Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	61,038	A→G	S743P (TCC→CCC)	rapA ←	RNA polymerase‑binding ATPase and RNAP recycling factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	61,038	0	A	G	100.0%	218.4 / NA	60	S743P (TCC→CCC)	rapA	RNA polymerase‑binding ATPase and RNAP recycling factor
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (34/26);  total (34/26)

TTGCGGATCAGCGGATGCTCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGACGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTCTGCCAGTGCCTGGGCTTT  >  NC_000913/60908‑61173                                                                                                                                   |                                                                                                                                        ttGCGGATCAGCGGATGCTCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAg                                                                                                                                >  2:576133/1‑140 (MQ=255)   gCGGATCAGCGGATGCTCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCa                                                                                                                              <  2:241109/140‑1 (MQ=255)            cGGATGCTCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCAtgt                                                                                                                     >  2:964408/1‑140 (MQ=255)            cGGATGCTCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCAtgt                                                                                                                     >  1:952330/1‑140 (MQ=255)             ggATGCTCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCAtgtt                                                                                                                    <  2:952330/140‑1 (MQ=255)                  cTCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTcgc                                                                                                               <  1:922401/140‑1 (MQ=255)                   tCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTcgcc                                                                                                              >  2:352094/1‑140 (MQ=255)                    cccAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTcgccg                                                                                                             >  1:789922/1‑140 (MQ=255)                      cAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCcgcg                                                                                                           >  2:185259/1‑140 (MQ=255)                            ataaACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTc                                                                                                     <  1:576133/140‑1 (MQ=255)                             taaACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTcgc                                                                                                               >  2:604985/1‑129 (MQ=255)                             taaACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTcgc                                                                                                               <  1:604985/129‑1 (MQ=255)                             taaACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTcc                                                                                                    >  2:793838/1‑140 (MQ=255)                             taaACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTcc                                                                                                    >  2:928171/1‑140 (MQ=255)                                  tgtgCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGAt                                                                                                         >  2:203585/1‑130 (MQ=255)                                  tgtgCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGAt                                                                                                         <  1:203585/130‑1 (MQ=255)                                   gtgCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGAt                                                                                                         >  2:191358/1‑129 (MQ=255)                                   gtgCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGAt                                                                                                         <  1:191358/129‑1 (MQ=255)                                   gtgCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCtgattg                                                                                              >  1:205263/1‑140 (MQ=255)                                    tgCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCtgattga                                                                                             >  1:273253/1‑140 (MQ=255)                                    tgCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCtgattga                                                                                             >  1:955299/1‑140 (MQ=255)                                      cATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATa                                                                                           >  1:503222/1‑140 (MQ=255)                                      cATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATa                                                                                           >  2:265348/1‑140 (MQ=255)                                          ttCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGa                                                                                       <  2:503222/140‑1 (MQ=255)                                          ttCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGa                                                                                       <  2:955299/140‑1 (MQ=255)                                              cgcgCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTcc                                                                                                    >  1:807052/1‑123 (MQ=255)                                              cgcgCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTcc                                                                                                    <  2:807052/123‑1 (MQ=255)                                              cgcgCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCtgattgat                                                                                            <  2:902061/131‑1 (MQ=255)                                              cgcgCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCtgattgat                                                                                            >  1:902061/1‑131 (MQ=255)                                                cgccagcgccaCTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAatat                                                                                 <  1:713208/140‑1 (MQ=255)                                                    agcgccaCTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGaa                                                                             <  1:265348/140‑1 (MQ=255)                                                    agcgccaCTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGaa                                                                             <  1:1022650/140‑1 (MQ=255)                                                                    cAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAg                                                             <  1:928171/140‑1 (MQ=255)                                                                      aaGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGc                                                           >  2:940548/1‑140 (MQ=255)                                                                        ggtgatggtgatGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGa                                                         <  2:205263/140‑1 (MQ=255)                                                                             tggtgatgCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAgg                                                    <  2:947108/140‑1 (MQ=255)                                                                             tggtgatgCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAgg                                                    >  2:963090/1‑140 (MQ=255)                                                                               gtgatgCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGtt                                                  >  2:421285/1‑140 (MQ=255)                                                                                tgatgCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTg                                                 <  1:421285/140‑1 (MQ=255)                                                                                   tgCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTgg                                                >  2:966755/1‑138 (MQ=255)                                                                                   tgCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTgg                                                <  1:966755/138‑1 (MQ=255)                                                                                    gCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTAt                                             >  1:174747/1‑140 (MQ=255)                                                                                    gCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTAt                                             <  1:964408/140‑1 (MQ=255)                                                                                      cATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCg                                           >  2:958230/1‑140 (MQ=255)                                                                                         cTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCa                                        >  1:1031337/1‑140 (MQ=255)                                                                                             cGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTgg                                                >  1:1002851/1‑128 (MQ=255)                                                                                             cGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTgg                                                <  2:1002851/128‑1 (MQ=255)                                                                                             cGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTgg                                                <  2:617/128‑1 (MQ=255)                                                                                             cGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTgg                                                >  1:617/1‑128 (MQ=255)                                                                                                     cAGGGAAGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCa                            <  1:963090/140‑1 (MQ=255)                                                                                                          aaGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCt                       >  2:384939/1‑140 (MQ=255)                                                                                                          aaGTCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCt                       <  1:384939/140‑1 (MQ=255)                                                                                                             tCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTc                    >  1:768382/1‑140 (MQ=255)                                                                                                             tCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTc                    >  1:926249/1‑140 (MQ=255)                                                                                                             tCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTc                    >  2:867511/1‑140 (MQ=255)                                                                                                             tCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTc                    >  2:178434/1‑140 (MQ=255)                                                                                                             tCCGGCACCAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTc                    >  2:309051/1‑140 (MQ=255)                                                                                                                    ccAGCATATGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTCTGCCAGt             >  1:714217/1‑140 (MQ=255)                                                                                                                         atatGATCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTCTGCCAGTGCCTg        <  2:1031337/140‑1 (MQ=255)                                                                                                                               tCGGGCGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTCTGCCAGTGCCTGGGCttt  <  1:185259/140‑1 (MQ=255)                                                                                                                                   |                                                                                                                                        TTGCGGATCAGCGGATGCTCCCAGGTAATAAACTGTGCATCTTCACGCGCCAGCGCCACTTCACGATCAAAGGTGATGGTGATGCCATCTTCCGACAGGCCAGGGAAGTCCGGCACCAGCATATGATCGGACGGCGTCAGCACGATCATGTTGTCGCCGCGATCGTCCTGATTGATACCGATAATATCGAACAGGTTCATGGCGAAGGCGATCAGGTTGGTATCGTCATCCTGCTCTTCAATGCTTTCTGCCAGTGCCTGGGCTTT  >  NC_000913/60908‑61173

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑