Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,284,519	T→C	S181P (TCC→CCC)	narP →	nitrate/nitrite response regulator protein NarP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,284,519	0	T	C	95.8%	69.2 / ‑3.4	24	S181P (TCC→CCC)	narP	nitrate/nitrite response regulator protein NarP
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (12/11);  total (12/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01

AGCGTGCTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCA  >  NZ_CP009273/2284432‑2284594                                                                                        |                                                                            aGCGTGCTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTccc                                                                           <  2:328585/90‑1 (MQ=255)     tGCTGACGGAGCGCGAGCTGGATGTTCTGAACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGc                                                                       <  1:617712/90‑1 (MQ=255)      gCTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGCCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCa                                                                      >  1:124143/1‑90 (MQ=255)       cTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAg                                                                     <  1:182130/90‑1 (MQ=255)       cTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAg                                                                     <  1:478620/90‑1 (MQ=255)         gACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGAc                                                                   <  2:599868/90‑1 (MQ=255)          aCGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACa                                                                  <  1:313604/90‑1 (MQ=255)               gcgcGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTaaa                                                             >  2:61451/1‑90 (MQ=255)               gcgcGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTaaa                                                             <  2:605913/90‑1 (MQ=255)               gcgcGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTaaa                                                             <  2:366176/90‑1 (MQ=255)                      cTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACat                                                      <  1:371039/90‑1 (MQ=255)                                      aGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCtgctgc                                      >  2:7078/1‑90 (MQ=255)                                                ggggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCaa                            >  2:274197/1‑90 (MQ=255)                                                ggggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCaa                            >  1:474137/1‑90 (MQ=255)                                                ggggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCaa                            >  2:685246/1‑90 (MQ=255)                                                ggggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCaa                            >  1:255892/1‑90 (MQ=255)                                                ggggCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGAAAGTAAAAGTAGATATTCGCAATCTGCTGCGTAAACACaa                            >  1:381461/1‑90 (MQ=255)                                                     tGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATg                          <  2:574686/87‑1 (MQ=255)                                                     tGTCAAATAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATg                          >  1:574686/1‑87 (MQ=255)                                                        cAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCt                    <  2:591739/90‑1 (MQ=255)                                                           aTAAACAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCAc                 >  2:481174/1‑90 (MQ=255)                                                                cAGATTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTg            >  2:257602/1‑90 (MQ=255)                                                                   aTTGCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTggcg         <  2:193480/90‑1 (MQ=255)                                                                      gCCTCGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGcc      <  2:124143/90‑1 (MQ=255)                                                                          cGGTGTTGAATATTCCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGccacca  >  2:613900/1‑90 (MQ=255)                                                                                        |                                                                            AGCGTGCTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCA  >  NZ_CP009273/2284432‑2284594

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑