Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,022,885	G→A	*90* (TAG→TAA)	fliQ →	flagellar biosynthesis protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,022,885	0	G	A	100.0%	158.7 / NA	50	*90* (TAG→TAA)	fliQ	flagellar biosynthesis protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (25/25);  total (25/25)

AATGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAGCCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTAA  >  NC_000913/2022753‑2023019                                                                                                                                     |                                                                                                                                       aaTGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTAc                                                                                                                                  <  2:40417/139‑1 (MQ=255)   tGACGCTGTCGTTTATTCCGTAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTa                                                                                                                                >  1:471893/1‑139 (MQ=255)   tGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTa                                                                                                                                >  1:111041/1‑139 (MQ=255)     aCGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGCTAACCGTACTATg                                                                                                                              >  2:203759/1‑139 (MQ=255)       gCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGtt                                                                                                                            >  1:73471/1‑139 (MQ=255)                tATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGAc                                                                                                                   >  1:213058/1‑139 (MQ=255)                     cGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCg                                                                                                              <  2:269673/139‑1 (MQ=255)                       aaaaTCCTCGCCGTAATTATCGCCATTATTATTGCCGGATCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTAACTCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGaa                                                                                                            >  2:499352/1‑139 (MQ=255)                       aaaaTCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCg                                                                                                                                     >  2:462059/1‑114 (MQ=255)                       aaaaTCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCg                                                                                                                                     <  1:462059/114‑1 (MQ=255)                         aaTCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACa                                                                                                          <  2:473463/139‑1 (MQ=255)                                  cGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 <  2:798544/139‑1 (MQ=255)                                  cGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 <  2:213058/139‑1 (MQ=255)                                            gCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCg                                                                                                                                     >  1:21225/1‑93 (MQ=255)                                            gCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCg                                                                                                                                     <  2:21225/93‑1 (MQ=255)                                                ttattattGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGt                                                                                   >  1:5242/1‑139 (MQ=255)                                                ttattattGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGAGACAAGCGAACAATGGCTATCCTGGTTAAACCTGt                                                                                   >  2:486169/1‑139 (MQ=255)                                                    tattGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACtt                                                                               <  2:73471/139‑1 (MQ=255)                                                                 tGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                            <  1:188148/113‑1 (MQ=255)                                                                 tGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                            >  2:188148/1‑113 (MQ=255)                                                                   gATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTgcg                                                                <  1:486169/139‑1 (MQ=255)                                                                     tGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGcgcg                                                              <  2:158418/139‑1 (MQ=255)                                                                      gCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCTTACTATGTTg                                                                                                                           <  2:334061/77‑1 (MQ=255)                                                                      gCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTg                                                                                                                           >  1:334061/1‑77 (MQ=255)                                                                       cTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTg                                                            >  2:591309/1‑139 (MQ=255)                                                                        tCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGc                                                           <  2:471893/139‑1 (MQ=255)                                                                             cTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                      <  2:559283/139‑1 (MQ=255)                                                                                ttGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTg                                                   >  1:507769/1‑139 (MQ=255)                                                                                  gCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTg                                                                                                                           <  2:607636/65‑1 (MQ=255)                                                                                  gCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTg                                                                                                                           >  1:607636/1‑65 (MQ=255)                                                                                        ttACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCAc                                           <  2:111041/139‑1 (MQ=255)                                                                                                gCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                            >  1:454841/1‑82 (MQ=255)                                                                                                gCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                            <  2:454841/82‑1 (MQ=255)                                                                                                gCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGc                                                           <  2:346971/115‑1 (MQ=255)                                                                                                gCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGc                                                           >  1:346971/1‑115 (MQ=255)                                                                                                gCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGa                                   >  1:147366/1‑139 (MQ=255)                                                                                                gCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGa                                   >  1:762948/1‑139 (MQ=255)                                                                                                gCACCTTGTTCACTAACCTGCCCTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTg                                                                            <  1:87461/98‑1 (MQ=255)                                                                                                gCACCTTGTTCACTAACCTGCCATATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTg                                                                            >  2:87461/1‑98 (MQ=255)                                                                                                   ccTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTc                                <  2:5242/139‑1 (MQ=255)                                                                                                        ttCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGTGc                           <  1:109860/139‑1 (MQ=255)                                                                                                             tAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACg                      <  2:762948/139‑1 (MQ=255)                                                                                                               aCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCa                    <  2:646433/139‑1 (MQ=255)                                                                                                                ccTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTc                                >  2:639995/1‑126 (MQ=255)                                                                                                                ccTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTc                                <  1:639995/126‑1 (MQ=255)                                                                                                                  tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTggtg                                                      >  2:164173/1‑100 (MQ=255)                                                                                                                  tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                      <  1:164173/102‑1 (MQ=255)                                                                                                                  tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCg                 >  1:25758/1‑139 (MQ=255)                                                                                                                         tatCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGaa          >  2:437058/1‑139 (MQ=255)                                                                                                                                 ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTaa  >  2:597611/1‑139 (MQ=255)                                                                                                                                     |                                                                                                                                       AATGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAGCCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTAA  >  NC_000913/2022753‑2023019

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑