Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,138,831	C→T	R152C (CGC→TGC)	flgK →	flagellar hook‑filament junction protein 1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,138,831	0	C	T	100.0%	68.0 / NA	23	R152C (CGC→TGC)	flgK	flagellar hook‑filament junction protein 1
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (10/13);  total (10/13)

GCTATGAGCAGATGTCGAAAATCGACAATATGCTCTCCACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGCGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACTGGTGAGCGAATTAAACCAGATTGTTGGTGTAGAAGTCAGCGTTCAGGATGGCGGCACTTATAACATCACGATGGCCAATGGT  >  NC_000913/1138640‑1139073                                                                                                                                                                                                |                                                                                                                                                                                                                                                   gCTATGAGCAGATGTCGAAAATCGACAATATGCTCTCAACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCaccaac                                                                                                                                                                                         >  2:158523/1‑251 (MQ=255)  cTATGAGCAGATGTCGAAAATCGACAATATGCTCTCCACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACt                                                                                                                                                                                        >  2:5194/1‑251 (MQ=255)       aGCAGATGTCGAAAATCGACAATATGCTCTCCACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCt                                                                                                                                                                                   <  2:117209/251‑1 (MQ=255)                          cAATATGCTCTCCACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTg                                                                                                                                                                 >  1:99334/1‑250 (MQ=255)                                 ctctCCACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAACCTGCAAACGCTGGTGAGTAACGAGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATAAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGACCGATc                                                                                                                                                          >  1:123481/1‑250 (MQ=255)                                      caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAAtct                                                                                                                                                    >  2:142061/1‑251 (MQ=255)                                                   tCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGAc                                                                                                                                          <  2:65138/248‑1 (MQ=255)                                                        ggCAACACAGATGCAGGATTGCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTTATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCTATAGGTGCCAGCGTTGATCATATCAACAACTACTCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTgg                                                                                                                                  <  1:108279/251‑1 (MQ=255)                                                                    gCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGCTTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATATCGCGCCTGACAGGCGTGGGGGCAGGGGCGt                                                                                                                      >  2:39404/1‑251 (MQ=255)                                                                                        tgcaaacaatgaagAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCCGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGAGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGac                                                                                                  >  2:174510/14‑250 (MQ=255)                                                                                         gCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCTCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGAt                                                                                                  <  2:203229/250‑1 (MQ=255)                                                                                                  ggTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATc                                                                                        <  1:261437/251‑1 (MQ=255)                                                                                                      aGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACt                                                                                    <  1:123974/251‑1 (MQ=255)                                                                                                               gAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACTGGTGAGCGa                                                                           <  1:75753/251‑1 (MQ=255)                                                                                                                            cgcgcCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTGAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATAGCGCGATAGGTGCCAGCGTTGATCAGAACACCAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACTGGTGAGCGAATTAAACCAGAtt                                                              <  2:105306/251‑1 (MQ=255)                                                                                                                                      gcTGATTGGGAAATCAGAATGATTGGTGAAGCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGGTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGTCGTCACCTAACAATCTGCTGGATCAACTCGATCAACTGGTGAGCGAATTAAACCAGATTGTTGGTGTAg                                                    <  1:156997/251‑1 (MQ=255)                                                                                                                                         gATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACTGGTGAGCGAATTAAACCAGATTGTTGGTGTAGAAg                                                 <  1:142061/251‑1 (MQ=255)                                                                                                                                                 aaTCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGAGAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCGAACAATCTGCTGGATCAACGCGATCAACGGGTGAGCGAATTAAACCAGATTGTTGGGGTATAAGTCAGCGtt                                         <  2:27437/251‑1 (MQ=255)                                                                                                                                                       aaGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGGCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACTGGTGAGCGAATTAAACCAGATTGTTGGTGTAGAAGTCAGCGTTCAGGAt                                   <  1:17771/251‑1 (MQ=255)                                                                                                                                                                   aTCAGTTTAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACTGGTGAGCGAATTAAACCAGATTGTTGGTGTAGAAGTCAGCGTTCAGGATGGCGGCACTtat                       >  2:5794/1‑251 (MQ=255)                                                                                                                                                                        tttAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAg                                                                                                                            >  1:71492/1‑145 (MQ=255)                                                                                                                                                                        tttAAAACCACCGATCAATATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAg                                                                                                                            <  2:71492/145‑1 (MQ=255)                                                                                                                                                                                        aaTATCTGTGCGACCAGGACAAACAGGTCAATATCGCGATAGGAGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACTGGGGAGCGAATTAAACCAGATTGTTGGTGTAGACGTCAGCGTTCAGGATGGCGGCACTTATAACATCACGGTGGCCAATGGt  >  2:223757/1‑251 (MQ=255)                                                                                                                                                                                                |                                                                                                                                                                                                                                                   GCTATGAGCAGATGTCGAAAATCGACAATATGCTCTCCACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCTGCAAACGCTGGTGAGTAACGCGGAAGACCCGGCAGCGCGCCAGGCGCTGATTGGGAAATCAGAAGGATTGGTGAATCAGTTTAAAACCACCGATCAATATCTGCGCGACCAGGACAAACAGGTCAATATCGCGATAGGTGCCAGCGTTGATCAGATCAACAACTACGCTAAACAAATTGCCAGCCTGAACGATCAAATCTCGCGCCTGACAGGCGTGGGGGCAGGGGCGTCACCTAACAATCTGCTGGATCAACGCGATCAACTGGTGAGCGAATTAAACCAGATTGTTGGTGTAGAAGTCAGCGTTCAGGATGGCGGCACTTATAACATCACGATGGCCAATGGT  >  NC_000913/1138640‑1139073

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑