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%	147.7 / NA	46	*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 (20/26);  total (20/26)

CCTGTTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAGTAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGTCAGTTGA  >  NC_000913/4106185‑4106454                                                                                                                                        |                                                                                                                                        ccTGTTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCATGTTCCCAGtaataa                                                                                                                                      <  2:1269019/139‑1 (MQ=255) ccTGTTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGtaataa                                                                                                                                      >  1:524242/1‑139 (MQ=255)    gTTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAAcc                                                                                                                                   >  2:802200/1‑139 (MQ=255)     ttAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAAccc                                                                                                                                  >  2:591610/1‑139 (MQ=255)            cGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTc                                                                                                                           >  2:4380/1‑139 (MQ=255)             ggAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          <  1:1171677/139‑1 (MQ=255)             ggAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          <  2:1415401/139‑1 (MQ=255)             ggAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          <  1:591610/139‑1 (MQ=255)             ggAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          <  1:242576/139‑1 (MQ=255)             ggAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACATTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          <  2:333618/139‑1 (MQ=255)                     aaGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATa                                                                                                                  <  2:86098/139‑1 (MQ=255)                      aGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAg                                                                                                                 >  2:1234125/1‑139 (MQ=255)                              tAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATc                                                                                                         <  1:1072030/139‑1 (MQ=255)                              tAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATc                                                                                                         >  2:1355158/1‑139 (MQ=255)                                    agaAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTc                                                                                                   <  2:524242/139‑1 (MQ=255)                                        aCATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑cc                                                                                              <  1:28941/139‑1 (MQ=255)                                        aCATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑cc                                                                                              <  1:1355158/139‑1 (MQ=255)                                                   gAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCtg                                                                                   >  2:1470425/1‑139 (MQ=255)                                                             gTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGtttt                                                                         >  2:1325326/1‑139 (MQ=255)                                                                gCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGttttttt                                                                      <  1:802200/139‑1 (MQ=255)                                                                        tgacgCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAGCTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          <  2:1232843/80‑1 (MQ=255)                                                                        tgacgCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          >  1:1232843/1‑80 (MQ=255)                                                                          acgCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAAt                                                            >  1:1120515/1‑139 (MQ=255)                                                                                        aaGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTa                                              <  1:1259945/139‑1 (MQ=255)                                                                                          gTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCcaca                                                                                        <  1:603741/95‑1 (MQ=255)                                                                                          gTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCcaca                                                                                        >  2:603741/1‑95 (MQ=255)                                                                                             cATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGc                                                                                     >  1:558615/1‑95 (MQ=255)                                                                                             cATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGc                                                                                     <  2:558615/95‑1 (MQ=255)                                                                                                 gTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGc                                     <  2:1236019/139‑1 (MQ=255)                                                                                                     aaGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAgat                                 >  1:1115076/1‑139 (MQ=255)                                                                                                          aTTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTggg                                                                               >  2:156237/1‑88 (MQ=255)                                                                                                          aTTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTggg                                                                               <  1:156237/88‑1 (MQ=255)                                                                                                            tGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTgctgct                                                <  1:249111/117‑1 (MQ=255)                                                                                                            tGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTgctgct                                                >  2:249111/1‑117 (MQ=255)                                                                                                             gAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCt                         <  1:1325326/139‑1 (MQ=255)                                                                                                                tagtagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCctg                                                     <  1:277157/108‑1 (MQ=255)                                                                                                                tagtagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCctg                                                     >  2:277157/1‑108 (MQ=255)                                                                                                                 agtagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCg                     <  2:1190340/139‑1 (MQ=255)                                                                                                                   tagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGtt                   >  2:1110878/1‑139 (MQ=255)                                                                                                                     gCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATcc                                                                                                        >  2:645087/1‑53 (MQ=255)                                                                                                                     gCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATcc                                                                                                        <  1:645087/53‑1 (MQ=255)                                                                                                                     gCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAAttt                                                          >  2:1138860/1‑98 (MQ=255)                                                                                                                     gCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAAttt                                                          <  1:1138860/98‑1 (MQ=255)                                                                                                                     gCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAACTTGCCTgctgct                                                >  1:107697/1‑108 (MQ=255)                                                                                                                     gCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAACTTGCCTgctgct                                                <  2:107697/108‑1 (MQ=255)                                                                                                                          tCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCcaca                                                                                        <  2:151344/63‑1 (MQ=255)                                                                                                                          tCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCcaca                                                                                        >  1:151344/1‑63 (MQ=255)                                                                                                                             cGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGt         <  2:1115076/139‑1 (MQ=255)                                                                                                                                    agtaatAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGTCAGTTg   >  2:278172/1‑139 (MQ=255)                                                                                                                                    agtaatAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGTCAGTTGa  >  2:442886/1‑139 (MQ=255)                                                                                                                                    agtaatAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGTCAGTTGa  <  1:1470425/139‑1 (MQ=255)                                                                                                                                        |                                                                                                                                        CCTGTTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAGTAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTT‑CCCCCACATGCTGTGGGGGTTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGTCAGTTGA  >  NC_000913/4106185‑4106454

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑