/***************************************************************************
**
**      454 Life Sciences Corporation
**         Newbler Metrics Results
**
**      Date of Assembly: 2012/02/28 16:39:55
**      Project Directory: /work/ng6/ergatis/output_repository/run_assembly_iterable/60_run_assembly/i1/g12
**      Software Release: 2.6 (20110517_1502)
**
***************************************************************************/

/*
**  Input information.
*/

runData
{
	file
	{
		path = "/work/ng6/ergatis/output_repository/pyrocleaner/60_pyrocleaner/i1/g4/MISE_2.157.decontaminated.clean.fasta";

		numberOfReads = 9556, 9554;
		numberOfBases = 4450396, 4322820;
	}

}

/*
**  Operation metrics.
*/

runMetrics
{
	inputFileNumReads  = 9556; 
	inputFileNumBases  = 4450396; 

	totalNumberOfReads = 9554; 
	totalNumberOfBases = 4322820; 

	numberSearches   = 656;
	seedHitsFound    = 469274, 715.36;
	overlapsFound    = 42953, 65.48, 9.15%;
	overlapsReported = 37461, 57.11, 87.21%;
	overlapsUsed     = 19093, 29.11, 50.97%;
}

readAlignmentResults
{
	file
	{
		path = "/work/ng6/ergatis/output_repository/pyrocleaner/60_pyrocleaner/i1/g4/MISE_2.157.decontaminated.clean.fasta";

		numAlignedReads     = 9495, 99.38%;
		numAlignedBases     = 4290003, 99.24%;
		inferredReadError  = 0.91%, 38829;
	}

}

/*
** Consensus distribution information.
*/
consensusDistribution
{
	fullDistribution
	{
		signalBin =  0.0, 5701;
		signalBin =  1.0, 21765;
		signalBin =  2.0, 6302;
		signalBin =  3.0, 1827;
		signalBin =  3.8, 1;
		signalBin =  3.9, 1;
		signalBin =  4.0, 709;
		signalBin =  4.7, 2;
		signalBin =  4.8, 2;
		signalBin =  4.9, 12;
		signalBin =  5.0, 266;
		signalBin =  5.6, 2;
		signalBin =  5.7, 5;
		signalBin =  5.8, 7;
		signalBin =  5.9, 11;
		signalBin =  6.0, 91;
		signalBin =  6.4, 1;
		signalBin =  6.5, 2;
		signalBin =  6.8, 5;
		signalBin =  6.9, 8;
		signalBin =  7.0, 35;
		signalBin =  7.1, 1;
		signalBin =  7.6, 1;
		signalBin =  7.8, 3;
		signalBin =  7.9, 4;
		signalBin =  8.3, 1;
		signalBin =  9.1, 1;
	}

	distributionPeaks
	{
		signalPeak = 1, 1.00;
		signalPeak = 2, 2.00;
		signalPeak = 3, 3.00;
		signalPeak = 4, 4.00;
	}

	thresholdsUsed
	{
		threshold = 0, 1, 0.50;
		threshold = 1, 2, 1.50;
		threshold = 2, 3, 2.50;
		threshold = 3, 4, 3.50;

		interpolationAmount = 1.00;
	}
}


/*
**  Alignment depths.
*/
alignmentDepths
{
	      1 = 1;
	      2 = 1;
	    3-4 = 0;
	    5-6 = 0;
	    7-8 = 0;
	   9-10 = 9;
	  11-13 = 168;
	  14-16 = 110;
	  17-19 = 16;
	  20-22 = 46;
	  23-25 = 218;
	  26-28 = 136;
	  29-31 = 206;
	  32-34 = 123;
	  35-38 = 155;
	  39-42 = 176;
	  43-46 = 147;
	  47-50 = 272;
	  51-55 = 228;
	  56-60 = 651;
	  61-70 = 2010;
	  71-80 = 5887;
	  81-90 = 11714;
	 91-100 = 14659;
	101-140 = 21516;
	141-180 = 1021;
	181-240 = 0;
	241-300 = 0;
	301-400 = 0;
	401-500 = 0;
	501-600 = 0;
	601-700 = 0;
	701-850 = 0;
	851-1000 = 0;
	  1001+ = 0;

	peakDepth            = 93.0;
	estimatedGenomeSize  = "0.0 MB";
}

/*
**  Consensus results.
*/
consensusResults
{
	readStatus
	{
		numAlignedReads    = 9495, 99.38%;
		numAlignedBases    = 4290003, 99.24%;
		inferredReadError = 0.91%, 38829;

		numberAssembled = 9364;
		numberPartial   = 131;
		numberSingleton = 31;
		numberRepeat    = 0;
		numberOutlier   = 28;
		numberTooShort  = 0;
	}

	largeContigMetrics
	{
		numberOfContigs   = 1;
		numberOfBases     = 45242;

		avgContigSize     = 45242;
		N50ContigSize     = 45242;
		largestContigSize = 45242;

		Q40PlusBases      = 45214, 99.94%;
		Q39MinusBases     = 28, 0.06%;

		largeContigEndMetrics
		{
			NoEdges   = 0, 0.0%;
			OneEdge   = 2, 100.0%;
			TwoEdges  = 0, 0.0%;
			ManyEdges = 0, 0.0%;
		}
	}

	allContigMetrics
	{
		numberOfContigs = 1;
		numberOfBases   = 45242;
	}
}