Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,641,460 C→G 11.1% Q375E (CAG→GAG)  PP_4951 → EmrB/QacA family drug resistance transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,641,4600CG11.1% 98.1 / 4.8 36Q375E (CAG→GAG) PP_4951EmrB/QacA family drug resistance transporter
Reads supporting (aligned to +/- strand):  ref base C (17/15);  new base G (2/2);  total (19/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01

AACGGTTCGGCTATCGCATCATCCTCACCGGTAATACCTTGCTGTTGGGCATCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGTTGGGCGGCTTTACTGC  >  NC_002947/5641317‑5641605
                                                                                                                                               |                                                                                                                                                 
aaCGGTTCGGCTATCGCATCATCCTCACCGGTAATACCTTGCTGTTGGGCATCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGGCTTCTGGGCGCAGTGACCTCCATGCAGtt                                                                                                                                               >  3:305624/1‑148 (MQ=255)
   ggTTCGGCTATCGGATCATCCTCACCGGTAATACCTTGCTGTTGGGCTTCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGTTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTGCATGGAGTTCACt                                                                                                                                           <  7:121719/149‑1 (MQ=255)
    gTTCGGCTATCGCATCATCCTCACCGGTAATACCTTGCTGTTGGGCATCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTGCATGGAGTTCACt                                                                                                                                           >  4:231512/1‑148 (MQ=255)
    gTTCGGCTATCGCATCATCCTCACCGGTAATACCTTGCTGTTGGGCATCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTGCATGGAGTTCACt                                                                                                                                           <  3:231512/148‑1 (MQ=255)
             tCGCATCATCCTCACCGGTAATACCTTGCTGTTGGGCATCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGaa                                                                                                                                   <  2:36133/147‑1 (MQ=255)
                         cACCGGTAATACCTTGCTGTTGGGCATCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCa                                                                                                                     >  1:352189/1‑149 (MQ=255)
                                 aTACCTTGCTGTTGGGCATCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGAtctc                                                                                                             <  3:170680/149‑1 (MQ=255)
                                                        ctgGCAAGCCTGGGCCTGGTGGACGAGCGGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGaa                                                                                                                                   >  1:226745/1‑104 (MQ=255)
                                                        ctgGCAAGCCTGGGCCTGGTGGACGAGCGGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGaa                                                                                                                                   <  2:226745/104‑1 (MQ=255)
                                                        ctgGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCgg                                                                                      >  8:11943/1‑149 (MQ=255)
                                                        ctgGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCACCGAcagcaggct                                                                                      >  1:147877/1‑146 (MQ=255)
                                                         tgGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCgg                                                                                      >  2:233377/1‑148 (MQ=255)
                                                           gCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGt                                                                                     <  2:352189/147‑1 (MQ=255)
                                                             aaGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTaa                                                                                   >  4:317405/1‑147 (MQ=255)
                                                                     gcctggTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCctgctg                                                                         >  5:218509/1‑149 (MQ=255)
                                                                        ggttcgACGAGCAGAACCCTTATTGGCTGCTGTTGGGGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACCCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCg                                                                      <  4:305624/144‑1 (MQ=255)
                                                                                gAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTcgc                                                              >  6:83706/1‑149 (MQ=255)
                                                                                    aGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGt                                                                                     <  5:208526/122‑1 (MQ=255)
                                                                                        cccTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGt                                                      >  3:70940/1‑149 (MQ=255)
                                                                                         ccTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTc                                                     <  7:11943/149‑1 (MQ=255)
                                                                                              ttGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGa                                                <  5:17000/149‑1 (MQ=255)
                                                                                                ggCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCgcgc                                                            >  5:103158/1‑135 (MQ=255)
                                                                                                ggCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCgcgc                                                            <  6:103158/135‑1 (MQ=255)
                                                                                                 gctgctGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGcc                                             >  8:338535/1‑149 (MQ=255)
                                                                                                    gctgTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTgg                                          <  4:70940/149‑1 (MQ=255)
                                                                                                     ctgTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTgg                                          <  7:338535/148‑1 (MQ=255)
                                                                                                           gTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACCGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGc                                   >  8:202977/1‑149 (MQ=255)
                                                                                                                        ttCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGt                                                                                     >  4:120047/1‑86 (MQ=255)
                                                                                                                        ttCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGt                                                                                     <  3:120047/86‑1 (MQ=255)
                                                                                                                             ggCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGtt                 >  3:149179/1‑149 (MQ=255)
                                                                                                                               cgcAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGTTgg               >  8:116989/1‑149 (MQ=255)
                                                                                                                                  aGTGAACTGCATGGAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGTTGggcg            >  5:306567/1‑149 (MQ=255)
                                                                                                                                  aGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGTTGggcg            >  5:303010/1‑149 (MQ=255)
                                                                                                                                    tGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGTTGggcggc          <  5:83706/149‑1 (MQ=255)
                                                                                                                                        cTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGTTGGGCGGCTTTa      <  4:149179/149‑1 (MQ=255)
                                                                                                                                            aTGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGTTGGGCGGCTTTACTGc  <  6:218509/149‑1 (MQ=255)
                                                                                                                                               |                                                                                                                                                 
AACGGTTCGGCTATCGCATCATCCTCACCGGTAATACCTTGCTGTTGGGCATCCTGCTGGCAAGCCTGGGCCTGGTGGACGAGCAGACCCCTTATTGGCTGCTGTTGGTGCAACTTGGCCTTCTGGGCGCAGTGAACTCCATGCAGTTCACTGCGATGAACACAGTGACGCTCATCGATCTCGACGACGCCAGCGCCAGCAGCGGTAACAGCCTGCTGTCGGTGGTCGCGCAACTGTCGCTGAGCCTGGGTGTGGCCTGCGCCGGCGCACTGTTGGGCGGCTTTACTGC  >  NC_002947/5641317‑5641605

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑