Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,591,925	T→C	R84R (AGA→AGG)	hipA ←	serine/threonine kinase HipA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,591,925	0	T	C	100.0%	179.6 / NA	51	R84R (AGA→AGG)	hipA	serine/threonine kinase HipA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (27/24);  total (27/24)

TAATACTTCTTCAAGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGTCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGAAAGTGACAACGGTC  >  NC_000913/1591790‑1592061                                                                                                                                        |                                                                                                                                         tAATACTTCTTCAAGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTgg                                                                                                                                      >  1:490220/1‑140 (MQ=255)   aTACTTCTTCAAGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGAt                                                                                                                                    <  2:554298/140‑1 (MQ=255)     aCTTCTTCAAGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGATTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGAttt                                                                                                                                  >  1:144188/1‑140 (MQ=255)       ttcttcAAGGCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTgg                                                                                                                                <  2:688780/140‑1 (MQ=255)          ttcAAGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTgcctg                                                                                                                             >  1:745346/1‑136 (MQ=255)            cAAGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGa                                                                                                                           >  1:865175/1‑140 (MQ=255)            cAAGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGa                                                                                                                           <  2:28444/140‑1 (MQ=255)             aaGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGAt                                                                                                                          <  2:865175/140‑1 (MQ=255)              aGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATa                                                                                                                         <  2:144188/140‑1 (MQ=255)                         aGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAAACAAACGGGTGCCTGGACTTGGAATGATAACGTTTAACGa                                                                                                              >  2:318903/1‑140 (MQ=255)                          gTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGAt                                                                                                             >  2:31607/1‑140 (MQ=255)                           tAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATc                                                                                                            >  2:816984/1‑140 (MQ=255)                           tAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATc                                                                                                            >  2:15758/1‑140 (MQ=255)                                   tCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCgg                                                                                                         >  2:674202/1‑135 (MQ=255)                                   tCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCgg                                                                                                         <  1:674202/135‑1 (MQ=255)                                         gCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAAt                                                                                              >  2:435971/1‑140 (MQ=255)                                         gCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAAt                                                                                              >  2:805704/1‑140 (MQ=255)                                            aTTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCgg                                                                                           >  2:467419/1‑140 (MQ=255)                                              tATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGc                                                                                         <  2:490220/140‑1 (MQ=255)                                                 cGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTAt                                                                                      <  2:742277/140‑1 (MQ=255)                                                 cGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTAt                                                                                      <  1:467419/140‑1 (MQ=255)                                                     tGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACg                                                                                                    <  1:87844/122‑1 (MQ=255)                                                     tGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACg                                                                                                    >  2:87844/1‑122 (MQ=255)                                                       ggTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCCCCAACGGTGGCCCGCCCTAATTCTGGAAATTAAACCAACGGGTTGCTGGGTTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTa                                                                                <  2:745346/139‑1 (MQ=255)                                                       cGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTa                                                                                >  1:692816/1‑140 (MQ=255)                                                        gTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTaa                                                                               <  1:805704/140‑1 (MQ=255)                                                          tACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACa                                                                             <  1:435971/140‑1 (MQ=255)                                                                   gTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCga                                                                    <  1:15758/140‑1 (MQ=255)                                                                   gTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTAACGGACAATCGGACTATGGGGTAACAGGTTATCga                                                                    >  2:313889/1‑140 (MQ=255)                                                                   gTCTTCGGGTATTAACGTCACGACAACAACGCTGTCTGGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCga                                                                    <  1:318903/140‑1 (MQ=255)                                                                     cTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCgaag                                                                  <  1:43306/140‑1 (MQ=255)                                                                           gTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTa                                                            <  2:692816/140‑1 (MQ=255)                                                                              ttAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAAt                                                         >  1:435005/1‑140 (MQ=255)                                                                                     cACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCAt                                                  <  1:197547/140‑1 (MQ=255)                                                                                       cGGCACCAACGCTGTCTCGCCCCATCTCTGACAATAATTCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCa                                                <  1:356782/140‑1 (MQ=255)                                                                                           aCCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTaaa                                                          <  2:213246/126‑1 (MQ=255)                                                                                           aCCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTaaa                                                          >  1:213246/1‑126 (MQ=255)                                                                                             cAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTg                                          >  1:744874/1‑140 (MQ=255)                                                                                                    gTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATAAGAGGTGATATTcc                                   <  1:31607/140‑1 (MQ=255)                                                                                                      ctcGCCCTATTTCTGCCAATAATTCAAACCGTTGCCTCGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTcccc                                 <  1:378776/140‑1 (MQ=255)                                                                                                      ctcGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTcccc                                 <  2:435005/140‑1 (MQ=255)                                                                                                       tcGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGt                                           <  1:757479/129‑1 (MQ=255)                                                                                                       tcGCCCTATTTCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGt                                           >  2:757479/1‑129 (MQ=255)                                                                                                             gaTTTATGACAATAAAGCAAGCGGATGCCTGGATTTGGCATGATGACGTTTCACGGTCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAAAACGGCACGACAGGTGATATTCCCTCACTgaa                          <  2:113208/139‑3 (MQ=255)                                                                                                               tttCTGACAATAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAAt                        >  2:844835/1‑140 (MQ=255)                                                                                                                         tAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGaaa              >  2:36378/1‑140 (MQ=255)                                                                                                                         tAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGaaa              >  2:606864/1‑140 (MQ=255)                                                                                                                         tAAATCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGATAAATACGTCATGAGAAGTGATATTACCCCTCTGCAATGGCAGCGaaa              >  2:350088/1‑140 (MQ=255)                                                                                                                          aaaTCAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGAAAg             >  2:203587/1‑140 (MQ=255)                                                                                                                              cAAACGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGAAAGTGAc         <  1:816984/140‑1 (MQ=255)                                                                                                                                 aCGGTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGAAAGTGACAAc      >  1:469793/1‑140 (MQ=255)                                                                                                                                    gTTGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGAAAGTGACAACGGt   >  1:864433/1‑140 (MQ=255)                                                                                                                                     ttGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGAAAGTGACAACGGTc  >  1:649286/1‑140 (MQ=255)                                                                                                                                     ttGCCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGAAAGTGACAACGGTc  <  1:807733/140‑1 (MQ=255)                                                                                                                                        |                                                                                                                                         TAATACTTCTTCAAGTCTGGCTTCAGTAAGCTTTTCCCATGCCATTATCGGATGCGTTACGGTTTCGTCTTCGGGTATTAACGTCACGGCACCAACGCTGTCTCGCCCTATTTCTGACAATAAATCAAACGGTTGTCTGGATTTGGCATGATAACGTTTAACGATCCGGTCACGTACAATCGGGCTATCGGGTAACAGGTTATCGAAGAAGTTAAATACGGCATCAGAGGTGATATTCCCCCTCTGCAATGGCAGCGAAAGTGACAACGGTC  >  NC_000913/1591790‑1592061

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑