Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,098,418	C→T	A228V (GCC→GTC)	rhaS →	DNA‑binding transcriptional activator RhaS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,098,418	0	C	T	100.0%	140.7 / NA	39	A228V (GCC→GTC)	rhaS	DNA‑binding transcriptional activator RhaS
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (25/14);  total (25/14)

GTACGCTACATCGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGCCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGACAGTAACCACT  >  NC_000913/4098340‑4098495                                                                               |                                                                              gTACGCTACATCGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGtcc                                                                             >  2:760880/1‑81 (MQ=255) gTACGCTACATCGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGtcc                                                                             >  2:760882/1‑81 (MQ=255)      cTACATCGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACAt                                                                        <  2:760839/81‑1 (MQ=255)        aCATCGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCt                                                                      >  1:760914/1‑81 (MQ=255)         cATCGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCt                                                                      <  1:760841/80‑1 (MQ=255)           tCGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCt                                                                   <  2:760841/81‑1 (MQ=255)            cGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTa                                                                  >  2:760898/1‑81 (MQ=255)             ggCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTAc                                                                 >  1:760919/1‑81 (MQ=255)                aGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTActc                                                               >  2:760890/1‑78 (MQ=255)                             aaCGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAg                                                 <  2:760842/81‑1 (MQ=255)                                gggACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAGAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGt                                              >  1:760909/1‑81 (MQ=255)                                 ggACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGt                                              >  2:760887/1‑80 (MQ=255)                                  gACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTa                                            >  1:760898/1‑81 (MQ=255)                                   aCTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTAc                                           >  2:760911/1‑81 (MQ=255)                                      gACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGa                                        >  1:760896/1‑81 (MQ=255)                                      gACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGa                                        >  1:760903/1‑81 (MQ=255)                                       aCGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGa                                        >  1:760902/1‑80 (MQ=255)                                        cGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACa                                      >  1:760908/1‑81 (MQ=255)                                        cGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACa                                      >  1:760927/1‑81 (MQ=255)                                         gCCTCAGCGATACCTGAACCGCCTGCGACTGGTGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACAt                                     <  2:760843/81‑1 (MQ=255)                                           cTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCg                                   >  2:760909/1‑81 (MQ=255)                                             cAGCGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGcc                                 >  1:760901/1‑81 (MQ=255)                                                cGATACCTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTAt                              <  1:760845/81‑1 (MQ=255)                                                     ccTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCtg                         >  1:760920/1‑81 (MQ=255)                                                     ccTGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCt                          <  1:760846/80‑1 (MQ=255)                                                       tGAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCtgtg                       >  1:760897/1‑81 (MQ=255)                                                        gAACCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCtgtg                       >  1:760895/1‑80 (MQ=255)                                                         aaCCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTgg                      <  1:760847/80‑1 (MQ=255)                                                          aCCGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGAt                    >  2:760914/1‑81 (MQ=255)                                                            cGCCTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTc                  <  2:760847/81‑1 (MQ=255)                                                              ccTGCGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAg                <  2:760848/81‑1 (MQ=255)                                                                  cGACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCg              <  2:760849/79‑1 (MQ=255)                                                                   gACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGa             >  1:760924/1‑79 (MQ=255)                                                                   gACTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGa             >  2:760905/1‑79 (MQ=255)                                                                    aCTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGTCAg          >  2:760915/1‑81 (MQ=255)                                                                     cTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGACAg          >  1:760922/1‑80 (MQ=255)                                                                     cTGATGAAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGACAGt         <  2:760850/81‑1 (MQ=255)                                                                      tgatgaAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGACAGt         >  2:760904/1‑80 (MQ=255)                                                                         tgaAAGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGACAGTAAc      >  2:760928/1‑80 (MQ=255)                                                                            aaGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGACAGTAACCACt  <  2:760852/81‑1 (MQ=255)                                                                            aaGTCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGACAGTAACCACt  <  2:760851/81‑1 (MQ=255)                                                                               |                                                                              GTACGCTACATCGGCAGCTTAAGCAGCAAACGGGACTGACGCCTCAGCGATACCTGAACCGCCTGCGACTGATGAAAGCCCGACATCTGCTACGCCACAGCGAGGCCAGCGTTACTGACATCGCCTATCGCTGTGGATTCAGCGACAGTAACCACT  >  NC_000913/4098340‑4098495

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑