Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,012,809	T→C	N69S (AAC→AGC)	fliE ←	flagellar basal‑body protein FliE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,012,809	0	T	C	100.0%	165.0 / NA	48	N69S (AAC→AGC)	fliE	flagellar basal‑body protein FliE
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (24/24);  total (24/24)

TAATTAACAACAGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTGCGGCAGTGATTCCT  >  NC_000913/2012677‑2012944                                                                                                                                     |                                                                                                                                        tAATTAACAACAGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAacgc                                                                                                                                  >  1:149316/1‑140 (MQ=255)    ttAACAACAGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAacgccac                                                                                                                               <  1:32520/140‑1 (MQ=255)        caacaGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCg                                                                                                                           >  1:230559/1‑140 (MQ=255)              gTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCa                                                                                                                     >  1:836355/1‑140 (MQ=255)                        cTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGa                                                                                                           >  1:588391/1‑140 (MQ=255)                          acacCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAAt                                                                                                         >  2:283719/1‑140 (MQ=255)                              cTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAAttttt                                                                                                     <  2:129241/140‑1 (MQ=255)                                 cATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTctg                                                                                                  >  2:409032/1‑140 (MQ=255)                                 cATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTctg                                                                                                  >  2:6521/1‑140 (MQ=255)                                        atcaCTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCtgcgt                                                                                           <  1:409032/140‑1 (MQ=255)                                        atcaCTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCtgcgt                                                                                           >  1:254882/1‑140 (MQ=255)                                        atcaCTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCtgcgt                                                                                           >  1:222076/1‑140 (MQ=255)                                              tCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGc                                                                                     <  2:743821/140‑1 (MQ=255)                                              tCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGc                                                                                     <  2:230559/140‑1 (MQ=255)                                                cTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAg                                                                                   <  2:588391/140‑1 (MQ=255)                                                cTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAg                                                                                   <  2:801394/140‑1 (MQ=255)                                                 tGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGc                                                                                  <  2:836355/140‑1 (MQ=255)                                                    tACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGTCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGt                                                                               <  2:484934/140‑1 (MQ=255)                                                    tACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGc                                                                                  >  1:420573/1‑137 (MQ=255)                                                    tACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGc                                                                                  <  2:420573/137‑1 (MQ=255)                                                      cgccgcCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGttt                                                                             <  1:283719/140‑1 (MQ=255)                                                       gccgccACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGc                                                                                     <  2:981945/131‑1 (MQ=255)                                                       gccgccACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGc                                                                                     >  1:981945/1‑131 (MQ=255)                                                         cgccACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCGCATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGtt                                                                              <  2:748779/136‑1 (MQ=255)                                                         cgccACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGtt                                                                              >  1:748779/1‑136 (MQ=255)                                                         cgccACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTtgtg                                                                          <  2:78469/140‑1 (MQ=255)                                                         cgccACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTtgtg                                                                          <  1:465707/140‑1 (MQ=255)                                                         cgccACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTtgtg                                                                          >  2:465707/1‑140 (MQ=255)                                                             accaGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATc                                                                      <  2:149316/140‑1 (MQ=255)                                                                       taCGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGa                                                            >  1:328331/1‑140 (MQ=255)                                                                                gAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGcgcg                                                   <  2:979013/140‑1 (MQ=255)                                                                                 aaTCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCgcgg                                                  >  2:313995/1‑140 (MQ=255)                                                                                 aaTCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCgcgg                                                  >  1:572899/1‑140 (MQ=255)                                                                                              aTAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGccc                                     >  2:475090/1‑140 (MQ=255)                                                                                                    aCTGAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCTCCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGTCGTTCAGCTGCCCGGCaaa                               <  1:337244/140‑1 (MQ=255)                                                                                                       gAGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACt                            >  2:281398/1‑140 (MQ=255)                                                                                                        aGGCTTTTTGCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTa                           >  1:936322/1‑140 (MQ=255)                                                                                                                 gCATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGt                  <  2:634207/140‑1 (MQ=255)                                                                                                                  cATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCaa                                <  2:327614/125‑1 (MQ=255)                                                                                                                  cATATCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCaa                                >  1:327614/1‑125 (MQ=255)                                                                                                                   atatCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTg                <  2:222076/140‑1 (MQ=255)                                                                                                                     atCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTGCg              >  1:675906/1‑140 (MQ=255)                                                                                                                     atCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTGCg              <  2:254882/140‑1 (MQ=255)                                                                                                                     atCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTGCg              <  1:313995/140‑1 (MQ=255)                                                                                                                      tCGGTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTGCgg             <  1:475090/140‑1 (MQ=255)                                                                                                                         gTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATgg                       <  1:592715/127‑1 (MQ=255)                                                                                                                         gTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATgg                       >  2:592715/1‑127 (MQ=255)                                                                                                                         gTCATCACATCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTGCGGCAg          >  1:357375/1‑140 (MQ=255)                                                                                                                                 aTCGCTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTGCGGCAGTGATTCCt  >  2:384457/1‑140 (MQ=255)                                                                                                                                     |                                                                                                                                        TAATTAACAACAGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAACGCCACGCCGGGTTCACCGAGAGTGAATTTTTCTGCCTGCGTGCGGGCAGCTGTTTGTGTATCACTAATGCGATCGAGCGCGGCGTGCAGCTGCCCGGCAAAACTAATGGTCGGTTGCGGCAGTGATTCCT  >  NC_000913/2012677‑2012944

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: ‑