Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,190,202	T→C	E82E (GAA→GAG)	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	1,190,202	0	T	C	100.0%	173.3 / NA	46	E82E (GAA→GAG)	phoP	response regulator in two‑component regulatory system with PhoQ
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (20/26);  total (20/26)

ACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGA  >  NC_000913/1190071‑1190331                                                                                                                                    |                                                                                                                                  aCCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACggg                                                                                                                            <  2:99407/139‑1 (MQ=255) aCCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACggg                                                                                                                            <  1:132420/139‑1 (MQ=255)    tgtgAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATAAGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCgg                                                                                                                         >  2:318114/1‑139 (MQ=255)               aCCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGa                                                                                                              >  1:249507/1‑139 (MQ=255)                ccGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGaa                                                                                                             <  1:475912/139‑1 (MQ=255)                ccGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTACAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGaa                                                                                                             >  1:209064/1‑139 (MQ=255)                           ccgcATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACggg                                                                                                                            >  1:455108/1‑113 (MQ=255)                           ccgcATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACggg                                                                                                                            <  2:455108/113‑1 (MQ=255)                           ccgcATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCACCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGaa                                                                                                  >  2:311938/1‑139 (MQ=255)                              cATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAAGGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACa                                                                                               >  2:326501/1‑139 (MQ=255)                              cATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACa                                                                                               >  1:76114/1‑139 (MQ=255)                              cATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACa                                                                                               >  1:375138/1‑139 (MQ=255)                                             tCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAg                                                                                <  1:43099/139‑1 (MQ=255)                                                cgcCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAgcgg                                                                             >  1:430790/1‑139 (MQ=255)                                                 gcCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAgcggc                                                                            <  1:297626/139‑1 (MQ=255)                                                   cATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGa                                                                          <  2:321800/139‑1 (MQ=255)                                                     tCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAAt                                                                        >  2:125671/1‑139 (MQ=255)                                                               aaTATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGa                                                              >  2:180047/1‑139 (MQ=255)                                                                      aaCGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCt                                                       >  1:68050/1‑139 (MQ=255)                                                                             tAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTgg                                                <  2:375138/139‑1 (MQ=255)                                                                                         catcaGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATc                                    >  2:251826/1‑139 (MQ=255)                                                                                          atcaGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCg                                   >  2:243972/1‑139 (MQ=255)                                                                                             aGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACa                                >  1:135418/1‑139 (MQ=255)                                                                                              gCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACaa                               >  1:128849/1‑139 (MQ=255)                                                                                               cACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAAt                              <  1:44411/139‑1 (MQ=255)                                                                                                 ccGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCg                            <  2:403884/139‑1 (MQ=255)                                                                                                  cGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACggg                                                                                                                            >  1:470337/1‑42 (MQ=255)                                                                                                  cGGCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACggg                                                                                                                            <  2:470337/42‑1 (MQ=255)                                                                                                   ggCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCa                          <  1:125671/139‑1 (MQ=255)                                                                                                    gCACTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCaa                         >  1:121282/1‑139 (MQ=255)                                                                                                      acatAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAata                       <  2:148968/136‑1 (MQ=255)                                                                                                      aCTTAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAata                       <  1:251826/139‑1 (MQ=255)                                                                                                        ttAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATc                     <  2:403997/139‑1 (MQ=255)                                                                                                         tAATACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATcc                    <  1:326501/139‑1 (MQ=255)                                                                                                          aaTACTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCg                   <  1:318114/139‑1 (MQ=255)                                                                                                             aCTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGta                <  2:121282/139‑1 (MQ=255)                                                                                                             aCTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGta                <  1:243972/139‑1 (MQ=255)                                                                                                             aCTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGta                <  1:470660/139‑1 (MQ=255)                                                                                                             aCTTCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGta                <  2:128849/139‑1 (MQ=255)                                                                                                               ttCGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGtata              <  2:209064/139‑1 (MQ=255)                                                                                                                 cGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATTGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGta                >  1:71751/1‑135 (MQ=255)                                                                                                                 cGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATTGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGta                <  2:71751/135‑1 (MQ=255)                                                                                                                 cGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCa                          <  2:37578/125‑1 (MQ=255)                                                                                                                 cGACTTTGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCa                          >  1:37578/1‑125 (MQ=255)                                                                                                                       tGTCCTGCCAGCTCTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCAtc      <  1:311938/139‑2 (MQ=255)                                                                                                                           cTGCCAGCTCTCACGGGCGGTTAATACCAGAAGCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTgaga  <  1:34711/139‑1 (MQ=255)                                                                                                                                    |                                                                                                                                  ACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCTCGTCTGGCAATCCGAGATCGACAATCGCAATATCCGGTATATGTTCATTGAGA  >  NC_000913/1190071‑1190331

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑