/***************************************************************************
**
**      454 Life Sciences Corporation
**         Newbler Metrics Results
**
**      Date of Assembly: 2008/04/08 16:34:29
**      Project Directory: /remote/rigdata/nas11/ifx_projects_2007q2/C431/SV11042/L17_VIR_assem_v1.03
**      Software Release: 1.1.03.24
**
***************************************************************************/

/*
**  Input information.
*/

runData
{
	file
	{
		path = "/remote/rigdata/it1/build10/R_2008_02_19_15_04_49_build10_dconners_100707593662420SV11042SID4669RunID24977732/D_2008_02_19_21_56_38_datarig42_AnalysisPipe/sff/E5R36BC01.sff";

		numberOfReads = 197656, 197654;
		numberOfBases = 45630140, 45600348;
	}

	file
	{
		path = "/remote/rigdata/it1/build10/R_2008_02_19_15_04_49_build10_dconners_100707593662420SV11042SID4669RunID24977732/D_2008_02_19_21_56_38_datarig42_AnalysisPipe/sff/E5R36BC02.sff";

		numberOfReads = 201522, 201520;
		numberOfBases = 46406978, 46377664;
	}

	file
	{
		path = "/remote/rigdata/it2/sc01/R_2008_04_02_15_33_38_sc01_jsalem_100707593660420SV11042SID4669RunID25129993/D_2008_04_02_23_03_54_d12_AnalysisPipe/sff/E766UCN01.sff";

		numberOfReads = 243841, 243841;
		numberOfBases = 53777529, 53772079;
	}

	file
	{
		path = "/remote/rigdata/it2/sc01/R_2008_04_02_15_33_38_sc01_jsalem_100707593660420SV11042SID4669RunID25129993/D_2008_04_02_23_03_54_d12_AnalysisPipe/sff/E766UCN02.sff";

		numberOfReads = 270298, 270298;
		numberOfBases = 61389804, 61384017;
	}

}

/*
**  Operation metrics.
*/

runMetrics
{
	totalNumberOfReads = 913313; 
	totalNumberOfBases = 207134108; 

	numberSearches   = 77480;
	seedHitsFound    = 71971410, 928.90;
	overlapsFound    = 7511931, 96.95, 10.44%;
	overlapsReported = 5546523, 71.59, 7.71%;
	overlapsUsed     = 2579846, 33.30, 46.51%;
}

readAlignmentResults
{
	file
	{
		path = "/remote/rigdata/it1/build10/R_2008_02_19_15_04_49_build10_dconners_100707593662420SV11042SID4669RunID24977732/D_2008_02_19_21_56_38_datarig42_AnalysisPipe/sff/E5R36BC01.sff";

		numAlignedReads    = 195942, 99.13%;
		numAlignedBases    = 43262266, 94.81%;
		inferredReadError = 0.87%, 375948;
	}

	file
	{
		path = "/remote/rigdata/it1/build10/R_2008_02_19_15_04_49_build10_dconners_100707593662420SV11042SID4669RunID24977732/D_2008_02_19_21_56_38_datarig42_AnalysisPipe/sff/E5R36BC02.sff";

		numAlignedReads    = 199762, 99.13%;
		numAlignedBases    = 44017305, 94.85%;
		inferredReadError = 0.90%, 397610;
	}

	file
	{
		path = "/remote/rigdata/it2/sc01/R_2008_04_02_15_33_38_sc01_jsalem_100707593660420SV11042SID4669RunID25129993/D_2008_04_02_23_03_54_d12_AnalysisPipe/sff/E766UCN01.sff";

		numAlignedReads    = 241088, 98.87%;
		numAlignedBases    = 51124492, 95.07%;
		inferredReadError = 0.89%, 456589;
	}

	file
	{
		path = "/remote/rigdata/it2/sc01/R_2008_04_02_15_33_38_sc01_jsalem_100707593660420SV11042SID4669RunID25129993/D_2008_04_02_23_03_54_d12_AnalysisPipe/sff/E766UCN02.sff";

		numAlignedReads    = 267734, 99.05%;
		numAlignedBases    = 58396386, 95.12%;
		inferredReadError = 0.85%, 497106;
	}

}

/*
** Consensus distribution information.
*/
consensusDistribution
{
	fullDistribution
	{
		signalBin =  0.0, 223110;
		signalBin =  0.5, 2;
		signalBin =  0.6, 14;
		signalBin =  0.7, 348;
		signalBin =  0.8, 74082;
		signalBin =  0.9, 5050053;
		signalBin =  1.0, 1119885;
		signalBin =  1.1, 14855;
		signalBin =  1.2, 758;
		signalBin =  1.3, 126;
		signalBin =  1.4, 29;
		signalBin =  1.5, 12;
		signalBin =  1.6, 55;
		signalBin =  1.7, 870;
		signalBin =  1.8, 70841;
		signalBin =  1.9, 1161570;
		signalBin =  2.0, 347188;
		signalBin =  2.1, 6788;
		signalBin =  2.2, 625;
		signalBin =  2.3, 194;
		signalBin =  2.4, 69;
		signalBin =  2.5, 43;
		signalBin =  2.6, 168;
		signalBin =  2.7, 873;
		signalBin =  2.8, 27238;
		signalBin =  2.9, 258223;
		signalBin =  3.0, 93519;
		signalBin =  3.1, 2553;
		signalBin =  3.2, 361;
		signalBin =  3.3, 172;
		signalBin =  3.4, 109;
		signalBin =  3.5, 96;
		signalBin =  3.6, 235;
		signalBin =  3.7, 1129;
		signalBin =  3.8, 14749;
		signalBin =  3.9, 62647;
		signalBin =  4.0, 21600;
		signalBin =  4.1, 983;
		signalBin =  4.2, 125;
		signalBin =  4.3, 85;
		signalBin =  4.4, 50;
		signalBin =  4.5, 51;
		signalBin =  4.6, 168;
		signalBin =  4.7, 770;
		signalBin =  4.8, 4713;
		signalBin =  4.9, 11870;
		signalBin =  5.0, 7298;
		signalBin =  5.1, 1132;
		signalBin =  5.2, 115;
		signalBin =  5.3, 38;
		signalBin =  5.4, 23;
		signalBin =  5.5, 48;
		signalBin =  5.6, 91;
		signalBin =  5.7, 425;
		signalBin =  5.8, 1403;
		signalBin =  5.9, 2862;
		signalBin =  6.0, 1934;
		signalBin =  6.1, 356;
		signalBin =  6.2, 44;
		signalBin =  6.3, 21;
		signalBin =  6.4, 19;
		signalBin =  6.5, 43;
		signalBin =  6.6, 121;
		signalBin =  6.7, 241;
		signalBin =  6.8, 436;
		signalBin =  6.9, 390;
		signalBin =  7.0, 199;
		signalBin =  7.1, 52;
		signalBin =  7.2, 15;
		signalBin =  7.3, 9;
		signalBin =  7.4, 17;
		signalBin =  7.5, 24;
		signalBin =  7.6, 52;
		signalBin =  7.7, 66;
		signalBin =  7.8, 65;
		signalBin =  7.9, 53;
		signalBin =  8.0, 16;
		signalBin =  8.1, 11;
		signalBin =  8.2, 7;
		signalBin =  8.3, 8;
		signalBin =  8.4, 12;
		signalBin =  8.5, 12;
		signalBin =  8.6, 11;
		signalBin =  8.7, 7;
		signalBin =  8.8, 1;
		signalBin =  8.9, 5;
		signalBin =  9.3, 3;
		signalBin =  9.4, 1;
		signalBin =  9.5, 3;
		signalBin =  9.6, 1;
		signalBin =  9.7, 2;
		signalBin = 10.0, 1;
		signalBin = 10.5, 2;
		signalBin = 11.1, 1;
		signalBin = 11.4, 2;
		signalBin = 11.9, 1;
		signalBin = 12.9, 1;
	}

	distributionPeaks
	{
		signalPeak = 1, 0.96;
		signalPeak = 2, 1.96;
		signalPeak = 3, 2.96;
		signalPeak = 4, 3.94;
		signalPeak = 5, 4.96;
		signalPeak = 6, 5.94;
		signalPeak = 7, 6.88;
	}

	thresholdsUsed
	{
		threshold = 0, 1, 0.48;
		threshold = 1, 2, 1.52;
		threshold = 2, 3, 2.50;
		threshold = 3, 4, 3.50;
		threshold = 4, 5, 4.50;
		threshold = 5, 6, 5.40;
		threshold = 6, 7, 6.36;

		interpolationAmount = 0.98;
	}
}


/*
**  Consensus results.
*/
consensusResults
{
	readStatus
	{
		numberAssembled = 827516;
		numberPartial   = 20340;
		numberSingleton = 8787;
		numberRepeat    = 49045;
		numberOutlier   = 7625;
	}

	largeContigMetrics
	{
		numberOfContigs   = 2893;
		numberOfBases     = 8166209;

		avgContigSize     = 2822;
		N50ContigSize     = 7341;
		largestContigSize = 358771;

		Q40PlusBases      = 8108822, 99.30%;
		Q39MinusBases     = 57387, 0.70%;
	}

	allContigMetrics
	{
		numberOfContigs = 6520;
		numberOfBases   = 9099385;
	}
}