Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,790,143 A→T 10.3% intergenic (+22/+46) ynfM → / ← PP_5073 efflux transporter/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,790,1430AT10.3% 156.6 / 8.5 58intergenic (+22/+46)ynfM/PP_5073efflux transporter/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (28/24);  new base T (3/3);  total (31/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.75e-01

CGGCGGGCGGGGTGTTCTGGCACCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACG  >  NC_002947/5789997‑5790286
                                                                                                                                                  |                                                                                                                                               
cggcggGCGGGGTGTTCTGGCACCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCAc                                                                                                                                                <  2:23793/148‑1 (MQ=255)
  gcgggcggGGTGTTCTGGCACCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCca                                                                                                                                             >  4:32491/1‑149 (MQ=255)
               tCTGGCACCAGTGGGGCTGGAACTGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACACCCGCTCCCACAGGTTGTgggtg                                                                                                                                >  7:146871/1‑147 (MQ=255)
               tCTGGCACCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAg                                                                                                                                >  7:56579/1‑149 (MQ=255)
                     aCCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGgtg                                                                                                                          >  2:9974/1‑149 (MQ=255)
                         gTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCAc                                                                                                                                                >  5:80744/1‑123 (MQ=255)
                         gTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCAc                                                                                                                                                <  6:80744/123‑1 (MQ=255)
                          tGGGGCTGGAACTGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACACCCGCTCCCACAGGTTGTGGGTGCGGGCGTGccc                                                                                                                     <  8:146871/149‑1 (MQ=37)
                                  gAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAagag                                                                                                             <  2:61366/149‑1 (MQ=255)
                                  gAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGGGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAaga                                                                                                              <  5:189466/148‑1 (MQ=255)
                                   aaCGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAgg                                                                                                            <  1:9974/149‑1 (MQ=255)
                                   aaCGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAgg                                                                                                            >  6:84527/1‑149 (MQ=255)
                                            gggCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCatcaga                                                                                                    <  5:84527/148‑1 (MQ=255)
                                                     aTTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtgat                                                                                           <  3:32491/148‑1 (MQ=255)
                                                      ttGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtgatga                                                                                         >  8:28032/1‑149 (MQ=255)
                                                           aGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGAtctc                                                                                     >  1:164089/1‑148 (MQ=255)
                                                              ttGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtga                                                                                            <  7:214435/138‑1 (MQ=255)
                                                              ttGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtga                                                                                            >  8:214435/1‑138 (MQ=255)
                                                                gCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACaa                                                                                >  3:39322/1‑148 (MQ=255)
                                                                   ggCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTgg                                                                                                                                   <  6:176795/94‑1 (MQ=255)
                                                                   ggCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTgg                                                                                                                                   >  5:176795/1‑94 (MQ=255)
                                                                    gCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAatat                                                                             <  5:272473/147‑1 (MQ=255)
                                                                      ggTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtgatga                                                                                         >  6:7215/1‑133 (MQ=255)
                                                                      ggTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTtgatga                                                                                         <  5:7215/133‑1 (MQ=255)
                                                                            cTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATatccacatccac                                                                   >  3:60752/1‑149 (MQ=255)
                                                                                  ggtggCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCg                                                             >  8:43750/1‑149 (MQ=255)
                                                                                   gtggCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAat                                                                               <  3:264593/130‑1 (MQ=255)
                                                                                   gtggCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAat                                                                               >  4:264593/1‑130 (MQ=255)
                                                                                    tggCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGc                                                           >  5:29109/1‑149 (MQ=255)
                                                                                             aCCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGa                                                                                   <  5:158458/116‑1 (MQ=255)
                                                                                             aCCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGa                                                                                   >  6:158458/1‑116 (MQ=255)
                                                                                             aCCTGAGAAAGTTGCCACCCAAAACGGAGTGATGCATTCGTCGGCACGCCCCCACCCACAAACTCTCGGAGCGGGTGTGACCACGAAGAGGCCATCAGAACAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGt                                                  >  3:230165/1‑149 (MQ=255)
                                                                                                       gTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAAc                                        <  4:60752/149‑1 (MQ=255)
                                                                                                          gCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAat                                                                               >  6:53355/1‑107 (MQ=255)
                                                                                                          gCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAat                                                                               <  5:53355/107‑1 (MQ=255)
                                                                                                           ccACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCa                                    <  4:39322/149‑1 (MQ=255)
                                                                                                             aCCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCAcc                                  >  4:29134/1‑149 (MQ=255)
                                                                                                              cgcAAAAAGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGTCCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCg                                 <  4:230165/147‑1 (MQ=255)
                                                                                                                cAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCATATCAGTTGATGATCTCGACAATatccac                                                                         <  2:36354/107‑1 (MQ=255)
                                                                                                                cAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATatccac                                                                         >  1:36354/1‑107 (MQ=255)
                                                                                                                cAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCt                                                          >  1:265394/1‑122 (MQ=255)
                                                                                                                 aaaaCGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTc                              <  1:235204/149‑1 (MQ=255)
                                                                                                                  aaaCGGTGTGATGCATTCGTGGGCACGCCCGCACCCACCACCTGTGGGCGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACACTATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCCGCCGCACCgggcg                             >  4:193070/1‑146 (MQ=255)
                                                                                                                             tGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGTTGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCATCCTAACAGGTCAGCTTCACCTTg                  >  8:251401/1‑149 (MQ=255)
                                                                                                                              gCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTg                  <  2:164089/148‑1 (MQ=255)
                                                                                                                                    gTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTg            <  7:28032/148‑1 (MQ=255)
                                                                                                                                       ggCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGt        >  7:162351/1‑149 (MQ=255)
                                                                                                                                          aCGCCCGCACCCACACCCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCAGGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGGCAGCTTCACCTTGGTCTTGTCGTTg      >  5:26877/1‑148 (MQ=255)
                                                                                                                                           cGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACGTCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCCCCGGGCATCTTCACCTTGGTCTTGTCGTTGag    >  8:168924/1‑148 (MQ=255)
                                                                                                                                            gCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAAc   >  5:181960/1‑149 (MQ=255)
                                                                                                                                            gCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAAc   <  8:162351/149‑1 (MQ=255)
                                                                                                                                             cccGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACg  <  7:43750/149‑1 (MQ=255)
                                                                                                                                              ccGCTCCCACAGGTTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTg                  <  7:147494/132‑1 (MQ=255)
                                                                                                                                              ccGCTCCCACAGGTTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTg                  >  8:147494/1‑132 (MQ=255)
                                                                                                                                               cGCTCCCACAGGTTGTGGGTGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTgg                 >  6:28668/1‑132 (MQ=255)
                                                                                                                                               cGCTCCCACAGGTTGTGGGTGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTgg                 <  5:28668/132‑1 (MQ=255)
                                                                                                                                               cGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCtt             >  2:191192/1‑136 (MQ=255)
                                                                                                                                               cGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCATATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCtt             <  1:191192/136‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                               
CGGCGGGCGGGGTGTTCTGGCACCAGTGGGGCTGGAACGGGATCGGGCTGTTCATTGGCAGCTTGCTGGCGGTGGCCTTGATGGTGGCGTTGCACCTGAGCAAGTTGCCACCCAAAACGGTGTGATGCATTCGTGGGCACGCCCGCACCCACAACCTGTGGGAGCGGGTGTGACCACGAAGAGGCCATCAGATCAGTTGATGATCTCGACAATATCCACATCCACTTCCCGGCTCATCAGGTGCTTTTCAACCTCACCGGTCAGCTTCACCTTGGTCTTGTCGTTGAACG  >  NC_002947/5789997‑5790286

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑