Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,339,460	C→T	intergenic (‑40/‑107)	gyrA ← / → ubiG	DNA gyrase (type II topoisomerase), subunit A/bifunctional 3‑demethylubiquinone‑9 3‑methyltransferase/ 2‑octaprenyl‑6‑hydroxy phenol methylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,339,460	0	C	T	100.0%	183.5 / NA	48	intergenic (‑40/‑107)	gyrA/ubiG	DNA gyrase (type II topoisomerase), subunit A/bifunctional 3‑demethylubiquinone‑9 3‑methyltransferase/ 2‑octaprenyl‑6‑hydroxy phenol methylase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (20/28);  total (20/28)

GGCAGCGCACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTCGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACGTAGACCA  >  NC_000913/2339317‑2339607                                                                                                                                                |                                                                                                                                                    ggCAGCGCACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCaaa                                                                                                                                                <  1:73939/149‑1 (MQ=255) ggCAGCGCACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCa                                                                                                                                                  <  1:463594/147‑1 (MQ=255) ggCAGCGCACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAAt                                                                                                                                               <  2:574706/150‑1 (MQ=255)     gcgcACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATaa                                                                                                                                          <  2:455406/151‑1 (MQ=255)     gcgcACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATaa                                                                                                                                          <  2:43420/151‑1 (MQ=255)            gCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGGTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGcc                                                                                                                                   >  2:305632/1‑151 (MQ=255)                     gACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGttt                                                                                                                          <  2:436622/151‑1 (MQ=255)                        cGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAg                                                                                                                       <  2:549170/151‑1 (MQ=255)                        cGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAg                                                                                                                       <  1:499823/151‑1 (MQ=255)                               gCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTGCTGTATCCCGGATTCAAAGGTTGCAAATTATAACGCAGCCGCGCAGTTTGAGGTAAAcc                                                                                                                <  2:585425/151‑1 (MQ=255)                                 aTAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCta                                                                                                              <  1:281068/151‑1 (MQ=255)                                   aaTCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCtata                                                                                                            <  2:541239/151‑1 (MQ=255)                                     tCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACg                                                                                                          >  1:121133/1‑151 (MQ=255)                                                    ttcagctcttcCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATcc                                                                                            >  1:63300/1‑150 (MQ=255)                                                     tcagctcttcCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCa                                                                                           <  2:283897/150‑1 (MQ=255)                                                      cagctcttcCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTAGCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCaa                                                                                          <  2:576853/150‑1 (MQ=255)                                                                   aTGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTc                                                                            <  1:314364/151‑1 (MQ=255)                                                                     gTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCg                                                                           <  2:55478/150‑1 (MQ=255)                                                                        gACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTg                                                                       >  2:23930/1‑151 (MQ=255)                                                                        gACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCGCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTg                                                                       <  2:189475/151‑1 (MQ=255)                                                                          ccGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTc                                                                     <  1:465785/151‑1 (MQ=255)                                                                            ggTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCtt                                                                   <  2:22220/151‑1 (MQ=255)                                                                                       tctcGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACgg                                                        >  1:22218/1‑151 (MQ=255)                                                                                        ctcGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTAc                                                          <  2:433098/148‑1 (MQ=255)                                                                                        ctcGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTAc                                                          <  2:254296/148‑1 (MQ=255)                                                                                        ctcGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACg                                                         <  2:416383/149‑1 (MQ=255)                                                                                          cGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGa                                                       <  2:331672/149‑1 (MQ=255)                                                                                          cGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGt                                                     >  1:270977/1‑151 (MQ=255)                                                                                               ggTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGa                                                  >  2:272676/1‑149 (MQ=255)                                                                                                 tCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTg                                              >  2:640739/1‑151 (MQ=255)                                                                                                         cTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCaatga                                       >  1:638488/1‑150 (MQ=255)                                                                                                           aaCCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCtat                                                                                                             <  1:72486/78‑1 (MQ=255)                                                                                                           aaCCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCtat                                                                                                             >  2:72483/1‑78 (MQ=255)                                                                                                           aaCCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCaatgaatg                                    >  1:209207/1‑151 (MQ=255)                                                                                                              cGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCg                                 <  2:343593/151‑1 (MQ=255)                                                                                                              cGCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCg                                 >  2:370774/1‑151 (MQ=255)                                                                                                               gCTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCg                                 >  2:675311/1‑150 (MQ=255)                                                                                                                cTATCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGa                                >  1:135401/1‑150 (MQ=255)                                                                                                                  aTCCCTCTACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGaaa                              <  2:303549/150‑1 (MQ=255)                                                                                                                      ctctACTGTATCCCGGATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCg                         >  1:519859/1‑151 (MQ=255)                                                                                                                                     gATTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAAc          <  1:155206/151‑1 (MQ=255)                                                                                                                                      aTTCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACg         >  2:335110/1‑151 (MQ=255)                                                                                                                                       ttCAAAGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACGt        >  1:263786/1‑151 (MQ=255)                                                                                                                                          aaaGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACGt        >  1:265631/1‑148 (MQ=255)                                                                                                                                          aaaGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACGt        >  2:93229/1‑148 (MQ=255)                                                                                                                                          aaaGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACGTAGa     <  2:64674/151‑1 (MQ=255)                                                                                                                                           aaGGTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACGTAGAc    >  1:513209/1‑151 (MQ=255)                                                                                                                                             ggTTGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACGTAGACCa  <  2:576069/151‑1 (MQ=255)                                                                                                                                                |                                                                                                                                                    GGCAGCGCACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCTATCCCTCTACTGTATCCCGGATTCAAAGGTCGCAAATTATAACACAGCCGCGCAGTTTGAGGTAAACCTATACGCTTTATTCACATCCAATGCCTGATATACTCGTTTGTCTTGCCAATTACGGAGTAGAAGTGCCAATGAATGCCGAAAAATCGCCGGTAAACCATAACGTAGACCA  >  NC_000913/2339317‑2339607

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑