Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,190,061	(G)6→7	coding (387/672 nt)	phoP ←	response regulator in two‑component regulatory system with PhoQ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,190,055	1	.	G	100.0%	231.9 / NA	61	P131P (CCG→CCC)	phoP	response regulator in two‑component regulatory system with PhoQ
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (33/28);  total (33/28)

TTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑GGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGAC  >  NC_000913/1189925‑1190186                                                                                                                                    |                                                                                                                                    ttAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑ggggggga                                                                                                                             >  1:22161/1‑137 (MQ=255) ttAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑ggggggga                                                                                                                             <  2:630519/139‑3 (MQ=255)    aCGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑gggggggagcg                                                                                                                          <  2:790524/139‑6 (MQ=255)              gCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCtg                                                                                                                 <  2:717/139‑1 (MQ=255)                                    cGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcgc                                                                                           <  1:271231/139‑1 (MQ=255)                                         cAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCAt                                                                                      >  2:460053/1‑139 (MQ=255)                                                tCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGcc                                                                               >  2:1063308/1‑139 (MQ=255)                                                 ccATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCt                                                                              <  2:188974/139‑1 (MQ=255)                                                          tgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGa                                                                                                                     <  1:22776/91‑1 (MQ=255)                                                          tgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGa                                                                                                                     >  2:22776/1‑91 (MQ=255)                                                          tgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGAc                                                                                                      <  1:179484/106‑1 (MQ=255)                                                          tgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGAc                                                                                                      >  2:179484/1‑106 (MQ=255)                                                          tgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcgcg                                                                     >  1:200035/1‑139 (MQ=255)                                                          tgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcgcg                                                                     >  2:763239/1‑139 (MQ=255)                                                          tgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcgcg                                                                     >  1:500951/1‑139 (MQ=255)                                                            tATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGc                                                                                                           <  1:1213423/99‑1 (MQ=255)                                                            tATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGc                                                                                                           >  2:1213423/1‑99 (MQ=255)                                                            tATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCa                                                                                                         <  2:19567/101‑1 (MQ=255)                                                            tATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCa                                                                                                         >  1:19567/1‑101 (MQ=255)                                                            tATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGcc                                                                   >  2:297481/1‑139 (MQ=255)                                                              ttCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                 <  1:479478/139‑1 (MQ=255)                                                              ttCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                 <  1:391797/139‑1 (MQ=255)                                                                 gAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcgc                                                                      >  2:1004121/1‑131 (MQ=255)                                                                 gAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcgc                                                                      <  1:1004121/131‑1 (MQ=255)                                                                   aCGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                 >  1:393515/1‑134 (MQ=255)                                                                   aCGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                 <  2:393515/134‑1 (MQ=255)                                                                        gTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                            >  1:574156/1‑102 (MQ=255)                                                                        gTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                            <  2:574156/102‑1 (MQ=255)                                                                          cAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAat                                                     <  1:763239/139‑1 (MQ=255)                                                                              ttGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGa                                                 <  1:460053/139‑1 (MQ=255)                                                                                 aTCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAAc                                              >  2:628845/1‑139 (MQ=255)                                                                                       tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                 <  2:1079607/114‑1 (MQ=255)                                                                                       tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                 >  1:1079607/1‑114 (MQ=255)                                                                                       tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                              >  1:733174/1‑117 (MQ=255)                                                                                       tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                              <  2:733174/117‑1 (MQ=255)                                                                                       tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTa                                        >  2:223279/1‑139 (MQ=255)                                                                                       tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTa                                        >  1:1208612/1‑139 (MQ=255)                                                                                       tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTa                                        >  1:1077627/1‑139 (MQ=255)                                                                                       tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTa                                        >  1:1035648/1‑139 (MQ=255)                                                                                          tCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTc                                     <  1:424066/139‑1 (MQ=255)                                                                                            aTTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTcac                                   >  2:1167503/1‑139 (MQ=255)                                                                                                aTAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGATACGGTTTAGTCACATaa                               >  2:629947/1‑139 (MQ=255)                                                                                                   gATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAatca                            >  1:111053/1‑139 (MQ=255)                                                                                                    aTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                            <  2:962468/74‑1 (MQ=255)                                                                                                    aTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                            >  1:962468/1‑74 (MQ=255)                                                                                                        ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGc                       >  2:649224/1‑139 (MQ=255)                                                                                                        ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAAGCCGCATTAATGCCTGCATTCGCGCCATCACCTCtt                                                         >  2:266464/1‑105 (MQ=255)                                                                                                        ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAAGCCGCATTAATGCCTGCATTCGCGCCATCACCTCtt                                                         <  1:266464/105‑1 (MQ=255)                                                                                                          cACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGATACGGTTTAGTCACATAATCATCAGCAc                     <  1:629947/139‑1 (MQ=255)                                                                                                          cACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCAc                     <  2:1077627/139‑1 (MQ=255)                                                                                                           aCGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCAcc                    >  1:1107426/1‑139 (MQ=255)                                                                                                             ggCGAGAGAGATCAACCTGAAACGGGGGGGTGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                            >  1:921234/1‑65 (MQ=255)                                                                                                             ggCGAGAGAGATCAACCTGAAACGGGGGGGTGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                            <  2:921234/65‑1 (MQ=255)                                                                                                             ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCgg                  >  2:933557/1‑139 (MQ=255)                                                                                                              gCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcgcc                                                                                          >  1:81277/1‑66 (MQ=255)                                                                                                              gCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcgcc                                                                                          <  2:81277/66‑1 (MQ=255)                                                                                                              gCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                 >  1:845587/1‑91 (MQ=255)                                                                                                              gCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                 <  2:845587/91‑1 (MQ=255)                                                                                                                  gagagaTCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACtt             <  1:297481/139‑1 (MQ=255)                                                                                                                         cAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACtt      <  1:649224/139‑1 (MQ=255)                                                                                                                         cAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACtt      >  1:501751/1‑139 (MQ=255)                                                                                                                             cTGAAACGGGGGGGAGCGAAATGACCGGTGAAGCTCGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTAACATAATCATCAGCACCGGCACTTACTACTTCTAc  <  1:795438/139‑1 (MQ=255)                                                                                                                               gAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCAc                     <  2:392412/118‑1 (MQ=255)                                                                                                                               gAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCAc                     >  1:392412/1‑118 (MQ=255)                                                                                                                                    |                                                                                                                                    TTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑GGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGAC  >  NC_000913/1189925‑1190186

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑