Burkholderia mallei: Difference between revisions

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NCBI  
== Data ==
=== NCBI ===


   [http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=search&term=Burkholderia%20mallei Genome Projects]
   [http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=search&term=Burkholderia%20mallei Genome Projects]
   10 Genome Projects, all done by TIGR
   11 Genome Projects, 10 TIGR, 1 JCVI
   4 complete, 6 draft
   TIGR: 4 complete, 6 draft
  JCVI: 1 progress, no assembly available (Aug 19th 2008)
 
Genome projects
    1  Burkholderia mallei 2002721280  [TIGR]
    2  Burkholderia mallei ATCC 10399 [TIGR]
    3  Burkholderia mallei ATCC 23344 [TIGR]
    4  Burkholderia mallei FMH [TIGR]
    5  Burkholderia mallei GB8 horse 4 [TIGR]
    6  Burkholderia mallei JHU [TIGR]
    7  Burkholderia mallei NCTC 10229 [TIGR]
    8  Burkholderia mallei NCTC 10247 [TIGR]
    9  Burkholderia mallei PRL-20 [TIGR]
    10  Burkholderia mallei SAVP1 [TIGR]


AA:
AA:
 
     Assembly Name                  Submit. AssID  TaxID  TotalLength    #Contigs        #Traces Cov     Comment
     Assembly Name                  Submit. AssID  TaxID  TotalLength    #Contigs        #Traces Cov
   1. Burkholderia mallei 10229      TIGR    852    320386  5,742,303      2              97,133  13.1X   tarchive2amos: ERROR - gap placement outside of contig
   1. Burkholderia mallei 10229      TIGR    852    320386  5,742,303      2              97,133  13.1X
   2. Burkholderia mallei 10399      TIGR    625    320387  5,933,783      106            67,042  8.9X
   2. Burkholderia mallei 10399      TIGR    625    320387  5,933,783      106            67,042  8.9X
   3. Burkholderia mallei 2002721280  TIGR    971    370895  5,690,468      208            58,158  8.3X
   3. Burkholderia mallei 2002721280  TIGR    971    370895  5,690,468      208            58,158  8.3X
   4. Burkholderia mallei ATCC 23344  TIGR    20*    243160  5,835,527      2              82,118  8.2X
   4. Burkholderia mallei ATCC 23344  TIGR    20*    243160  5,835,527      2              82,118  8.2X     assembly can be viewed online but not avail. for download
   5. Burkholderia mallei FMH        TIGR    656    334802  5,814,647      205            66,302  8.5X
   5. Burkholderia mallei FMH        TIGR    656    334802  5,814,647      205            66,302  8.5X     tarchive2amos: ERROR - gap placement outside of contig
   6. Burkholderia mallei GB8 horse 4 TIGR    627    320390  5,804,858      181            57,633  7.5X
   6. Burkholderia mallei GB8 horse 4 TIGR    627    320390  5,804,858      181            57,633  7.5X
   7. Burkholderia mallei JHU        TIGR    655    334803  5,713,799      184            67,018  8.5X
   7. Burkholderia mallei JHU        TIGR    655    334803  5,713,799      184            67,018  8.5X
   8. Burkholderia mallei NCTC 10247  TIGR    2385    320389  5,848,380      2              56,079  7.6X
   8. Burkholderia mallei NCTC 10247  TIGR    2385    320389  5,848,380      2              56,079  7.6X     some traces are missing from AA download but are present in TA_FTP
   9. Burkholderia mallei PRL-20      TIGR    2706    436115  5,669,492      272            60,248  7.9X
   9. Burkholderia mallei PRL-20      TIGR    2706    436115  5,669,492      272            60,248  7.9X
  10. Burkholderia mallei SAVP1      TIGR    2383    320388  5,232,401      2              57,382  8.3X
  10. Burkholderia mallei SAVP1      TIGR    2383    320388  5,232,401      2              57,382  8.3X
File locations:
  /fs/szasmg2/Bacteria/Burkholderia_mallei/
== Insignia ==
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-2383.complete
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-2385.complete.missing_traces.fixed
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-2706
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-625
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-627
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-655
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-656.gap_err
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-852.complete.gap_err
  /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-971
 
  /fs/szasmg2/Bacteria/Burkholderia_mallei/ATCC_23344/best/ : completed by TIGR (4 pieces by AMOSCmp)
  ??? Was it used as reference to compute signitures?

Latest revision as of 15:23, 19 August 2008

Data

NCBI

 Genome Projects
 11 Genome Projects, 10 TIGR, 1 JCVI
 TIGR: 4 complete, 6 draft
 JCVI: 1 progress, no assembly available (Aug 19th 2008)

Genome projects

    1  Burkholderia mallei 2002721280  [TIGR]
    2  Burkholderia mallei ATCC 10399 [TIGR]
    3  Burkholderia mallei ATCC 23344 [TIGR]
    4  Burkholderia mallei FMH [TIGR]
    5  Burkholderia mallei GB8 horse 4 [TIGR]
    6  Burkholderia mallei JHU [TIGR]
    7  Burkholderia mallei NCTC 10229 [TIGR]
    8  Burkholderia mallei NCTC 10247 [TIGR]
    9  Burkholderia mallei PRL-20 [TIGR]
   10  Burkholderia mallei SAVP1 [TIGR]

AA:

    Assembly Name                   Submit. AssID   TaxID   TotalLength     #Contigs        #Traces Cov      Comment
 1. Burkholderia mallei 10229       TIGR    852     320386  5,742,303       2               97,133  13.1X    tarchive2amos: ERROR - gap placement outside of contig
 2. Burkholderia mallei 10399       TIGR    625     320387  5,933,783       106             67,042  8.9X
 3. Burkholderia mallei 2002721280  TIGR    971     370895  5,690,468       208             58,158  8.3X
 4. Burkholderia mallei ATCC 23344  TIGR    20*     243160  5,835,527       2               82,118  8.2X     assembly can be viewed online but not avail. for download
 5. Burkholderia mallei FMH         TIGR    656     334802  5,814,647       205             66,302  8.5X     tarchive2amos: ERROR - gap placement outside of contig
 6. Burkholderia mallei GB8 horse 4 TIGR    627     320390  5,804,858       181             57,633  7.5X
 7. Burkholderia mallei JHU         TIGR    655     334803  5,713,799       184             67,018  8.5X
 8. Burkholderia mallei NCTC 10247  TIGR    2385    320389  5,848,380       2               56,079  7.6X     some traces are missing from AA download but are present in TA_FTP
 9. Burkholderia mallei PRL-20      TIGR    2706    436115  5,669,492       272             60,248  7.9X
10. Burkholderia mallei SAVP1       TIGR    2383    320388  5,232,401       2               57,382  8.3X

File locations:

 /fs/szasmg2/Bacteria/Burkholderia_mallei/

Insignia

 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-2383.complete
 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-2385.complete.missing_traces.fixed
 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-2706
 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-625
 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-627
 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-655
 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-656.gap_err
 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-852.complete.gap_err
 /fs/szasmg2/Bacteria/Burkholderia_mallei/AA/CS--AI-971
 
 /fs/szasmg2/Bacteria/Burkholderia_mallei/ATCC_23344/best/ : completed by TIGR (4 pieces by AMOSCmp)
 ??? Was it used as reference to compute signitures?