Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,030,709	A→G	S309P (TCG→CCG)	hprS ←	two‑component system sensor histidine kinase HprS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,030,709	0	A	G	100.0%	115.8 / NA	31	S309P (TCG→CCG)	hprS	two‑component system sensor histidine kinase HprS
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (17/14);  total (17/14)

CACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGAGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCT  >  NZ_CP009273/2030621‑2030794                                                                                         |                                                                                      cACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGt                                                                                     <  1:37051/91‑1 (MQ=255)  aCTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTc                                                                                    <  1:581282/91‑1 (MQ=255)               gCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCaaa                                                                       <  1:717066/91‑1 (MQ=255)                 aaaTCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAAc                                                                     >  1:317050/1‑91 (MQ=255)                       ctTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGtt                                                               >  1:723160/1‑91 (MQ=255)                         ttCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGtttt                                                             >  1:383771/1‑91 (MQ=255)                             cGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATc                                                         <  2:91795/91‑1 (MQ=255)                                       gTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCa                                               <  2:383771/91‑1 (MQ=255)                                         aTTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCt                                                   >  1:315385/1‑85 (MQ=255)                                         aTTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCt                                                   <  2:315385/85‑1 (MQ=255)                                         aTTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAg                                             >  1:207099/1‑91 (MQ=255)                                         aTTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAg                                             <  2:349545/91‑1 (MQ=255)                                         aTTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAg                                             >  1:641074/1‑91 (MQ=255)                                         aTTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAg                                             >  1:433773/1‑91 (MQ=255)                                          ttCAAGATAGTCCAACAAATTTCCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGa                                            <  1:491601/91‑1 (MQ=255)                                                 tAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTa                                     >  1:653449/1‑91 (MQ=255)                                                 tAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTa                                     >  1:115876/1‑91 (MQ=255)                                                 tAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTa                                     <  1:428541/91‑1 (MQ=255)                                                   gTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATg                                   >  1:810711/1‑91 (MQ=255)                                                   gTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATg                                   >  2:814270/1‑91 (MQ=255)                                                   gTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATg                                   >  1:707275/1‑91 (MQ=255)                                                     ccAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGtt                                 <  2:264756/91‑1 (MQ=255)                                                                    cTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGa                  <  2:207099/91‑1 (MQ=255)                                                                    cTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGa                  <  2:356847/91‑1 (MQ=255)                                                                                gagaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAACCAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAg      >  1:778574/1‑91 (MQ=255)                                                                                gagaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAg      >  2:266741/1‑91 (MQ=255)                                                                                gagaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAg      <  2:278236/91‑1 (MQ=255)                                                                                gagaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAg      >  2:481662/1‑91 (MQ=255)                                                                                 agaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGc     >  2:308343/1‑91 (MQ=255)                                                                                 agaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGc     <  2:317050/91‑1 (MQ=255)                                                                                    aaGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGctct  >  2:143993/1‑91 (MQ=255)                                                                                         |                                                                                      CACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGAGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCT  >  NZ_CP009273/2030621‑2030794

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑