Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,976,605	T→C	F110L (TTT→CTT)	wzxE →	O‑antigen translocase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,976,605	0	T	C	100.0%	167.3 / NA	46	F110L (TTT→CTT)	wzxE	O‑antigen translocase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (22/24);  total (22/24)

TGATAATCCGCAACAGCTGCGCCGCGTGGTCGGCACTTCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGTTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGCAACCTGTTACTGGCGCTGATGAAAGGCTTTCGCGATGCCGCAGGTAATGCGTT  >  NC_000913/3976487‑3976726                                                                                                                       |                                                                                                                          tGACAATCCGCAACAGCTGCGCCGCGTGGTCGGCACTTCATCTGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAg                                                                                                       >  1:984895/1‑139 (MQ=255)      aTCCGCAACAGCTGCGCCGCGTGGTCGGCACTTCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTa                                                                                                                     <  2:620535/120‑1 (MQ=255)      aTCCGCAACAGCTGCGCCGCGTGGTCGGCACTTCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTa                                                                                                                     >  1:620535/1‑120 (MQ=255)           cAACAGCTGCGCCGCGTGGTCGGCACTTCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGc                                                                                             >  1:969519/1‑139 (MQ=255)                 cTGCGCCGCGTGGTCGGCACTTCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGTAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAg                                                                                       <  2:984895/139‑1 (MQ=255)                            ggTCGGCACTTCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTg                                                                            <  2:279634/139‑1 (MQ=255)                                     ttCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTg                                                                                                 >  1:727974/1‑109 (MQ=255)                                     ttCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTg                                                                                                 <  2:727974/109‑1 (MQ=255)                                     ttCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATgggg                                                                   <  2:969519/139‑1 (MQ=255)                                                 ggTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAgg                                                                                                      >  2:490890/1‑92 (MQ=255)                                                 ggTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAgg                                                                                                      <  1:490890/92‑1 (MQ=255)                                                 ggTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTg                                                                            >  1:1297861/1‑118 (MQ=255)                                                 ggTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTg                                                                            <  2:1297861/118‑1 (MQ=255)                                                 ggTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGc                                                       <  1:95323/139‑1 (MQ=255)                                                     cTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGa                                                                                                              >  2:724498/1‑80 (MQ=255)                                                     cTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGa                                                                                                              <  1:724498/80‑1 (MQ=255)                                                        ggTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGCAACCTGt                                                >  2:695589/1‑139 (MQ=255)                                                             ctctACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGt                                                                                               >  2:361483/1‑87 (MQ=255)                                                             ctctACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGt                                                                                               <  1:361483/87‑1 (MQ=255)                                                                  cGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATc                                                                                                         <  2:1471166/72‑1 (MQ=255)                                                                  cGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATc                                                                                                         >  1:1471166/1‑72 (MQ=255)                                                                       aTGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTg                                                                                                 >  2:325554/1‑75 (MQ=255)                                                                       aTGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTg                                                                                                 <  1:325554/75‑1 (MQ=255)                                                                       aTGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTg                                                                            <  1:355453/96‑1 (MQ=255)                                                                       aTGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTg                                                                            <  1:968725/96‑1 (MQ=255)                                                                       aTGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTg                                                                            >  2:355453/1‑96 (MQ=255)                                                                       aTGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTg                                                                            >  2:968725/1‑96 (MQ=255)                                                                        tGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATAc                                                                                                                 >  2:41326/1‑58 (MQ=255)                                                                        tGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATAc                                                                                                                 <  1:41326/58‑1 (MQ=255)                                                                        tGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTg                                                                                     >  1:1360/1‑86 (MQ=255)                                                                        tGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTg                                                                                     <  2:1360/86‑1 (MQ=255)                                                                        tGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGc                                                       <  2:999744/116‑1 (MQ=255)                                                                        tGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGc                                                       >  1:999744/1‑116 (MQ=255)                                                                             cTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCaaa                                                                        >  2:1480130/1‑94 (MQ=255)                                                                             cTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCaaa                                                                        <  1:1480130/94‑1 (MQ=255)                                                                             cTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGc                                                              <  2:1004942/104‑1 (MQ=255)                                                                             cTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGc                                                              >  1:1004942/1‑104 (MQ=255)                                                                                     tgtgCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGCaa                                                     >  2:1347894/1‑105 (MQ=255)                                                                                     tgtgCTGGCAGCTGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGCaa                                                     <  1:1347894/105‑1 (MQ=255)                                                                                         cTGGCAGCTGCTCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGCAACCTGTTACTGGCGCTGATGAAAGGCTTTCGCGATGCCg               <  1:976328/139‑1 (MQ=255)                                                                                                 tGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTgg                                                                              >  2:696932/1‑68 (MQ=255)                                                                                                 tGCGCCAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTgg                                                                              <  1:696932/68‑1 (MQ=255)                                                                                                     ccAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGgcg                                                                                  >  1:768449/1‑60 (MQ=255)                                                                                                     ccAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGgcg                                                                                  <  2:768449/60‑1 (MQ=255)                                                                                                      cAATCAGCCAGGGATTGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGCAACCTGTTACTGGCGCTGATGAAAGGCTTTCGCGATGCCGCAGGTAATGCGtt  <  1:695589/139‑1 (MQ=255)                                                                                                                    ttGCTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCt                                                                                >  1:467949/1‑47 (MQ=255)                                                                                                                       |                                                                                                                          TGATAATCCGCAACAGCTGCGCCGCGTGGTCGGCACTTCATCAGCGATGGTACTTGGTTTCTCTACGCTGATGGCGCTGGTTTTTGTGCTGGCAGCTGCGCCAATCAGCCAGGGATTGTTTGGTAATACCGACTATCAGGGGCTGGTGCGTTTAGTGGCGCTGGTGCAAATGGGGATCGCCTGGGGCAACCTGTTACTGGCGCTGATGAAAGGCTTTCGCGATGCCGCAGGTAATGCGTT  >  NC_000913/3976487‑3976726

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑