| Assembly Assembly | Locus_ID Locus_ID | Version Version | Definition Sequence description | bp_chromo_A Total number of 'A' nucleotides in the whole sequence | bp_chromo_T Total number of 'T' nucleotides in the whole sequence | bp_chromo_C Total number of 'C' nucleotides in the whole sequence | bp_chromo_G Total number of 'G' nucleotides in the whole sequence | bp_chromo_N Total number of 'N' nucleotides in the whole sequence | bp_chromo_tot Total number of nucleotides in the whole sequence | fr_chromo_A Frequency of 'A' nucleotides in the whole sequence | fr_chromo_T Frequency of 'T' nucleotides in the whole sequence | fr_chromo_C Frequency of 'C' nucleotides in the whole sequence | fr_chromo_G Frequency of 'G' nucleotides in the whole sequence | fr_chromo_N Frequency of 'N' nucleotides in the whole sequence | GC_chromo Percentage of ‘G’ + ‘C’ nucleotides in the whole sequence | topo_entropy_chromo Topological entropy of the whole sequence | chargaff_pf_chromo Chargaff's second parity rule score (method1) of the whole sequence | chargaff_ct_chromo Chargaff's second parity rule score (method2) of the whole sequencee | shannon_chromo Shannon entropy of the whole sequence | n_gene_pos Number of genes in the positive strand | n_gene_neg Number of genes in the negative strand | n_gene_tot Total number of genes in the chromosome | bp_gene_A Number of 'A' bases in total genes | bp_gene_T Number of 'T' bases in total genes | bp_gene_C Number of 'C' bases in total genes | bp_gene_G Number of 'G' bases in total genes | bp_gene_N Number of 'N' bases in total genes | bp_gene_tot Total number of bases in total genes | fr_gene_A Frequency of 'A' bases among total gene bases | fr_gene_T Frequency of 'T' bases among total gene bases | fr_gene_C Frequency of 'C' bases among total gene bases | fr_gene_G Frequency of 'G' bases among total gene bases | fr_gene_N Frequency of 'N' bases among total gene bases | GC_gene Percentage of 'G' and 'C' bases in total genes | topo_entropy_gene Topological entropy calculated from total gene sequences | chargaff_pf_gene Chargaff's second parity rule score (method1) for total genes | chargaff_ct_gene Chargaff's second parity rule score (method2)for total genes | shannon_gene Shannon entropy score for total genes | bp_gene_overlap_tot Number of bases overlapping between genes on two strands | n_cds_pos Number of CDS in the positive strand | n_cds_neg Number of CDS in the negative strand | n_cds_tot Total number of CDS in the chromosome | bp_cds_A Number of 'A' bases in total CDS (coding sequences) | bp_cds_T Number of 'T' bases in total CDS | bp_cds_C Number of 'C' bases in total CDS | bp_cds_G Number of 'G' bases in total CDS | bp_cds_N Number of 'N' bases in total CDS | bp_cds_tot Total bases in total CDS | fr_cds_A Frequency of 'A' bases among total CDS bases | fr_cds_T Frequency of 'T' bases among total CDS bases | fr_cds_C Frequency of 'C' bases among total CDS bases | fr_cds_G Frequency of 'G' bases among total CDS bases | fr_cds_N Frequency of 'N' bases among total CDS bases | GC_cds Percentage of 'G' and 'C' bases in total CDS | topo_entropy_cds Topological entropy calculated from total CDS sequences | chargaff_pf_cds Chargaff's second parity rule score (method1) for total CDS | chargaff_ct_cds Chargaff's second parity rule score (method2) for total CDS | shannon_cds Shannon entropy score for total CDS | bp_cds_overlap_tot Number of bases overlapping between CDS on two strands | bp_cds_intron_A Number of 'A' bases in total introns between CDS | bp_cds_intron_T Number of 'T' bases in total introns between CDS | bp_cds_intron_C Number of 'C' bases in total introns between CDS | bp_cds_intron_G Number of 'G' bases in total introns between CDS | bp_cds_intron_N Number of 'N' bases in total introns between CDS | bp_cds_intron_tot Total bases in total introns between CDS | fr_cds_intron_A Frequency of 'A' bases in total introns between CDS | fr_cds_intron_T Frequency of 'T' bases in total introns between CDS | fr_cds_intron_C Frequency of 'C' bases in total introns between CDS | fr_cds_intron_G Frequency of 'G' bases in total introns between CDS | fr_cds_intron_N Frequency of 'N' bases in total introns between CDS | GC_cds_intron Percentage of 'G' and 'C' bases in total introns between CDS | topo_entropy_cds_intron Topological entropy calculated from total intron sequences between CDS | chargaff_pf_cds_intron Chargaff's second parity rule score (method1) for total introns between CDS | chargaff_ct_cds_intron Chargaff's second parity rule score (method2) for total introns between CDS | shannon_cds_intron Shannon entropy score for total introns between CDS | bp_cds_intron_overlap_tot Number of bases overlapping between introns between CDS on two strands | n_ncRNA_pos Number of ncRNA in the positive strand | n_ncRNA_neg Number of ncRNA in the negative strand | n_ncRNA_tot Total number of ncRNA in the chromosome | bp_ncRNA_A Number of 'A' bases in total ncRNA | bp_ncRNA_T bp_ncRNA_T | bp_ncRNA_C Number of 'C' bases in total ncRNA | bp_ncRNA_G Number of 'G' bases in total ncRNA | bp_ncRNA_N Number of 'N' bases in total ncRNA | bp_ncRNA_tot Total bases in total ncRNA | fr_ncRNA_A Frequency of 'A' bases among total ncRNA bases | fr_ncRNA_T Frequency of 'T' bases among total ncRNA bases | fr_ncRNA_C Frequency of 'C' bases among total ncRNA bases | fr_ncRNA_G Frequency of 'G' bases among total ncRNA bases | fr_ncRNA_N Frequency of 'N' bases among total ncRNA bases | GC_ncRNA Percentage of 'G' and 'C' bases in total ncRNA | topo_entropy_ncRNA Topological entropy calculated from total ncRNA sequences | chargaff_pf_ncRNA Chargaff's second parity rule score (method1) for total ncRNA | chargaff_ct_ncRNA Chargaff's second parity rule score (method2) for total ncRNA | shannon_ncRNA Shannon entropy score for total ncRNA | bp_ncRNA_overlap_tot Number of bases overlapping between ncRNA on two strands | bp_nc_intron_A Number of 'A' bases in total introns between ncRNA | bp_nc_intron_T Number of 'T' bases in total introns between ncRNA | bp_nc_intron_C Number of 'C' bases in total introns between ncRNA | bp_nc_intron_G Number of 'G' bases in total introns between ncRNA | bp_nc_intron_N Number of 'N' bases in total introns between ncRNA | bp_nc_intron_tot Total bases in total introns between ncRNA | fr_nc_intron_A Frequency of 'A' bases in total introns between ncRNA | fr_nc_intron_T Frequency of 'T' bases in total introns between ncRNA | fr_nc_intron_C Frequency of 'C' bases in total introns between ncRNA | fr_nc_intron_G Frequency of 'G' bases in total introns between ncRNA | fr_nc_intron_N Frequency of 'N' bases in total introns between ncRNA | GC_nc_intron Percentage of 'G' and 'C' bases in total introns between ncRNA | topo_entropy_nc_intron Topological entropy calculated from total intron sequences between ncRNA | chargaff_pf_nc_intron Chargaff's second parity rule score (method1) for total introns between ncRNA | chargaff_ct_nc_intron Chargaff's second parity rule score (method2) for total introns between ncRNA | shannon_nc_intron Shannon entropy score for total introns between ncRNA | bp_nc_intron_overlap_tot Number of bases overlapping between introns between ncRNA on two strands | n_tRNA_pos Number of tRNA in the positive strand | n_tRNA_neg Number of tRNA in the negative strand | n_tRNA_tot Total number of tRNA in the chromosome | bp_tRNA_A Number of 'A' bases in total tRNA | bp_tRNA_T Number of 'T' bases in total tRNA | bp_tRNA_C Number of 'C' bases in total tRNA | bp_tRNA_G Number of 'G' bases in total tRNA | bp_tRNA_N Number of 'N' bases in total tRNA | bp_tRNA_tot Total bases in total tRNA | fr_tRNA_A Frequency of 'A' bases among total tRNA bases | fr_tRNA_T Frequency of 'T' bases among total tRNA bases | fr_tRNA_C Frequency of 'C' bases among total tRNA bases | fr_tRNA_G Frequency of 'G' bases among total tRNA bases | fr_tRNA_N Frequency of 'N' bases among total tRNA bases | GC_tRNA Percentage of 'G' and 'C' bases in total tRNA | topo_entropy_tRNA Topological entropy calculated from total tRNA sequences | chargaff_pf_tRNA Chargaff's second parity rule score (method1) for total tRNA | chargaff_ct_tRNA Chargaff's second parity rule score (method2) for total tRNA | shannon_tRNA Shannon entropy score for total tRNA | bp_tRNA_overlap_tot Number of bases overlapping between tRNA on two strands | n_rRNA_pos Number of rRNA in the positive strand | n_rRNA_neg Number of rRNA in the negative strand | n_rRNA_tot Total number of rRNA in the chromosome | bp_rRNA_A Number of 'A' bases in total rRNA | bp_rRNA_T Number of 'T' bases in total rRNA | bp_rRNA_C Number of 'C' bases in total rRNA | bp_rRNA_G Number of 'G' bases in total rRNA | bp_rRNA_N Number of 'N' bases in total rRNA | bp_rRNA_tot Total bases in total rRNA | fr_rRNA_A Frequency of 'A' bases among total rRNA bases | fr_rRNA_T Frequency of 'T' bases among total rRNA bases | fr_rRNA_C Frequency of 'C' bases among total rRNA bases | fr_rRNA_G Frequency of 'G' bases among total rRNA bases | fr_rRNA_N Frequency of 'N' bases among total rRNA bases | GC_rRNA Percentage of 'G' and 'C' bases in total rRNA | topo_entropy_rRNA Topological entropy calculated from total rRNA sequences | chargaff_pf_rRNA Chargaff's second parity rule score (method1) for total rRNA | chargaff_ct_rRNA Chargaff's second parity rule score (method2) total rRNA | shannon_rRNA Shannon entropy score for total rRNA | bp_rRNA_overlap_tot Number of bases overlapping between rRNA on two strands | ATG ATG | AAG AAG | GTA GTA | ACT ACT | GCA GCA | GAG GAG | GCT GCT | ATT ATT | TCC TCC | TGG TGG | AAT AAT | GAA GAA | TCA TCA | ACG ACG | AGT AGT | AAC AAC | TCT TCT | GTG GTG | TTC TTC | TTT TTT | CTG CTG | GGT GGT | CTC CTC | GAT GAT | CAG CAG | ACC ACC | CTA CTA | TTG TTG | TAT TAT | GGA GGA | ATC ATC | CTT CTT | GTC GTC | ATA ATA | ACA ACA | GAC GAC | CAC CAC | CCC CCC | TAC TAC | GCC GCC | AGC AGC | CGC CGC | AAA AAA | GGC GGC | TGC TGC | GTT GTT | GGG GGG | AGA AGA | TGT TGT | CAT CAT | TCG TCG | GCG GCG | TTA TTA | CCT CCT | AGG AGG | CCA CCA | TAG TAG | CGG CGG | CCG CCG | CGT CGT | CAA CAA | TAA TAA | TGA TGA | CGA CGA |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| NA | NC_003759 | NC_003759.1 | Rice ragged stunt virus segment 5; complete sequence. | 760 | 695 | 510 | 717 | 0 | 2682 | 0.28 | 0.26 | 0.19 | 0.27 | 0 | 0.46 | 0.9255 | 0.2134 | 0.8129 | 1.9846 | 1 | 0 | 1 | 695 | 638 | 449 | 645 | 0 | 2427 | 0.29 | 0.26 | 0.19 | 0.27 | 0 | 0.45 | 0.925 | 0.2219 | 0.8071 | 1.9818 | 0 | 1 | 0 | 1 | 695 | 638 | 449 | 645 | 0 | 2427 | 0.29 | 0.26 | 0.19 | 0.27 | 0 | 0.45 | 0.925 | 0.2219 | 0.8071 | 1.9818 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 20 | 27 | 9 | 8 | 17 | 45 | 15 | 20 | 2 | 9 | 21 | 16 | 8 | 9 | 13 | 12 | 12 | 13 | 10 | 21 | 19 | 12 | 4 | 28 | 11 | 7 | 8 | 17 | 18 | 20 | 19 | 12 | 10 | 11 | 15 | 18 | 6 | 3 | 6 | 8 | 9 | 6 | 23 | 10 | 4 | 18 | 6 | 25 | 26 | 12 | 13 | 12 | 11 | 13 | 6 | 16 | 0 | 6 | 8 | 9 | 10 | 1 | 0 | 6 |
| NA | NC_003757 | NC_003757.1 | Rice ragged stunt virus segment 9; complete sequence. | 331 | 289 | 237 | 275 | 0 | 1132 | 0.29 | 0.26 | 0.21 | 0.24 | 0 | 0.45 | 0.9267 | 0.142 | 0.8675 | 1.9898 | 1 | 0 | 1 | 301 | 266 | 206 | 244 | 0 | 1017 | 0.3 | 0.26 | 0.2 | 0.24 | 0 | 0.44 | 0.9048 | 0.1462 | 0.864 | 1.9866 | 0 | 1 | 0 | 1 | 301 | 266 | 206 | 244 | 0 | 1017 | 0.3 | 0.26 | 0.2 | 0.24 | 0 | 0.44 | 0.9048 | 0.1462 | 0.864 | 1.9866 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 5 | 13 | 5 | 4 | 3 | 9 | 10 | 5 | 1 | 6 | 8 | 12 | 5 | 7 | 5 | 10 | 7 | 5 | 5 | 15 | 2 | 4 | 5 | 14 | 5 | 6 | 10 | 11 | 8 | 6 | 3 | 4 | 4 | 4 | 5 | 6 | 0 | 2 | 6 | 9 | 2 | 1 | 6 | 4 | 1 | 3 | 2 | 12 | 1 | 4 | 5 | 10 | 6 | 2 | 1 | 4 | 1 | 0 | 2 | 2 | 9 | 0 | 0 | 7 |
| NA | NC_003749 | NC_003749.1 | Rice ragged stunt virus segment S1 P1 gene; complete cds. | 1114 | 1062 | 729 | 944 | 0 | 3849 | 0.29 | 0.28 | 0.19 | 0.25 | 0 | 0.43 | 0.9222 | 0.1524 | 0.8628 | 1.9822 | 1 | 0 | 1 | 1080 | 1038 | 698 | 898 | 0 | 3714 | 0.29 | 0.28 | 0.19 | 0.24 | 0 | 0.43 | 0.9238 | 0.1451 | 0.8692 | 1.9807 | 0 | 1 | 0 | 1 | 1080 | 1038 | 698 | 898 | 0 | 3714 | 0.29 | 0.28 | 0.19 | 0.24 | 0 | 0.43 | 0.9238 | 0.1451 | 0.8692 | 1.9807 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 33 | 28 | 24 | 29 | 13 | 34 | 31 | 35 | 9 | 11 | 29 | 39 | 28 | 19 | 20 | 20 | 19 | 24 | 18 | 27 | 17 | 28 | 9 | 42 | 17 | 15 | 12 | 22 | 28 | 29 | 22 | 19 | 12 | 22 | 19 | 18 | 9 | 2 | 29 | 6 | 17 | 2 | 36 | 10 | 6 | 31 | 15 | 26 | 9 | 15 | 25 | 31 | 40 | 19 | 10 | 18 | 0 | 3 | 12 | 18 | 21 | 1 | 0 | 6 |
| NA | NC_003750 | NC_003750.1 | Rice ragged stunt virus segment S2 P2 gene; complete cds. | 1044 | 1083 | 757 | 924 | 0 | 3808 | 0.27 | 0.28 | 0.2 | 0.24 | 0 | 0.44 | 0.9253 | 0.1177 | 0.8916 | 1.9868 | 1 | 0 | 1 | 977 | 1023 | 705 | 874 | 0 | 3579 | 0.27 | 0.29 | 0.2 | 0.24 | 0 | 0.44 | 0.9243 | 0.13 | 0.8808 | 1.9861 | 0 | 1 | 0 | 1 | 977 | 1023 | 705 | 874 | 0 | 3579 | 0.27 | 0.29 | 0.2 | 0.24 | 0 | 0.44 | 0.9243 | 0.13 | 0.8808 | 1.9861 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 35 | 29 | 19 | 24 | 16 | 31 | 31 | 20 | 10 | 20 | 35 | 19 | 24 | 22 | 23 | 25 | 15 | 23 | 25 | 21 | 10 | 25 | 9 | 50 | 12 | 9 | 14 | 21 | 27 | 25 | 21 | 20 | 18 | 22 | 11 | 20 | 5 | 8 | 25 | 12 | 16 | 7 | 26 | 13 | 7 | 46 | 7 | 21 | 16 | 14 | 19 | 23 | 34 | 23 | 12 | 21 | 1 | 7 | 8 | 10 | 24 | 0 | 0 | 7 |
| NA | NC_003751 | NC_003751.1 | Rice ragged stunt virus segment S3 major core capsid protein gene; complete cds. | 998 | 1043 | 798 | 860 | 0 | 3699 | 0.27 | 0.28 | 0.22 | 0.23 | 0 | 0.45 | 0.9274 | 0.0594 | 0.9424 | 1.9916 | 1 | 0 | 1 | 958 | 997 | 756 | 811 | 0 | 3522 | 0.27 | 0.28 | 0.21 | 0.23 | 0 | 0.44 | 0.926 | 0.055 | 0.9465 | 1.9907 | 0 | 1 | 0 | 1 | 958 | 997 | 756 | 811 | 0 | 3522 | 0.27 | 0.28 | 0.21 | 0.23 | 0 | 0.44 | 0.926 | 0.055 | 0.9465 | 1.9907 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 29 | 24 | 14 | 32 | 9 | 25 | 35 | 34 | 7 | 6 | 27 | 41 | 20 | 18 | 23 | 21 | 16 | 13 | 19 | 36 | 18 | 22 | 14 | 37 | 22 | 7 | 15 | 33 | 33 | 34 | 25 | 18 | 20 | 16 | 14 | 28 | 8 | 14 | 14 | 20 | 9 | 9 | 25 | 12 | 5 | 34 | 4 | 15 | 9 | 8 | 15 | 18 | 22 | 22 | 8 | 17 | 1 | 6 | 15 | 15 | 31 | 0 | 0 | 13 |
| NA | NC_003771 | NC_003771.1 | Rice ragged stunt virus RNA-dependent RNA polymerase and P4b genes; complete cds. | 1089 | 1024 | 789 | 921 | 0 | 3823 | 0.28 | 0.27 | 0.21 | 0.24 | 0 | 0.45 | 0.9253 | 0.108 | 0.8985 | 1.9897 | 2 | 0 | 2 | 1076 | 1015 | 778 | 899 | 0 | 3768 | 0.29 | 0.27 | 0.21 | 0.24 | 0 | 0.45 | 0.9241 | 0.1013 | 0.9044 | 1.9893 | 0 | 2 | 0 | 2 | 1076 | 1015 | 778 | 899 | 0 | 3768 | 0.29 | 0.27 | 0.21 | 0.24 | 0 | 0.45 | 0.9241 | 0.1013 | 0.9044 | 1.9893 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 31 | 27 | 13 | 31 | 30 | 32 | 24 | 29 | 7 | 16 | 25 | 44 | 26 | 22 | 17 | 27 | 14 | 28 | 27 | 25 | 10 | 28 | 13 | 33 | 28 | 23 | 19 | 32 | 30 | 22 | 21 | 19 | 11 | 29 | 16 | 17 | 11 | 9 | 19 | 14 | 7 | 11 | 29 | 13 | 11 | 22 | 8 | 19 | 19 | 13 | 23 | 25 | 41 | 14 | 15 | 16 | 0 | 8 | 10 | 11 | 26 | 1 | 0 | 15 |
| NA | NC_003769 | NC_003769.1 | Rice ragged stunt virus non-structural protein Pns10 gene; complete cds. | 310 | 323 | 242 | 287 | 0 | 1162 | 0.27 | 0.28 | 0.21 | 0.25 | 0 | 0.46 | 0.9241 | 0.1056 | 0.9015 | 1.9917 | 1 | 0 | 1 | 228 | 267 | 182 | 217 | 0 | 894 | 0.26 | 0.3 | 0.2 | 0.24 | 0 | 0.45 | 0.8873 | 0.1665 | 0.8463 | 1.9867 | 0 | 1 | 0 | 1 | 228 | 267 | 182 | 217 | 0 | 894 | 0.26 | 0.3 | 0.2 | 0.24 | 0 | 0.45 | 0.8873 | 0.1665 | 0.8463 | 1.9867 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 9 | 8 | 5 | 10 | 5 | 6 | 8 | 6 | 2 | 1 | 3 | 8 | 6 | 3 | 5 | 4 | 7 | 4 | 8 | 12 | 8 | 8 | 0 | 10 | 2 | 0 | 3 | 10 | 6 | 12 | 9 | 6 | 3 | 1 | 6 | 5 | 0 | 1 | 3 | 8 | 6 | 3 | 4 | 3 | 1 | 12 | 1 | 4 | 4 | 6 | 0 | 6 | 0 | 3 | 0 | 5 | 1 | 0 | 1 | 4 | 12 | 0 | 0 | 1 |
| NA | NC_003752 | NC_003752.1 | Rice ragged stunt virus segment S6 P6 gene; complete cds. | 589 | 564 | 452 | 552 | 0 | 2157 | 0.27 | 0.26 | 0.21 | 0.26 | 0 | 0.47 | 0.9283 | 0.1213 | 0.8882 | 1.993 | 1 | 0 | 1 | 490 | 464 | 370 | 455 | 0 | 1779 | 0.28 | 0.26 | 0.21 | 0.26 | 0 | 0.46 | 0.9292 | 0.1303 | 0.8801 | 1.9924 | 0 | 1 | 0 | 1 | 490 | 464 | 370 | 455 | 0 | 1779 | 0.28 | 0.26 | 0.21 | 0.26 | 0 | 0.46 | 0.9292 | 0.1303 | 0.8801 | 1.9924 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 13 | 20 | 12 | 12 | 7 | 32 | 16 | 13 | 5 | 4 | 13 | 15 | 12 | 10 | 15 | 9 | 8 | 15 | 11 | 11 | 2 | 14 | 4 | 26 | 5 | 3 | 5 | 13 | 6 | 6 | 11 | 9 | 9 | 6 | 8 | 13 | 5 | 6 | 9 | 9 | 12 | 4 | 13 | 5 | 6 | 14 | 2 | 8 | 4 | 9 | 12 | 10 | 11 | 10 | 3 | 9 | 0 | 1 | 6 | 12 | 14 | 0 | 1 | 5 |
| NA | NC_003770 | NC_003770.1 | Rice ragged stunt virus non-structural protein Pns7 gene; complete cds. | 538 | 538 | 399 | 463 | 0 | 1938 | 0.28 | 0.28 | 0.21 | 0.24 | 0 | 0.44 | 0.9241 | 0.0742 | 0.9309 | 1.9894 | 1 | 0 | 1 | 509 | 514 | 371 | 433 | 0 | 1827 | 0.28 | 0.28 | 0.2 | 0.24 | 0 | 0.44 | 0.9243 | 0.082 | 0.9235 | 1.9877 | 0 | 1 | 0 | 1 | 509 | 514 | 371 | 433 | 0 | 1827 | 0.28 | 0.28 | 0.2 | 0.24 | 0 | 0.44 | 0.9243 | 0.082 | 0.9235 | 1.9877 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 17 | 11 | 8 | 10 | 11 | 17 | 18 | 18 | 7 | 9 | 8 | 15 | 8 | 8 | 14 | 7 | 5 | 8 | 11 | 13 | 7 | 13 | 6 | 18 | 7 | 6 | 7 | 19 | 9 | 15 | 7 | 12 | 7 | 9 | 10 | 12 | 6 | 6 | 11 | 10 | 4 | 3 | 21 | 3 | 4 | 22 | 3 | 12 | 10 | 10 | 12 | 6 | 17 | 5 | 7 | 16 | 1 | 2 | 5 | 5 | 17 | 0 | 0 | 4 |
| NA | NC_003758 | NC_003758.1 | Rice ragged stunt virus autocatalytic protease precurser gene; complete cds. | 531 | 524 | 408 | 451 | 0 | 1914 | 0.28 | 0.27 | 0.21 | 0.24 | 0 | 0.45 | 0.926 | 0.0567 | 0.9457 | 1.9916 | 1 | 0 | 1 | 502 | 497 | 381 | 411 | 0 | 1791 | 0.28 | 0.28 | 0.21 | 0.23 | 0 | 0.44 | 0.9264 | 0.0429 | 0.9585 | 1.9899 | 0 | 1 | 0 | 1 | 502 | 497 | 381 | 411 | 0 | 1791 | 0.28 | 0.28 | 0.21 | 0.23 | 0 | 0.44 | 0.9264 | 0.0429 | 0.9585 | 1.9899 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0 | 13 | 16 | 7 | 8 | 7 | 17 | 13 | 20 | 3 | 8 | 16 | 17 | 8 | 7 | 15 | 16 | 10 | 9 | 11 | 13 | 6 | 9 | 2 | 23 | 9 | 15 | 7 | 11 | 10 | 9 | 23 | 8 | 9 | 8 | 8 | 12 | 6 | 1 | 15 | 10 | 4 | 4 | 11 | 7 | 3 | 20 | 0 | 8 | 7 | 8 | 11 | 12 | 10 | 10 | 7 | 13 | 0 | 1 | 4 | 9 | 5 | 0 | 1 | 7 |