Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,270,966	A→C	L107R (CTG→CGG)	narL ←	two‑component system response regulator NarL

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,270,966	0	A	C	100.0%	252.7 / NA	67	L107R (CTG→CGG)	narL	two‑component system response regulator NarL
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (30/37);  total (30/37)

GGCGTTAATGCTTCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACAGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATGCGCCCTGAGAGG  >  NZ_CP009273/1270879‑1271052                                                                                        |                                                                                       ggCGTTAATGCTTCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGa                                                                                      >  1:568430/1‑90 (MQ=255)  gCGTTAATGCTTCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGAt                                                                                     <  1:2040403/90‑1 (MQ=255)      tAATGCTTCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGcc                                                                                 >  1:300447/1‑90 (MQ=255)      tAATGCTTCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGcc                                                                                 >  1:2959297/1‑90 (MQ=255)           cTTCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATccg                                                                            >  2:2077852/1‑90 (MQ=255)           cTTCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGAACTTCCGGTTCCATATCTTTTAACCGATAGCCATccg                                                                            >  1:480017/1‑90 (MQ=255)             tCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATccgcg                                                                          >  1:2783361/1‑90 (MQ=255)                 ttAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATccgcgccgc                                                                      <  1:2017653/90‑1 (MQ=255)                   aaTACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGt                                                                    <  2:2959297/90‑1 (MQ=255)                   aaTACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGt                                                                    <  2:1738225/90‑1 (MQ=255)                    aTACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGtt                                                                   >  1:1586595/1‑90 (MQ=255)                       ccATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCa                                                                <  1:1195675/90‑1 (MQ=255)                       ccATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCa                                                                <  1:1278627/90‑1 (MQ=255)                         aTTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGt                                                              >  1:291804/1‑90 (MQ=255)                         aTTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGt                                                              >  2:736984/1‑90 (MQ=255)                         aTTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCATTTCAGt                                                              >  2:129829/1‑90 (MQ=255)                          tttCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTg                                                             >  2:2601686/1‑90 (MQ=255)                            tCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCg                                                           >  2:2204101/1‑90 (MQ=255)                             cGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCgg                                                          <  1:2204101/90‑1 (MQ=255)                             cGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCgg                                                          <  1:2601686/90‑1 (MQ=255)                               ccAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTg                                                        <  1:1478534/90‑1 (MQ=255)                                  gcagcTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGAcc                                                     >  1:1332439/1‑90 (MQ=255)                                   cagcTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACca                                                    <  2:1734809/90‑1 (MQ=255)                                       tGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACAtc                                                >  1:225239/1‑90 (MQ=255)                                             aTGGAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCttcttc                                          <  1:2973164/90‑1 (MQ=255)                                             aTGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCttcttc                                          >  1:1090675/1‑90 (MQ=255)                                             aTGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCttcttc                                          >  1:1456911/1‑90 (MQ=255)                                             aTGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCttcttc                                          <  1:2584299/90‑1 (MQ=255)                                             aTGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCttcttc                                          <  1:153480/90‑1 (MQ=255)                                              tGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCa                                         <  2:2851413/90‑1 (MQ=255)                                               gCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCAt                                        <  2:2058033/90‑1 (MQ=255)                                                  aTGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCgg                                                          >  2:2816704/1‑69 (MQ=255)                                                  aTGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCgg                                                          <  1:2816704/69‑1 (MQ=255)                                                  aTGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACca                                                    >  1:1515705/1‑75 (MQ=255)                                                  aTGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACca                                                    <  2:1515705/75‑1 (MQ=255)                                                  aTGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGt                                     >  1:2334253/1‑90 (MQ=255)                                                  aTGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGt                                     >  2:886589/1‑90 (MQ=255)                                                           tcagATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGc                            <  2:225239/89‑1 (MQ=255)                                                           gcagATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGc                            <  1:782282/90‑1 (MQ=255)                                                           gcagATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGc                            <  1:1613515/90‑1 (MQ=255)                                                           gcagATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGc                            <  2:2693564/90‑1 (MQ=255)                                                           gcagATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGc                            <  2:1665628/90‑1 (MQ=255)                                                           gcagATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGc                            <  2:1586595/90‑1 (MQ=255)                                                           gcagATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGc                            <  1:407090/90‑1 (MQ=255)                                                           gcagATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGc                            <  1:406516/90‑1 (MQ=255)                                                             agATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTg                          <  2:1851389/90‑1 (MQ=255)                                                              gATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCttcttc                                          <  2:2866809/73‑1 (MQ=255)                                                              gATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCttcttc                                          >  1:2866809/1‑73 (MQ=255)                                                              gATCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGa                         >  2:1092510/1‑90 (MQ=255)                                                                tCTTCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAAt                       <  1:1794923/90‑1 (MQ=255)                                                                   tCCGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATAcc                    >  2:2974912/1‑90 (MQ=255)                                                                    ccGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACca                   <  1:1836979/90‑1 (MQ=255)                                                                    ccGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACca                   <  2:749110/90‑1 (MQ=255)                                                                     cGGTTCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACcac                  >  1:1763928/1‑90 (MQ=255)                                                                         tCCATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATg              >  2:203613/1‑90 (MQ=255)                                                                          ccATATCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATgc             <  1:1930685/90‑1 (MQ=255)                                                                            atatCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATgcgc           >  1:1219707/1‑90 (MQ=255)                                                                              atCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATGCGccc         <  1:636183/90‑1 (MQ=255)                                                                              atCTTTTAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATGCGccc         <  1:1381072/90‑1 (MQ=255)                                                                                 ttttAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGaa                        <  2:2681776/72‑1 (MQ=255)                                                                                 ttttAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATGCGCCCTga      >  2:1940395/1‑90 (MQ=255)                                                                                 ttttAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATGCGCCCTga      >  1:13944/1‑90 (MQ=255)                                                                                 ttttAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGGGACCACATCTTCTTCATGGTTAGAGACGCTGaa                        >  1:2681776/1‑72 (MQ=255)                                                                                  tttAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATGCGCCCTgag     <  1:736984/90‑1 (MQ=255)                                                                                   ttAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGAcc                                                     >  2:2466933/1‑41 (MQ=255)                                                                                   ttAACCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGAcc                                                     <  1:2466933/41‑1 (MQ=255)                                                                                     aaCCGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATGCGCCCTGAGAgg  <  1:2947261/90‑1 (MQ=255)                                                                                        |                                                                                       GGCGTTAATGCTTCGCTTAATACCATTTCGCCAGCAGCTGCCTGATGCAATGCTTTCAGCAGATCTTCCGGTTCCATATCTTTTAACAGATAGCCATCCGCGCCGCGTTTCAGTGCGGTGACCACATCTTCTTCATGGTTAGAGACGCTGAATACCACAATGCGCCCTGAGAGG  >  NZ_CP009273/1270879‑1271052

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑