Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,960,176	G→A	R540W (CGG→TGG)	ptsP ←	phosphoenolpyruvate‑‑protein phosphotransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,960,176	0	G	A	100.0%	106.9 / NA	27	R540W (CGG→TGG)	ptsP	phosphoenolpyruvate‑‑protein phosphotransferase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (16/11);  total (16/11)

ACGTCCGGCACGTTCAATCAGGCGGCGTGCTTCATCAACTTCATCGAGGCTTGTGACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCGCACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATCCAGCGTACGCAAGGTGAC  >  NZ_CP009273/2960063‑2960311                                                                                                                  |                                                                                                                                        aCGTCCGGCACGTTCAATCAGGCGGCGTGCTTCATCAACTTCATCGAGGCTTGTGACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGc                                                                                                                <  2:86895/139‑1 (MQ=255)                          cgTGCTTCATCAACTTCATCGAGGCTTGTGACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCAc                                                                                       >  1:252232/1‑139 (MQ=255)                              cTTCATCAACTTCATCGAGGCTTGTGACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGcc                                                                                    <  1:268812/138‑1 (MQ=255)                                         tCATCGAGGCTTGTGACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATg                                                                        >  1:474044/1‑139 (MQ=255)                                                  cTTGTGACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAAcc                                                                                <  2:543112/122‑1 (MQ=255)                                                  cTTGTGACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAAcc                                                                                >  1:543112/1‑122 (MQ=255)                                                     gtgACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGc                                                            >  1:16579/1‑139 (MQ=255)                                                             cGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCgg                                                     >  2:4668/1‑138 (MQ=255)                                                                      aaTATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGc                                           <  2:16579/139‑1 (MQ=255)                                                                        tatTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAg                                         <  2:424290/139‑1 (MQ=255)                                                                          ttCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCt                                                                                                                                    <  1:458382/46‑1 (MQ=255)                                                                          ttCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCt                                                                                                                                    >  2:458382/1‑46 (MQ=255)                                                                             aGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAgctgct                                    >  1:222369/1‑139 (MQ=255)                                                                               gTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTa                                  >  1:473214/1‑139 (MQ=255)                                                                                  gCCCGTAGCGGCATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCt                               >  2:52757/1‑139 (MQ=255)                                                                                             cATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGc                                           >  1:20590/1‑116 (MQ=255)                                                                                             cATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGc                                           <  2:20590/116‑1 (MQ=255)                                                                                             cATTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATc                    >  1:103432/1‑139 (MQ=255)                                                                                              aTTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATc                    <  2:350765/138‑1 (MQ=255)                                                                                              aTTAGCACGCAGCATCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATc                    >  1:350765/1‑138 (MQ=255)                                                                                                       cagcaTCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGc                                           >  2:174963/1‑106 (MQ=255)                                                                                                       cagcaTCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGc                                           <  1:174963/106‑1 (MQ=255)                                                                                                       cagcaTCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATCCAGCGTACg           >  2:192057/1‑138 (MQ=255)                                                                                                       cagcaTCGCCCACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATCCAGCGTACg           >  1:273288/1‑138 (MQ=255)                                                                                                               cccACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATCCAGCGTACGCAAGGTGAc  >  2:414877/1‑139 (MQ=255)                                                                                                               cccACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATCCAGCGTACGCAAGGTGAc  <  1:300496/139‑1 (MQ=255)                                                                                                               cccACACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATCCAGCGTACGCAAGGTGAc  <  1:4668/139‑1 (MQ=255)                                                                                                                  |                                                                                                                                        ACGTCCGGCACGTTCAATCAGGCGGCGTGCTTCATCAACTTCATCGAGGCTTGTGACCATCGGCAACAGAATATTCAGGTTGCCCGTAGCGGCATTAGCACGCAGCATCGCCCGCACCTGGATCAAGAAGATCTCCGGCTGATCGAGCGTAATGCGAATCCCACGCCAACCCAGGCATGGATTCTCTTCGCTGATCGGCATGTAAGGCAGCTGCTTATCTGCTCCGACATCCAGCGTACGCAAGGTGAC  >  NZ_CP009273/2960063‑2960311

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑