Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	593,467	T→C	D435G (GAC→GGC)	cusS ←	sensory histidine kinase CusS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	593,467	0	T	C	100.0%	190.0 / NA	55	D435G (GAC→GGC)	cusS	sensory histidine kinase CusS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (21/34);  total (21/34)

AGCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGTCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGTCTCTCCGGTTG  >  NC_000913/593331‑593596                                                                                                                                         |                                                                                                                                  aGCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCGCTATCGCCAGGCCAATGCCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCaa                                                                                                                                <  1:708235/140‑1 (MQ=255) aGCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCaa                                                                                                                                <  1:1025869/140‑1 (MQ=255) aGCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCaa                                                                                                                                <  1:571588/140‑1 (MQ=255) aGCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCaa                                                                                                                                <  2:351845/140‑1 (MQ=255) aGCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCaa                                                                                                                                <  1:300479/140‑1 (MQ=255)      gTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGa                                                                                                                           >  2:460919/1‑140 (MQ=255)         aTGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAg                                                                                                                        >  1:628278/1‑140 (MQ=255)          tgtgATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGa                                                                                                                       >  2:995417/1‑140 (MQ=255)                aaCAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCaa                                                                                                                                <  2:473200/125‑1 (MQ=255)                aaCAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCaa                                                                                                                                >  1:473200/1‑125 (MQ=255)                aaCAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGt                                                                                                                 >  2:72821/1‑140 (MQ=255)                aaCAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCAACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACggg                                                                                                                 >  2:1074608/1‑139 (MQ=255)                    aaCCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCaaa                                                                                                             >  2:602353/1‑140 (MQ=255)                     aCCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAAc                                                                                                            >  1:369531/1‑140 (MQ=255)                          gTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATcg                                                                                                       <  2:978752/140‑1 (MQ=255)                              cccGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGt                                                                                                   <  1:460919/140‑1 (MQ=255)                              cccGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGt                                                                                                   <  1:966531/140‑1 (MQ=255)                                cgcgCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAAt                                                                                                         >  2:322517/1‑132 (MQ=255)                                cgcgCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAAt                                                                                                         <  1:322517/132‑1 (MQ=255)                                cgcgCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTaa                                                                                                 <  1:83743/140‑1 (MQ=255)                                  cgcATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGt                                                                                               >  2:198576/1‑140 (MQ=255)                                      tCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTc                                                                                           <  1:391359/140‑1 (MQ=255)                                             ttACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCa                                                                                    <  1:602353/140‑1 (MQ=255)                                                 cGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATgg                                                                                <  2:98874/140‑1 (MQ=255)                                                 cGCAACCGTGCCTTTATGCGCAACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATgg                                                                                <  1:1074608/140‑1 (MQ=255)                                                      ccGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGtg                                                                           <  2:369531/140‑2 (MQ=255)                                                            cTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCgggg                                                                     <  1:27543/140‑1 (MQ=255)                                                                aTGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGtttt                                                                 >  2:918480/1‑140 (MQ=255)                                                                     cgACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTcgacg                                                            <  2:677596/140‑1 (MQ=255)                                                                     cgACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTcgacg                                                            <  2:517058/140‑1 (MQ=255)                                                                     cgACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTcgacg                                                            >  1:432491/1‑140 (MQ=255)                                                                         aacaaTCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATaa                                                        <  1:1085104/140‑1 (MQ=255)                                                                                         aTCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATc                                        <  2:628278/140‑1 (MQ=255)                                                                                         aTCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATc                                        <  1:995417/140‑1 (MQ=255)                                                                                            gCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGGTTTCGACGATAACTTGCACCAGGTGATCGAc                                     >  2:813982/1‑140 (MQ=255)                                                                                                    aaTACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGAc                             >  2:865322/1‑140 (MQ=255)                                                                                                      tACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAg                           <  2:386050/140‑1 (MQ=255)                                                                                                      tACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAg                           <  1:198576/140‑1 (MQ=255)                                                                                                          gCTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCa                       <  1:226734/140‑1 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGa                              >  1:801137/1‑132 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGa                              <  2:801137/132‑1 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAg                           <  1:665591/135‑1 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAg                           >  2:665591/1‑135 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCAc                      >  1:995089/1‑140 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCAc                      <  1:81802/140‑1 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCAc                      <  1:198677/140‑1 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCAc                      >  2:256367/1‑140 (MQ=255)                                                                                                           cTACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACCGGCAAACAATCGCGGGAAAAGCTCGGGCACAATGGGCGTACCGGGGCTTTCGACGGTAACTTGCACCAGGTGATCGACCGGCTGAAAGCGCAc                      >  2:791285/1‑140 (MQ=255)                                                                                                           cTACCATCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCAc                      >  2:782273/1‑140 (MQ=255)                                                                                                            tACCTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACt                     >  1:23463/1‑140 (MQ=255)                                                                                                              ccTTCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTAc                   <  1:926973/140‑1 (MQ=255)                                                                                                                ttCACCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACaa                 >  2:153865/1‑140 (MQ=255)                                                                                                                   aCCTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTCCAATTg              <  2:929693/140‑1 (MQ=255)                                                                                                                    ccTTTTCGCTGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGt             <  1:918480/140‑1 (MQ=255)                                                                                                                             tGGCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCACAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGTCTCTCCGGt    <  1:791285/140‑1 (MQ=255)                                                                                                                               gCGGGAGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGTCTCTCCGGTTg  <  2:852920/140‑1 (MQ=255)                                                                                                                                    aGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGTCTCTCCGGTTg  <  2:566941/135‑1 (MQ=255)                                                                                                                                    aGGGGCCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGTCTCTCCGGTTg  >  1:566941/1‑135 (MQ=255)                                                                                                                                         |                                                                                                                                  AGCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGTCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGTCTCTCCGGTTG  >  NC_000913/593331‑593596

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑