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%	211.0 / NA	59	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 (28/31);  total (28/31)

TTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑GGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTT  >  NC_000913/1189917‑1190188                                                                                                                                            |                                                                                                                                      ttGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAc                                                                                                                                        >  1:69127/1‑139 (MQ=255)    gAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑ggg                                                                                                                                    >  1:1041554/1‑139 (MQ=255)    gAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑ggg                                                                                                                                    <  1:1023641/139‑1 (MQ=255)    gAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑ggg                                                                                                                                    >  2:1394820/1‑139 (MQ=255)         ttAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑ggggggga                                                                                                                               <  1:1394820/139‑3 (MQ=255)                      gCTGACCACTTTGCCATTATTGCATATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCtg                                                                                                                   <  1:923768/139‑1 (MQ=255)                             aCTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCATGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAAt                                                                                                                         >  1:360173/1‑126 (MQ=255)                             aCTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCATGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAAt                                                                                                                         <  2:360173/126‑1 (MQ=255)                              cTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCa                                                                                                           <  2:1041554/139‑1 (MQ=255)                               tttGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAg                                                                                                          <  1:118272/139‑1 (MQ=255)                                    cATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGc                                                                                                     >  2:1286231/1‑139 (MQ=255)                                                   aCGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTa                                                                                      >  2:1395509/1‑139 (MQ=255)                                                                 gtgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcgc                                                                        <  1:1286231/139‑1 (MQ=255)                                                                  tgtATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcgcg                                                                       >  1:996985/1‑139 (MQ=255)                                                                      ttCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCAt                                                                   <  1:1029933/139‑1 (MQ=255)                                                                         gAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                <  2:161025/139‑1 (MQ=255)                                                                         gAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                <  1:749568/139‑1 (MQ=255)                                                                            cgcgGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGa                                                                                                                >  2:1048854/1‑88 (MQ=255)                                                                            cgcgGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGa                                                                                                                <  1:1048854/88‑1 (MQ=255)                                                                              cgGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑ggggggg                                                                                                                                <  2:950351/69‑2 (MQ=255)                                                                              cgGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑ggggggg                                                                                                                                >  1:950351/1‑68 (MQ=255)                                                                                   aGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAata                                                      <  2:69127/139‑1 (MQ=255)                                                                                     tttGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                >  1:1205021/1‑127 (MQ=255)                                                                                     tttGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                <  2:1205021/127‑1 (MQ=255)                                                                                             cTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                              >  1:278963/1‑89 (MQ=255)                                                                                             cTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                              <  2:278963/89‑1 (MQ=255)                                                                                               tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                <  1:1284808/117‑1 (MQ=255)                                                                                               tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                >  2:1284808/1‑117 (MQ=255)                                                                                               tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTa                                          >  2:933852/1‑139 (MQ=255)                                                                                               tCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTa                                          <  2:1181089/139‑1 (MQ=255)                                                                                                      tAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGAc                                                                                                        >  2:352563/1‑70 (MQ=255)                                                                                                      tAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGAc                                                                                                        <  1:352563/70‑1 (MQ=255)                                                                                                            aTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGa                                                                                                                       <  1:817432/49‑1 (MQ=255)                                                                                                            aTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGa                                                                                                                       >  2:817432/1‑49 (MQ=255)                                                                                                            aTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcgc                                                                                             >  1:471892/1‑75 (MQ=255)                                                                                                            aTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcgc                                                                                             <  2:471892/75‑1 (MQ=255)                                                                                                            aTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAatcat                             >  1:437442/1‑139 (MQ=255)                                                                                                              aaTTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTa                                                                                      >  1:1198442/1‑80 (MQ=255)                                                                                                              aaTTCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTa                                                                                      <  2:1198442/80‑1 (MQ=255)                                                                                                                ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                              <  1:1059414/70‑1 (MQ=255)                                                                                                                ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                              >  2:1423787/1‑70 (MQ=255)                                                                                                                ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                              >  2:1059414/1‑70 (MQ=255)                                                                                                                ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                              <  1:1423787/70‑1 (MQ=255)                                                                                                                ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGc                         >  1:477590/1‑139 (MQ=255)                                                                                                                  cACGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCAc                       <  2:477590/139‑1 (MQ=255)                                                                                                                    cGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCtt                                                           >  1:21067/1‑101 (MQ=255)                                                                                                                    cGGCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCtt                                                           <  2:21067/101‑1 (MQ=255)                                                                                                                     ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGAc                                                                                                        >  2:1196670/1‑55 (MQ=255)                                                                                                                     ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGAc                                                                                                        <  1:1196670/55‑1 (MQ=255)                                                                                                                     ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGcc                                                                     >  2:820293/1‑90 (MQ=255)                                                                                                                     ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGcc                                                                     <  1:820293/90‑1 (MQ=255)                                                                                                                     ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                <  1:1398263/95‑1 (MQ=255)                                                                                                                     ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                >  2:1398263/1‑95 (MQ=255)                                                                                                                     ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAatc                               <  2:1166904/128‑1 (MQ=255)                                                                                                                     ggCGAGAGAGATCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAatc                               >  1:1166904/1‑128 (MQ=255)                                                                                                                        gagagagaTCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCtt                                                           <  2:1379680/97‑1 (MQ=255)                                                                                                                        gagagagaTCAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCtt                                                           >  1:1379680/1‑97 (MQ=255)                                                                                                                                 cAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGCAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACtt        <  1:1282604/139‑1 (MQ=255)                                                                                                                                 cAACCTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCGTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGTACTTAATACtt        <  1:933852/139‑1 (MQ=255)                                                                                                                                    ccTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                >  2:1425199/1‑80 (MQ=255)                                                                                                                                    ccTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCAc                                                                <  1:1425199/80‑1 (MQ=255)                                                                                                                                    ccTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGtt                                            >  2:640868/1‑100 (MQ=255)                                                                                                                                    ccTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGtt                                            <  1:640868/100‑1 (MQ=255)                                                                                                                                    ccTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGa     >  2:19290/1‑139 (MQ=255)                                                                                                                                    ccTGAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGa     >  1:1558971/1‑139 (MQ=255)                                                                                                                                       gAAACGGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACtt  >  1:500239/1‑139 (MQ=255)                                                                                                                                            |                                                                                                                                      TTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAC‑GGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTT  >  NC_000913/1189917‑1190188

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑