Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,332,869	C→T	R135H (CGC→CAC)	basS ←	sensory histidine kinase in two‑component regulatory system with BasR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,332,869	0	C	T	100.0%	149.1 / NA	46	R135H (CGC→CAC)	basS	sensory histidine kinase in two‑component regulatory system with BasR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (21/25);  total (21/25)

TGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAGCGGGCGGGTG  >  NC_000913/4332742‑4333000                                                                                                                                |                                                                                                                                    tGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGa                                                                                                                          <  1:201332/139‑1 (MQ=255)           aTGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACg                                                                                                                >  1:1055429/1‑139 (MQ=255)           aTGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACg                                                                                                                >  1:19203/1‑139 (MQ=255)             gtgATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTTAGGTGACTGACCAGATCGTTTAACGcc                                                                                                              <  1:814335/139‑1 (MQ=255)                      tttCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAaccacc                                                                                                     >  1:624187/1‑139 (MQ=255)                        tCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGc                                                                                                   >  1:682407/1‑139 (MQ=255)                             agcagTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGa                                                                                              >  1:1274687/1‑139 (MQ=255)                             agcagTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGa                                                                                              >  1:534399/1‑139 (MQ=255)                                      aGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAggg                                                                                     <  2:431914/139‑1 (MQ=255)                                           cAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcg                                                                                <  2:682407/139‑1 (MQ=255)                                            aaaCGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGa                                                                                                                                   <  2:71100/87‑1 (MQ=255)                                            aaaCGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcgc                                                                               <  2:1274687/139‑1 (MQ=255)                                            aaaCGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcgc                                                                               <  2:534399/139‑1 (MQ=255)                                             aaCGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCt                                                                              <  1:511333/139‑1 (MQ=255)                                                    ccccGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGtgactgac                                                                                                                              <  1:1107892/84‑1 (MQ=255)                                                    ccccGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGtgactgac                                                                                                                              >  2:1107892/1‑84 (MQ=255)                                                        gCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTc                                                                                          >  2:343373/1‑116 (MQ=255)                                                        gCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTc                                                                                          <  1:343373/116‑1 (MQ=255)                                                        gCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCaa                                                                   <  1:682032/139‑1 (MQ=255)                                                        gCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCaa                                                                   <  2:136281/139‑1 (MQ=255)                                                         ccAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAAt                                                                  <  2:1055429/139‑1 (MQ=255)                                                            gTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATggg                                                               >  1:361195/1‑139 (MQ=255)                                                                  ttCGCAGTTCGTGCGCGACGTCAGCGGTAAACGACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTaa                                                         >  1:812417/1‑139 (MQ=255)                                                                    cGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGt                                                       >  2:224857/1‑139 (MQ=255)                                                                            gTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGttt                                                                                                                    >  1:704277/1‑70 (MQ=255)                                                                            gTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGttt                                                                                                                    <  2:704277/70‑1 (MQ=255)                                                                                 cgACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTgcg                                          <  2:624187/139‑1 (MQ=255)                                                                                       cAGCGGTAGACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTc                                    <  2:812417/139‑1 (MQ=255)                                                                                           ggTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGc                                <  2:323326/139‑1 (MQ=255)                                                                                                        tCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCt                   <  1:411818/139‑1 (MQ=255)                                                                                                           ttATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCg                >  1:260996/1‑139 (MQ=255)                                                                                                                  gCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAgcgg         >  1:832775/1‑139 (MQ=255)                                                                                                                   cGTGCTGGTCAGGTGACTGACTAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAggg                                                                                     >  2:1024882/1‑62 (MQ=255)                                                                                                                   cGTGCTGGTCAGGTGACTGACTAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAggg                                                                                     <  1:1024882/62‑1 (MQ=255)                                                                                                                   cGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGa                                                                          <  2:502709/73‑1 (MQ=255)                                                                                                                   cGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGa                                                                          >  1:502709/1‑73 (MQ=255)                                                                                                                   cGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTgcgc                                         >  2:99320/1‑106 (MQ=255)                                                                                                                   cGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTgcgc                                         <  1:99320/106‑1 (MQ=255)                                                                                                                     tGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTc                                                                                          >  1:830897/1‑55 (MQ=255)                                                                                                                     tGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTc                                                                                          <  2:830897/55‑1 (MQ=255)                                                                                                                        tGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTaa                                                         >  2:484796/1‑85 (MQ=255)                                                                                                                        tGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTaa                                                         <  1:484796/85‑1 (MQ=255)                                                                                                                        tGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAGCGGGCGGGt   >  2:1143036/1‑139 (MQ=255)                                                                                                                         ggTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAGCGGGCGGGTg  <  1:224857/139‑1 (MQ=255)                                                                                                                             aGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCt                                                                                                  <  2:247190/39‑1 (MQ=255)                                                                                                                             aGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCt                                                                                                  >  1:247190/1‑39 (MQ=255)                                                                                                                             aGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcg                                                                                <  1:937769/57‑1 (MQ=255)                                                                                                                             aGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcg                                                                                >  2:937769/1‑57 (MQ=255)                                                                                                                                |                                                                                                                                    TGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAGCGGGCGGGTG  >  NC_000913/4332742‑4333000

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑