Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,022,606	G→A	*246* (TAG→TAA)	fliP →	flagellar biosynthesis protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,022,606	0	G	A	100.0%	188.1 / NA	58	*246* (TAG→TAA)	fliP	flagellar biosynthesis protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (27/31);  total (27/31)

GCGTGTTGATGGCATTGGGGATGATGATGGTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAGAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCTTATCATCAGTATTTTGCAGGCCGCCACG  >  NC_000913/2022473‑2022741                                                                                                                                      |                                                                                                                                        gCGTGTTGATGGCATTGGGGATGATGATGGTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAgg                                                                                                                                    >  2:1628530/1‑139 (MQ=255)             cATTGGGGATGATGATGGTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACAcc                                                                                                                        <  2:1441675/139‑1 (MQ=255)                        attattgTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCa                                                                                                             <  2:721810/133‑1 (MQ=255)                        atgatgGTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAAt                                                                                                                   <  2:1413380/133‑1 (MQ=255)                        atgatgGTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAAt                                                                                                                   >  1:1413380/1‑133 (MQ=255)                           atgGTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCatga                                                                                                          >  1:1311829/1‑139 (MQ=255)                            tgGTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAAAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCatgat                                                                                                         >  2:289354/1‑139 (MQ=255)                                  ccccAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATggg                                                                                                   >  2:1292940/1‑139 (MQ=255)                                  ccccAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATggg                                                                                                   <  2:1402501/139‑1 (MQ=255)                                  ccccAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATggg                                                                                                   >  1:1402501/1‑139 (MQ=255)                                                gCTCTGCACTTTAAACTGAAGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGCCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGCGACTGAAGCGATGa                                                                                     >  2:331386/1‑139 (MQ=255)                                                 ctctGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCa                                                                                                             >  1:70109/1‑114 (MQ=255)                                                 ctctGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCa                                                                                                             <  2:70109/114‑1 (MQ=255)                                                  tctGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCatgatgat                                                                                                      >  1:1116470/1‑120 (MQ=255)                                                  tctGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCatgatgat                                                                                                      <  2:1116470/120‑1 (MQ=255)                                                   ctGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAg                                                                                  >  2:1638723/1‑139 (MQ=255)                                                      cccTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATggg                                                                                                   <  1:1034837/119‑1 (MQ=255)                                                      cccTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGATTGAAGCGATGAAAGTcg                                                                               >  2:455035/1‑139 (MQ=255)                                                      cccTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTcg                                                                               >  2:215178/1‑139 (MQ=255)                                                      cccTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTcg                                                                               >  1:1370122/1‑139 (MQ=255)                                                      cccTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTcg                                                                               >  1:549017/1‑139 (MQ=255)                                                      accTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATggg                                                                                                   >  2:1034837/2‑119 (MQ=255)                                                                      tGTTTGTACTGGTGGATGGCTGGGAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGc                                                               <  1:948852/139‑1 (MQ=255)                                                                          tGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCg                                                           <  1:1628530/139‑1 (MQ=255)                                                                          tGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAAAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCg                                                           <  1:289354/139‑1 (MQ=255)                                                                            tACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCt                                                         >  2:538450/1‑139 (MQ=255)                                                                            tACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCt                                                         >  1:1323987/1‑139 (MQ=255)                                                                            tACTGGTGGATGGCTGGCAATTGCTGGGCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCt                                                         <  1:769786/139‑1 (MQ=255)                                                                               tggtggATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTAtt                                                      <  2:549017/139‑1 (MQ=255)                                                                               tggtggATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTAtt                                                      <  1:215178/139‑1 (MQ=255)                                                                                ggtggATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCAc                                                                      >  1:846054/1‑122 (MQ=255)                                                                                ggtggATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCAc                                                                      <  2:846054/122‑1 (MQ=255)                                                                                 gtggATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTAttgt                                                    >  2:259071/1‑139 (MQ=255)                                                                                  tggATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTAttgtt                                                   >  2:1459357/1‑139 (MQ=255)                                                                                    gATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTgg                                                 <  1:521123/139‑1 (MQ=255)                                                                                      tggctggcAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAAt                                                                                                                   >  1:1142773/1‑71 (MQ=255)                                                                                      tggctggcAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAAt                                                                                                                   <  2:1142773/71‑1 (MQ=255)                                                                                      tggctggcAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTa                                               >  2:32744/1‑139 (MQ=255)                                                                                           ggcAATTGTTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGtt                                          >  2:889160/1‑139 (MQ=255)                                                                                           ggcAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGt                                                                                                               <  1:395809/70‑1 (MQ=255)                                                                                           ggcAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGt                                                                                                               >  2:395809/1‑70 (MQ=255)                                                                                                ttGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCa                                     <  1:32744/139‑1 (MQ=255)                                                                                                ttGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCa                                     <  1:1638723/139‑1 (MQ=255)                                                                                                 tGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCAc                                    <  1:1651003/139‑1 (MQ=255)                                                                                                  gCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACg                                   <  2:1311829/139‑1 (MQ=255)                                                                                                      gTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAACTGACAACTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGcc                               <  2:1370122/139‑1 (MQ=255)                                                                                                      gTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGACGCAAAATGACTCCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAACTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGcc                               >  1:1055152/1‑139 (MQ=255)                                                                                                        cGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCtt                             <  2:285257/139‑1 (MQ=255)                                                                                                        cGGTTCGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCtt                             <  2:1323987/139‑1 (MQ=255)                                                                                                             cGCTGGCGCAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCTTatcat                        <  1:17801/139‑1 (MQ=255)                                                                                                                     cAGAGCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCTTATCATCAGTAttt                >  1:1071464/1‑139 (MQ=255)                                                                                                                        agCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGt                                           >  1:61791/1‑109 (MQ=255)                                                                                                                        agCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGt                                           <  2:61791/109‑1 (MQ=255)                                                                                                                         gCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCTTATCATCAGTATTTTGCa            <  1:1459357/139‑1 (MQ=255)                                                                                                                         gCTTTTACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCCTATCATCAGTATTTTGCa            <  2:918080/139‑1 (MQ=255)                                                                                                                              tACAGCTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCTTATCATCAGTATTTTGCAGgccg       <  2:1055152/139‑1 (MQ=255)                                                                                                                                   cTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCTTATCATCAGTATTTTGCAGGCCGCCACg  <  1:889160/139‑1 (MQ=255)                                                                                                                                   cTAAAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCTTATCATCAGTATTTTGCAGGCCGCCACg  <  1:722926/139‑1 (MQ=255)                                                                                                                                      |                                                                                                                                        GCGTGTTGATGGCATTGGGGATGATGATGGTTCCCCCAGCCACCATTGCTCTGCCCTTTAAACTGATGCTGTTTGTACTGGTGGATGGCTGGCAATTGCTGGTCGGTTCGCTGGCGCAGAGCTTTTACAGCTAGAGAGGCAAAATGACACCTGAATCGGTCATGATGATGGGGACTGAAGCGATGAAAGTCGCGCTGGCACTGGCTGCCCCGCTATTGTTGGTAGCGTTGGTCACGGGCCTTATCATCAGTATTTTGCAGGCCGCCACG  >  NC_000913/2022473‑2022741

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑