Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_004302	9,972	C→A	A59E (GCA→GAA)	r1tp18 →	ORF18

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_004302	9,972	0	C	A	100.0%	92.3 / NA	38	A59E (GCA→GAA)	r1tp18	ORF18
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (38/0);  total (38/0)

TTATGGATAAAGAATGGGAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑CAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTCCAGCTTCT  >  NC_004302/9902‑10030                                                                           |                                                             tgtgggATAAAGAATGGGAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑Aaaaa                                                          >  1:6014582/5‑75 (MQ=255)    atggtAAAGAATGGGAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACt                                                       >  1:4099442/5‑75 (MQ=255)      gATAAAGAAATGGAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTaa                                                     >  1:1159253/1‑75 (MQ=255)      cataagaaaTGGGAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTaa                                                     >  1:10746457/8‑75 (MQ=255)       aattattaTGGGAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTaaa                                                    >  1:17713617/8‑75 (MQ=255)        tcgattgtGGGAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAag                                                   >  1:6174023/8‑75 (MQ=255)         aagaaaagggAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAaga                                                  >  1:14815607/8‑75 (MQ=255)           ctttggggAAT‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGc                                                >  1:9446461/6‑75 (MQ=255)           atttgtggAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGc                                                >  1:12258398/7‑75 (MQ=255)              ttGGGAAATGACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCtt                                              >  1:210886/2‑75 (MQ=255)              atatcata‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTa                                             >  1:12122745/8‑75 (MQ=255)                cgggagggACCCTAAAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTa                                             >  1:5192475/8‑75 (MQ=255)                 ggAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATgg                                          >  1:9506102/1‑75 (MQ=255)                 atgaaggACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATg                                           >  1:10862789/7‑75 (MQ=255)                  tata‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGa                                         >  1:9737437/4‑75 (MQ=255)                    aatatgccT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAGAAAAAAACTAAAGAGCTTATGGa                                         >  1:3485992/7‑75 (MQ=255)                        gacataaaaaaaGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAGAAAAAAACTAAAGAGCTTATGGAAC‑a                                     >  1:10701952/7‑75 (MQ=255)                          ggggtaaaaaGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑aaaa                                  >  1:12561006/6‑75 (MQ=255)                           tcaaaaaaaGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTAGGGAAC‑aaaga                                 >  1:8869904/4‑73 (MQ=255)                            attagtgaGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAACGaaaag                                 >  1:1305990/8‑75 (MQ=255)                                gttgtttAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑aaaag‑aaaaa                           >  1:2135757/7‑75 (MQ=255)                                     gataCCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAaagaag                      >  1:7007560/4‑75 (MQ=255)                                       gctgattaaTAT‑AGCACG‑CTATTTTAAATAAAGAAAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAagag                    >  1:5860120/8‑75 (MQ=255)                                        tatatggatatTAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAgc                   >  1:14225096/8‑75 (MQ=255)                                         gagtatatatAAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAgcc                  >  1:8488326/7‑74 (MQ=255)                                           ttAAATGTAAGGACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCa                >  1:9329643/2‑75 (MQ=255)                                             ctgaagcaGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCaaa              >  1:17492301/8‑75 (MQ=255)                                             ataaagtaGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCaaa              >  1:4236972/8‑75 (MQ=255)                                               tgagaaGCACGACTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAAc             >  1:10088281/5‑75 (MQ=255)                                                gataAGCACG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAGAAAAAAAGAAGAGCGCAAACt            >  1:5685593/2‑75 (MQ=255)                                                 ggttgtgcG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTc          >  1:6170991/8‑75 (MQ=255)                                                  ttgggaCG‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTcc         >  1:16360959/6‑75 (MQ=255)                                                     tcagtaatATTTTAAATAAAGAAAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTCCa        >  1:12571575/8‑75 (MQ=255)                                                      tgtg‑CTATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTCCAGCt     >  1:4887204/4‑75 (MQ=255)                                                      agcagatATTTTAAATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTCCAGc      >  1:1679863/7‑75 (MQ=255)                                                       gtgctttttttAAAAAAAA‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTCCAGCt     >  1:15623617/8‑75 (MQ=255)                                                          gctcgtttATATAAAG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTCCAGCTTCt  >  1:6836998/6‑75 (MQ=255)                                                          attctgataaataaaG‑AAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTCCAGCTTCt  >  1:14628312/8‑75 (MQ=255)                                                                           |                                                             TTATGGATAAAGAATGGGAAA‑GACCCT‑AAAAAAGCTAACCCTAAATATAAGCACG‑CTATTTTAAATAAAG‑CAAAAACTAAAGAGCTTATGGAAC‑AAAAG‑AAAAAAGAAGAGCGCAAACTTCCAGCTTCT  >  NC_004302/9902‑10030

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑