Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,693,877 A→C 7.6% I102L (ATC→CTC)  PP_1489 → CheW domain‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,693,8770AC 7.6% 135.2 / 2.6 52I102L (ATC→CTC) PP_1489CheW domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base A (23/25);  new base C (2/2);  total (25/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.23e-01

CTGCCTGGGTCGCGGGCATTCTCGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAGGCCTGCTGCAGCGCATCGAAGTCAATGACC  >  NC_002947/1693728‑1694018
                                                                                                                                                     |                                                                                                                                             
ctgcctgGGTCGCGGGCATTCTCGCCCATCGTGGCCAGCTGGTTCCGGGCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCTAGGCGGCCTGCAGCTTGGCCTGa                                                                                                                                               <  2:512601/150‑1 (MQ=255)
  gcctgGGTCGCGGGCACTCTCGCCCACCCTGGCCAGCTCGTTCCGCTCATCGAGCTTGCCCCCTTGAGCTTTGGCAAGCCGGCGGTGCAACGCACCAGCACACGCCTGGTGCTCGTGCACTACCCAGCCGGCCCGCCGCTTGCCCCGATc                                                                                                                                             >  2:69052/1‑150 (MQ=255)
      gggTCGCGGGCATTCTCGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTgg                                                                                                                                         >  2:435327/1‑150 (MQ=255)
         tCGCGGGCATTCTCGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCTGCCTGCAGCTTGGCCTGATCCTGGAGc                                                                                                                                      >  1:643652/1‑150 (MQ=255)
             gggCATTCTCGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTTCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGCTCCAGGATCAGGc                                                                                                                                  <  1:554214/150‑1 (MQ=255)
                     tcGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGaaa                                                                                                                          <  2:999597/150‑1 (MQ=255)
                     tcGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGaaa                                                                                                                          >  2:745415/1‑150 (MQ=255)
                     tcGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGaaa                                                                                                                          <  1:803664/150‑1 (MQ=255)
                      cGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAAc                                                                                                                         <  2:1186136/150‑1 (MQ=255)
                         ccATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCt                                                                                                                      <  1:1057961/150‑1 (MQ=255)
                         ccATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAACAGGCCACCGAAACCCt                                                                                                                      >  2:527654/1‑150 (MQ=255)
                                  ccAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTgg                                                                                                                                         >  1:1207697/1‑122 (MQ=255)
                                  ccAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTgg                                                                                                                                         <  2:1207697/122‑1 (MQ=255)
                                       tGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAg                                                                                                                                    <  2:432936/122‑1 (MQ=255)
                                       tGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAg                                                                                                                                    >  1:432936/1‑122 (MQ=255)
                                        ggTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGa                                                                                                       <  2:690046/150‑1 (MQ=255)
                                         gTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGAc                                                                                                      >  1:475429/1‑150 (MQ=255)
                                          ttCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAg                                                                                                                                    >  1:627268/1‑119 (MQ=255)
                                          ttCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAg                                                                                                                                    <  2:627268/119‑1 (MQ=255)
                                              ggTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAAACCTGCGTTGCCAACCGGACGAGtt                                                                                                 >  1:584523/1‑150 (MQ=255)
                                                  aTCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAg                                                                                             >  2:1229926/1‑150 (MQ=255)
                                                   tCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGa                                                                                                       >  1:729874/1‑139 (MQ=255)
                                                   tCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGa                                                                                                       <  2:729874/139‑1 (MQ=255)
                                                                            ccAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTCTGGGGTGGACACAGGCGATgc                                                                   >  2:286205/1‑150 (MQ=255)
                                                                                       tGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTgg                                                        <  1:745415/150‑1 (MQ=255)
                                                                                             gcaccagcaccaGGCGGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCAcc                                                                                                                              >  1:361353/1‑74 (MQ=37)
                                                                                             gcaccagcaccaGGCGGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCAcc                                                                                                                              <  2:361353/74‑1 (MQ=37)
                                                                                               aCCAGCACCAGGCGGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTg                                                >  1:851751/1‑150 (MQ=255)
                                                                                                 cAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTTCCCACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCTGGTgcg                                              >  1:193442/1‑150 (MQ=255)
                                                                                                 cAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTgcg                                              >  1:858082/1‑150 (MQ=255)
                                                                                                          ccTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGc                                     <  1:527654/150‑1 (MQ=255)
                                                                                                           ctggtgctggtgCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGcc                                    <  1:435327/150‑1 (MQ=255)
                                                                                                           ctggtgctggtgCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGcc                                    <  2:475429/150‑1 (MQ=255)
                                                                                                               tgctggtgcACGACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAg                                <  2:584523/150‑1 (MQ=255)
                                                                                                                    gtgcACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCCAGGCatg                           <  2:343412/150‑1 (MQ=255)
                                                                                                                         cTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAGGCCTGCTGCa                      <  1:824375/150‑1 (MQ=255)
                                                                                                                            ccGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCtt                                                              >  1:649012/1‑107 (MQ=255)
                                                                                                                            ccGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCtt                                                              <  2:649012/107‑1 (MQ=255)
                                                                                                                            ccGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTgg                                                        >  2:877684/1‑113 (MQ=255)
                                                                                                                            ccGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTgg                                                        <  1:877684/113‑1 (MQ=255)
                                                                                                                              gAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAGGCCTGCTGCAGCGCa                 <  2:858082/150‑1 (MQ=255)
                                                                                                                                ggcggcCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAGGCCTGCTGCAGCGCATc               <  1:1229926/150‑1 (MQ=255)
                                                                                                                                    gcCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAGGCCTGCTGCAGCGCATCGAAg           <  2:643652/150‑1 (MQ=255)
                                                                                                                                      cTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAGGCCTGCTGCAGCGCATCGAAGTc         >  2:911627/1‑150 (MQ=255)
                                                                                                                                        gCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATgc                                                                   >  2:1126781/1‑90 (MQ=255)
                                                                                                                                        gCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATgc                                                                   <  1:1126781/90‑1 (MQ=255)
                                                                                                                                        gCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAgg                               <  2:871603/126‑1 (MQ=255)
                                                                                                                                        gCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAgg                               >  1:871603/1‑126 (MQ=255)
                                                                                                                                             gtGGCCTGCTCCAGGATCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAGGCCTGCTGCAGCGCATCGAAGTCAATGAcc  >  1:516646/2‑150 (MQ=255)
                                                                                                                                               ggCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCt                                                          >  1:1206056/1‑92 (MQ=255)
                                                                                                                                               ggCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCt                                                          <  2:1206056/92‑1 (MQ=255)
                                                                                                                                                  cTGCTCCAGGATCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGcc                                    >  2:1048183/1‑111 (MQ=255)
                                                                                                                                                  cTGCTCCAGGATCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGcc                                    <  1:1048183/111‑1 (MQ=255)
                                                                                                                                                     |                                                                                                                                             
CTGCCTGGGTCGCGGGCATTCTCGCCCATCGTGGCCAGCTGGTTCCGGTCATCGACCTTGCCGCCTTGAGCTTTGGCCAGCCGGCGGTGCAACGCACCAGCACCCGCCTGGTGCTGGTGCACTACCGAGGCGGCCTGCAGCTTGGCCTGATCCTGGAGCAGGCCACCGAAACCCTGCGTTGCCAACCGGACGAGTTCCAGCCCTATGGGGTGGACACAGGCGATGCGCCTTATCTGGGCCCGGTGCGCCAGGATGCCCAAGGCCTGCTGCAGCGCATCGAAGTCAATGACC  >  NC_002947/1693728‑1694018

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: ‑