Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,185,540	C→T	P64L (CCG→CTG)	rpoC →	RNA polymerase, beta prime subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,185,540	0	C	T	100.0%	198.7 / NA	52	P64L (CCG→CTG)	rpoC	RNA polymerase, beta prime subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (27/25);  total (27/25)

AGAGTTTGATGCGATCAAAATTGCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCCGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTCCCCGACTGCG  >  NC_000913/4185394‑4185685                                                                                                                                                   |                                                                                                                                                  agagTTTGATGCGATCAAAATTGCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTa                                                                                                                                               <  1:723522/151‑1 (MQ=255)   agTTTGATGCGATCAAAATTGCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTaaa                                                                                                                                             <  1:47252/151‑1 (MQ=255)       tGATGCGATCAAAATTGCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGa                                                                                                                                          <  1:162559/150‑1 (MQ=255)        gATGCGATCAAAATTGCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCGGCGCCCGTATCTTTGGGCTGGTAAAAGAtt                                                                                                                                        <  1:278389/151‑1 (MQ=255)             gATCAAAATTGCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAg                                                                                                                                   <  1:654389/151‑1 (MQ=255)                   aaTTGCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCtg                                                                                                                             <  2:347266/151‑1 (MQ=255)                       gCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCg                                                                                                                         >  2:381974/1‑151 (MQ=255)                          ctGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGt                                                                                                                       >  1:675447/1‑150 (MQ=255)                          ctGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGt                                                                                                                       >  2:649605/1‑150 (MQ=255)                              cTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGt                                                                                                                   >  2:550459/1‑150 (MQ=255)                                tCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTAc                                                                                                                 >  2:226980/1‑150 (MQ=255)                                  gCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAg                                                                                                              <  2:98827/151‑1 (MQ=255)                                    cAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAgcg                                                                                                            >  1:375417/1‑151 (MQ=255)                                     aGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAgcgc                                                                                                           >  2:8092/1‑151 (MQ=255)                                           gATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGaaa                                                                                                     <  2:443013/151‑1 (MQ=255)                                                          tttCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATc                                                                                      >  1:556243/1‑151 (MQ=255)                                                           ttCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCa                                                                                        <  1:81251/148‑1 (MQ=255)                                                           ttCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCa                                                                                        <  2:199616/148‑1 (MQ=255)                                                            tCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCtg                                                                                    >  2:393309/1‑151 (MQ=255)                                                            tCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCt                                                                                     <  2:441387/150‑1 (MQ=255)                                                             cGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCtgt                                                                                   <  1:342068/151‑1 (MQ=255)                                                               gTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCtgtg                                                                                  >  2:250876/1‑150 (MQ=255)                                                                       aaaaaGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTgc                                                                          <  2:408911/150‑1 (MQ=255)                                                                           aGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGt                                                                     >  2:617690/1‑151 (MQ=255)                                                                           aGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGt                                                                     >  2:339347/1‑151 (MQ=255)                                                                             ccGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTg                                                                   <  2:150862/151‑1 (MQ=255)                                                                               ggAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGaa                                                                 <  2:559203/151‑1 (MQ=255)                                                                                         aaCTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGa                                                       <  2:258229/151‑1 (MQ=255)                                                                                             aCCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAGACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTa                                                    >  2:526979/1‑150 (MQ=255)                                                                                                       cAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGt                                         >  2:424951/1‑151 (MQ=255)                                                                                                       cAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGt                                         <  2:643738/151‑1 (MQ=255)                                                                                                       cAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGt                                         >  2:571748/1‑151 (MQ=255)                                                                                                        aaaCCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTg                                        <  2:230142/151‑1 (MQ=255)                                                                                                        aaaCCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCAGCGTTGAAGTGACCCAGACTAAAGTACGCCGTg                                        <  1:39030/151‑1 (MQ=255)                                                                                                         aaCCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTg                                        >  2:295808/1‑150 (MQ=255)                                                                                                           ccAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGc                                     <  1:364164/151‑1 (MQ=255)                                                                                                             aGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGt                                   <  1:298619/151‑1 (MQ=255)                                                                                                               aaCGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTAt                                 >  2:564385/1‑151 (MQ=255)                                                                                                                     aCGGCCTTTTCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCca                           <  1:454397/151‑1 (MQ=255)                                                                                                                           ttttCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCg                      >  1:212109/1‑150 (MQ=255)                                                                                                                           ttttCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCg                      >  1:492566/1‑150 (MQ=255)                                                                                                                            tttCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGa                     >  2:535649/1‑150 (MQ=255)                                                                                                                            tttCTGCGCCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGa                     >  1:697442/1‑150 (MQ=255)                                                                                                                                 gcgcCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTg                 <  1:300153/149‑1 (MQ=255)                                                                                                                                  cgcCCGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCt              >  2:588379/1‑151 (MQ=255)                                                                                                                                    cccGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTc            >  2:114580/1‑151 (MQ=255)                                                                                                                                      cGTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTccc          >  1:72112/1‑151 (MQ=255)                                                                                                                                       gTATCTTTGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTcccc         >  2:667563/1‑151 (MQ=255)                                                                                                                                            tttGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTCCCCGACTg    >  1:400546/1‑151 (MQ=255)                                                                                                                                             ttGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTCCCCGACt     <  1:537968/149‑1 (MQ=255)                                                                                                                                             ttGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTCCCCGACt     <  2:101727/149‑1 (MQ=255)                                                                                                                                              tGGGCTGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTCCCCGACTgcg  >  2:401698/1‑151 (MQ=255)                                                                                                                                                   |                                                                                                                                                  AGAGTTTGATGCGATCAAAATTGCTCTGGCTTCGCCAGACATGATCCGTTCATGGTCTTTCGGTGAAGTTAAAAAGCCGGAAACCATCAACTACCGTACGTTCAAACCAGAACGTGACGGCCTTTTCTGCGCCCGTATCTTTGGGCCGGTAAAAGATTACGAGTGCCTGTGCGGTAAGTACAAGCGCCTGAAACACCGTGGCGTCATCTGTGAGAAGTGCGGCGTTGAAGTGACCCAGACTAAAGTACGCCGTGAGCGTATGGGCCACATCGAACTGGCTTCCCCGACTGCG  >  NC_000913/4185394‑4185685

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑