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Metric
|
BT-474 STD
|
BT-474 LFR1
|
BT-474 LFR2
|
|---|
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Fully called genome fraction
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0.972
|
0.915
|
0.900
|
|
Fully called exome fraction
|
0.988
|
0.928
|
0.920
|
|
Gross mapping yield (Gb)
|
343
|
298
|
261
|
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Both mates mapped yield (Gb)
|
306
|
217
|
171
|
|
Genome fraction with sequence coverage ≥ 5x
|
0.997
|
0.981
|
0.978
|
|
Exome fraction with sequence coverage ≥ 5x
|
0.999
|
0.980
|
0.980
|
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SNV total count
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3,241,932
|
2,856,624
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2,890,506
|
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Homozygous SNV count
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1,531,723
|
1,382,653
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1,241,444
|
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Heterozygous SNV count
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1,635,402
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1,195,290
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1,239,735
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Het/Hom ratio
|
1.07
|
0.86
|
1.00
|
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ENA sample accession number
|
ERS823996
|
ERS823998
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ERS823997
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- STD and LFR libraries were mapped to the NCBI reference genome build 37. An explanation of the genome statistics are as follows: fully called genome fraction, the fraction of the genome for which both alleles at each position are confidently called; fully called exome fraction, the fraction of the coding part of the genome for which both alleles are confidently called; gross mapping yield (Gb), the number of gigabases of read data that can be mapped to NCBI reference genome build 37; both mates mapped yield (Gb), the number of gigabases of read data where both arms of a mate pair can be mapped to NCBI reference genome build 37; genome fraction with sequence coverage ≥ 5x, fraction of the genome with at least 5 reads covering a single position; exome fraction with sequence coverage ≥ 5x, fraction of the coding genome with at least 5 reads covering a single position; SNV total count, the total number of single nucleotide variants called in each library; homozygous SNV count, the total number of homozygous variants called in each library; heterozygous SNV count, the total number of heterozygous variants called in each library; Het/Hom ratio, the ratio of heterozygous variants over homozygous variants (this number is typically around 1.6 for a Caucasian genome); ENA sample accession number, the European Nucleotide Archive accession number to locate the raw read data for each library
