Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,119,395 T→G 7.6% D284A (GAC→GCC) ‡ USA300HOU_1992 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,119,3950TG 7.6% 147.1 / 6.6 54D284A (GAC→GCC) ‡USA300HOU_1992hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (27/22);  new base G (2/2);  total (30/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.94e-01

TACGTCTATTTTCTTCATGCGTGATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGCGTATCTATCATTATC  >  CP000730/2119258‑2119534
                                                                                                                                         |                                                                                                                                           
tACGTCTATTTTCTTCATGCGTGATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGtctt                                                                                                                                          >  1:163572/1‑141 (MQ=255)
       aTTTTCTTCATGCGTGATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCg                                                                                                                                   <  2:429852/141‑1 (MQ=255)
       aTTTTCTTCATGCGTGATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCg                                                                                                                                   <  2:59169/141‑1 (MQ=255)
              tcATGCGTGATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAAt                                                                                                                            >  1:454619/1‑141 (MQ=255)
               cATGCGTGATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAAtt                                                                                                                           <  2:432227/141‑1 (MQ=255)
                   cGTGATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGa                                                                                                                       <  1:58910/141‑1 (MQ=255)
                   cGTGATTTGTTGTTAGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGACTTCTATACGTTTCAATTCTgt                                                                                                                       >  2:431024/1‑140 (MQ=255)
                      gATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTg                                                                                                                    <  1:400361/141‑1 (MQ=255)
                       aTTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGt                                                                                                                   <  2:92287/141‑1 (MQ=255)
                        tttGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGtt                                                                                                                  >  1:137618/1‑141 (MQ=255)
                        tttGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGtt                                                                                                                  >  1:137635/1‑141 (MQ=255)
                              gtttgtttTGCTTTAATCTTGTTTTAAGATTCGCAACCGTTCCATTTTCAACGTGTAGCTCATTTGTTAAAGCATGTATTTTGTTCTCATTACTGGCGCTATTATTAGCTTCTATGCGCTTCAATTCTGATTGTTTATCAg                                                                                                            <  2:290880/141‑1 (MQ=255)
                                ttgtttTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTTTTTTGTTAAAGCATGGCTTTTGTTCTCATTGCTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGCTTGTTTATCAGCt                                                                                                          <  2:75748/141‑1 (MQ=255)
                                 tgtttTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTa                                                                                                         <  1:158869/141‑1 (MQ=255)
                                        cTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGAtt                                                                                                  >  1:326868/1‑141 (MQ=255)
                                           tAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACg                                                                                               <  1:240729/141‑1 (MQ=255)
                                             aTCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTa                                                                                             <  2:283525/141‑1 (MQ=255)
                                                tcGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAaat                                                                                          >  1:217075/1‑141 (MQ=255)
                                                tcGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAaat                                                                                          <  2:168315/141‑1 (MQ=255)
                                                tcGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGCAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAaat                                                                                          >  2:199650/1‑141 (MQ=255)
                                                 cGTTTTAAGGTTTGCTACTGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAaatt                                                                                         >  1:451228/1‑141 (MQ=255)
                                                 cGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAaatt                                                                                         >  1:150850/1‑141 (MQ=255)
                                                  gTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAaatta                                                                                        >  2:41402/1‑141 (MQ=255)
                                                  gTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAaatta                                                                                        >  1:165682/1‑141 (MQ=255)
                                                  gTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACATAaatta                                                                                        >  1:132580/1‑141 (MQ=255)
                                                       aaGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATttc                                                                                   >  1:428174/1‑141 (MQ=255)
                                                         ggTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATttctt                                                                                 <  1:193813/141‑1 (MQ=255)
                                                           tttGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTcc                                                                               <  2:415041/141‑1 (MQ=255)
                                                            ttGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGTGCTGTTATTGTCTTCTATGCGTTTCAATTTTGATTGTTTATCAGCTAATTGATTACGCAAATTATTttctttct                                                                              >  2:416462/1‑141 (MQ=255)
                                                            ttGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCt                                                                              <  1:32422/141‑1 (MQ=255)
                                                            ttGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCt                                                                              <  1:221029/141‑1 (MQ=255)
                                                                      tCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGTATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTg                                                                    <  2:413712/141‑1 (MQ=255)
                                                                                 cgtgtagctCATTTGTTAAAGCATGTATTTTGTTCTCATTACTGGCGCTATTATTAGCTTCTATGCGCTTCAATTCTGATTGTTTATCAGCTAATTGGTTACGCAAATTAATTTCTTCTGCACCGTTTTGAATATCTATAc                                                         >  1:393923/9‑141 (MQ=255)
                                                                                 cgtgtagctCATTTGTTAAAGCATGTATTTTGTTCTCATTACTGGCGCTATTATTAGCTTCTATGCGCTTCAATTCTGATTGTTTATCAGCTAATTGGTTACGCAAATTAATTTCTTCTGCACCGTTTTGAATATCTATAc                                                         >  1:393940/9‑141 (MQ=255)
                                                                                 cGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATAc                                                         >  2:39838/1‑141 (MQ=255)
                                                                                  gtgtAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTAAAGTTGTGGATATCTATACg                                                        >  1:251078/1‑141 (MQ=255)
                                                                                    gtAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTCACGTGTTGTATATCTATACGCt                                                      <  2:90742/141‑1 (MQ=255)
                                                                                    gtAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCt                                                      <  1:378988/141‑1 (MQ=255)
                                                                                           aTTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTTAATATCTTTACTCTCAttttt                                               >  2:413136/1‑140 (MQ=255)
                                                                                              tGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAg                                            >  1:366388/1‑141 (MQ=255)
                                                                                                   aaGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCt                                       >  1:12601/1‑141 (MQ=255)
                                                                                                   aaGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCt                                       <  2:72973/141‑1 (MQ=255)
                                                                                                     gCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCa                                     <  2:74471/141‑1 (MQ=255)
                                                                                                              ttGTTCTCATTACTGGCGCTATTATTAGCTTCTATGCGCTTCAATTCTGATTGTTTATCAGCTAATTGGTTACGCAAATTAATTTCTTCTGCACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGt                            <  1:333051/141‑1 (MQ=255)
                                                                                                               tGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGtt                           >  2:404706/1‑141 (MQ=255)
                                                                                                                gTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGttt                          >  1:161364/1‑141 (MQ=255)
                                                                                                                 ttCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTg                         >  1:328048/1‑141 (MQ=255)
                                                                                                                     cATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATaa                     >  1:388936/1‑141 (MQ=255)
                                                                                                                         aCTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGc                 >  1:334456/1‑141 (MQ=255)
                                                                                                                               gcTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGCGtatct           >  2:367865/1‑141 (MQ=255)
                                                                                                                                   ttATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGCGTATCTATCa       >  2:431108/1‑141 (MQ=255)
                                                                                                                                    tATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGCGTATCTATCAt      >  2:190090/1‑141 (MQ=255)
                                                                                                                                       tGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGCGTATCTATCATTAt   <  1:59772/141‑1 (MQ=255)
                                                                                                                                       tGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGCGTATCTATCATTAt   <  1:230739/141‑1 (MQ=255)
                                                                                                                                        gTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGCGTATCTATCATTATc  >  1:204850/1‑141 (MQ=255)
                                                                                                                                         |                                                                                                                                           
TACGTCTATTTTCTTCATGCGTGATTTGTTGTTTGTTTTGCTTTAATCTCGTTTTAAGGTTTGCTACCGTTCCATTTTCAACGTGTAATTCATTTGTTAAAGCATGGATTTTGTTCTCATTACTTGCGCTGTTATTGTCTTCTATGCGTTTCAATTCTGATTGTTTATCAGCTAATTGATTACGTAAATTAATTTCTTCCTTACCGTTTTGAATATCTATACGCTCATTTTCAAGTTGCTCAATTTCTTGTTTGATAATTGCGTATCTATCATTATC  >  CP000730/2119258‑2119534

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑