmer and basic analysis was performed by searching the coding sequences against the Pfam, BLOCKS, COGS and PDB databases. Six genes have been annotated and two plasmid replication proteins identified. COMPLETENESS: full length.
NC_008309.1	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 CP000436.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.govPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom InzanaPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  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 CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint GenomePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in WalnutPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. LargePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencingPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with averagePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled withPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). PossiblePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigsPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per basePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions werePROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparingPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and ProdomPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were addedPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST resultsPROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.  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 CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.  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 CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.  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 CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.  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 CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.  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 CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.  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 CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.  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 CP000436. URL -- http://www.jgi.doe.gov        JGI Project ID: 2662200        Source DNA and bacteria available from Tom Inzana        Contacts: Tom Inzana (tinzana@vt.edu)                  Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record.  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). COMPLETENESS: full length.