Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,438,551	G→A	G224S (GGT→AGT)	unknown →	Copper‑sensing two‑component system response regulator CpxR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,438,551	0	G	A	100.0%	132.8 / NA	39	G224S (GGT→AGT)	unknown	Copper‑sensing two‑component system response regulator CpxR
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (19/20);  total (19/20)

GACGCCAACAGGCAATGCTGGGTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCGGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCTCACATTTTCCATTTTACTAATCTTTATTTTTTTATTACCTTATTTTGATGCGCATATTTACTCGGATTTAAAAGAGCATGAAATGATAAAGTATCAAAA  >  1/1438309‑1438782                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                        gACGCCAACAGGCAATGCTGGGTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGttattt                                                                                                                                                                                                                                  <  1:358977/250‑1 (MQ=255)     ccAACAGGCAATGCTGGGTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATttatta                                                                                                                                                                                                                              <  1:91933/250‑1 (MQ=255)      cAACAGGCAATGCTGGGTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAAt                                                                                                                                                                                                                            <  1:323622/251‑1 (MQ=255)           ggCAATGCTGGGTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCgg                                                                                                                                                                                                                       >  1:870444/1‑251 (MQ=255)               aTGCTGGGTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGtt                                                                                                                                                                                                                                      <  1:402878/232‑1 (MQ=255)                     ggTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAAc                                                                                                                                                                                                              <  1:372847/250‑1 (MQ=255)                      gTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACaa                                                                                                                                                                                                            >  1:352009/1‑251 (MQ=255)                               aTCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGTAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTa                                                                                                                                                                                                   >  1:487727/1‑251 (MQ=255)                               aTCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAAt                                                                                                                                                                                                                            <  1:727092/226‑1 (MQ=255)                                   tGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTAtttt                                                                                                                                                                                               <  1:206004/251‑1 (MQ=255)                                                   gAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAgg                                                                                                                                                                                                      >  1:475411/1‑228 (MQ=255)                                                               ttaCTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTAt                                                                                                                                                                    >  1:674273/1‑250 (MQ=255)                                                                       aCTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATttatta                                                                                                                                                                                                                              >  1:332811/1‑184 (MQ=255)                                                                       aCTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTtatat                                                                                                                                                                                          <  1:658556/220‑1 (MQ=255)                                                                        cTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTtatat                                                                                                                                                                                          >  1:308111/1‑219 (MQ=255)                                                                            ttaCTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTtatat                                                                                                                                                                                          >  1:677960/1‑215 (MQ=255)                                                                               cTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTAttttt                                                                                                                                                                                              <  1:700492/208‑1 (MQ=255)                                                                                        ggTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTtatat                                                                                                                                                                                          >  1:837119/1‑203 (MQ=255)                                                                                        ggTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTa                                                                                                                                          >  1:463636/1‑251 (MQ=255)                                                                                          ttAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAac                                                                                                                                        <  1:633723/251‑1 (MQ=255)                                                                                             aTTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAAt                                                                                                                                                                                                                            >  1:231301/1‑164 (MQ=255)                                                                                             aTTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAac                                                                                                                                        <  1:528408/248‑1 (MQ=255)                                                                                                            gagTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCa                                                                                                                                                                  <  1:337971/207‑1 (MQ=255)                                                                                                            gagTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAAGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAAtt                                                                                                                      >  1:433514/1‑251 (MQ=255)                                                                                                              gTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTtatat                                                                                                                                                                                          >  1:857574/1‑181 (MQ=255)                                                                                                                   gTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTtatat                                                                                                                                                                                          <  1:493349/176‑1 (MQ=255)                                                                                                                             tttGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCt                                                                                                     <  1:180074/251‑1 (MQ=255)                                                                                                                                        cACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTc                                                                                                                                                             <  1:385341/184‑1 (MQ=255)                                                                                                                                                ccTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAAt                                                                                                                                                                                                                            <  1:534215/113‑1 (MQ=255)                                                                                                                                                     cGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAAt                                                                                                                                                                                                                            <  1:158658/108‑1 (MQ=255)                                                                                                                                                                  gATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCt                                                                                                                                                                                     >  1:476010/1‑134 (MQ=255)                                                                                                                                                                  gATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCTCACATTTTCCATTTTACTAATCTTTATTTTTttatta                                                                >  1:676483/1‑251 (MQ=255)                                                                                                                                                                   atatGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGaa                                                                                                                        <  1:600360/194‑1 (MQ=255)                                                                                                                                                                        cATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCTCACATTTTCCATTTTACTAATCTTTATTTTTTTATTACCTTAt                                                          >  1:885110/1‑251 (MQ=255)                                                                                                                                                                                            aaaaTTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCTCACATTTTCCATTTTACTAATCTTTATTTTTTTATTACCTTATTTTGATGCGCATATTTACTc                                      <  1:52323/251‑1 (MQ=255)                                                                                                                                                                                                           ctcCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCTCACATTTTCCATTTTACTAATCTTTATTTTTTTATTACCTTATTTTGATGCGCATATTTACTCGGATTTAAAAGAGCa                       >  1:121538/1‑251 (MQ=255)                                                                                                                                                                                                             ccGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCt                                                                                                     >  1:856940/1‑171 (MQ=255)                                                                                                                                                                                                                   atCTACCATGGTTTAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCTCACATTTTCCATTTTACTAATc                                                                               >  1:750929/1‑187 (MQ=255)                                                                                                                                                                                                                                tAAAACACTTCGTGGTCGCAGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCTCACATTTTCCATTTTACTAATCTTTATTTTTTTATTACCTTATTTTGATGCGCATATTTACTCGGATTTAAAAGAGCATGAAATGATAAAGTATCaaaa  <  1:214686/251‑1 (MQ=255)                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                        GACGCCAACAGGCAATGCTGGGTTCAAAAGATCTTGAACTCACCGGCACCGAGTTTGCTTTATTACTAAAACTTATTACTCATCCCGGGTTAATTCTGACTCGTGAAGAGTTAAGTCTTGAAGTTTTGGGCAAGCCACTTACGCCTTTCGATCGTGCCATTGATATGCATATGTCGAATTTACGAAAAAAATTACCGGCTCGCTCCGATGATCTACCATGGTTTAAAACACTTCGTGGTCGCGGTTATTTATTAATAGCGGAAAAATAACAATAAAGGCTATTTTTATATAGCCTTTTTCACACCGAATTATCATGTTCAGAAAAGAATTTATTTTTAACTCACTCACCATACGAATTTTCACTTTCTTCTGGCTCACATTTTCCATTTTACTAATCTTTATTTTTTTATTACCTTATTTTGATGCGCATATTTACTCGGATTTAAAAGAGCATGAAATGATAAAGTATCAAAA  >  1/1438309‑1438782

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑