Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,796,755	G→A	S259S (TCG→TCA)	waaC →	ADP‑heptose:LPS heptosyltransferase 1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,796,755	0	G	A	100.0%	44.8 / NA	15	S259S (TCG→TCA)	waaC	ADP‑heptose:LPS heptosyltransferase 1
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (4/11);  total (4/11)

GGCGAATATGCCGTATTTCTTCATGCGACGACCCGTGATGATAAACACTGGCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCGGTGGATACGGGGTTAAGCCATTTAACGGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCAACCGAT‑CCGGGATTAATTGGTGGGTATGGGAAGAATCAGATGGTATGTAGGGCTCCAAGA  >  NC_000913/3796510‑3796881                                                                                                                                                                                                                                                      |                                                                                                                                ggCGAATATGCCGTATTTCTTCATGCGACGACCCGTGATGATAAACACTGGCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTgg                                                                                                                             <  1:417850/250‑1 (MQ=255)             gtatgtcctcATGCGACGACCCGTGATGGTAAACACTGGCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCGGATTCAGGGATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAATCGACTGGCGGAAGGAGTTGCTTATGTTGAAGTGTGGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCCTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAg                                                                                                                <  1:207475/243‑1 (MQ=255)                              gacCCGTGATGATAAACACTGGCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCAc                                                                                               <  1:388341/251‑1 (MQ=255)                                        gatAAACACTGGTCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAAGACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTAGTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGCGGCTAAATTGGTAGTGTCAGTGGATACGGGGTTAAGCCATTGATCAGCGGCACGGTATAGAc                                                                                      <  2:51684/250‑1 (MQ=255)                                           aaaCACTGGCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCa                                                                                   >  1:79314/1‑250 (MQ=255)                                                cTGGCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATc                                                                              >  2:283719/1‑250 (MQ=255)                                                  ggCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATCACg                                                                           <  1:283797/251‑1 (MQ=255)                                                                                       ggCTGAGTTAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGGCTGGCGGAAGGATTTGCTTATGTTGAAGTATGGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCTACCGAT‑CCGGGATTAATtggtgg                                       <  1:288267/249‑1 (MQ=255)                                                                                            aTTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCTACCGAT‑CCGGGATTAATTGGTGGGTATggg                                >  1:109764/1‑251 (MQ=255)                                                                                              tCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCTACCGAT‑CCGGGATTAATTGGTGGGTATGGga                               <  2:109764/250‑1 (MQ=255)                                                                                                       cGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCTACCGAT‑CCGGGATTAATTGGTGGGTATGGGAAGAATCAGAt                     <  1:283719/251‑1 (MQ=255)                                                                                                        ggATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGAGTTGCTTATGTTGAAGTAGTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAAGTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATCACGGTGTATGGACCTACCGAT‑CCGGGATTAATTGGGGGTTATGGGAAGAATCAGATg                    <  2:174758/251‑1 (MQ=255)                                                                                                           ttAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCTACCGAT‑CCGGGATTAATTGGTGGGTATGGGAAGAATCAGATGGtt                 >  1:280539/1‑250 (MQ=255)                                                                                                              aaCTTCCGTGGGGCGCGCCGCATGAGGAAGAACTGGCGATACGACTGGCGGAAGGATTTGCGTATGTTGAAGTATTGGCTAAGATGAGTCTGGAAGTCGTTGCTCGCGTGCTGTCCGGGGCTAAATTTGGAGTTTCAGTGGATACGGGGTTAGGCCCTTTAACGGCGGCAATGGATGGTGTCAATATCTCGGTTTATTGTACTAG‑GATTCCGGGATTAATTGATGGGTATGGGAAGAATCAGATGGTTTGt              <  1:175282/251‑1 (MQ=255)                                                                                                                          gcgcgaCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCAGTGGATACGGGGTTAAGCCATTTAACAGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCTACCGAT‑CCGGGATTAATTGGTGGGTATGGGAAGAATCAGATGGTTTGTAGGGCTccgggg  <  2:149413/251‑5 (MQ=255)                                                                                                                                                                                                                                                      |                                                                                                                                GGCGAATATGCCGTATTTCTTCATGCGACGACCCGTGATGATAAACACTGGCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCGGTGGATACGGGGTTAAGCCATTTAACGGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCAACCGAT‑CCGGGATTAATTGGTGGGTATGGGAAGAATCAGATGGTATGTAGGGCTCCAAGA  >  NC_000913/3796510‑3796881

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: ‑