Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,056,347	T→C	intergenic (‑8/+278)	glnL ← / ← glnA	sensory histidine kinase NtrB/glutamine synthetase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,056,347	0	T	C	100.0%	138.9 / NA	40	intergenic (‑8/+278)	glnL/glnA	sensory histidine kinase NtrB/glutamine synthetase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (18/22);  total (18/22)

GCTTTGGGCGAGCAGTTGTTGCGCGGCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGTCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTACAGATAGCTGACAAACTTCACGTTGGAGA  >  NC_000913/4056211‑4056482                                                                                                                                         |                                                                                                                                        gCTTTGGGCGAGCAGTTGTTGCGCGGCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGcctc                                                                                                                                      <  2:55988/140‑1 (MQ=255)      gggCGAGCAGTTGTTGCGCGGCAGGGTTGGCGTAATGGATTGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGaa                                                                                                                                 <  1:346171/140‑1 (MQ=255)      gggCGAGCAGTTGTTGCGCGGCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGaa                                                                                                                                 <  2:198770/140‑1 (MQ=255)                  gttgCGCGGCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTACCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCa                                                                                                                     <  1:737782/140‑1 (MQ=255)                     gcgcGGCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCAttt                                                                                                                  <  1:143654/140‑1 (MQ=255)                        cgGCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAg                                                                                                               >  2:566930/1‑140 (MQ=255)                        cgGCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAg                                                                                                               <  1:791582/140‑1 (MQ=255)                          gCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTg                                                                                                             >  2:635550/1‑140 (MQ=255)                          gCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTg                                                                                                             <  2:578336/140‑1 (MQ=255)                          gCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTg                                                                                                             >  2:184814/1‑140 (MQ=255)                                         tGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTa                                                                                              <  2:112704/140‑1 (MQ=255)                                                 cAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATaaa                                                                                      <  1:635550/140‑1 (MQ=255)                                                               ttAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATc                                                                        <  1:569558/140‑1 (MQ=255)                                                                        tACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATc                                                                        <  1:339930/131‑1 (MQ=255)                                                                        tACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATc                                                                        >  2:339930/1‑131 (MQ=255)                                                                            gTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACgg                                                           <  1:184814/140‑1 (MQ=255)                                                                             ttAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGga                                                          >  2:245495/1‑140 (MQ=255)                                                                             ttAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTGTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGga                                                          >  1:614861/1‑140 (MQ=255)                                                                                aTCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGaa                                                       >  2:708621/1‑140 (MQ=255)                                                                                     cGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAg                                                  >  1:300361/1‑140 (MQ=255)                                                                                     cGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAg                                                  >  1:328078/1‑140 (MQ=255)                                                                                          tGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAG‑AAAAAGCCCATg                                            <  1:341373/140‑1 (MQ=255)                                                                                                tCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCagag                                       <  2:714101/140‑1 (MQ=255)                                                                                                tCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCagag                                       <  2:292425/140‑1 (MQ=255)                                                                                                 cTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGc                                                 >  1:731816/1‑129 (MQ=255)                                                                                                 cTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGc                                                 <  2:731816/129‑1 (MQ=255)                                                                                                 cTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCag                                         <  2:301933/137‑1 (MQ=255)                                                                                                 cTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCag                                         >  1:301933/1‑137 (MQ=255)                                                                                                 cTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAgaga                                      <  2:248112/140‑1 (MQ=255)                                                                                                  tGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGGAAAAAGCCCATGCAGAGAt                                     <  1:484995/140‑1 (MQ=255)                                                                                                  tGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGAt                                     <  1:708621/140‑1 (MQ=255)                                                                                                  tGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGAt                                     >  1:86796/1‑140 (MQ=255)                                                                                                   gCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCCTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATg                                    >  2:61546/1‑140 (MQ=255)                                                                                                     ccAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCCTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATggg                                  <  1:61546/140‑1 (MQ=255)                                                                                                        gCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTa                               >  2:684426/1‑140 (MQ=255)                                                                                                        gCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTa                               >  1:646465/1‑140 (MQ=255)                                                                                                         cATCGGGCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTAc                              >  2:35705/1‑140 (MQ=255)                                                                                                             gggCTGCGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTACAGAt                          <  2:86796/140‑1 (MQ=255)                                                                                                                   cGTGCCTGTTGCCATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTACAGATAGCTGa                    >  2:124148/1‑140 (MQ=255)                                                                                                                              ccATAAAGCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTACAGATAGCTGACAAACTTCACg         <  1:245495/140‑1 (MQ=255)                                                                                                                                     gCAGCCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTACAGATAGCTGACAAACTTCACGTTGgaga  >  2:389929/1‑140 (MQ=255)                                                                                                                                         |                                                                                                                                        GCTTTGGGCGAGCAGTTGTTGCGCGGCAGGGTTGGCGTAATGGATCGCCAGGTTGTCATCGATTAACAAAATACTGTTAATCAGCGAGTTGAGGATCTGCCCAGCATCGGGCTGCGTGCCTGTTGCCATAAAGCAGTCTCCTGAACAGGTTGCACCATTTTAGTGCATTATAGCTTTTTACGGATAAAAAGCGCGAAGCATCAGAGAATTGACGGAGAAAAAAGCCCATGCAGAGATGGGCTACAGATAGCTGACAAACTTCACGTTGGAGA  >  NC_000913/4056211‑4056482

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑