Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,190,113	T→G	intergenic (‑1/+47)	hldE ← / ← glnE	bifunctional D‑glycero‑beta‑D‑manno‑heptose‑7‑phosphate kinase/D‑glycero‑beta‑D‑manno‑heptose 1‑phosphate adenylyltransferase HldE/bifunctional [glutamate‑‑ammonia ligase]‑adenylyl‑L‑tyrosine phosphorylase/[glutamate‑‑ammonia‑ligase] adenylyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,190,113	0	T	G	100.0%	75.1 / NA	21	intergenic (‑1/+47)	hldE/glnE	bifunctional D‑glycero‑beta‑D‑manno‑heptose‑7‑phosphate kinase/D‑glycero‑beta‑D‑manno‑heptose 1‑phosphate adenylyltransferase HldE/bifunctional [glutamate‑‑ammonia ligase]‑adenylyl‑L‑tyrosine phosphorylase/[glutamate‑‑ammonia‑ligase] adenylyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (14/7);  total (14/7)

GGTGGGGCCGTACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATTCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATACCATACTTCATTCTTCCACCAGCCACTTCTGCC  >  NZ_CP009273/3190026‑3190185                                                                                        |                                                                         ggtggGGCCGTACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGcc                                                                        >  2:424468/1‑90 (MQ=255)  gtggGGCCGTACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCt                                                                       <  1:185597/90‑1 (MQ=255)  gtggGGCCGTACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCt                                                                       <  1:557593/90‑1 (MQ=255)         cGTACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTg                                                                      >  2:367491/1‑84 (MQ=255)         cGTACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTg                                                                      <  1:367491/84‑1 (MQ=255)          gTACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTg                                                               >  1:561128/1‑90 (MQ=255)           tACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTga                                                              >  2:91414/1‑90 (MQ=255)               aGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTgagaga                                                          >  1:333238/1‑90 (MQ=255)                             atcacatcacCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTgcgc                                            <  2:70053/90‑1 (MQ=255)                                acatcacCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTgag                                                             >  2:128997/1‑70 (MQ=255)                                acatcacCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTgag                                                             <  1:128997/70‑1 (MQ=255)                                  atcacCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGat                                       <  1:424468/90‑1 (MQ=255)                                     accaaccaCCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGataat                                    >  1:203148/1‑90 (MQ=255)                                       caaccaCCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATAc                                  <  2:145267/90‑1 (MQ=255)                                        aaccaCCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATAcc                                 >  1:139694/1‑90 (MQ=255)                                             ccaTCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATACCATACt                            >  1:484128/1‑90 (MQ=255)                                                      cTGCACGTTCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATACCATACTTCAttcttc                   >  2:209022/1‑90 (MQ=255)                                                             ttCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATACCATACTTCATTCTTCCACCAGc            >  1:72633/1‑90 (MQ=255)                                                             ttCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATACCATACTTCATTCTTCCACCAGc            >  2:144517/1‑90 (MQ=255)                                                             ttCAAACTCTGGCAGCGTTACTTTCATGCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATACCATACTTCATTCTTCCACCAGc            >  2:29363/1‑90 (MQ=255)                                                                       ggCAGCGTTACTTTCATGCCTGTGTCCTGAGAGATTCAAAATTTGGGCGCGATAATCCCATACTTCATTCTTCCACCAGCCACTTCTGcc  >  1:270807/1‑90 (MQ=255)                                                                                        |                                                                         GGTGGGGCCGTACCAGTAACGATCCAGCATCACATCACCAACCACCATCACTCCTGCACGTTCAAACTCTGGCAGCGTTACTTTCATTCCTGTCTCCTGAGAGATTCAAAATTTGCGCGCGATAATACCATACTTCATTCTTCCACCAGCCACTTCTGCC  >  NZ_CP009273/3190026‑3190185

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑