Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,969,741	C→T	A35V (GCG→GTG)	wzxE →	lipid III flippase WzxE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,969,741	0	C	T	100.0%	76.0 / NA	22	A35V (GCG→GTG)	wzxE	lipid III flippase WzxE
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (10/12);  total (10/12)

CTTTTCCTGATATGTCGTTGGCAAAAGCGTCCTTGTGGACGGCGGCCAGTACACTGGTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGCGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACGTTGCCCAGTACCATGATAATCCGCAACAGCTGCGCC  >  NZ_CP009273/3969627‑3969869                                                                                                                   |                                                                                                                                 ctTTTCCTGATATGTCGTTGGCAAAAGCGTCCTTGTGGACGGCGGCCAGTACACTGGTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAAttt                                                                                                          >  1:42774/1‑139 (MQ=255)       cTGATATGTCGTTGGCAAAAGCGTCCTTGTGGACGGCGGCCAGTACACTGGTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCa                                                                                                    <  2:202700/139‑1 (MQ=255)                                      gACGGCGGCCAGTACACTGGTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCggg                                                                     >  2:353143/1‑139 (MQ=255)                                         ggcggcCAGTACACTGGTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTTCGCCAGTTGATTAACGTGCGCGGCGTGCTTGGCGGGGCt                                                                  >  1:222392/1‑139 (MQ=255)                                                        ggTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGgt                                                   >  1:238253/1‑139 (MQ=255)                                                        ggTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGgt                                                   >  1:193847/1‑139 (MQ=255)                                                         gTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGgtg                                                  >  1:250101/1‑139 (MQ=255)                                                                   gTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCg                                                                                   >  2:70855/1‑96 (MQ=255)                                                                   gTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCg                                                                                   <  1:70855/96‑1 (MQ=255)                                                                   gTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATa                                        >  1:243709/1‑139 (MQ=255)                                                                      ccGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACg                                      <  1:275520/138‑1 (MQ=255)                                                                      ccGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACg                                      <  2:474294/138‑1 (MQ=255)                                                                      ccGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACg                                      <  2:467869/138‑1 (MQ=255)                                                                      ccGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACg                                      <  2:250101/138‑1 (MQ=255)                                                                        gggTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACGTTg                                   <  2:266946/139‑1 (MQ=255)                                                                          gTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACGTTGcc                                 <  1:353143/139‑1 (MQ=255)                                                                           ttACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACGTTGccc                                <  2:42774/139‑1 (MQ=255)                                                                                                gCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGgt                                                   <  2:306941/99‑1 (MQ=255)                                                                                                gCGGTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGgt                                                   >  1:306941/1‑99 (MQ=255)                                                                                                  ggTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGc                                                               <  1:44240/85‑1 (MQ=255)                                                                                                  ggTGTCATTTGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGGGCTCGGCGTGCTTGCCGGGGCTGGc                                                               >  2:44240/1‑85 (MQ=255)                                                                                                         tttGGTCCGGTGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACGTTGCCCAGTACCATGATAATCCGCAACAGCTGcgcc  <  2:46909/139‑1 (MQ=255)                                                                                                                   |                                                                                                                                 CTTTTCCTGATATGTCGTTGGCAAAAGCGTCCTTGTGGACGGCGGCCAGTACACTGGTCAAGATTGGTGCCGGGTTACTGGTCGGTAAGTTGCTGGCGGTGTCATTTGGTCCGGCGGGGCTTGGGCTGGCGGCAAATTTCCGCCAGTTGATTACCGTGCTCGGCGTGCTTGCCGGGGCTGGCATCTTTAACGGTGTAACCAAATACGTTGCCCAGTACCATGATAATCCGCAACAGCTGCGCC  >  NZ_CP009273/3969627‑3969869

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑