Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,240,933	A→G	F360S (TTC→TCC)	lysP ←	lysine‑specific permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,240,933	0	A	G	100.0%	89.1 / NA	25	F360S (TTC→TCC)	lysP	lysine‑specific permease
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (14/11);  total (14/11)

AACCGCGACGGAAGCGATAGTGGCTAATGGCAATCCCCAGCCAGGCGATAAAACCCGTCATCCCGGAGGTGTTCAGCAGCCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGAAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAGGGTGTACAGCATACGAG  >  NZ_CP009273/2240814‑2241053                                                                                                                        |                                                                                                                         aaCCGCGACGGAAGCGATAGTGGCTAATGGCAATCCCCAGCCAGGCGATAAAACCCGTCATCCCGGAGGTGTTCAGCAGCCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCAc                                                                                                       >  2:457815/1‑139 (MQ=255)        aCGGAAGCGATAGTGGCTAATGGCAATCCCCAGCCAGGCGATAAAACCCGTCATCCCGGAGGTGTTCAGCAGCCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCgtcgtc                                                                                                >  1:451094/1‑139 (MQ=255)                           aTGGCAATCCCCAGCCAGGCGATAAAACCCGTCATCCCGGAGGTGTTCAGCAGCCACAGGTGTACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTAcg                                                                               <  2:415062/137‑1 (MQ=255)                                             gCGATAAAACCCGTCATCCCGGAGGTGTTCAGCAGCCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGa                                                             >  1:568208/1‑137 (MQ=255)                                             gCGATAAAACCCGTCATCCCGGAGGTGTTCAGCAGCCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGa                                                             >  2:255932/1‑137 (MQ=255)                                             gCGATAAAACCCGTCATCCCGGAGGTGTTCAGCAGCCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGa                                                             >  2:327235/1‑137 (MQ=255)                                                                      tgtTCAGCAGCCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCtt                                   >  2:399653/1‑138 (MQ=255)                                                                            gcagcCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTc                            <  2:337069/139‑1 (MQ=255)                                                                                ccACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCacac                        >  2:28058/1‑139 (MQ=255)                                                                                   caGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGcc                     <  2:47601/139‑1 (MQ=255)                                                                                    aGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCa                    <  1:28058/139‑1 (MQ=255)                                                                                      gTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAgg                  <  1:457079/139‑1 (MQ=255)                                                                                      gTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAgg                  <  2:328048/139‑1 (MQ=255)                                                                                      gTATACCGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAgg                  <  2:180455/139‑1 (MQ=255)                                                                                           ccGTCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAGGGTGTa             <  1:255932/139‑1 (MQ=255)                                                                                              tCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTAcg                                                                               >  2:392263/1‑70 (MQ=255)                                                                                              tCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTAcg                                                                               <  1:392263/70‑1 (MQ=255)                                                                                              tCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACg                       >  1:81586/1‑126 (MQ=255)                                                                                              tCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACg                       <  2:81586/126‑1 (MQ=255)                                                                                              tCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAGGGTGTACAg          >  1:90776/1‑139 (MQ=255)                                                                                              tCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAGGGTGTACAg          >  1:126037/1‑139 (MQ=255)                                                                                              tCTGGTTGCCAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAAGGCGCGGCGCTTTACCGTCACACGCCAGGGTGTACAg          >  2:520463/1‑139 (MQ=255)                                                                                                      ccAAACATGGAGGTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAGGGTGTACAGCATACGAg  >  1:5147/1‑139 (MQ=255)                                                                                                                  gTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGcc                     <  1:531104/108‑1 (MQ=255)                                                                                                                  gTCAGGGAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGcc                     >  2:531104/1‑108 (MQ=255)                                                                                                                        |                                                                                                                         AACCGCGACGGAAGCGATAGTGGCTAATGGCAATCCCCAGCCAGGCGATAAAACCCGTCATCCCGGAGGTGTTCAGCAGCCACAGGTATACCGTCTGGTTGCCAAACATGGAGGTCAGGAAGCACAGACCGGCAATCACCGTCGTCGCATACAGCGCATTACGCGGCACGCCACCACGCGACAGTTTAGCGAAAATGCGCGGCGCTTTACCGTCACACGCCAGGGTGTACAGCATACGAG  >  NZ_CP009273/2240814‑2241053

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑