Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,021,501	G→A	*138* (TAG→TAA)	fliN →	flagellar motor switching and energizing component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,021,501	0	G	A	100.0%	116.2 / NA	37	*138* (TAG→TAA)	fliN	flagellar motor switching and energizing component
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (18/19);  total (18/19)

AACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAGTGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAA  >  NC_000913/2021371‑2021623                                                                                                                                   |                                                                                                                           aaCCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                    <  2:174403/139‑1 (MQ=255)            atTCTGATCAACGGTTAATTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCTGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTAc                                                                                                         >  2:502215/1‑139 (MQ=255)                    cAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAAt                                                                                                 >  1:672507/1‑139 (MQ=255)                       cGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCt                                                                                                           >  2:309230/1‑126 (MQ=255)                       cGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCt                                                                                                           <  1:309230/126‑1 (MQ=255)                          ttATTTAATCGCCCAGGGTGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcg                                                                                           >  1:384338/1‑139 (MQ=255)                            aTTTAATCGCCCAGGGTGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgcg                                                                                         <  2:384338/139‑1 (MQ=255)                               tAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCg                                                                                      >  2:281708/1‑139 (MQ=255)                                   cGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGttt                                                                                  >  1:575271/1‑139 (MQ=255)                                   cGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGttt                                                                                  <  2:575271/139‑1 (MQ=255)                                                  ggtggtCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCActgc                                                                   <  2:672507/139‑1 (MQ=255)                                                       tCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCac                                                              <  1:502215/139‑2 (MQ=255)                                                                     tatGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACt                                                >  2:295712/1‑139 (MQ=255)                                                                      atGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTc                                               <  1:295712/139‑1 (MQ=255)                                                                       tGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCa                                              >  2:222232/1‑139 (MQ=255)                                                                        ggCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCAt                                             <  1:656452/139‑1 (MQ=255)                                                                         gCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATc                                            >  2:307715/1‑139 (MQ=255)                                                                            tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGcc                                         >  2:189283/1‑139 (MQ=255)                                                                                gATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                     <  2:16724/139‑1 (MQ=255)                                                                                    aCCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGc                                 <  1:307715/139‑1 (MQ=255)                                                                                           tCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATc                          >  1:271219/1‑139 (MQ=255)                                                                                               tACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCg                      <  2:271219/139‑1 (MQ=255)                                                                                                 cTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAgcggcg                                                    >  2:147524/1‑107 (MQ=255)                                                                                                 cTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACGGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAgcggcg                                                    <  1:147524/107‑1 (MQ=255)                                                                                                      tCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgatga                                                                                                                      <  2:717450/36‑1 (MQ=255)                                                                                                      tCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgatga                                                                                                                      >  1:717450/1‑36 (MQ=255)                                                                                                      tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                    <  1:709793/38‑1 (MQ=255)                                                                                                      tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                    >  2:709793/1‑38 (MQ=255)                                                                                                      tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGTAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGCGCGGCGCACTCATCGCCatta                                     >  1:671525/1‑117 (MQ=255)                                                                                                      tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCAc                                                                      <  2:267882/84‑1 (MQ=255)                                                                                                      tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCAc                                                                      >  1:267882/1‑84 (MQ=255)                                                                                                      tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                     <  2:671525/117‑1 (MQ=255)                                                                                                       cTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCa                                                                                                               >  2:42967/1‑42 (MQ=255)                                                                                                       cTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCa                                                                                                               <  1:42967/42‑1 (MQ=255)                                                                                                           gCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCctggc          <  1:21450/139‑1 (MQ=255)                                                                                                                tGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTa     >  1:671143/1‑139 (MQ=255)                                                                                                                   gccgccTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTaaaa  <  2:589488/139‑1 (MQ=255)                                                                                                                                   |                                                                                                                           AACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAGTGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAA  >  NC_000913/2021371‑2021623

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑