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Table 3 Illumina and Pacbio RNA-Seq read coverage over predicted gene sets

From: Improving eukaryotic genome annotation using single molecule mRNA sequencing

Read Type Gene Set Subset of genes Total count # of expressed genes (breadth ≥50%) % expressed Average read depth
Any Expressed
Illumina Reads AC-Orig All genes 16,026 10,405 64.9% 161.1 245.6
Overlapping AC-PB genes 15,808 10,254 64.9% 160.9 245.5
Not overlapping AC-PB genes 218 151 69.3% 171.3 246.4
AC-PB All genes 17,540 11,721 66.8% 156.3 231.6
Overlapping AC-Orig genes 15,931 10,365 65.1% 158.3 240.8
Not overlapping AC-Orig genes 1609 1356 84.3% 136.5 161.1
Schwarz et al., [31] 36,687 16,376 44.6% 90.4 199.4
PacBio Reads AC-Orig All genes 16,026 3166 19.8% 3.3 8.9
Overlapping AC-PB genes 15,808 3128 19.8% 3.2 8.8
Not overlapping AC-PB genes 218 38 17.4% 4.1 12.8
AC-PB All genes 17,540 4209 24.0% 3.6 8.8
Overlapping AC-Orig genes 15,931 3398 21.3% 3.4 8.7
Not overlapping AC-Orig genes 1609 811 50.4% 6.4 9.1
Schwarz et al., [31] 36,687 4903 13.4% 2.1 8.8