TABLE 1.

NGS Analysis of Pooled Urine Specimens

RNA
Poola	Accession	Virus	Alignments	Seqcov	avgDepth	avgMAPQ	avgScore	avgEditDist	Length	GI
U1	NC_001699.1	JC polyomavirus	13	14.4	0.2	33.9	−8.2	1.7	5130	9628642
U4	NC_001699.1	JC polyomavirus	106	29.8	1.5	38.3	−4.8	1.0	5130	9628642
U5	NC_001699.1	JC polyomavirus	98	17.9	1.4	37.8	−6.7	1.4	5130	9628642
U5	NC_001501.1	Moloney murine leukemia virus	54	3.6	0.5	9.6	−10.1	1.9	8332	9626958
U5	NC_001502.1	Moloney murine sarcoma virus	16	3.9	0.2	1.0	−3.4	0.7	5833	9626962
DNA
Pool	Accession	Virus	Alignments	Seqcov	avgDepth	avgMAPQ	avgScore	avgEditDist	Length	GI
U1	NC_001699.1	JC polyomavirus	743	20.0	10.8	37.0	−2.4	0.5	5130	9628642
U1	NC_001802.1	Human immunodeficiency virus 1	404	5.1	3.2	33.4	−7.8	1.6	9181	9629357
U1	NC_027532.1	Pan troglodytes troglodytes polyomavirus 1 isolate F514.1	13	1.6	0.2	1.0	−0.4	0.1	5159	897364561
U3	NC_001699.1	JC polyomavirus	1598	76.2	23.1	36.8	−4.7	1.0	5130	9628642
U4	NC_001699.1	JC polyomavirus	9781	75.7	141.9	38.4	−4.9	1.0	5130	9628642
U4	NC_009225.1	Torque teno midi virus 1	283	6.8	6.5	19.7	−6.6	1.3	3245	134133206
U4	NC_007014.1	Small anellovirus 2	221	7.4	6.3	16.1	−6.7	1.4	2635	66391753
U4	NC_007013.1	Small anellovirus 1	70	8.4	2.3	3.4	−18.0	3.3	2249	66391749
U4	NC_028635.1	Pan troglodytes verus polyomavirus 8 isolate Ch-Regina	29	1.7	0.4	1.0	−2.2	0.5	5163	960494790
U4	NC_027532.1	Pan troglodytes troglodytes polyomavirus 1 isolate F514.1	25	1.7	0.4	1.0	−3.3	0.7	5159	897364561
U5	NC_001538.1	BK polyomavirus	8842	30.5	127.9	36.9	−2.5	0.5	5153	9627180
U5	NC_001699.1	JC polyomavirus	1391	6.9	20.1	33.6	−10.1	2.1	5130	9628642
U5	NC_004107.1	Woodchuck hepatitis virus	123	4.0	2.7	15.0	−23.2	4.5	3323	22256030
U5	NC_001802.1	Human immunodeficiency virus 1	43	4.3	0.3	26.5	−14.3	2.8	9181	9629357

^a

Abbreviations:

1. Pool – the urine sample pool identifier
2. Accession - the Genbank accession number of the virus sequence in the Viral RefSeq database
3. Virus - the virus name
4. Alignments - total number of reads that aligned to the virus genome
5. Seqcov - the % of the sequence covered by at least one read
6. Avgdepth - the average depth of sequencing coverage across the genome
7. avgMAPQ – the average MAPQ (map quality) of the read alignments
8. avgScore – the average alignment score of the read alignments
9. avgEditDistance – the average edit distance of the read alignments
10. Length - length of the virus sequence in base pairs
11. GI - the Genbank gi number of the virus sequence in the Viral RefSeq database