Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,655,347	C→T	*109* (TAG→TAA)	ynfA ←	UPF0060 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,655,347	0	C	T	100.0%	171.1 / NA	53	*109* (TAG→TAA)	ynfA	UPF0060 family inner membrane protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (27/26);  total (27/26)

GATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTGCGCCCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGCCATCCACAACGCGCAGCCACATCAACGCCGTGCAGACATAAACGCCAC  >  NC_000913/1655214‑1655483                                                                                                                                      |                                                                                                                                         gATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGt                                                                                                                                     <  2:1120848/139‑1 (MQ=255)               ggAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGc                                                                                                                      <  2:385640/139‑1 (MQ=255)                                 ggCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCGccc                                                                                                                               <  1:134243/113‑1 (MQ=255)                                 ggCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCGccc                                                                                                                               >  2:134243/1‑113 (MQ=255)                                   cGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGc                                                                                                  <  1:1126651/139‑1 (MQ=255)                                    gTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCa                                                                                                 >  1:901287/1‑139 (MQ=255)                                    gTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCa                                                                                                 >  1:118221/1‑139 (MQ=255)                                                 gtgAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCGccccagcc                                                                                                                          >  2:678212/1‑98 (MQ=255)                                                 gtgAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCGccccagcc                                                                                                                          <  1:678212/102‑5 (MQ=255)                                                  tgAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACg                                                                                   >  2:660192/1‑139 (MQ=255)                                                  tgAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACg                                                                                   <  1:397861/139‑1 (MQ=255)                                                          tGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTc                                                                           <  1:266297/139‑1 (MQ=255)                                                          tGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTc                                                                           <  1:660192/139‑1 (MQ=255)                                                            aCAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACg                                                                                                                                      <  1:1378138/79‑1 (MQ=255)                                                            aCAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACg                                                                                                                                      >  2:1378138/1‑79 (MQ=255)                                                                  gATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAgcg                                                                                            >  2:1077441/1‑114 (MQ=255)                                                                  gATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAgcg                                                                                            <  1:1077441/114‑1 (MQ=255)                                                                            aaTACGCTTTGTCAGCTGCCCCTTCCTCTTAGCTTATTGGTAAAATGGATGTAAGTTCTACCGTGC‑TGCCCACCCCGCAACAATGATCAACATACCTCAATGCGCATTCTAGCCACCCTTCACATAATAAAAAGTCTGt                                                         >  2:1251946/1‑139 (MQ=255)                                                                             aTACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGcaaca                                                                                                                  <  1:463251/81‑1 (MQ=255)                                                                             aTACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGcaaca                                                                                                                  >  2:463251/1‑81 (MQ=255)                                                                             aTACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGcaa                                                                                                                    >  1:320233/1‑79 (MQ=255)                                                                             aTACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGcaa                                                                                                                    <  2:320233/79‑1 (MQ=255)                                                                              tACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCAcc                                                                               <  1:986514/115‑1 (MQ=255)                                                                              tACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCAcc                                                                               >  2:986514/1‑115 (MQ=255)                                                                                   tttGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGc                                                  >  1:747220/1‑139 (MQ=255)                                                                                      gTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTg                                                                                                                                    >  1:1263341/1‑55 (MQ=255)                                                                                      gTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTg                                                                                                                                    <  2:1263341/55‑1 (MQ=255)                                                                                      gTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCAc                                                                                >  2:343954/1‑106 (MQ=255)                                                                                      gTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCAc                                                                                <  1:343954/106‑1 (MQ=255)                                                                                           cTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCa                                                                         <  1:1293394/108‑1 (MQ=255)                                                                                           cTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCa                                                                         >  2:1293394/1‑108 (MQ=255)                                                                                           cTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCACAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGcc                                                 <  1:1123275/132‑1 (MQ=255)                                                                                           cTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCACAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGcc                                                 >  2:1123275/1‑132 (MQ=255)                                                                                              acacTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGCCATCCACAAcg                                       >  2:204040/1‑139 (MQ=255)                                                                                                     ctctTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGAt                                                                                                             <  1:748383/62‑1 (MQ=255)                                                                                                     ctctTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGAt                                                                                                             >  2:748383/1‑62 (MQ=255)                                                                                                     ctctTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACg                                                   >  2:415507/1‑120 (MQ=255)                                                                                                     ctctTATCTTATTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACg                                                   <  1:415507/120‑1 (MQ=255)                                                                                                            cttatTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTc                                                                           >  1:1097692/1‑89 (MQ=255)                                                                                                            cttatTGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTc                                                                           <  2:1097692/89‑1 (MQ=255)                                                                                                                ttGATAAAATGGATTTATGTTCTTACGTGCGccccagc                                                                                                                           >  2:1164856/1‑35 (MQ=255)                                                                                                                ttGATAAAATGGATTTATGTTCTTACGTGCGccccagc                                                                                                                           <  1:1164856/38‑4 (MQ=255)                                                                                                                ttGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCAc                                                                                >  2:1146959/1‑80 (MQ=255)                                                                                                                ttGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCAc                                                                                <  1:1146959/80‑1 (MQ=255)                                                                                                                ttGATAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGCCATCCACAACGCGCAGCCACATCAACGcc                     >  1:1360138/1‑139 (MQ=255)                                                                                                                   aTAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAGCAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGCCATCCACAACGCGCAGCCACATCAACGCCGTg                  <  2:901287/139‑1 (MQ=255)                                                                                                                   aTAAAATGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGCCATCCACAACGCGCAGCCACATCAACGCCGTg                  <  2:118221/139‑1 (MQ=255)                                                                                                                     aaaaTGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCa                                                                                                 >  2:823888/1‑58 (MQ=255)                                                                                                                     aaaaTGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCa                                                                                                 <  1:823888/58‑1 (MQ=255)                                                                                                                         tGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCg                                                                             >  2:711886/1‑74 (MQ=255)                                                                                                                         tGGATTTATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCg                                                                             <  1:711886/74‑1 (MQ=255)                                                                                                                               tATGTTCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGCCATCCACAACGCGCAGCCACATCAACGCCGTGCAGACATAAACg      >  2:933207/1‑139 (MQ=255)                                                                                                                                   ttCTTACGTGCG‑CCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGCCATCCACAACGCGCAGCCACATCAACGCCGTGCAGACATAAATGccac  >  1:554883/1‑139 (MQ=255)                                                                                                                                      |                                                                                                                                         GATCGAAAAAAGCCGGAGTGATCACAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTGCGCCCCCAGCCCGCAACAATGATCAACATGCCGCAAAGCGCAATCAACGCACCCGTCCAGTCATAAAGAGTCAGTTTCACGCCATCCACAACGCGCAGCCACATCAACGCCGTGCAGACATAAACGCCAC  >  NC_000913/1655214‑1655483

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑