Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,106,320	G→A	*167* (TAG→TAA)	cpxP →	inhibitor of the cpx response, periplasmic adaptor protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,106,320	0	G	A	100.0%	109.3 / NA	35	*167* (TAG→TAA)	cpxP	inhibitor of the cpx response, periplasmic adaptor protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (17/18);  total (17/18)

CCTGTTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAGTAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACT  >  NC_000913/4106185‑4106442                                                                                                                                        |                                                                                                                           ccTGTTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGtaataa                                                                                                                         >  1:314685/1‑139 (MQ=255)     ttAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAAccc                                                                                                                     >  1:314395/1‑139 (MQ=255)             ggAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                             <  2:426589/139‑1 (MQ=255)               agcagcAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCtt                                                                                                           >  1:577998/1‑139 (MQ=255)               agcagcAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCtt                                                                                                           >  1:400136/1‑139 (MQ=255)                    caAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCAt                                                                                                      >  2:477489/1‑139 (MQ=255)                     aaGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATa                                                                                                     <  2:314395/139‑1 (MQ=255)                                    agaAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTc                                                                                      <  2:151000/139‑1 (MQ=255)                                     gaAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCt                                                                                     >  2:86864/1‑139 (MQ=255)                                     gaAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCt                                                                                     >  1:725738/1‑139 (MQ=255)                                                          gCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGt                                                                >  1:230895/1‑139 (MQ=255)                                                              ttGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCtgtg                                                                     >  1:29854/1‑130 (MQ=255)                                                              ttGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCtgtg                                                                     <  2:29854/130‑1 (MQ=255)                                                                          acgCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATc                                                      <  2:710525/133‑1 (MQ=255)                                                                          acgCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATc                                                      >  1:710525/1‑133 (MQ=255)                                                                                 ggCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCctg                                         <  2:264619/139‑1 (MQ=255)                                                                                      aaaaGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTgctgct                                    <  1:692324/139‑1 (MQ=255)                                                                                           ttCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATg                               <  1:124259/139‑1 (MQ=255)                                                                                           ttCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATg                               <  1:564014/139‑1 (MQ=255)                                                                                                    gAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAga                      <  1:86864/139‑1 (MQ=255)                                                                                                            tGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGc              <  2:230895/139‑1 (MQ=255)                                                                                                                tagtagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTcc          >  2:663364/1‑139 (MQ=255)                                                                                                                 agtagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCctg                                         <  1:711634/107‑1 (MQ=255)                                                                                                                 agtagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCctg                                         >  2:711634/1‑107 (MQ=255)                                                                                                                   tagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGtt       >  1:278128/1‑139 (MQ=255)                                                                                                                      cAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTtata    <  2:278128/139‑1 (MQ=255)                                                                                                                      cAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTtata    <  2:314685/139‑1 (MQ=255)                                                                                                                       aaCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATAc   <  2:400136/139‑1 (MQ=255)                                                                                                                        aCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTcccc                                                                                >  1:712129/1‑61 (MQ=255)                                                                                                                        aCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTcccc                                                                                <  2:712129/61‑1 (MQ=255)                                                                                                                        aCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACt  >  1:646432/1‑139 (MQ=255)                                                                                                                        aCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACt  <  2:577998/139‑1 (MQ=255)                                                                                                                        aCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACt  >  2:724142/1‑139 (MQ=255)                                                                                                                        aCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACt  >  1:111208/1‑139 (MQ=255)                                                                                                                          tCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCa                             <  2:146244/110‑1 (MQ=255)                                                                                                                          tCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCa                             >  1:146244/1‑110 (MQ=255)                                                                                                                                        |                                                                                                                           CCTGTTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAGTAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACT  >  NC_000913/4106185‑4106442

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑