Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,022,295	C→T	R143C (CGT→TGT)	fliP →	flagellar biosynthesis protein FliP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,022,295	0	C	T	100.0%	199.9 / NA	57	R143C (CGT→TGT)	fliP	flagellar biosynthesis protein FliP
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/24);  total (33/24)

TTTTTATTATGTCACCGGTGATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCCGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCATTTCAGATAGGCTTCAC  >  NC_000913/2022161‑2022431                                                                                                                                       |                                                                                                                                         tttttATTATTACACCGGTCATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAg                                                                                                                                     >  2:1067316/1‑140 (MQ=255) tttttATTATGTCACCGGTGATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAg                                                                                                                                     >  1:546525/1‑140 (MQ=255)  ttttATTATGTCACCGGTGATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAgg                                                                                                                                    <  2:417710/140‑1 (MQ=255)            tCACCGGTGATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAgg                                                                                                                          >  1:905416/1‑140 (MQ=255)                 ggTGATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGAtt                                                                                                                              <  2:392568/131‑1 (MQ=255)                 ggTGATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGAtt                                                                                                                              >  1:392568/1‑131 (MQ=255)                 ggTGATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGgttgt                                                                                                                     >  2:1073720/1‑140 (MQ=255)                     aTCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGc                                                                                                                 >  2:443825/1‑140 (MQ=255)                          cAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGAc                                                                                                            >  2:843546/1‑140 (MQ=255)                             aaTTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGGTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTgg                                                                                                         >  2:1016655/1‑140 (MQ=255)                              aTTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGc                                                                                                        <  1:123627/140‑1 (MQ=255)                                  aTGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGCGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAAt                                                                                                    >  2:1047195/1‑140 (MQ=255)                                        aTGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCTGACTGGCGAATACCGGc                                                                                              <  1:910545/140‑1 (MQ=255)                                        aTGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGCCTGGCGAATACCGGc                                                                                              <  1:1067316/140‑1 (MQ=255)                                        aTGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGc                                                                                              >  1:751780/1‑140 (MQ=255)                                        aTGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGc                                                                                              >  1:638548/1‑140 (MQ=255)                                         tGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGcc                                                                                             >  2:730996/1‑140 (MQ=255)                                             tACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAGGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGc                                                                                              >  2:166221/1‑135 (MQ=255)                                             tACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAGGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGc                                                                                              <  1:166221/135‑1 (MQ=255)                                              aCCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTg                                                                                        <  1:805679/140‑1 (MQ=255)                                                 aGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAg                                                                                     <  1:843546/140‑1 (MQ=255)                                                   ccATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAg                                                                                     <  1:888543/138‑1 (MQ=255)                                                   ccATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAg                                                                                     >  2:888543/1‑138 (MQ=255)                                                       tCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCt                                                                               >  2:64941/1‑140 (MQ=255)                                                        cAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTg                                                                              <  2:167196/140‑1 (MQ=255)                                                             aaGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGcc                                                                         >  1:21873/1‑140 (MQ=255)                                                                agaAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTg                                                                      >  2:1032690/1‑140 (MQ=255)                                                                        tCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATgcg                                                              <  2:663757/140‑1 (MQ=255)                                                                        tCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATgcg                                                              <  2:905416/140‑1 (MQ=255)                                                                          aaTGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCa                                                            <  2:546525/140‑1 (MQ=255)                                                                            tGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAg                                                                           >  1:949836/1‑123 (MQ=255)                                                                            tGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAg                                                                           <  2:949836/123‑1 (MQ=255)                                                                                ggaggCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGc                                                      >  2:69905/1‑140 (MQ=255)                                                                                ggaggCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGc                                                      >  2:445854/1‑140 (MQ=255)                                                                                 gaggCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCAttt                                                         <  1:1062086/136‑1 (MQ=255)                                                                                 gaggCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGCCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCAttt                                                         >  2:1062086/1‑136 (MQ=255)                                                                                     cgcTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCg                                                 <  2:714203/140‑1 (MQ=255)                                                                                      gcTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCAttt                                                         <  1:518346/131‑1 (MQ=255)                                                                                      gcTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCAttt                                                         >  2:518346/1‑131 (MQ=255)                                                                                      gcTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCgg                                                >  2:593386/1‑140 (MQ=255)                                                                                      gcTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGA‑TTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTcc                                                   >  2:45505/1‑136 (MQ=255)                                                                                      gcTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGA‑TTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTcc                                                   <  1:45505/136‑1 (MQ=255)                                                                                       cTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGc                                               >  2:483882/1‑140 (MQ=255)                                                                                                    cgcAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGc                                  >  2:962257/1‑140 (MQ=255)                                                                                                      cAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGa                                >  2:591626/1‑140 (MQ=255)                                                                                                           gCTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGa                           >  2:73306/1‑140 (MQ=255)                                                                                                            cTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCa                                    <  1:111464/130‑1 (MQ=255)                                                                                                            cTGCGTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCa                                    >  2:111464/1‑130 (MQ=255)                                                                                                                gTGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAAcc                      <  2:620313/140‑1 (MQ=255)                                                                                                                 tGAGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCg                     <  1:443825/140‑1 (MQ=255)                                                                                                                   aGTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCa                   >  1:898383/1‑140 (MQ=255)                                                                                                                    gTTTATGCTGCGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCAt                  <  1:445854/140‑1 (MQ=255)                                                                                                                         tgctgcGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCATTTCAg             <  2:966097/140‑1 (MQ=255)                                                                                                                              cGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCATTTCAGATAgg        >  1:468091/1‑140 (MQ=255)                                                                                                                              cGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCATTTCAGATAgg        >  1:934508/1‑140 (MQ=255)                                                                                                                              cGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCATTTCAGATAgg        >  2:766103/1‑140 (MQ=255)                                                                                                                              cGTCAGACCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCATTTCAGATAgg        >  1:579819/1‑140 (MQ=255)                                                                                                                                    aCCTGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCATTTCAGATAGGCTTCAc  <  2:638548/140‑1 (MQ=255)                                                                                                                                       |                                                                                                                                         TTTTTATTATGTCACCGGTGATCGACAAAATTTATGTAGATGCGTACCAGCCATTCAGCGAAGAGAAAATATCAATGCAGGAGGCGCTGGAAAAAGGGGCGCAGCCGCTGCGTGAGTTTATGCTGCGTCAGACCCGTGAGGCAGATTTAGGGTTGTTTGCCAGACTGGCGAATACCGGCCCGTTGCAGGGACCTGAAGCCGTGCCGATGCGCATTTTGCTCCCGGCCTACGTGACCAGCGAGTTGAAAACCGCATTTCAGATAGGCTTCAC  >  NC_000913/2022161‑2022431

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑