Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,578,188	A→G	I10T (ATC→ACC)	safA ←	two‑component system connector SafA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,578,188	0	A	G	100.0%	83.9 / NA	24	I10T (ATC→ACC)	safA	two‑component system connector SafA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (11/13);  total (11/13)

CTTGCAATGCGACCCATTTCTGAAATACTCAGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTT  >  NZ_CP009273/1578059‑1578311                                                                                                                                  |                                                                                                                            ctTGCAATGCGACCCATTTCTGAAATACTCAGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGgttttgtttt                                                                                                                    >  1:200946/1‑139 (MQ=255) ctTGCAATGCGACCCATTTCTGAAATACTCAGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGgttttgtttt                                                                                                                    >  2:714021/1‑139 (MQ=255) ctTGCAATGCGACCCATTTCTGAAATACTCAGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGgttttgtttt                                                                                                                    >  2:333006/1‑139 (MQ=255)     cAATGCGACCCATTTCTGAAATACTCAGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCa                                                                                                                 <  2:200946/138‑1 (MQ=255)            aCCCATTTCTGAAATACTCAGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTc                                                                                                         >  1:466683/1‑139 (MQ=255)                            cTCAGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAata                                                                                         >  1:312876/1‑139 (MQ=255)                               aGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACAACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAACTATGt                                                                                      >  1:862189/1‑139 (MQ=255)                                    aTCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACtg                                                                                                              <  2:848496/110‑1 (MQ=255)                                    aTCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACtg                                                                                                              >  1:848496/1‑110 (MQ=255)                                           gCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGACTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGa                                                                          >  2:819250/1‑139 (MQ=255)                                                       gCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTaaaaa                                                              <  1:333006/139‑1 (MQ=255)                                                                   aGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGt                                                  <  2:703787/139‑1 (MQ=255)                                                                   aGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGACTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGt                                                  <  1:819250/139‑1 (MQ=255)                                                                       tCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATg                                               <  1:460995/138‑1 (MQ=255)                                                                         aGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGtttattta                                                                               >  1:183336/1‑104 (MQ=255)                                                                         aGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGtttattta                                                                               <  2:183336/104‑1 (MQ=255)                                                                         aGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCt                                             >  2:433153/1‑138 (MQ=255)                                                                         aGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCt                                             <  2:140320/138‑1 (MQ=255)                                                                                       cacaATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTg                              >  2:291871/1‑139 (MQ=255)                                                                                                 gACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCaa                                                                                            >  2:716643/1‑67 (MQ=255)                                                                                                 gACATGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCaa                                                                                            <  1:716643/67‑1 (MQ=255)                                                                                                    aTGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGa                  >  1:221655/1‑138 (MQ=255)                                                                                                     tGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGaaa                <  1:291871/139‑1 (MQ=255)                                                                                                     tGATTTCTTTATAGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGaaa                <  2:711179/139‑1 (MQ=255)                                                                                                              tataGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGAc          <  2:221655/136‑1 (MQ=255)                                                                                                                 aGTTGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGc    >  1:806944/1‑139 (MQ=255)                                                                                                                   ttGTCTCTTTGCGTGGTTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCtt  <  2:806944/139‑1 (MQ=255)                                                                                                                                  |                                                                                                                            CTTGCAATGCGACCCATTTCTGAAATACTCAGCTGATCAATTGCCGAAAAAATGGCTATCAACGTAAGTGTCAGTAATAAGACAACCACAATTGCAGACATGATTTCTTTATAGTTGTCTCTTTGCGTGATTTTGTTTTTCACTGTGGTCGCATGCATTTCAAATATGTTTATTTAGCGGATAACGTTAAAAATCGTTAATCAGTATGCTTAATATAACAGGCTGGAGAAAAGAGGAAATAGGACTGGTGCTT  >  NZ_CP009273/1578059‑1578311

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑