Methanobrevibacter smithii: Difference between revisions

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** 10 strains sequenced by GAII Illumina (36mers) with 3-8 million reads per strain (coverage is 50-150x),  
** 10 strains sequenced by GAII Illumina (36mers) with 3-8 million reads per strain (coverage is 50-150x),  
** 12 strains sequenced by 454-Titanium sequencing, with 20,000 to 90,000 reads per strain (coverage is ~5-20x).
** 12 strains sequenced by 454-Titanium sequencing, with 20,000 to 90,000 reads per strain (coverage is ~5-20x).
Illumina: 36 bp single reads
    nl  strain reads  cvg
    1  FR1LH1 5186537 100
    2  FR1LH3 7211080 140
    3  FR1LH6 4968262 96
    4  TS145A 6536457 126
    5  TS145B 8277390 160
    6  TS94-3 4886376 94
    7  TS94-5 4785200 92
    8  TS95-2 2896065 56
    9  TS95-3 5064150 98
    10  TS95-4 3557512 69
    11  TS95-5 4559830 88

Revision as of 21:29, 16 December 2009

Data

NCBI

1 complete + 2 draft assembly strains:

Methanobrevibacter smithii ATCC 35061

Methanobrevibacter smithii DSM 2374

  • draft: NZ_ABYV02000000
  • 1,727,775 bp
  • 25 contigs: NZ_ABYV02000001 .. NZ_ABYV02000025

Methanobrevibacter smithii DSM 2375

  • draft: NZ_ABYW00000000
  • 1,704,865 bp
  • 24 contigs: NZ_ABYW01000001 .. NZ_ABYW01000024

Methanobrevibacter smithii DSM 11975

  • progress

WUSTL (Gordon Lab)

  • Ftp:
 http://cgsweb.wustl.edu/~hansene/
  • Location:
 /fs/szattic-asmg4/methanobrevibacter_smithii/Data
  • 22 strains
  • half-way through sequencing (should have all the data by early to mid-January)
  • right now (--Dpuiu 15:19, 15 December 2009 (EST)):
    • 10 strains sequenced by GAII Illumina (36mers) with 3-8 million reads per strain (coverage is 50-150x),
    • 12 strains sequenced by 454-Titanium sequencing, with 20,000 to 90,000 reads per strain (coverage is ~5-20x).

Illumina: 36 bp single reads

   nl  strain reads   cvg
    1  FR1LH1 5186537 100
    2  FR1LH3 7211080 140
    3  FR1LH6 4968262 96
    4  TS145A 6536457 126
    5  TS145B 8277390 160
    6  TS94-3 4886376 94
    7  TS94-5 4785200 92
    8  TS95-2 2896065 56
    9  TS95-3 5064150 98
   10  TS95-4 3557512 69
   11  TS95-5 4559830 88