Francisella tularensis tularensis ATCC6223

Center: Baylor

 Status: Assembly (88 contigs; 1,757,628 bp; maxLen=133,694 bp; avgLen=19,973 bp)

Data

Libraries:

 CENTER   PROJECT	STRAIN	   LIB                TYPE   SIZE   STDEV    COUNT   LOCATION
 BCM      BFTF          ATCC6223  BFTFP              WGS    6,250  1,250     2,144  TA
 BCM      4WG_FTUL.AT   ATCC6223  4WG_FTUL.AT_000SA  454    .      .       408,780  TA
 BCM      4WG_FTUL.AT   ATCC6223  4WG_FTUL.AT_000pA  454    .      .       218,232  SRA ?
 Total                                                                     629,156

Assembly

Locations:

 /fs/szasmg2/Bacteria/F_tularensis_tularensis_ATCC6223/

2007_0821_AMOScmp-454 -> best

 => 88 scaffolds, 188 contigs, 1,762,423 bp ; maxContigLen=70,372 bp
 272,522 singletons ; all 454 paired reads are left as singletons

2007_0821_AMOScmp-454-SchuS4

 uses Schu S4 (complete) as reference
 => 1 scaff, 194 contigs, 1,759,427 bp
 => 2 large areas with coverage twice as deep as average
 => 3 large areas with no 454 coverage

2007_0821_AMOScmp-454-FSC198

 uses FSC198 (complete) as reference
 => 1 scaff, 195 contigs, 1,761,838 bp
 => 2 large areas with coverage twice as deep as average
 => 3 large areas with no 454 coverage

2007_0821_AMOScmp-454-WY96-3418

 uses  WY96-3418(complete) as reference
 => 1 scaff, 144 contigs, 1,761,838 bp
 => 2 large areas with coverage twice as deep as average
 => 4-5 large areas with no 454 coverage

Problem

 lib 4WG_FTUL.AT_000SA in TA but not in SRA, .sff file is missing; could not run newbler on both 454 libraries