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%	194.4 / NA	60	*90* (TAG→TAA)	fliQ	flagellar biosynthesis protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (31/29);  total (31/29)

CGAAATGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAGCCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGG  >  NC_000913/2022750‑2023016                                                                                                                                        |                                                                                                                                    cGAAATGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCg                                                                                                                                  <  1:57533/139‑1 (MQ=255)        aCGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATg                                                                                                                           >  2:1136044/1‑139 (MQ=255)                        cGAAAATCATCGCCGTATTTATCGCCATTATTATTGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCg                                                                                                           >  1:657495/1‑139 (MQ=255)                        cGAAAATCATCGCCGTATTTATCGCCATTATTATTGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCg                                                                                                           >  1:660769/1‑139 (MQ=255)                          aaaaTCATCGCCGTATTTATCGCCATTATTATTGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGaa                                                                                                         >  1:1335836/1‑139 (MQ=255)                                          ttATCGCCATTATTATTGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                         <  1:1631628/139‑1 (MQ=255)                                             tCGCCATTATTATTGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                        >  2:714823/1‑121 (MQ=255)                                             tCGCCATTATTATTGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                        <  1:714823/121‑1 (MQ=255)                                               gCCATTATTATTGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAAc                                                                                    >  1:1703253/1‑139 (MQ=255)                                                    tattattGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTg                                                                                                                        <  2:442754/98‑1 (MQ=255)                                                    tattattGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTg                                                                                                                        >  1:442754/1‑98 (MQ=255)                                                         ttGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAg                                                                                                             <  2:457331/104‑1 (MQ=255)                                                         ttGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAg                                                                                                             >  1:457331/1‑104 (MQ=255)                                                         ttGCTGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCt                                                                          <  1:687143/139‑1 (MQ=255)                                                               gACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                              <  2:48779/113‑1 (MQ=255)                                                               gACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                              >  1:48779/1‑113 (MQ=255)                                                               gACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGt                                                                    <  2:660769/139‑1 (MQ=255)                                                               gACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGt                                                                    >  1:297415/1‑139 (MQ=255)                                                                    tGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                        >  2:144013/1‑98 (MQ=255)                                                                    tGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                        <  1:144013/98‑1 (MQ=255)                                                                    tGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTg                                                               >  1:623204/1‑139 (MQ=255)                                                                      gATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTgcg                                                             <  2:297415/139‑1 (MQ=255)                                                                           tCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTCTCCTGGTTAAAACTGTACTTCTGGCCGTTACTGCGCGTGc                                                        >  2:1099830/1‑139 (MQ=255)                                                                           tCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTaa                                                                                      <  2:1303822/109‑1 (MQ=255)                                                                           tCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTaa                                                                                      >  1:1303822/1‑109 (MQ=255)                                                                              aTCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTgg                                                     <  1:1136044/139‑1 (MQ=255)                                                                                         gATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                        >  1:166766/1‑77 (MQ=255)                                                                                         gATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                        <  2:166766/77‑1 (MQ=255)                                                                                         gATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTcc                                          >  1:1062697/1‑139 (MQ=255)                                                                                           ttACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                         <  1:1695893/90‑1 (MQ=255)                                                                                           ttACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                         >  2:1695893/1‑90 (MQ=255)                                                                                                 ccGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGcc                                  <  2:1703253/139‑1 (MQ=255)                                                                                                    cACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                   <  2:755806/71‑1 (MQ=255)                                                                                                    cACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                   >  1:755806/1‑71 (MQ=255)                                                                                                         tGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                   <  2:482299/66‑1 (MQ=255)                                                                                                         tGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                   >  1:482299/1‑66 (MQ=255)                                                                                                         tGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGa                          >  2:1666280/1‑139 (MQ=255)                                                                                                          gTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                   >  2:908930/1‑113 (MQ=255)                                                                                                          gTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                   <  1:908930/113‑1 (MQ=255)                                                                                                             cACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAACCCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGa                      <  2:657495/139‑1 (MQ=255)                                                                                                               cTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTa                                                                  >  2:825958/1‑93 (MQ=255)                                                                                                               cTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTa                                                                  <  1:825958/93‑1 (MQ=255)                                                                                                                 aaCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAGGCGAACAATgc                                                                                                   >  1:510398/1‑57 (MQ=255)                                                                                                                 aaCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                   <  2:510398/58‑1 (MQ=255)                                                                                                                 aaCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACtt                                                                            >  2:135997/1‑81 (MQ=255)                                                                                                                 aaCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACtt                                                                            <  1:135997/81‑1 (MQ=255)                                                                                                                     tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                   >  1:1196764/1‑102 (MQ=255)                                                                                                                     tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                   <  2:1196764/102‑1 (MQ=255)                                                                                                                     tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGc               >  2:1693065/1‑138 (MQ=255)                                                                                                                     tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGc               <  1:1693065/138‑1 (MQ=255)                                                                                                                            tatCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAGCCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGaa       <  2:1062697/139‑1 (MQ=255)                                                                                                                                 tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                   <  2:1622602/42‑1 (MQ=255)                                                                                                                                 tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                   >  1:1622602/1‑42 (MQ=255)                                                                                                                                 tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTc                             >  2:506361/1‑112 (MQ=255)                                                                                                                                 tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTc                             <  1:506361/112‑1 (MQ=255)                                                                                                                                 tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCa                 <  1:218464/124‑1 (MQ=255)                                                                                                                                 tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCa                 >  2:218464/1‑124 (MQ=255)                                                                                                                                 tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACggg  >  2:628533/1‑139 (MQ=255)                                                                                                                                    ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGc                                                        <  1:1323580/82‑1 (MQ=255)                                                                                                                                    ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGc                                                        >  2:1323580/1‑82 (MQ=255)                                                                                                                                        |                                                                                                                                    CGAAATGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAGCCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGG  >  NC_000913/2022750‑2023016

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑