Table 1.

Overview of the reads generated by small RNA-seq. of infected and mock-treated duck lung and brain. Values correspond to the average of the 30 libraries per organ representing all time points and replicates.

Organ	% trimmed reads	Initial number of reads	Number of mapped readsa	Number of unique mapped readsb	Unique mapped reads (%)c	Average read length	Reads that are too short, mapped to multiple sites
Lung	99.323	30,360,320.7	20,719,684.9	10,871,008.2	35.91686322	21.45	9,848,676.9
Brain	98.93	28,558,210.5	17,554,756.7	7,338,987.9	25.62837304	21.039	10,215,768.8

^aReads that remained after applying the length filter (default threshold for removal are <32 and >15 nts).

^bReads that mapped to one of the small RNA databases (miRNAs, snoRNA, snRNA, rRNAs), miscellaneous RNA or the respective genome (reads shorter than 20 nt with 0 mismatches, longer than 20 nt with 1 mismatch).

^cPercentage of unique mapped reads out of the initial mapped reads.

Individual values for each time point and organ are shown in Table S1.