Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,190,263	A→G	L62P (CTG→CCG)	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	1,190,263	0	A	G	100.0%	183.2 / NA	49	L62P (CTG→CCG)	phoP	response regulator in two‑component regulatory system with PhoQ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (24/25);  total (24/25)

CTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAG  >  NC_000913/1190129‑1190380                                                                                                                                       |                                                                                                                      ctTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGa                                                                                                                   >  1:710249/1‑139 (MQ=255)     aaTATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGa                                                                                                               <  1:20299/139‑1 (MQ=255)         tGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGt                                                                                                           >  1:408277/1‑139 (MQ=255)           aaaCGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTcc                                                                                                         <  1:705462/139‑1 (MQ=255)            aaCGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCt                                                                                                        >  1:284997/1‑139 (MQ=255)                 tttAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCt                                                                                                   >  1:35304/1‑139 (MQ=255)                 tttAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCt                                                                                                   >  2:408444/1‑139 (MQ=255)                   tAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTgg                                                                                                 >  1:116663/1‑139 (MQ=255)                        acaTAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATc                                                                                            <  2:284997/139‑1 (MQ=255)                                  caGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGAc                                                                                  <  1:602406/139‑1 (MQ=255)                                       ccGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGACAATCCGAGATCGACAATCg                                                                             >  2:296931/1‑139 (MQ=255)                                        cGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGc                                                                            >  2:743036/1‑139 (MQ=255)                                        cGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGc                                                                            >  2:8501/1‑139 (MQ=255)                                        cGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGc                                                                            >  1:628819/1‑139 (MQ=255)                                        cGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTACTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGc                                                                            >  2:560173/1‑139 (MQ=255)                                         ggCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCa                                                                           <  1:51763/139‑1 (MQ=255)                                         ggCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCa                                                                           <  2:116663/139‑1 (MQ=255)                                          gCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGa                                                                                                                   <  2:751305/98‑1 (MQ=255)                                          gCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGa                                                                                                                   >  1:751305/1‑98 (MQ=255)                                          gCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCaa                                                                          >  2:121536/1‑139 (MQ=255)                                            aCTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGACAATCCGAGATCGACAATCGCAata                                                                        <  1:296931/139‑1 (MQ=255)                                             cTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAatat                                                                       <  1:553200/139‑1 (MQ=255)                                              ttAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATc                                                                      <  1:8501/139‑1 (MQ=255)                                                     ttCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGAGCGACAATCGCAATATCCGGtata                                                               <  1:63184/139‑1 (MQ=255)                                                      tCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCaa                                                                          <  1:512306/127‑1 (MQ=255)                                                      tCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCaa                                                                          >  2:512306/1‑127 (MQ=255)                                                       cGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATg                                                             <  1:743036/139‑1 (MQ=255)                                                          cTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTc                                                          >  2:259291/1‑139 (MQ=255)                                                                    ccAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAGCATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAatat                                                                       <  2:514469/116‑1 (MQ=255)                                                                    ccAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAatat                                                                       >  1:514469/1‑116 (MQ=255)                                                                       gCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGAtaataa                                             <  2:628819/139‑1 (MQ=255)                                                                         tttCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATc                                           <  1:560173/139‑1 (MQ=255)                                                                         tttCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATc                                           >  1:180125/1‑139 (MQ=255)                                                                                      tAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCa                              <  1:681933/139‑1 (MQ=255)                                                                                               aaTCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTgg                                >  2:671502/1‑128 (MQ=255)                                                                                               aaTCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTgg                                <  1:671502/128‑1 (MQ=255)                                                                                                   ggCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATcc                                                                     <  2:316936/87‑1 (MQ=255)                                                                                                   ggCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATcc                                                                     >  1:316936/1‑87 (MQ=255)                                                                                                   ggCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCAt                 <  2:180125/139‑1 (MQ=255)                                                                                                    gCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATc                >  1:350702/1‑139 (MQ=255)                                                                                                     cAGTGAAACATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCg               >  2:397793/1‑139 (MQ=255)                                                                                                             cATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATcc                                                                     >  2:106509/1‑77 (MQ=255)                                                                                                             cATCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATcc                                                                     <  1:106509/77‑1 (MQ=255)                                                                                                               tCGTTGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGAc     <  2:35304/139‑1 (MQ=255)                                                                                                                  ttGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCAtt                                                       <  1:767767/86‑1 (MQ=255)                                                                                                                  ttGCTACGCCAGCGGCGAATCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCAtt                                                       >  2:767767/1‑86 (MQ=255)                                                                                                                  ttGCTACGCCAGCGGCGAATCGGTGACAGACCGTCATCCTCTGGCAATCCGAGATCGACAATCGAAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATATTATGCGTCATCGACCTGATGACCAg  <  2:97811/139‑1 (MQ=255)                                                                                                                                   aaTCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGc                               <  2:735016/93‑1 (MQ=255)                                                                                                                                   aaTCGGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGc                               >  1:735016/1‑93 (MQ=255)                                                                                                                                       |                                                                                                                      CTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAG  >  NC_000913/1190129‑1190380

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑