Difference between revisions of "Francisella tularensis"

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   4. runCA-OBT.pl has been used to assemble all the reads
 
   4. runCA-OBT.pl has been used to assemble all the reads
 
   5. The library sizes were updates using the WGA estimates
 
   5. The library sizes were updates using the WGA estimates
   6. The WGA was aligned to the reference using nucmer; one rearrangement, one deletion and several SNP's were noticed
+
   6. The WGA was aligned to the reference using nucmer; one rearrangement, one
 +
    deletion and several SNP's were noticed
  
 
Assemblies location:  
 
Assemblies location:  

Revision as of 19:28, 8 August 2007

Data sources:

NCBI:

Broad:

Baylor:

Type A:

FSC033 : Broad assembly (15 contigs)

Assemblies location:

 /fs/szasmg/Bacteria/F_tularensis_tularensis_FSC033/

Type B:

OSU18 : BCM complete

Assembly steps:

 1. Reads were downloaded from TA and formatted using tarchive2ca 
 2. There are 2 Sanger libraries for this project 
      BFTBP:58051 reads
      BFTDP:10409 reads
 3. The reads have been retrimmed using veraTrim (-T 10 -M 100 -E 500)
 4. runCA-OBT.pl has been used to assemble all the reads
 5. The library sizes were updates using the WGA estimates
 6. The WGA was aligned to the reference using nucmer; one rearrangement, one  
    deletion and several SNP's were noticed

Assemblies location:

 /fs/szasmg/Bacteria/F_tularensis_holarctica_OSU18/

Final assembly location:

 /fs/szasmg/Bacteria/F_tularensis_holarctica_OSU18/best

Novicida

Mediasiatica