Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,964,697	G→A	L118L (CTC→CTT)	flhA ←	putative flagellar export pore protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,964,697	0	G	A	100.0%	142.3 / NA	44	L118L (CTC→CTT)	flhA	putative flagellar export pore protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (24/20);  total (24/20)

GGCATACCATCGAGAACAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACGAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAAACAACAG  >  NC_000913/1964569‑1964819                                                                                                                                 |                                                                                                                           ggCATACCATCGAGAACAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGAc                                                                                                                  >  2:254395/1‑139 (MQ=255)         aTCGAGAACAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCt                                                                                                          >  1:603947/1‑139 (MQ=255)               aaCAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGacc                                                                                                    <  1:1270582/139‑1 (MQ=255)                    aGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCtt                                                                                               >  1:651087/1‑139 (MQ=255)                        cgcACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCt                                                                                           >  1:582159/1‑139 (MQ=255)                                    tGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcg                                                                               <  1:1406250/139‑1 (MQ=255)                                     gCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcgc                                                                              <  1:1457242/139‑1 (MQ=255)                                       gATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcgccg                                                                            <  2:651087/139‑1 (MQ=255)                                                     cTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCAt                                                              <  2:603947/139‑1 (MQ=255)                                                      tttGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCcgccgccgc                                                                                >  2:1321312/1‑120 (MQ=255)                                                      tttGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCcgccgccgc                                                                                <  1:1321312/120‑1 (MQ=255)                                                         ggTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTaaa                                                          <  1:254395/139‑1 (MQ=255)                                                                aCCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATAc                                                   >  2:294002/1‑139 (MQ=255)                                                                 ccATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACg                                                  >  2:1295175/1‑139 (MQ=255)                                                                  cATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACgg                                                 >  2:1596283/1‑139 (MQ=255)                                                                   aTAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACggg                                                <  1:1256644/139‑1 (MQ=255)                                                                         ttGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAg                                          >  2:1370743/1‑139 (MQ=255)                                                                          tgatgaTCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGc                                         >  2:877179/1‑139 (MQ=255)                                                                            atgatCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGac                                                                                                     <  2:677229/77‑1 (MQ=255)                                                                            atgatCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGac                                                                                                     >  1:677229/1‑77 (MQ=255)                                                                                tCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGtt                                   <  1:1295175/139‑1 (MQ=255)                                                                                      gaATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGa                                                                                                                        <  1:194727/48‑1 (MQ=255)                                                                                      gaATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGa                                                                                                                        >  2:194727/1‑48 (MQ=255)                                                                                         tGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcgc                                                                              >  1:1367331/1‑87 (MQ=255)                                                                                         tGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcgc                                                                              <  2:1367331/87‑1 (MQ=255)                                                                                           aCAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGacc                                                                                                    >  2:976594/1‑63 (MQ=255)                                                                                           aCAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGacc                                                                                                    <  1:976594/63‑1 (MQ=255)                                                                                            cAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGa                                                                                                               >  2:21614/1‑51 (MQ=255)                                                                                            cAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGa                                                                                                               <  1:21614/51‑1 (MQ=255)                                                                                                   cacGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCtt                                                                                                         >  2:1129138/1‑50 (MQ=255)                                                                                                   cacGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCtt                                                                                                         <  1:1129138/50‑1 (MQ=255)                                                                                                   cacGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGc                >  1:339271/1‑139 (MQ=255)                                                                                                     cGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATa                                                    >  2:197298/1‑101 (MQ=255)                                                                                                     cGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATa                                                    <  1:197298/101‑1 (MQ=255)                                                                                                     cGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGt              >  1:14636/1‑139 (MQ=255)                                                                                                     cGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGt              >  2:791433/1‑139 (MQ=255)                                                                                                         aCCGATAGCGAAATTGCCACCAACAAGGAAGCGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTa          <  1:791433/139‑1 (MQ=255)                                                                                                             aTAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCg                                                                                                       <  1:490208/42‑1 (MQ=255)                                                                                                             aTAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCg                                                                                                       >  2:490208/1‑42 (MQ=255)                                                                                                             aTAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCAt                                                              >  1:1144361/1‑83 (MQ=255)                                                                                                             aTAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCAt                                                              <  2:1144361/83‑1 (MQ=255)                                                                                                                gCGAAATTGCCACCAACAAGGAAGTGACCGAACGCt                                                                                                          <  1:316316/36‑1 (MQ=255)                                                                                                                gCGAAATTGCCACCAACAAGGAAGTGACCGAACGCt                                                                                                          >  2:316316/1‑36 (MQ=255)                                                                                                                 cGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAAACAACAg  >  2:1162201/1‑139 (MQ=255)                                                                                                                                 |                                                                                                                           GGCATACCATCGAGAACAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACGAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAAACAACAG  >  NC_000913/1964569‑1964819

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑