Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,003,264	C→T	E115K (GAA→AAA)	fliC ←	flagellar filament structural protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,003,264	0	C	T	100.0%	17.4 / NA	10	E115K (GAA→AAA)	fliC	flagellar filament structural protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (4/6);  total (4/6)

TTGTGGTGGTAGCACCAAAAGCAGTTACTGGAGCACTAGTGGTAACTGTATCGTTATTTTTAACGCTAAAACCATCAAGGCCAAGAGTTTTAGCATCAATCTGCTTCAGATCGATAGTGATAGTCTGGTTATCATTTGCGCCAACCTGGATTTTCATGGAGCCATTTTTTGCCAGCACGTTCACGCCGTTGAACTGGGTCTGACCAGATACGCGGTCAATTTCATCCAGACGGGATTTAATTTCGTCCTGGATAGAAGACAGATCAGACTCAGAGTTAGTACCGGTAGTGGCCTGTACCGTCAGTTCACGCACACGCTGTAAGTTGTTGTTGATTTCGGACAGCGCGCCTTCGGTGGTCTGCGCAACGGAGATACCGTCGTTGGCGTTACGGGCCGCCTGAGTCAGGCCTTTAATGTTAGAGGTGAAACGGTTAGCAATCGCCTGACCCGCTGC  >  NC_000913/2003021‑2003474                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                   ttgtGGTGGTAGCACCAAAAGCAGTTACTGGAGCACTAGTGGTAACTGTATCGTTATTTTTAACGCTAAAACCATCAAGGCCAAGAGTTTTAGCATCAATCTGCTTCAGAGCGATAGTGATAGTCTGGTAATCAGTTGCGCCAACCTGGATTTTCATGGAGCCATTTTTTGCCAGCACGTTCACGCCGTTGAACTGTGTCGGACCAGAGACGCGGTCAATGTCATCCAGACGGGATTTAATTTTGTCCTg                                                                                                                                                                                                              <  1:89598/250‑1 (MQ=255)                                                                        ccATCAAGGCCACGAGTTTTAGCATCAATCTGCTTCAGATCGATAGTGATAGTCTGGTTATCCTTTGCGCCAACCTGGATTTTCATGGAGCCATTTTTTGCCAGCACGTTCACGCCGTTGAACTGGGTCTGACCAGATACGCGGTCAATTTCATCCAGACGGGATTTAATTTTGTCCTGGATAGAAGACAGATCAGACTCAGAGTTAGTACCGGTAGTGGCCTGTACCGTCAGTTCACGCACACGATGTa                                                                                                                                       >  1:120324/1‑250 (MQ=255)                                                                                                                       gatagtTTGGTTATCATTTGCGCCATCCTGGATTGTCATGGAGCCAGTTTTTGCCAGCACGTTCACGCCGTTGAACTGGGTGTGACCAGATACGCGGTCAATTTCATCCAGACGGGATTTAATTTTGTCCAGGATAGAAGACAGATCAGACTCAGAGTTAGTACCGGTAGTGGCTTGTTCCGTCAGTTCGCGCACACGCTGGAAGTTGTTGTTGATTTCGGACAGCGCGCCTTCGGTGGTCTGCGCAACg                                                                                        <  1:24356/250‑1 (MQ=255)                                                                                                                             cTGGTTATCATTTGCGCCAAACTGGATTTTCATGGAGCCATTTTTTGCCCGAAAGATCACGCCGTTGAACTGCGTCTGACCAGATACGCGGTCAATTTCATCCAGACGGGATTTAATTTTGTCATGGATAGCAGACAGATCAGGTTACGAGTTAGTACCGATCGTGGCCTGTCCCGCCAGTTCACGCACCCGCTGCAAGTTGTTGTTGATTTCGGACAGCGCGCCTTCggtgggct                                                                                                >  1:173214/1‑233 (MQ=255)                                                                                                                                          gcgcCAACCTGGATTGTCATGGAGCCATTTTTTGCCAGCACGTTCACGCCGTTGAACTGGGTCTGACCAGATACGCGGTCAATTTCATCCATACGGGATTTAATTTTTTCCTGGATAGAAGACAGATCAGACTCAGAGTTAGTACCGGTAGTGGCCTGTCCCGTCAGTTCACGCACACGCTGGAAGTTTTTGTTGATTTCGGACAGCGCGCCTTCGGTGGTCTGCGCAACGTAGATACCGTCGTTGGCGt                                                                     <  1:145155/250‑1 (MQ=255)                                                                                                                                                    ggATTGTCATGGTGCCATTTTTTGCCAGCACGTTCACGCCGTTGAACTGGGTCTGACCAGATACGCGGTCAATTTCATCCAGACGGGATTTAATTTTGTCCTGGATAGAAGACAGATCAGACTCAGAGTTAGTACCTGTAGTGGCCTGTACCGTCAGTTCACGCACACGGTGTAAGTTGTTGGTGATTTCGGACAGCTCGCCTTCGGTGGTCTGCGCAACGGAGATACCGTCGTTGGCGTTACGGgcagcc                                                          <  1:83643/251‑1 (MQ=255)                                                                                                                                                                                cACGTTCACGCCGTTGAACTGGGTATGACCAGCTACGCGGTCAATTTCATCCCGACGGGATTTAATTTTGTCCTGGATAGAAGACACATCAGACTCCGAGTTAGTACCGGTAGTGGCCTGTCCCGTCAGTTCACGCACACGCTGAAAGTTGTTGTTGATTTCGGCCAGCGCGACTTAGGTGGTCTGCGCAACGGAGATACCGTCGTTGGCGTTACGGGCCGCCTGAGTCAGGCCTTTAATGTTAGAGGTg                               >  1:159587/1‑250 (MQ=255)                                                                                                                                                                                                     ggTCTGACCAGATACGCGGTCAATTTCATCCAGACGGGATTTAATTTTGTCCTGGATAGAAGACAGATCAGACTCAGAGTTAGTACCGGTAGTGGCCTGTACCGTCAGTTCACGCACACGCGGTAAGTTGTTGTTTATTTCGGACAGCGCGCCGTCGGTGGTCGGCGCAACGGAGATACCTTCGTCGGTGTGACGGGCCGCGTGAGTCATGCCGTTAATGTTAGAGGTGAAACGGTTAGCAATCGCCTGAc         <  1:69412/251‑1 (MQ=255)                                                                                                                                                                                                                 tACGCGGTCAATTTCATCCAGACGGGATTTAATTTTGTCCTGGATAGAAGACAGATCAGACTCAGAGTTAGTCCCGGTAGTGGCCTGTACCGTCAGTTCACGCACACGCTGTAAGTTGTTGTTGATTTCGGACAGCGCGCCTTCGGTGGTCTGCGCAACGGAGATACCGTCGTTGGCGTTACGGGCCGCCTGAGTCAGGCCTTTAATGTTGGAGGTGAAACGGTTAGCAATCGCCTGACCCGCTGc  <  1:5188/246‑1 (MQ=255)                                                                                                                                                                                                                 tACGCGGTCAATTTCATCCAGACGGGATTTAATTTTGTCCTGGATAGAAGACAGATCAGACTCAGAGTTAGTACCGGTAGTGGCCTGTNNCGTCAGNNc                                                                                                                                                     >  2:5188/1‑99 (MQ=255)                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                   TTGTGGTGGTAGCACCAAAAGCAGTTACTGGAGCACTAGTGGTAACTGTATCGTTATTTTTAACGCTAAAACCATCAAGGCCAAGAGTTTTAGCATCAATCTGCTTCAGATCGATAGTGATAGTCTGGTTATCATTTGCGCCAACCTGGATTTTCATGGAGCCATTTTTTGCCAGCACGTTCACGCCGTTGAACTGGGTCTGACCAGATACGCGGTCAATTTCATCCAGACGGGATTTAATTTCGTCCTGGATAGAAGACAGATCAGACTCAGAGTTAGTACCGGTAGTGGCCTGTACCGTCAGTTCACGCACACGCTGTAAGTTGTTGTTGATTTCGGACAGCGCGCCTTCGGTGGTCTGCGCAACGGAGATACCGTCGTTGGCGTTACGGGCCGCCTGAGTCAGGCCTTTAATGTTAGAGGTGAAACGGTTAGCAATCGCCTGACCCGCTGC  >  NC_000913/2003021‑2003474

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑