/***************************************************************************
**
**      454 Life Sciences Corporation
**         Newbler Metrics Results
**
**      Date of Assembly: 2008/04/04 15:29:30
**      Project Directory: /remote/rigdata/nas11/ifx_projects_2007q2/C431/SV11042/L17_ATT_assem_filt
**      Software Release: 1.1.02.15
**
***************************************************************************/

/*
**  Input information.
*/

runData
{
	file
	{
		path = "/remote/rigdata/it4/build09/R_2008_02_11_16_17_28_build09_jsalem_100707593662420SV11042SID4670RunID24955160/D_2008_02_11_22_13_23_datarig42_AnalysisPipe/sff/E5DD7EL01.sff";

		numberOfReads = 143218;
		numberOfBases = 30423965;
	}

	file
	{
		path = "/remote/rigdata/it4/build09/R_2008_02_11_16_17_28_build09_jsalem_100707593662420SV11042SID4670RunID24955160/D_2008_02_11_22_13_23_datarig42_AnalysisPipe/sff/E5DD7EL02.sff";

		numberOfReads = 138368;
		numberOfBases = 29271318;
	}

	file
	{
		path = "/remote/rigdata/nas11/ifx_projects_2007q2/C431/SV11042/R_2008_02_14_16_39_23_build02_jsalem_100707593662420SV11042SID4670RunID24964420/D_2008_03_26_12_20_42_AnalysisPipe_QF570.2DOT0.2/sff/E5IY7XF01.sff";

		numberOfReads = 193671;
		numberOfBases = 37606244;
	}

	file
	{
		path = "/remote/rigdata/nas11/ifx_projects_2007q2/C431/SV11042/R_2008_02_14_16_39_23_build02_jsalem_100707593662420SV11042SID4670RunID24964420/D_2008_03_26_12_20_42_AnalysisPipe_QF570.2DOT0.2/sff/E5IY7XF02.sff";

		numberOfReads = 201540;
		numberOfBases = 39873254;
	}

}

/*
**  Operation metrics.
*/

runMetrics
{
	totalNumberOfReads = 676797; 
	totalNumberOfBases = 137129578; 

	numberSearches   = 51708;
	seedHitsFound    = 34483287, 666.88;
	overlapsFound    = 4186356, 80.96, 12.14%;
	overlapsReported = 3254878, 62.95, 9.44%;
	overlapsUsed     = 1649532, 31.90, 50.68%;
}

readAlignmentResults
{
	file
	{
		path = "/remote/rigdata/it4/build09/R_2008_02_11_16_17_28_build09_jsalem_100707593662420SV11042SID4670RunID24955160/D_2008_02_11_22_13_23_datarig42_AnalysisPipe/sff/E5DD7EL01.sff";

		numAlignedReads    = 141798, 99.01%;
		numAlignedBases    = 26591753, 87.40%;
		inferredReadError = 0.72%, 192031;
	}

	file
	{
		path = "/remote/rigdata/it4/build09/R_2008_02_11_16_17_28_build09_jsalem_100707593662420SV11042SID4670RunID24955160/D_2008_02_11_22_13_23_datarig42_AnalysisPipe/sff/E5DD7EL02.sff";

		numAlignedReads    = 136971, 98.99%;
		numAlignedBases    = 25694602, 87.78%;
		inferredReadError = 0.73%, 188706;
	}

	file
	{
		path = "/remote/rigdata/nas11/ifx_projects_2007q2/C431/SV11042/R_2008_02_14_16_39_23_build02_jsalem_100707593662420SV11042SID4670RunID24964420/D_2008_03_26_12_20_42_AnalysisPipe_QF570.2DOT0.2/sff/E5IY7XF01.sff";

		numAlignedReads    = 191971, 99.12%;
		numAlignedBases    = 32495789, 86.41%;
		inferredReadError = 0.29%, 93140;
	}

	file
	{
		path = "/remote/rigdata/nas11/ifx_projects_2007q2/C431/SV11042/R_2008_02_14_16_39_23_build02_jsalem_100707593662420SV11042SID4670RunID24964420/D_2008_03_26_12_20_42_AnalysisPipe_QF570.2DOT0.2/sff/E5IY7XF02.sff";

		numAlignedReads    = 199964, 99.22%;
		numAlignedBases    = 34628722, 86.85%;
		inferredReadError = 0.30%, 105281;
	}

}

/*
** Consensus distribution information.
*/
consensusDistribution
{
	fullDistribution
	{
		signalBin =  0.0, 75177;
		signalBin =  0.5, 31;
		signalBin =  0.6, 26;
		signalBin =  0.7, 118;
		signalBin =  0.8, 5775;
		signalBin =  0.9, 1189673;
		signalBin =  1.0, 4421135;
		signalBin =  1.1, 188001;
		signalBin =  1.2, 7072;
		signalBin =  1.3, 695;
		signalBin =  1.4, 108;
		signalBin =  1.5, 43;
		signalBin =  1.6, 74;
		signalBin =  1.7, 1551;
		signalBin =  1.8, 41539;
		signalBin =  1.9, 435487;
		signalBin =  2.0, 832134;
		signalBin =  2.1, 155250;
		signalBin =  2.2, 9630;
		signalBin =  2.3, 708;
		signalBin =  2.4, 80;
		signalBin =  2.5, 40;
		signalBin =  2.6, 258;
		signalBin =  2.7, 2345;
		signalBin =  2.8, 21293;
		signalBin =  2.9, 98134;
		signalBin =  3.0, 168518;
		signalBin =  3.1, 57781;
		signalBin =  3.2, 6816;
		signalBin =  3.3, 649;
		signalBin =  3.4, 93;
		signalBin =  3.5, 126;
		signalBin =  3.6, 530;
		signalBin =  3.7, 2434;
		signalBin =  3.8, 8860;
		signalBin =  3.9, 21180;
		signalBin =  4.0, 38037;
		signalBin =  4.1, 18625;
		signalBin =  4.2, 3922;
		signalBin =  4.3, 544;
		signalBin =  4.4, 188;
		signalBin =  4.5, 223;
		signalBin =  4.6, 566;
		signalBin =  4.7, 1392;
		signalBin =  4.8, 2738;
		signalBin =  4.9, 4368;
		signalBin =  5.0, 8267;
		signalBin =  5.1, 4725;
		signalBin =  5.2, 1417;
		signalBin =  5.3, 319;
		signalBin =  5.4, 212;
		signalBin =  5.5, 263;
		signalBin =  5.6, 452;
		signalBin =  5.7, 621;
		signalBin =  5.8, 911;
		signalBin =  5.9, 1068;
		signalBin =  6.0, 1683;
		signalBin =  6.1, 918;
		signalBin =  6.2, 313;
		signalBin =  6.3, 120;
		signalBin =  6.4, 132;
		signalBin =  6.5, 124;
		signalBin =  6.6, 169;
		signalBin =  6.7, 191;
		signalBin =  6.8, 192;
		signalBin =  6.9, 155;
		signalBin =  7.0, 260;
		signalBin =  7.1, 111;
		signalBin =  7.2, 54;
		signalBin =  7.3, 31;
		signalBin =  7.4, 48;
		signalBin =  7.5, 40;
		signalBin =  7.6, 31;
		signalBin =  7.7, 38;
		signalBin =  7.8, 25;
		signalBin =  7.9, 26;
		signalBin =  8.0, 32;
		signalBin =  8.1, 19;
		signalBin =  8.2, 16;
		signalBin =  8.3, 3;
		signalBin =  8.4, 15;
		signalBin =  8.5, 10;
		signalBin =  8.6, 4;
		signalBin =  8.7, 4;
		signalBin =  8.8, 2;
		signalBin =  8.9, 4;
		signalBin =  9.0, 3;
		signalBin =  9.1, 2;
		signalBin =  9.3, 7;
		signalBin =  9.4, 1;
		signalBin =  9.8, 1;
		signalBin = 10.9, 1;
		signalBin = 11.3, 2;
		signalBin = 11.6, 1;
	}

	distributionPeaks
	{
		signalPeak = 1, 1.02;
		signalPeak = 2, 2.02;
		signalPeak = 3, 3.02;
		signalPeak = 4, 4.02;
		signalPeak = 5, 5.02;
		signalPeak = 6, 5.98;
		signalPeak = 7, 6.88;
	}

	thresholdsUsed
	{
		threshold = 0, 1, 0.50;
		threshold = 1, 2, 1.56;
		threshold = 2, 3, 2.52;
		threshold = 3, 4, 3.50;
		threshold = 4, 5, 4.48;
		threshold = 5, 6, 5.46;
		threshold = 6, 7, 6.44;

		interpolationAmount = 0.99;
	}
}


/*
**  Consensus results.
*/
consensusResults
{
	readStatus
	{
		numberAssembled = 578072;
		numberPartial   = 6249;
		numberSingleton = 6093;
		numberRepeat    = 22955;
		numberDuplicate = 61119;
		numberOutlier   = 2309;
	}

	largeContigMetrics
	{
		numberOfContigs   = 516;
		numberOfBases     = 7739335;

		avgContigSize     = 14998;
		N50ContigSize     = 88025;
		largestContigSize = 288976;

		Q40PlusBases      = 7688944, 99.35%;
		Q39MinusBases     = 50391, 0.65%;
	}

	allContigMetrics
	{
		numberOfContigs = 1168;
		numberOfBases   = 7892637;
	}
}