Table 1.

Summary of high-throughput sequencing data

		Mock		Rickettsia infection day 1				Rickettsia infection day 3
		Replicate 1	Replicate 2	Replicate 3	Replicate 1	Replicate 2	Replicate 3	Replicate 1	Replicate 2	Replicate 3
Total reads		7,976,072	7,579,606	7,072,909	9,086,972	9,303,189	8,233,584	7,000,534	7,478,639	6,813,408
Mouse genome		6,825,993	6,504,196	6,142,393	7,888,232	8,053,081	7,064,456	6,014,752	6,419,927	5,653,699
(GRCm38/mm10)
Mouse small RNAs	microRNA	4,726,255	4,538,273	4,437,811	5,678,975	5,617,614	4,833,244	4,099,680	4,176,360	2,843,170
	piRNA	36,579	39,855	34,899	45,506	40,654	35,252	35,230	36,925	30,880
	snoRNA	104,905	111,394	111,173	107,850	160,003	130,500	142,705	126,827	108,898
	snRNA	11,381	12,387	11,513	11,055	14,467	12,857	18,941	19,080	15,470
	rRNA	19,666	24,792	28,487	25,276	26,243	28,507	28,403	25,919	29,887
	tRNA	388,179	239,575	150,429	278,754	457,630	452,977	337,384	597,214	700,422
tRNA matches	tRF-5	362,050	212,503	122,029	249,710	423,795	420,596	304,148	548,458	647,353
	t-RF-3	319	302	579	511	487	580	427	553	571
	non-tRF	25,810	26,770	27,821	28,524	33,384	31,801	32,809	48,203	52,498

The read numbers are summarized and tabulated. Sequences matching tRNAs were further sorted into tRF-5, -3, and non-tRFs, as defined in the text. Mouse genome (GRCm38/mm10) indicates Mus musculus genome assembled by the Genome Reference Consortium (GRCm38), UCSC version 10.