S1 File. Numbers of reads mapped on reference viral sequences – SOAP.

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S1 File. Numbers of reads mapped on reference viral sequences – SOAP. Numbers of reads mapped on reference viral sequences. Reference genomes were used in relation to blastN and blastX analysis. Unix based software SOAP Aligner 1.11 (BGI) was used. Axis X: individual plants Axis Y: numbers of mapped reads.

VIRUS-ref. Acc. Nos./GRAPEVINE sample TOTAL Grapevine rupestris vein feathering virus (AY706994.1) 3113 148 43 2 181 53 2 902 10 535 11 659 Grapevine Red Globe virus (AF521977) 225 831 5 59 3 1 052 4 115 2 591 Grapevine Pinot Gris virus (NC_015782.1) 65 6190 5486 113 78 3 079 6 676 5 998 Grapevine Rupestris stem pitting associated virus (NC_001948.1) 2205 2517 2872 447 5388 4 701 4 818 3 579 Grapevine leafroll-associated virus 1 (NC_016509.1) 24365 72 364 16 674 151 23 167 1 398 1 460 Grapevine fleck virus (NC_003347.1) 159 9599 39 129 24 1 192 34 166 2 287 Grapevine Syrah virus 1 (NC_012484.1) 734 119 479 209 12 928 2 212 1 940 Grapevine virus A (NC_003604.2) 1908 11 13 2 025 21 553 688 690 Grapevine virus B (NC_003602.1) 1766 14 7 25 4 533 660 601 Grapevine Fanleaf virus (NC_003623.1) 322 349 345 Arabis mosaic virus (GQ369530.1) 2 1 281 375 341 Grapevine yellow speckle viroid 1 (HQ222363.1) 503 2182 920 1 333 50 2 619 2 682 Hop stunt viroid (EU382210.1) 708 949 486 618 1 042 1 555 1 250 SUM TOTAL 35757 22638 10720 23820 6524 39811 70166 35423 244859 Table with numbers of unique reads mapped on reference viral sequences. These reads numbers were obtained by unix based software SOAP Aligner 1.11 (BGI). In total, were obtained 244,859 unique reads per 1 million (8 plants together) regarding these 16 viral reference sequences.