Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	485,717	T→C	E4G (GAA→GGA)	rsmS ←	pleiotropic regulatory protein RsmS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	485,717	0	T	C	100.0%	15.9 / NA	6	E4G (GAA→GGA)	rsmS	pleiotropic regulatory protein RsmS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (3/3);  total (3/3)

GCACGGTACTGGCAGGGATCTGATTTTCCTCCAGCAGCACAATCAAATCGACAGCCAGTTTGACATCGTCAGGGGCATTTTCCAGTGACATATTCTCTCCATTGCTAGCGGGTTAAACGCGCTAACCTGTTTTCGATTTTTTCCAGCGCATGGCGGCAGC  >  NZ_CP009273/485637‑485796                                                                                 |                                                                                gcaCGGTACTGGCAGGGATCTGATTTTCCTCCAGCAGCACAATCAAATCGACAGCCAGTTTGACATCGTCAGGGGCATTTCCCAGTGACa                                                                        <  2:408070/90‑1 (MQ=255)           ggCAGGGATCTGATTTTCCTCCAGCAGCACAATCAAATCGACAGCCAGTTTGACATCGTCAGGGGCATTTCCCAGTGACATATTCTCTcc                                                              >  1:517535/1‑90 (MQ=255)                ggATCTGATTTTCCTCCAGCAGCACAATCAAATCGACAGCCAGTTTGACATCGTCAGGGGCATTTCCCAGTGACATATTCTCTCCATTGc                                                         >  1:176166/1‑90 (MQ=255)                    cTGATTTTCCTCCAGCAGCACAATCAAATCGACAGCCAGTTTGACATCGTCAGGGGCATTTCCCAGTGACATATTCTCTCCATTGCTAGc                                                     <  1:52397/90‑1 (MQ=255)                                                                   cGTCAGGGGCATTTCCCAGTGACATATTCTCTCCATTGCTAGCGGGTTAAACGCGCTAACCTGTTTTCGATTTTTTCCAGCGCATggcgg      <  2:253514/90‑1 (MQ=255)                                                                    gTCAGGGGCATTTCCCAGTGACATATTCTCTCCATTGCTAGCGGGTTAAACGCGCTAACCTGTTTTCGATTTTTTCCAGCGCATggcggc     >  1:254436/1‑90 (MQ=255)                                                                              tttcCCAGTGACATATTCTCTCCATTGCTAGCGGGTTAAACGCGCTAACCTGTTTTCGATTTTTTCCAGCGCATGGCGGCAGc  <  2:475507/83‑1 (MQ=255)                                                                                 |                                                                                GCACGGTACTGGCAGGGATCTGATTTTCCTCCAGCAGCACAATCAAATCGACAGCCAGTTTGACATCGTCAGGGGCATTTTCCAGTGACATATTCTCTCCATTGCTAGCGGGTTAAACGCGCTAACCTGTTTTCGATTTTTTCCAGCGCATGGCGGCAGC  >  NZ_CP009273/485637‑485796

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑