Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,584,728 C→A 13.8% A96S (GCC→TCC)  PP_1388 ← EmrB/QacA family drug resistance transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,584,7280CA13.8% 116.5 / 8.2 43A96S (GCC→TCC) PP_1388EmrB/QacA family drug resistance transporter
Reads supporting (aligned to +/- strand):  ref base C (20/17);  new base A (2/4);  total (22/21)
Fisher's exact test for biased strand distribution p-value = 4.12e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGCTGCTGAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCACGGTCATGGCCACCATATAACCGGAGATGACCCAGGC  >  NC_002947/1584587‑1584869
                                                                                                                                             |                                                                                                                                             
tgctgcTGAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGCCATGGCCCAGGACATGccg                                                                                                                                        >  7:132895/1‑149 (MQ=255)
 gctgctGAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGgcg                                                                                                                                        >  2:178100/1‑148 (MQ=255)
 gctgctGAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGCCATGGCCCAGGACATGccg                                                                                                                                        >  5:313011/1‑148 (MQ=255)
   tgctgAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAg                                                                                                                                     >  5:73153/1‑149 (MQ=255)
   tgctgAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAg                                                                                                                                     >  3:115880/1‑149 (MQ=255)
    gctgAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAgg                                                                                                                                    >  7:76596/1‑149 (MQ=255)
     ctgAAGTAGCCCTGGTAGCGGCCTCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTTCCTTGATCAGCGAGACGATACCGGCTGCGGCGATACCCTGCAGTACACGGGCCATCAGCAATTGCGCCATGGCCCAGGACATGCCGCaat                                                                                                                                    <  6:256359/148‑3 (MQ=255)
     ctgAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAg                                                                                                                                     <  7:91823/147‑1 (MQ=255)
     ctgAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGCCATGGCCCAGGACATGCCGCaa                                                                                                                                     <  8:132895/147‑2 (MQ=255)
     ctgAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGCCATGGCCCAGGACATGCCGCaa                                                                                                                                     <  6:313011/147‑2 (MQ=255)
        aaGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCa                                                                                                                                      <  5:302754/143‑1 (MQ=255)
        aaGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCa                                                                                                                                      >  6:302754/1‑143 (MQ=255)
        aaGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAAt                                                                                                                                <  1:178100/149‑1 (MQ=255)
             gCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAg                                                                                                                            <  4:229847/148‑1 (MQ=255)
                   gTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAggg                                                                                                                     >  2:9994/1‑149 (MQ=255)
                          ccGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAg                                                                                                              <  3:258844/149‑1 (MQ=255)
                            gcgTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGc                                                                                                            <  1:9994/149‑1 (MQ=255)
                             cgTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCt                                                                                                           <  5:140453/149‑1 (MQ=255)
                                 cgcgcgGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGAt                                                                                                        <  6:73153/148‑1 (MQ=255)
                                  gcgcgGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAgg                                                                                                                      >  5:277499/1‑133 (MQ=255)
                                  gcgcgGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAgg                                                                                                                      <  6:277499/133‑1 (MQ=255)
                                                  tCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCg                                                                                      >  6:144590/1‑149 (MQ=255)
                                                    gCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGgc                                                                                    <  5:144590/149‑1 (MQ=255)
                                                         tGATTGCCTGGCTCTCCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCTATTGCGCCAAGTCGTGGGCCATGGGGCAGGCAATGGACTCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCCgccacgg                                                                               >  6:259056/1‑144 (MQ=255)
                                                                 tGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTTCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAAc                                                                                                                <  3:99473/108‑1 (MQ=255)
                                                                 tGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTTCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAAc                                                                                                                >  4:99473/1‑108 (MQ=255)
                                                                  ggCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAgg                                                                      >  3:16813/1‑149 (MQ=255)
                                                                       aCCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGcc                                                                 <  8:76596/149‑1 (MQ=255)
                                                                                 tCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCg                                                       >  8:205911/1‑149 (MQ=255)
                                                                                    cGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCg                                                       >  1:234601/1‑146 (MQ=255)
                                                                                       cTGCGCAGATAACCTGCAGGACACGGGACAGCACCAATTGCGGGATGTCGTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACAGGTTAGGATCATCCTGAGCCGGCCGTTAAGGTCGCCCAGTTTGCCGTAGATc                                                 <  4:16813/149‑1 (MQ=255)
                                                                                           gcCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAggg                                                                                                                     >  7:12164/1‑77 (MQ=255)
                                                                                           gcCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAggg                                                                                                                     <  8:12164/77‑1 (MQ=255)
                                                                                                tACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGcc                                        >  3:160490/1‑149 (MQ=255)
                                                                                                  cccTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATCGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCa                                       <  4:160490/148‑1 (MQ=255)
                                                                                                             acGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCACGGTCATGGcca                           >  5:43476/1‑149 (MQ=255)
                                                                                                               gggCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGcc                                                        >  7:258488/1‑118 (MQ=255)
                                                                                                               gggCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGcc                                                        <  8:258488/118‑1 (MQ=255)
                                                                                                                     gCACCAATTGCGGCATGTCCTGGGACATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCACGGTCATGGCCACCATATaa                   <  4:274138/149‑1 (MQ=255)
                                                                                                                               cGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCACGGTCATGGCCACCATATAACCGGAGATGa         >  1:59870/1‑149 (MQ=255)
                                                                                                                                  cATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGATCAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCACGGTCATGGCCACCATATAACCGGAGATGAccc      >  2:237827/1‑149 (MQ=255)
                                                                                                                                      tCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCACGGTCATGGCCACCATATAACCGGAGATGACCCAgg   <  2:234601/148‑1 (MQ=255)
                                                                                                                                        cTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCACGGTCATGGCCACCATATAACCGGAGATGACCCAGGc  >  7:209625/1‑147 (MQ=255)
                                                                                                                                             |                                                                                                                                             
TGCTGCTGAAGTAGCCCTGGTAGCGGCCGCGTTCGCGCGGGGGCACGAAGTCGCCAATGATTGCCTGGCTCACCGAGACCATCCCGCCTGCGCCGATACCCTGCAGTACACGGGCCAGCACCAATTGCGGCATGTCCTGGGCCATGGCGCAGGCAATGGAGGCCAGGGTGAACAGGCTGATACCGGTGAGGATCATCCGGCGCCGGCCGTAAAGGTCGCCCAGTTTGCCGTAGATCGGCACGGCCACGGTCATGGCCACCATATAACCGGAGATGACCCAGGC  >  NC_002947/1584587‑1584869

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: ‑