Difference between revisions of "Francisella tularensis holarctica KO97"

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  Center: Baylor
+
Center: Baylor
 
   Status: Assembly (126 contigs; 1,763,979 bp; maxLen=77,480 bp; avgLen=13,999 bp)
 
   Status: Assembly (126 contigs; 1,763,979 bp; maxLen=77,480 bp; avgLen=13,999 bp)
  
Line 56: Line 56:
 
   }
 
   }
  
'''2007_0822_454'''
+
'''2007_0822_454 -> best'''
 
   newbler assembly of 4WG_FTUL.KO_000p & 4WG_FTUL.KO_000sA libraries
 
   newbler assembly of 4WG_FTUL.KO_000p & 4WG_FTUL.KO_000sA libraries
 
   => 12 Scaffolds, 114 LargeContigs, 1,751,786 bp; gap sizes are not "estimated"
 
   => 12 Scaffolds, 114 LargeContigs, 1,751,786 bp; gap sizes are not "estimated"

Revision as of 15:01, 23 August 2007

Center: Baylor

 Status: Assembly (126 contigs; 1,763,979 bp; maxLen=77,480 bp; avgLen=13,999 bp)

Data

Libraries:

 CENTER  PROJECT     STRAIN   LIB               TYPE SIZE STDEV COUNT   LOCATION
 BCM     BFTH        KO97     BFTHP             WGS 6,250 1,250 1,439   TA
 BCM     BFTG        KO97     BFTGP             WGS 4,000 1,000 1,469   TA
 BCM     4WG_FTUL.KO KO971026 4WG_FTUL.KO_000pA 454 .     .     212,588 SRA ?
 BCM     4WG_FTUL.KO KO971026 4WG_FTUL.KO_000sA 454 .     .     431,608 SRA
 Total                                                          647,104

Assembly

Location:

 /fs/szasmg2/Bacteria/F_tularensis_holarctica_KO97

2007_0821_454

 newbler assembly of 4WG_FTUL.KO_000sA library
 => 123 LargeContigs, 1,760,154 bp
 /*
 **  Consensus results.
 */
 consensusResults
 {
       readStatus
       {
               numberAssembled = 399279;
               numberPartial   = 8579;
               numberSingleton = 5027;
               numberRepeat    = 17452;
               numberOutlier   = 1271;
       }

       largeContigMetrics
       {
               numberOfContigs   = 123;
               numberOfBases     = 1760154;

               avgContigSize     = 14310;
               N50ContigSize     = 21671;
               largestContigSize = 52092;

               Q40PlusBases      = 1755769, 99.75%;
               Q39MinusBases     = 4385, 0.25%;
       }

       allContigMetrics
       {
               numberOfContigs = 175;
               numberOfBases   = 1767552;
       }
 }

2007_0822_454 -> best

 newbler assembly of 4WG_FTUL.KO_000p & 4WG_FTUL.KO_000sA libraries
 => 12 Scaffolds, 114 LargeContigs, 1,751,786 bp; gap sizes are not "estimated"
 /*
 **  Consensus results.
 */
 consensusResults
 {
       readStatus
       {
               numberAssembled = 399206;
               numberPartial   = 8743;
               numberSingleton = 5027;
               numberRepeat    = 17277;
               numberOutlier   = 1355;
       }

       pairedReadStatus
       {
               numberWithBothMapped   = 160501;
               numberWithOneUnmapped  = 6487;
               numberMultiplyMapped   = 16987;
               numberWithBothUnmapped = 354;
       }

       scaffoldMetrics
       {
               numberOfScaffolds   = 12;
               numberOfBases       = 1761805;

               avgScaffoldSize     = 146817;
               N50ScaffoldSize     = 307646;
               largestScaffoldSize = 341670;
       }

       largeContigMetrics
       {
               numberOfContigs   = 114;
               numberOfBases     = 1751786;

               avgContigSize     = 15366;
               N50ContigSize     = 21680;
               largestContigSize = 52088;

               Q40PlusBases      = 1747448, 99.75%;
               Q39MinusBases     = 4338, 0.25%;
       }

       allContigMetrics
       {
               numberOfContigs = 174;
               numberOfBases   = 1767690;
       }
 }