Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,104,284	G→T	A231E (GCG→GAG)	cpxA ←	sensory histidine kinase CpxA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,104,284	0	G	T	100.0%	151.3 / NA	40	A231E (GCG→GAG)	cpxA	sensory histidine kinase CpxA
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (20/20);  total (20/20)

AGACGCGTCAGCGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCGCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTGCTGGCGT  >  NC_000913/4104206‑4104361                                                                               |                                                                              aGACGCGTCAGCGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGctcg                                                                             <  2:760829/81‑1 (MQ=255) aGACGCGTCAGCGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGctcg                                                                             >  2:760881/1‑81 (MQ=255)   aCGCGTCAGCGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGt                                                                           <  2:760830/81‑1 (MQ=255)      cgTCAGCGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGAc                                                                        <  1:760831/81‑1 (MQ=255)       gTCAGCGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGAc                                                                        >  1:760888/1‑80 (MQ=255)           gCGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCt                                                                   <  1:760832/81‑1 (MQ=255)            cGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTg                                                                  <  1:760833/81‑1 (MQ=255)             ggggTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTgg                                                                 >  2:760907/1‑81 (MQ=255)             ggggTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTgg                                                                 <  2:760834/81‑1 (MQ=255)               ggTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGt                                                                >  1:760890/1‑80 (MQ=255)                   cgcAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTaaaa                                                           >  2:760894/1‑81 (MQ=255)                   cgcAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTaaaa                                                           >  1:760903/1‑81 (MQ=255)                     cAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACt                                                         >  2:760886/1‑81 (MQ=255)                       gCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTgg                                                       <  1:760835/81‑1 (MQ=255)                           gTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCAc                                                    <  2:760837/80‑1 (MQ=255)                           gTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCAc                                                    <  1:760836/80‑1 (MQ=255)                             gagagaTATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTg                                                 >  1:760908/1‑81 (MQ=255)                              agagaTATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTg                                                 <  1:760838/80‑1 (MQ=255)                               gagaTATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCg                                               >  1:760906/1‑81 (MQ=255)                                agaTATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCgg                                              >  2:760905/1‑81 (MQ=255)                                           aGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTcc                                   >  1:760900/1‑81 (MQ=255)                                           aGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTcc                                   >  1:760896/1‑81 (MQ=255)                                            gCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCt                                  >  1:760902/1‑81 (MQ=255)                                                      ctgAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAGCTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGc                        <  1:760840/81‑1 (MQ=255)                                                      ctgAGAGGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGcccc                          <  1:760839/79‑1 (MQ=255)                                                         agagGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCtt                      <  2:760842/80‑1 (MQ=255)                                                         agagGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCtt                      <  1:760841/80‑1 (MQ=255)                                                          gagGTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTc                     >  1:760891/1‑80 (MQ=255)                                                            ggTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAg                  >  1:760844/1‑81 (MQ=255)                                                            ggTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAg                  <  1:760843/81‑1 (MQ=255)                                                             gTCATCATGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGt                 >  2:760893/1‑81 (MQ=255)                                                                atcatGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTcc              >  2:760892/1‑81 (MQ=255)                                                                atcatGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTc               <  2:760845/80‑1 (MQ=255)                                                                 tcatGCGCTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCg             <  1:760846/81‑1 (MQ=255)                                                                     gcgcTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTg         >  1:760911/1‑81 (MQ=255)                                                                     gcgcTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTg         >  2:760914/1‑81 (MQ=255)                                                                      cgcTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGATTTCCTGTGGCCCCGCTTCCAGTTCCGGGTGc        >  2:760939/1‑81 (MQ=255)                                                                      cgcTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTg         <  1:760847/80‑1 (MQ=255)                                                                       gcTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTGCt       <  2:760848/81‑1 (MQ=255)                                                                        cTCCAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTGCTg      <  2:760849/81‑1 (MQ=255)                                                                           cAGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTGCTGGCg   >  2:760901/1‑81 (MQ=255)                                                                            aGCTCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTGCTGGCGt  <  1:760850/81‑1 (MQ=255)                                                                               |                                                                              AGACGCGTCAGCGGGGTGCGCAGCTCGTGAGAGATATCAGAAAGCAGACGCTGCTGAGAGGTCATCATGCGCTCCAGCGCGGTGACCATCTGGTTAAAACTGGCACCTGCGGCAAGGAATTCCTGTGGCCCCGCTTCCAGTTCCGGGTGCTGGCGT  >  NC_000913/4104206‑4104361

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑