Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	4,130,531	A→G	I540T (ATC→ACC)	ptsP ←	phosphoenolpyruvate‑‑protein phosphotransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	4,130,531	0	A	G	100.0%	116.6 / NA	31	I540T (ATC→ACC)	ptsP	phosphoenolpyruvate‑‑protein phosphotransferase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (20/11);  total (20/11)

ACGAGTAACCTTAGCGTTATCGCGATCCACCGCCAGCAGATACTGCGTCAGGTCATTACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGATGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTGAGGAGATCATCGGGAT  >  NZ_CP009273/4130398‑4130646                                                                                                                                      |                                                                                                                    aCGAGTAACCTTAGCGTTATCGCGATCCACCGCCAGCAGATACTGCGTCAGGTCATTACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGcc                                                                                                                 >  1:303496/1‑138 (MQ=255)                         aTCCACCGCCAGCAGATACTGCGTCAGGTCATTACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGa                                                                                        <  2:263891/139‑1 (MQ=255)                              ccGCCAGCAGATACTGCGTCAGGTCATTACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAAtgtg                                                                                   >  1:56403/1‑139 (MQ=255)                                          aCTGCGTCAGGTCATTACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAAtg                                                                                     >  2:193276/1‑125 (MQ=255)                                          aCTGCGTCAGGTCATTACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAAtg                                                                                     <  1:193276/125‑1 (MQ=255)                                              cGTCAGGTCATTACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGc                                                                   >  1:362016/1‑139 (MQ=255)                                                        ttACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCtt                                                         >  1:363542/1‑139 (MQ=255)                                                              ccAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATgtgt                                                                                  <  1:245504/108‑1 (MQ=255)                                                              ccAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATgtgt                                                                                  >  2:245504/1‑108 (MQ=255)                                                                  tACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGttt                                               >  2:144500/1‑139 (MQ=255)                                                                        aGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTtttcttt                                         <  1:281673/139‑1 (MQ=255)                                                                            atcaatcTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCAcc                                     >  1:344807/1‑139 (MQ=255)                                                                            atcaatcTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCAcc                                     >  1:15167/1‑139 (MQ=255)                                                                            atcaatcTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCAcc                                     >  1:58776/1‑139 (MQ=255)                                                                            atcaatcTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCAcc                                     >  1:77927/1‑139 (MQ=255)                                                                                     ttCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAg                               <  2:363542/136‑1 (MQ=255)                                                                                            caTTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCCCCCATAAGATCTCTTCCa                     <  1:110175/139‑1 (MQ=255)                                                                                               tGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCg                                                                               <  1:174365/78‑1 (MQ=255)                                                                                               tGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCg                                                                               >  2:174365/1‑78 (MQ=255)                                                                                               tGATCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCAtt                   >  2:179368/1‑138 (MQ=255)                                                                                                 aTCGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTgag                >  2:114274/1‑139 (MQ=255)                                                                                                   cGATGATGAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTgagga              <  2:56403/139‑1 (MQ=255)                                                                                                     atgatgAACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTGAGgaga            <  2:77927/139‑1 (MQ=255)                                                                                                      tgatgaACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGAtctc                          <  1:413169/124‑1 (MQ=255)                                                                                                      tgatgaACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGAtctc                          >  2:413169/1‑124 (MQ=255)                                                                                                      tgatgaACATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTgag                >  2:21405/1‑134 (MQ=255)                                                                                                           aaCATCACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTGAGGAGATCATCg      >  1:399833/1‑139 (MQ=255)                                                                                                                cACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTtttcttt                                         >  2:1447/1‑99 (MQ=255)                                                                                                                cACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTtttcttt                                         <  1:1447/99‑1 (MQ=255)                                                                                                                cACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTGAGGAGATCATCGGGAt  >  2:454438/1‑138 (MQ=255)                                                                                                                cACCGACGGCACTTCCAGCATGGTGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTGAGGAGATCATCGGGAt  >  1:162003/1‑138 (MQ=255)                                                                                                                                      |                                                                                                                    ACGAGTAACCTTAGCGTTATCGCGATCCACCGCCAGCAGATACTGCGTCAGGTCATTACTACCAATACTAAAGAAATCAATCTCTTCGCAGCATTGATCGATGATGAACATCACCGACGGCACTTCCAGCATGATGCCGAGCTGGATTTTCTCATCAAACGGAATGTGTTCGTTACGTAGTTGCTGTTTGGCTTCCGCCAGTTTTTCTTTCACCCATAAGATCTCTTCCATTGAGGAGATCATCGGGAT  >  NZ_CP009273/4130398‑4130646

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑