Clostridium perfringens: Difference between revisions

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Location: /fs/szasmg2/Bacteria/C_perfringens/SM101
Location: /fs/szasmg2/Bacteria/C_perfringens/SM101
AA contigs:
  Name          Length %GC
  1              12397  26.68
  2              12206  25.82
  3              2897393 28.25
   
   
Reads:
Reads:

Revision as of 19:19, 16 October 2007

Data sources

NCBI:

Strains:

Strains:

 1. A: not sequenced 
 2. ATCC 13124: JCVI; 54K reads, 1 contig ; finished; 3,256,683 bp ;28.38% GC ; ??? what about plasmids
 3. B str. ATCC 3626: JCVI, 38K reads, 98 contigs
 4. C str. JGS1495: JCVI, 40K reads, 84 contigs
 5. CPE str. F4969: JCVI, 37K reads, 74 contig
 6. D: not sequenced 
 7. E str. JGS1987: JCVI, 38K reads, 101 contigs
 8. NCTC 8239: JCVI, 38K reads, 55 contigs
 9. SM101: JCVI+TIGR, 43K reads, 3 contigs (chromosome+2 plasmids) (finished)
10. 13: University of Tsukuba Japan, 52K reads (not available in NCBI TA), 2 contigs(chomosome+plasmid), phrap assembly (finished); 
    password protected web site : http://kantaro2.grt.kyushu-u.ac.jp/microb/welch/

File locations:

 /fs/szasmg2/Bacteria/C_perfringens

NCBI AA assemblied:

CBCB CA3 assemblies:

                    Placed  Deg  Total
 1. A
 2. ATCC_13124         37   69   106      
 3. B_str__ATCC_362    64   65   129
 4. C_str__JGS1495     53   39    92 
 5. CPE_str__F4969     60    4    64     better
 6. D
 7. E_str__JGS1987     78   15    83     better
 8. str__nctc8239      48    2    50     better
 9. SM101              29  120   140
10. 13

ATCC_13124

Location: /fs/szasmg2/Bacteria/C_perfringens/ATCC_13124/

Reads:

 WGA        51622
 FINISHING   2521
 Total      54143

SM101

Location: /fs/szasmg2/Bacteria/C_perfringens/SM101

AA contigs:

 Name           Length %GC
 1              12397  26.68
 2              12206  25.82
 3              2897393 28.25

Reads:

 WGA        40816
 FINISHING   2994
 Total      543810