Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,438,548	T→C	V200A (GTG→GCG)	flk →	putative flagella assembly protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,438,548	0	T	C	100.0%	95.4 / NA	29	V200A (GTG→GCG)	flk	putative flagella assembly protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/13);  total (16/13)

GCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGTGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAAC  >  NC_000913/2438419‑2438673                                                                                                                                  |                                                                                                                              gcgAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCACACAGATCTGGCAATCGATGCTGGCACTTTCCGGGGCGAAAGAttg                                                                                                                      >  2:552362/1‑137 (MQ=255) gcgAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATgg                                                                                                                      >  2:1087839/1‑139 (MQ=255)  cgAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACGATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGc                                                                                                                     >  2:237175/1‑139 (MQ=255)     ggCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGACAGATGGCGAg                                                                                                                  >  1:918360/1‑139 (MQ=255)             accgTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTcc                                                                                                          >  2:1023802/1‑139 (MQ=255)                           ccGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTa                                                                                            >  1:875049/1‑139 (MQ=255)                              gcggAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACt                                                                                                 <  1:164450/131‑1 (MQ=255)                              gcggAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACt                                                                                                 >  2:164450/1‑131 (MQ=255)                              gcggAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAAcc                                                                                         <  1:237175/139‑1 (MQ=255)                                        aTGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAACCTGTTTAACCATCTGGTGAc                                                                               <  1:769191/139‑1 (MQ=255)                                        aTGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                               <  1:1023802/139‑1 (MQ=255)                                         tGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGaaa                                                                                                   <  2:894703/118‑1 (MQ=255)                                         tGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGaaa                                                                                                   >  1:894703/1‑118 (MQ=255)                                         tGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAcc                                                                              >  1:285451/1‑139 (MQ=255)                                              tAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCt                                                                         >  2:946915/1‑139 (MQ=255)                                                     gCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGgcg                                                                  <  2:285451/139‑1 (MQ=255)                                                            aCCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                               <  2:40659/119‑1 (MQ=255)                                                            aCCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                               >  1:40659/1‑119 (MQ=255)                                                                                      aCCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACg                                 <  1:552362/139‑1 (MQ=255)                                                                                          aGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCa                                              <  1:827992/122‑1 (MQ=255)                                                                                          aGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCa                                              >  2:827992/1‑122 (MQ=255)                                                                                           gCAAACAGATCTGGCAATCGATGCTGGCACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGa                            <  2:875049/139‑1 (MQ=255)                                                                                                                 gCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTaaaa      <  1:108280/139‑1 (MQ=255)                                                                                                                  cTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAATCTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAaac     >  2:802793/1‑139 (MQ=255)                                                                                                                  cTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAaac     <  1:562271/139‑1 (MQ=255)                                                                                                                  cTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAaac     >  2:562271/1‑139 (MQ=255)                                                                                                                     gAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACATGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAaacaac  >  2:650707/1‑139 (MQ=255)                                                                                                                          ttCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                               >  1:56716/1‑57 (MQ=255)                                                                                                                          ttCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                               <  2:56716/57‑1 (MQ=255)                                                                                                                                  |                                                                                                                              GCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGTGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAAC  >  NC_000913/2438419‑2438673

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑