Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006881	2,198,389	A→G	I198I (ATT→ATC)	U712_11015 ←	Chemotaxis protein methyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	2,198,389	0	A	G	100.0%	192.4 / NA	60	I198I (ATT→ATC)	U712_11015	Chemotaxis protein methyltransferase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (31/29);  total (31/29)

AATTTCTCCGGATTGAAGATTTGCTCGGTGCTGCCGACAAATAGGACTCCATTCTTTTTCAAGCTATGTGCCATTTTTAAATAAAGCTCTTCCTTGGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACAATTAAGTCAAAGTCTTGTTCATAACGATCAGCCAGTAGATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGCTTTTACTTCATAACTTCTATTTGCATTTTGAGTAAAATAACGATCCTTCACAGATGAA  >  CP006881/2198255‑2198524                                                                                                                                       |                                                                                                                                        aaTTTCTCGGGATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGAtt                                                                                                                                      >  5:108278/1‑138 (MQ=255)      ctcGGGATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTACATTCTTCTTCAAGCTATGTGCCAGTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTc                                                                                                                                 >  7:8559/1‑138 (MQ=255)         gggATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCa                                                                                                                                <  2:26750/135‑1 (MQ=255)           gATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTc                                                                                                                           <  2:347858/139‑1 (MQ=255)           gATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTc                                                                                                                           <  3:115067/139‑1 (MQ=255)           gATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTc                                                                                                                           <  2:39613/139‑1 (MQ=255)           gATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTc                                                                                                                           <  2:105339/139‑1 (MQ=255)           gATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTc                                                                                                                           <  5:421213/139‑1 (MQ=255)                aaGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGtt                                                                                                                      >  1:133478/1‑139 (MQ=255)                aaGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGt                                                                                                                       <  1:253269/138‑1 (MQ=255)                     ttGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATaa                                                                                                                 >  7:125756/1‑139 (MQ=255)                     ttGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATaa                                                                                                                 >  3:305137/1‑139 (MQ=255)                      tGCTCGGTGCTGCCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATaa                                                                                                                 <  8:125756/138‑1 (MQ=255)                              gctgcCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATTCAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGcc                                                                                                        <  7:112268/139‑1 (MQ=255)                               ctgcCGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCa                                                                                                       <  7:239346/139‑1 (MQ=255)                                  ccGACAAAAAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAgc                                                                                                     >  1:60363/1‑137 (MQ=255)                                     aCAAAAAGAACTCCATTCTTCATCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAgcaaat                                                                                                 >  6:114764/1‑134 (MQ=255)                                       aaaaAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATtg                                                                                               >  1:151721/1‑139 (MQ=255)                                       aaaaAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATtg                                                                                               >  7:137227/1‑139 (MQ=255)                                       aaaaAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATtg                                                                                               >  3:111693/1‑139 (MQ=255)                                       aaaaAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATtg                                                                                               >  2:442834/1‑139 (MQ=255)                                       aaaaAGAACTCCATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTAATAACGATCCGCCAGCAAATtg                                                                                               >  5:254012/1‑139 (MQ=255)                                       aaaaAGAACTCCAATCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTACTTCGCGCTTTATGTAAAATAAATAAATACATAGAGGCACAAGATTAAGTAAAACTCTTGTTCAAAAAGATCCGCCAGCAAATtg                                                                                               >  7:2940/1‑139 (MQ=255)                                                  cATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACTCGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGa                                                                                     <  8:123737/138‑1 (MQ=255)                                                  cATTCTTCTTCAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGa                                                                                     <  8:201869/138‑1 (MQ=255)                                                          atCAAGCTATGTGCGATTTTTTAATACCGCGCTTCCTTGGCGCTTTCTGTTAAATAATTAATTTCATTGCGGCACAGGATTAAGGCTAAGTCTAGTTCTTAAAGATCCGCCAGAAAATTTTGATTATTGAATGtattat                                                                            >  2:345789/2‑139 (MQ=255)                                                            cAAGCTATGTGCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTc                                                                          >  8:254042/1‑139 (MQ=255)                                                                   tgtgCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGa                                                                   >  3:71555/1‑139 (MQ=255)                                                                   tgtgCCATTTTTAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGa                                                                   >  5:19195/1‑139 (MQ=255)                                                                           ttttAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGTCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCgtt                                                           >  6:68061/1‑137 (MQ=255)                                                                           ttttAAATACAGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCgtt                                                           >  8:306419/1‑137 (MQ=255)                                                                              taaatacaGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGtttt                                                         <  8:2940/138‑1 (MQ=255)                                                                              taaatacaGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGtttt                                                         <  1:442834/138‑1 (MQ=255)                                                                              taaatacaGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGtttt                                                         <  7:306419/138‑1 (MQ=255)                                                                              taaatacaGCTCTTCCTTCGCGCCTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGtttt                                                         <  5:114764/138‑1 (MQ=255)                                                                              taaatacaGCTCTTACTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGGTTTTTGAATGTAATATTCTTTTTGATTTCCGtttt                                                         <  1:252732/138‑1 (MQ=255)                                                                                aatacaGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGttttca                                                       <  4:71555/138‑3 (MQ=255)                                                                                  tacaGCTCTTACTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACtt                                                    <  2:81286/136‑1 (MQ=255)                                                                                     aGCTCTTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCAt                                                 <  2:406119/139‑1 (MQ=255)                                                                                       ctctTCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATaa                                               >  4:71972/1‑139 (MQ=255)                                                                                       ctctTCCTTCGCGCTTTCTGTAAAATAAATAAATAAATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTATTTAATGTAATATTCTTTTTGATATCCGTTTTCACTTCATa                                                >  5:243376/1‑138 (MQ=255)                                                                                          ttCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAAc                                              <  6:108278/137‑1 (MQ=255)                                                                                          ttCCTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACtt                                            >  4:57383/1‑139 (MQ=255)                                                                                            ccTTCGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTc                                           >  5:223715/1‑138 (MQ=255)                                                                                               tcgcgcTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTc                                                                                                                           >  1:410950/3‑55 (MQ=255)                                                                                               tcgcgcTTTCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTc                                                                                                                           <  2:410950/53‑1 (MQ=255)                                                                                                       tCTGTAAAATAAATAAATACATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGtttt                               >  3:337826/1‑139 (MQ=255)                                                                                                                  aataaataCATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATaa                    <  6:223715/139‑1 (MQ=255)                                                                                                                  aataaataCATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATaa                    <  3:71972/139‑1 (MQ=255)                                                                                                                    taaataCATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACg                  <  7:346063/139‑1 (MQ=255)                                                                                                                      aataCATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGAt                <  4:305137/139‑1 (MQ=255)                                                                                                                      aataCATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGAt                <  8:137227/139‑1 (MQ=255)                                                                                                                          cATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGCTCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCttt            >  8:103588/1‑139 (MQ=255)                                                                                                                          cATTGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCttt            <  2:60363/139‑1 (MQ=255)                                                                                                                             tGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCTTTca          >  5:71533/1‑138 (MQ=255)                                                                                                                             tGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCTTTca          >  8:169309/1‑138 (MQ=255)                                                                                                                             tGCGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCTTTca          >  3:60538/1‑138 (MQ=255)                                                                                                                             tGCGGCACACGATTAAGTCAAAGGCTTGTTCATAACGATCCGCCAGCAAATTGTGATTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCTTTca          >  4:72123/1‑138 (MQ=255)                                                                                                                               cGGCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCTTTca          >  3:98203/1‑136 (MQ=255)                                                                                                                                ggCACACGATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCTTTCACAGa      <  4:337826/139‑1 (MQ=255)                                                                                                                                  cacacgATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATAGTGCTTTTTCAATGTATTATTCTTTTTGATTTCCGTTTTCACTTCATACCTACTATTTGCGTTTTGCG‑AAAATAACGATCTTTCACAGAtag   >  3:276149/1‑137 (MQ=255)                                                                                                                                    cacgATTAAGTCAAAGTCTTGTTCATAACGATCCGCCAGCAAATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGTTTTCACTTCATAACTTCTATTTGCGTTTTGCGTAAAATAACGATCTTTCACAGAtagc  >  6:25971/1‑136 (MQ=255)                                                                                                                                       |                                                                                                                                        AATTTCTCCGGATTGAAGATTTGCTCGGTGCTGCCGACAAATAGGACTCCATTCTTTTTCAAGCTATGTGCCATTTTTAAATAAAGCTCTTCCTTGGCGCTTTCTGTAAAATAAATAAATACATTGCGGCACACAATTAAGTCAAAGTCTTGTTCATAACGATCAGCCAGTAGATTGTGCTTTTTGAATGTAATATTCTTTTTGATTTCCGCTTTTACTTCATAACTTCTATTTGCATTTTGAGTAAAATAACGATCCTTCACAGATGAA  >  CP006881/2198255‑2198524

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑