Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,790,165 T→C 8.1% intergenic (+44/+24) ynfM → / ← PP_5073 efflux transporter/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,790,1650TC 8.1% 133.6 / 2.6 49intergenic (+44/+24)ynfM/PP_5073efflux transporter/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (22/23);  new base C (2/2);  total (24/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.93e-01

ACCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACGGTGTCGGCGGCAGGTCCTCATCGTC  >  NC_002947/5790018‑5790311
                                                                                                                                                    |                                                                                                                                                  
aCCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTAGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGgtg                                                                                                                                                   >  6:242550/1‑149 (MQ=255)
 ccAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCGACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGgtgt                                                                                                                                                  <  8:244045/149‑1 (MQ=255)
  cAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTACTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGgtgt                                                                                                                                                  >  5:81660/1‑148 (MQ=255)
     tGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGAc                                                                                                                                               >  4:2144/1‑148 (MQ=255)
       gggCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCAc                                                                                                                                            <  3:2144/149‑1 (MQ=255)
             gAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAagag                                                                                                                                      >  3:197033/1‑149 (MQ=255)
               aCGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGTCACACCCGCTCCCACAGGTTGTGGGTGCGGGCGTGCCCACGaatgcat                                                                                                                                    <  4:195812/149‑6 (MQ=25)
                   gATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCa                                                                                                                                             >  2:275613/1‑136 (MQ=255)
                   gATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCatc                                                                                                                                <  8:32628/149‑1 (MQ=255)
                           tGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGt                                                                                                                        >  4:212383/1‑149 (MQ=255)
                               cATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtga                                                                                                                     <  4:197033/148‑1 (MQ=255)
                                aTTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGaa                                                                                                                                         >  6:256908/1‑127 (MQ=255)
                                aTTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGaa                                                                                                                                         <  5:256908/127‑1 (MQ=255)
                                aTTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtgat                                                                                                                    >  6:272323/1‑148 (MQ=255)
                                aTTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtgat                                                                                                                    >  7:178395/1‑148 (MQ=255)
                                     cAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGAtctc                                                                                                              <  3:212383/149‑1 (MQ=255)
                                         ttGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGCCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGATGCCATCAGAACAGTTGATGATCTCGAc                                                                                                           >  5:308272/1‑148 (MQ=255)
                                               gCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATatc                                                                                                     <  8:271879/148‑1 (MQ=255)
                                                          gATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCATAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACg                                                                                                                                           >  1:48096/1‑100 (MQ=255)
                                                          gATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACg                                                                                                                                           <  2:48096/99‑1 (MQ=255)
                                                           aTGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTcc                                                                                        <  1:32256/149‑1 (MQ=255)
                                                           aTGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGGGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTcc                                                                                        >  4:138650/1‑149 (MQ=255)
                                                              gtggCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCgg                                                                                     <  8:178395/149‑1 (MQ=255)
                                                                       cACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAg                                                                             <  5:176099/148‑1 (MQ=255)
                                                                             aggaaGTTGCCACCCT‑AAACGGTGTGTTGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCttt                                                                      <  6:308272/146‑1 (MQ=255)
                                                                               cAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCtgtt                                                                     >  6:256974/1‑148 (MQ=255)
                                                                                 aGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCaa                                                                  <  5:169614/149‑1 (MQ=255)
                                                                                 aGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCaa                                                                  >  6:236617/1‑149 (MQ=255)
                                                                                         cccA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCg                                                          <  7:116832/149‑1 (MQ=255)
                                                                                         cccA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCg                                                          >  8:116832/1‑149 (MQ=255)
                                                                                          ccA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCgg                                                         >  8:280810/1‑149 (MQ=255)
                                                                                               aaCGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAg                                                     <  5:242550/149‑1 (MQ=255)
                                                                                                       ggcctcttCGTGGTCACACCCGCTCCCACAGGTTGTGGGTGCGGGCGTGCCCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGc                                                    <  1:221359/136‑1 (MQ=21)
                                                                                                       ggcctcttCGTGGTCACACCCGCTCCCACAGGTTGTGGGTGCGGGCGTGCCCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGc                                                    >  2:221359/7‑142 (MQ=21)
                                                                                                       gATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCt                                             >  2:74986/1‑149 (MQ=255)
                                                                                                         tGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTg                                           <  5:236617/149‑1 (MQ=255)
                                                                                                          gCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTgg                                          >  8:176388/1‑149 (MQ=255)
                                                                                                          ctcttCGTGGTCACACCCGCTCCCACAGGTTGTGGGTGCGGGCGTGCCCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATACACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCtttg                                          >  8:264502/4‑147 (MQ=25)
                                                                                                            aTTCGTTGTCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGt                                         <  8:221868/148‑1 (MQ=255)
                                                                                                            aTTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATatcca                                                                                                   <  4:35917/90‑1 (MQ=255)
                                                                                                               cGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCtt                                      <  6:81660/148‑1 (MQ=255)
                                                                                                                gTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGt                                    <  7:105355/149‑1 (MQ=255)
                                                                                                                 tGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTc                                   <  6:71870/149‑1 (MQ=255)
                                                                                                                    gCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGtt                                <  5:272323/149‑1 (MQ=255)
                                                                                                                    gCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAAGATCCACATCCACTTCCCGGCTCCTCAGGTGCTTTTCAACCTCACCGGTCGGCTTGACATTGGTCTTGTCggt                                >  5:206947/1‑147 (MQ=255)
                                                                                                                          ccGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACgg                          >  6:3416/1‑149 (MQ=255)
                                                                                                                                ccACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACGGTGTcgg                    >  4:292914/1‑149 (MQ=255)
                                                                                                                                  acaACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTc                                   >  7:41501/1‑132 (MQ=255)
                                                                                                                                  acaACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTc                                   <  8:41501/132‑1 (MQ=255)
                                                                                                                                        tgtgGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACGgtgt                       <  2:76952/138‑1 (MQ=255)
                                                                                                                                        tgtgGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACGgtgt                       >  1:76952/1‑138 (MQ=255)
                                                                                                                                         gtgGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACGGTGTCGGCGGCAGGTc           >  2:211039/1‑149 (MQ=255)
                                                                                                                                                   gtgtGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACGGTGTCGGCGGCAGGTCCTCAtcttc  >  6:311853/1‑148 (MQ=255)
                                                                                                                                                    |                                                                                                                                                  
ACCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCA‑AAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACGGTGTCGGCGGCAGGTCCTCATCGTC  >  NC_002947/5790018‑5790311

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: ‑