Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 3,063,057 A→T I37N (ATC→AAC)  mscS ← small‑conductance mechanosensitive channel MscS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,063,0570AT92.2% 225.9 / 9.4 64I37N (ATC→AAC) mscSsmall‑conductance mechanosensitive channel MscS
Reads supporting (aligned to +/- strand):  ref base A (4/1);  new base T (28/31);  total (32/32)
Fisher's exact test for biased strand distribution p-value = 3.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.22e-01

AGCGTAAAGGCGATAATACCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGATCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCATTCAATATTCCTTTTCAACT  >  NZ_CP009273/3062922‑3063185
                                                                                                                                       |                                                                                                                                
aGCGTAAAGGCGATAATACCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTcg                                                                                                                               >  2:603191/1‑139 (MQ=255)
 gCGTAAAGGCGATAATACCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTcgc                                                                                                                              <  1:140312/139‑1 (MQ=255)
    tAAAGGCGATAATACCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAg                                                                                                                           <  2:1279001/139‑1 (MQ=255)
        ggCGATAATACCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTgcc                                                                                                                       >  2:657293/1‑139 (MQ=255)
         gCGATAATACCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTgccg                                                                                                                      <  2:606903/139‑1 (MQ=255)
           gATAATACCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTgccgcc                                                                                                                    <  1:893248/139‑1 (MQ=255)
            ataataCCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCa                                                                                                                   >  1:806325/1‑139 (MQ=255)
            ataataCCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCa                                                                                                                   >  2:604425/1‑139 (MQ=255)
            ataataCCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCa                                                                                                                   >  2:605212/1‑139 (MQ=255)
                   cGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGtt                                                                                                            <  2:942286/139‑1 (MQ=255)
                     tAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACAAACGATGATGTTCGCGAGTGCCGCCACGATGTTTa                                                                                                          <  2:707758/139‑1 (MQ=255)
                       aCGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCa                                                                                                                   <  1:859420/128‑1 (MQ=255)
                       aCGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCa                                                                                                                   >  2:859420/1‑128 (MQ=255)
                          gACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCa                                                                                                     <  2:806325/139‑1 (MQ=255)
                           aCTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCa                                                                                                     >  1:104286/1‑138 (MQ=255)
                             tAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTgccgcc                                                                                                                    >  1:179598/1‑121 (MQ=255)
                             tAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTgccgcc                                                                                                                    <  2:179598/121‑1 (MQ=255)
                               aTGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAg                                                                                                                           >  2:143132/1‑112 (MQ=255)
                               aTGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATaa                                                                                                  <  1:928257/137‑1 (MQ=255)
                               aTGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAAACATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAg                                                                                                                           <  1:143132/112‑1 (MQ=255)
                                tGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACt                                                                                                >  2:1040401/1‑138 (MQ=255)
                                tGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACt                                                                                                >  1:1014557/1‑138 (MQ=255)
                                tGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACt                                                                                                >  1:1160807/1‑138 (MQ=255)
                                tGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGATCGCGAGTGCCGCCACg                                                                                                                 >  1:1270479/1‑121 (MQ=255)
                                tGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGATCGCGAGTGCCGCCACg                                                                                                                 <  2:1270479/121‑1 (MQ=255)
                                     aaagaaaATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTagcag                                                                                          >  1:113596/1‑139 (MQ=255)
                                     aaagaaaATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGATCGCGAGTGCCGCCACGATGTTTACTGCATAACTTagcag                                                                                          >  1:1258233/1‑139 (MQ=255)
                                      aagaaaATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTagcagc                                                                                         <  1:885439/139‑1 (MQ=255)
                                       agaaaATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTagcag                                                                                          >  1:269272/1‑137 (MQ=255)
                                          aaaTCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAgcg                                                                                     <  2:800253/139‑1 (MQ=255)
                                            aTCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTgccg                                                                                                                      <  2:41018/104‑1 (MQ=255)
                                            aTCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTgccg                                                                                                                      >  1:41018/1‑104 (MQ=255)
                                            aTCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGcc                                                                                   <  2:994120/139‑1 (MQ=255)
                                                 cAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAgcgc                                                                                    <  1:41520/133‑1 (MQ=255)
                                                 cAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAgcgc                                                                                    >  2:41520/1‑133 (MQ=255)
                                                      gTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTa                                                                         <  1:1200309/139‑1 (MQ=255)
                                                               aTTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACcagccagc                                                                >  1:1156848/1‑139 (MQ=255)
                                                               aTTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACcagccagc                                                                >  2:491131/1‑139 (MQ=255)
                                                               aTTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGATCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACcagccagc                                                                >  2:1167834/1‑139 (MQ=255)
                                                                   tACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTc                                                             <  1:491294/138‑1 (MQ=255)
                                                                      gggAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCcgc                                                         <  1:470810/139‑1 (MQ=255)
                                                                       ggAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCcgcg                                                        <  1:1118224/139‑1 (MQ=255)
                                                                        gagaTCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTa                                                                                                          >  2:573856/1‑88 (MQ=255)
                                                                        gagaTCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTa                                                                                                          <  1:573856/88‑1 (MQ=255)
                                                                              atcaGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTa                                                 >  2:408203/1‑139 (MQ=255)
                                                                                  ggCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCa                                                                                                     <  2:466610/83‑1 (MQ=255)
                                                                                  ggCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCa                                                                                                     >  1:466610/1‑83 (MQ=255)
                                                                                       ttCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTa                                                                                                          >  2:39860/1‑73 (MQ=255)
                                                                                       ttCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTa                                                                                                          <  1:39860/73‑1 (MQ=255)
                                                                                         cACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGac                                       <  2:1160807/138‑1 (MQ=255)
                                                                                                 tGGAAATCATCCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCa                               >  2:1169078/1‑138 (MQ=255)
                                                                                                 tGGAAATCATCCGCGCGATAATCAAACCAACGATGATGATCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCa                               >  2:623385/1‑138 (MQ=255)
                                                                                                      atcatcCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCtt                         <  1:605212/139‑1 (MQ=255)
                                                                                                         atcCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCa                                                                                                     <  1:497622/60‑1 (MQ=255)
                                                                                                         atcCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCa                                                                                                     >  2:497622/1‑60 (MQ=255)
                                                                                                          tcCGCGCGATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCAt                     >  2:920449/1‑139 (MQ=255)
                                                                                                                 gATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCATTCAatat              <  1:604425/139‑1 (MQ=255)
                                                                                                                 gATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCATTCAatat              <  1:491131/139‑1 (MQ=255)
                                                                                                                 gATAATCAAACCAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCATTCAatat              <  1:219757/139‑1 (MQ=255)
                                                                                                                           ccAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCATTCAATATTCCTTTTCaa    >  1:872152/1‑139 (MQ=255)
                                                                                                                            cAACGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCATTCAATATTCCTTTTCAAc   <  2:877642/139‑1 (MQ=255)
                                                                                                                             aaCGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCa                                                                                                     <  1:962305/40‑1 (MQ=255)
                                                                                                                             aaCGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCa                                                                                                     >  2:962305/1‑40 (MQ=255)
                                                                                                                             aaCGATGATGTTCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCATTCAATATTCCTTTTCAACt  >  1:66106/1‑139 (MQ=255)
                                                                                                                                       |                                                                                                                                
AGCGTAAAGGCGATAATACCGTAACGGACTAATGCAGAAAGAAAATCAGCAACAGTGGCATCGATTTTACGGGAGATCATCAGGCGATTCACCGCGTTGGAAATCATCCGCGCGATAATCAAACCAACGATGATGATCGCGAGTGCCGCCACGATGTTTACTGCATAACTTAGCAGCAGCGCCTGGTTAGCTACCAGCCAGCTTCCCGCGCCGTTTATGCTATCGACAACATTCAAATCTTCCATTCAATATTCCTTTTCAACT  >  NZ_CP009273/3062922‑3063185

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑