Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,214,545	T→A	I500N (ATC→AAC)	rpoD →	RNA polymerase, sigma 70 (sigma D) factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,214,545	0	T	A	100.0%	186.7 / NA	49	I500N (ATC→AAC)	rpoD	RNA polymerase, sigma 70 (sigma D) factor
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (24/25);  total (24/25)

CCGGTGCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGATCGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCTGCGTGCGGCAACGCACGACGTGCT  >  NC_000913/3214403‑3214689                                                                                                                                               |                                                                                                                                                 ccGGTGCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCaaa                                                                                                                                           <  2:1004785/150‑1 (MQ=255) ccGGTGCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCaa                                                                                                                                            >  1:331816/1‑149 (MQ=255) ccGGTGCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCaa                                                                                                                                            >  1:68988/1‑149 (MQ=255)  cGGTGCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAaga                                                                                                                                         <  2:656033/151‑1 (MQ=255)      gCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGcc                                                                                                                                      <  1:173092/150‑1 (MQ=255)      gCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGcc                                                                                                                                      <  1:294468/150‑1 (MQ=255)      gCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCa                                                                                                                                     <  1:813753/151‑1 (MQ=255)                gagaCCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATg                                                                                                                            <  2:555182/150‑1 (MQ=255)                  gaCCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTTGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTTAAGAACGCCAAAGAGCCAATCTCCATgg                                                                                                                           <  2:498637/149‑1 (MQ=255)                            aaGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGGCAATCTCCATGGAAACGCCGATCg                                                                                                               <  1:62308/151‑1 (MQ=255)                              gCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGt                                                                                                             <  1:647839/151‑1 (MQ=255)                               cTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGtg                                                                                                            >  1:628543/1‑151 (MQ=255)                                 cAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGtg                                                                                                            <  1:49434/149‑1 (MQ=255)                                   aCCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGtgatga                                                                                                        <  1:544755/151‑1 (MQ=255)                                    ccGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGtgatga                                                                                                        <  2:366923/150‑1 (MQ=255)                                      gTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGtgatgatga                                                                                                     <  1:467735/151‑1 (MQ=255)                                      gTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGtgatgatg                                                                                                      >  1:523948/1‑150 (MQ=255)                                       tATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGtgatgatga                                                                                                     >  1:141996/1‑150 (MQ=255)                                        aTTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGaa                                                                                                    <  2:131672/150‑1 (MQ=255)                                              cGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTc                                                                                               <  2:600310/149‑1 (MQ=255)                                              cGCCAGATGCTGCAAGAGATGGGACGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTc                                                                                               <  2:537484/149‑1 (MQ=255)                                                ccAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCAt                                                                                           >  2:754472/1‑151 (MQ=255)                                                  aGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCt                                                                                         <  1:768584/151‑1 (MQ=255)                                                        tgcAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTggggg                                                                                    >  1:676260/1‑150 (MQ=255)                                                            agagATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTc                                                                               >  1:817666/1‑151 (MQ=255)                                                                    gCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATACCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAgg                                                                        >  1:555179/1‑150 (MQ=255)                                                                      cGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATa                                                                     <  1:804259/151‑1 (MQ=255)                                                                          aaCCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATaccac                                                                 <  1:68785/151‑1 (MQ=255)                                                                          aaCCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGAAAAGTGCTGAAGAACGCCAAAGAGCCAATCTACATGGAAACGCCGATCGGTGCTGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATaccac                                                                 >  2:85472/1‑151 (MQ=255)                                                                                  ccGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGc                                                         >  2:716218/1‑151 (MQ=255)                                                                                      aagaaCTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGcc                                                     >  2:486171/1‑151 (MQ=255)                                                                                      aagaaCTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGcc                                                     >  1:399893/1‑151 (MQ=255)                                                                                      aagaaCTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGcc                                                     >  1:813962/1‑151 (MQ=255)                                                                                       agaaCTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCg                                                    <  1:703521/151‑1 (MQ=255)                                                                                                 gAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTc                                            <  1:999554/149‑1 (MQ=255)                                                                                                 gAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCt                                           <  1:978409/150‑1 (MQ=255)                                                                                                     gTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGac                                      >  2:1014221/1‑151 (MQ=255)                                                                                                          cTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAACAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGacca                                    >  1:339699/1‑148 (MQ=255)                                                                                                           tGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCg                                 >  2:104139/1‑150 (MQ=255)                                                                                                            gATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGa                                >  1:875546/1‑150 (MQ=255)                                                                                                                 cGGAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCt                          >  2:386909/1‑151 (MQ=255)                                                                                                                   gAAGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCtgc                        <  2:716953/151‑1 (MQ=255)                                                                                                                    aaGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCtgcg                       >  1:405529/1‑151 (MQ=255)                                                                                                                    aaGACAAGATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCtgcg                       >  1:378698/1‑151 (MQ=255)                                                                                                                           gATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCTGCGTGCGGc                 >  2:704304/1‑150 (MQ=255)                                                                                                                           gATCCGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCTGCGTGCGGCa                <  2:294224/151‑1 (MQ=255)                                                                                                                              ccGCAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCTGCGTGCGGCAACg             >  1:939230/1‑151 (MQ=255)                                                                                                                                 cAAAGTGCTGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCTGCGTGCGGCAACGCac          <  2:732755/151‑1 (MQ=255)                                                                                                                                         tGAAGAACGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCTGCGTGCGGCAACGCACGACGTgct  >  1:864411/1‑151 (MQ=255)                                                                                                                                               |                                                                                                                                                 CCGGTGCATATGATTGAGACCATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCGACGCCGGAAGAACTGGCTGAACGTATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGATCGCCAAAGAGCCAATCTCCATGGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATTCTGCGACCACCGAAAGCCTGCGTGCGGCAACGCACGACGTGCT  >  NC_000913/3214403‑3214689

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑