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%	76.4 / NA	22	S309P (TCG→CCG)	hprS	two‑component system sensor histidine kinase HprS
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (13/9);  total (13/9)

GTAAAATTTTATCCGCAAAGATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGAGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGATACTTCTGG  >  NZ_CP009273/2030589‑2030840                                                                                                                         |                                                                                                                                    gtaAAATTTTATCCGCAAAGATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGt                                                                                                                              >  2:410783/1‑128 (MQ=255) gtaAAATTTTATCCGCAAAGATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGt                                                                                                                              <  1:410783/128‑1 (MQ=255) gtaAAATTTTATCCGCAAAGATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCaaaa                                                                                                                    >  2:146580/1‑138 (MQ=255) gtaAAATTTTATCCGCAAAGATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAAc                                                                                                                   <  1:37880/139‑1 (MQ=255)  taAAATTTTATCCGCAAAGATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACa                                                                                                                  <  1:341447/139‑1 (MQ=255)            tCCGCAAAGATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTAt                                                                                                        <  2:367763/139‑1 (MQ=255)                    gATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTg                                                                                                <  1:35808/139‑1 (MQ=255)                             aTTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGaa                                                                                         <  1:434811/137‑1 (MQ=255)                             aTTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAAc                                                                                       <  2:408488/139‑1 (MQ=255)                                                  aaTCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACcgc                                                                  >  1:317612/1‑139 (MQ=255)                                                  aaTCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACcgc                                                                  >  2:108474/1‑139 (MQ=255)                                                  aaTCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACcgc                                                                  >  2:272763/1‑139 (MQ=255)                                                                      ggTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCtt                                               >  2:290392/1‑138 (MQ=255)                                                                          ttCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATg                                          >  1:118058/1‑139 (MQ=255)                                                                                    tCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCaa                                >  2:93416/1‑139 (MQ=255)                                                                                                           aTTGAGAGAAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGa           <  1:121891/137‑1 (MQ=255)                                                                                                               agagaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGATACTTc     <  2:317612/139‑1 (MQ=255)                                                                                                                 agaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGATACTTCTg   >  2:176457/1‑139 (MQ=255)                                                                                                                 agaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGATACTTCTg   >  1:56765/1‑139 (MQ=255)                                                                                                                 agaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGATACTTCTg   >  1:103564/1‑139 (MQ=255)                                                                                                                 agaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGATACTTCTg   >  2:94171/1‑139 (MQ=255)                                                                                                                  gaAAGCGGGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGATACTTCTgg  >  2:388799/1‑139 (MQ=255)                                                                                                                         |                                                                                                                                    GTAAAATTTTATCCGCAAAGATTTGCTGATTGCACTCGACCTTAAAGCAAATCTCTTTCTCGTCTGAAAGGTATTCAAGATAGTCCAACAAATTTTCGACTTCCTTATTGAGAGAAAGCGAGTCCAGTTTCACCAAAACATTGTTTTTATCTGCCCTGGCAAGAAACAGTATGTTCTCTGTTAACCGCGAAATATTTTCCAGCTCTTCAATGTTTCCGGCAATTGTTTTTTGATATTCAGCGATACTTCTGG  >  NZ_CP009273/2030589‑2030840

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑