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%	200.7 / NA	62	*138* (TAG→TAA)	fliN	flagellar motor switching and energizing component
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (37/25);  total (37/25)

GGCGAACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAGTGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAA  >  NC_000913/2021367‑2021621                                                                                                                                       |                                                                                                                         ggcgAACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgat                                                                                                                      >  1:199520/1‑139 (MQ=255)                    tGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACtgtg                                                                                                   >  2:723198/1‑139 (MQ=255)                     gATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGc                                                                                                  >  1:431248/1‑139 (MQ=255)                     gATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGc                                                                                                  >  2:772237/1‑139 (MQ=255)                      aTCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCa                                                                                                 <  1:772237/139‑1 (MQ=255)                       tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgatga                                                                                                                    <  2:1237013/119‑1 (MQ=255)                       tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgatga                                                                                                                    <  2:1535698/119‑1 (MQ=255)                       tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgatga                                                                                                                    >  1:1237013/1‑119 (MQ=255)                       tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgatga                                                                                                                    >  1:1535698/1‑119 (MQ=255)                       tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCaa                                                                                                >  2:166343/1‑139 (MQ=255)                                aTTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgcg                                                                                       >  1:269927/1‑139 (MQ=255)                                     aTCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGt                                                                                  >  2:570999/1‑139 (MQ=255)                                        gCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCtt                                                                                            >  1:1218578/1‑126 (MQ=255)                                        gCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCtt                                                                                            <  2:1218578/126‑1 (MQ=255)                                        gCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTc                                                                               <  2:269927/139‑1 (MQ=255)                                        gCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTc                                                                               >  1:1440639/1‑139 (MQ=255)                                                   aGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCAc                                                                    <  1:1126208/139‑1 (MQ=255)                                                   aGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATACGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgc                                                                                        >  1:123207/1‑119 (MQ=255)                                                   aGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATACGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgc                                                                                        <  2:123207/119‑1 (MQ=255)                                                        tggtCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCActgctg                                                               >  1:1214033/1‑139 (MQ=255)                                                               tGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGa                                                        >  1:263222/1‑139 (MQ=255)                                                                     tAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGcc                                                                      <  2:416717/119‑1 (MQ=255)                                                                     tAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGcc                                                                      >  1:416717/1‑119 (MQ=255)                                                                           tGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAg                                                       >  1:41341/1‑128 (MQ=255)                                                                           tGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAg                                                       <  2:41341/128‑1 (MQ=255)                                                                           tGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCa                                            >  1:311637/1‑139 (MQ=255)                                                                            ggCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCAt                                           <  2:431248/139‑1 (MQ=255)                                                                                tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGcc                                       >  1:1126370/1‑139 (MQ=255)                                                                                  cGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTcc                                                                                          >  2:948115/1‑86 (MQ=255)                                                                                  cGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTcc                                                                                          <  1:948115/86‑1 (MQ=255)                                                                                   ggATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTctgc                                                                            <  2:532374/99‑1 (MQ=255)                                                                                   ggATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTctgc                                                                            >  1:532374/1‑99 (MQ=255)                                                                                               tCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATc                        >  1:618121/1‑139 (MQ=255)                                                                                                 aTTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                  <  2:955808/47‑1 (MQ=255)                                                                                                 aTTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                  >  1:955808/1‑47 (MQ=255)                                                                                                 aTTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgcg                                                                                       <  2:578084/74‑1 (MQ=255)                                                                                                 aTTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgcg                                                                                       >  1:578084/1‑74 (MQ=255)                                                                                                   tACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCa                                                                                                             <  2:501664/50‑1 (MQ=255)                                                                                                   tACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCa                                                                                                             >  1:501664/1‑50 (MQ=255)                                                                                                   tACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCAc                                                                    <  1:1409863/91‑1 (MQ=255)                                                                                                   tACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCAc                                                                    >  2:1409863/1‑91 (MQ=255)                                                                                                        cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACg                                                                                                           <  1:1432379/47‑1 (MQ=255)                                                                                                        cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACg                                                                                                           >  2:1432379/1‑47 (MQ=255)                                                                                                        cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTctgctg                                                                          <  1:358731/80‑1 (MQ=255)                                                                                                        cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTctgctg                                                                          >  2:358731/1‑80 (MQ=255)                                                                                                        cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCa                                                                     <  1:1104409/85‑1 (MQ=255)                                                                                                        cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCa                                                                     >  2:1104409/1‑85 (MQ=255)                                                                                                        cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCgctgct               >  1:1294633/1‑139 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                  >  1:895429/1‑38 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                  <  2:895429/38‑1 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCa                                                                                                             <  2:1268612/43‑1 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCa                                                                                                             >  1:1268612/1‑43 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGt                                                          <  2:1181569/94‑1 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGt                                                          >  1:1181569/1‑94 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCtgctgc             >  2:1440063/1‑139 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCtgctgc             >  1:494875/1‑139 (MQ=255)                                                                                                          tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCtgctgc             >  1:844523/1‑139 (MQ=255)                                                                                                               gCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCctggc        <  2:311637/139‑1 (MQ=255)                                                                                                               gCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCctggc        <  2:844523/139‑1 (MQ=255)                                                                                                                    tGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTa   >  2:1362196/1‑139 (MQ=255)                                                                                                                                gCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTaa  <  2:947706/128‑1 (MQ=255)                                                                                                                                gCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTaa  >  1:947706/1‑128 (MQ=255)                                                                                                                                       |                                                                                                                         GGCGAACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAGTGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAA  >  NC_000913/2021367‑2021621

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑