Integrated analyses using RNA-Seq data reveal viral genomes, single nucleotide variations, the phylogenetic relationship, and recombination for Apple stem grooving virus

Table 1 Blast results to identify ASGV-associated contigs from ASGV-infected apple mRNA-Seq data

Query id	Subject ids	Identity (%)	Alignment length	Mismatches	Gap opens	Query start	Query end	Subject start	Subject end	Evalue	Bit score
TR9237	NC_001749.2	83.29	1532	253	3	3	1533	12	1541	0	1408
TR10325	NC_001749.2	97.15	492	14	0	1	492	515	24	0	832
TR12482	NC_001749.2	98.1	473	9	0	1	473	945	473	0	824
TR1643\|	NC_001749.2	97.71	1356	31	0	1	1356	1111	2466	0	2333
TR3149	NC_001749.2	98.28	232	4	0	1	232	1157	926	9.00E-113	407
TR1643	NC_001749.2	98.3	766	13	0	1	766	1701	2466	0	1343
TR9237	NC_001749.2	83.74	4705	741	23	1743	6435	1752	6444	0	4429
TR408	NC_001749.2	97.26	2225	61	0	1	2225	2440	4664	0	3771
TR8087	NC_001749.2	78.45	2237	452	30	1	2222	4660	2439	0	1434
TR2	NC_001749.2	83.26	723	119	2	1	722	5349	4628	0	664
TR9341	NC_001749.2	85.78	232	33	0	1	232	5389	5620	2.00E-64	246
TR5938	NC_001749.2	98.29	234	4	0	1	234	5647	5880	7.00E-114	411
TR12218	NC_001749.2	97.46	1065	27	0	1	1065	5683	4619	0	1818
TR9237	NC_001749.2	95.6	432	19	0	1	432	6013	6444	0	693

The MEGABLAST results with the best hits were listed. Subject IDs indicates the identity number of an individual assembled contig. Subject ids indicate the best matched viral genome

ISSN: 1471-2164