Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,380,696	(A)8→7	intergenic (‑53/+26)	menF ← / ← elaB	isochorismate synthase MenF/tail anchored inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,380,689	0	A	.	100.0%	196.0 / NA	46	intergenic (‑46/+33)	menF/elaB	isochorismate synthase MenF/tail anchored inner membrane protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (30/16);  total (30/16)

AAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACAAAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATAAACT  >  NC_000913/2380550‑2380824                                                                                                                                            |                                                                                                                                        aaGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACa                                                                                                                                         >  1:1213918/1‑140 (MQ=255)  aGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaa                                                                                                                                        >  1:359045/1‑140 (MQ=255)    gAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACagaa                                                                                                                                      <  1:136154/140‑1 (MQ=255)       tatCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaa                                                                                                                                   >  2:814186/1‑140 (MQ=255)        atCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaat                                                                                                                                  >  2:424986/1‑139 (MQ=255)         tCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaatg                                                                                                                                 <  2:1183266/140‑3 (MQ=255)         tCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaatg                                                                                                                                 >  1:742451/1‑138 (MQ=255)           gATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaatgca                                                                                                                               <  1:725797/140‑5 (MQ=255)            aTAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaatgca                                                                                                                               >  2:185645/1‑135 (MQ=255)            aTAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaatgca                                                                                                                               <  1:185645/139‑5 (MQ=255)            aTAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaatg                                                                                                                                 <  1:927689/137‑3 (MQ=255)            aTAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACaaaaaaatg                                                                                                                                 >  2:927689/1‑135 (MQ=255)            aTAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAg                                                                                                                             >  2:53744/1‑140 (MQ=255)              aaCCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTa                                                                                                                           <  1:424986/140‑1 (MQ=255)                cccGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTAcc                                                                                                                         >  2:80347/1‑140 (MQ=255)                 ccGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTAccc                                                                                                                        <  1:893570/140‑1 (MQ=255)                 ccGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTAccc                                                                                                                        <  2:850471/140‑1 (MQ=255)                     aTGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGgt                                                                                                                    >  1:494072/1‑140 (MQ=255)                            gtgtCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGa                                                                                                             <  1:416668/140‑1 (MQ=255)                            gtgtCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGa                                                                                                             >  1:646086/1‑140 (MQ=255)                               tCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGt                                                                                                          >  2:687540/1‑140 (MQ=255)                                        tctcTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGAACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGc                                                                                                 >  2:873236/1‑140 (MQ=255)                                             tGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGcc                                                                                            >  1:41482/1‑140 (MQ=255)                                                 aCAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCa                                                                                        >  2:373612/1‑140 (MQ=255)                                                   aaaTGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAAc                                                                                      <  1:53744/140‑1 (MQ=255)                                                    aaTGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACa                                                                                     <  2:360751/140‑1 (MQ=255)                                                                   tttCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGcc                                                                      >  1:874511/1‑140 (MQ=255)                                                                        aGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACg                                                                 >  2:1210402/1‑140 (MQ=255)                                                                          cgcCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGc                                                               <  1:373612/140‑1 (MQ=255)                                                                          cgcCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACACCGGTGTAGGGAGGCTTTAACGGCGTGCCACCAACAGTCCTAGTACCAGCCCAACGGc                                                               >  1:443000/1‑140 (MQ=255)                                                                           gcCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGcc                                                              >  1:1034393/1‑140 (MQ=255)                                                                           gcCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGcc                                                              <  2:359045/140‑1 (MQ=255)                                                                            ccGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCcg                                                             <  1:812199/140‑1 (MQ=255)                                                                                agtaAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGcc                                                         <  2:889557/140‑1 (MQ=255)                                                                                        aTTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCaa                                                 >  1:197235/1‑140 (MQ=255)                                                                                         ttGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAAt                                                >  2:801026/1‑140 (MQ=255)                                                                                         ttGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAAt                                                >  1:843890/1‑140 (MQ=255)                                                                                          tGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAAtt                                               <  2:874511/140‑1 (MQ=255)                                                                                          tGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAATACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAAtt                                               >  2:715639/1‑140 (MQ=255)                                                                                            cACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTcc                                             >  2:1216286/1‑140 (MQ=255)                                                                                                             gTTAAAAGCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGt                            <  2:1173583/140‑1 (MQ=255)                                                                                                                    gCCTCACATTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTa                     >  2:1160832/1‑140 (MQ=255)                                                                                                                         acaTTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGtcat                <  2:1165771/140‑1 (MQ=255)                                                                                                                         acaTTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGtcat                <  2:1034393/140‑1 (MQ=255)                                                                                                                           aTTATACGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGtcatca              <  2:310954/140‑1 (MQ=255)                                                                                                                               taCGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCAc          <  2:1213918/140‑1 (MQ=255)                                                                                                                               taCGGGGTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGGGGACGTAGTCATCAGCAc          >  2:1091181/1‑140 (MQ=255)                                                                                                                                   gggTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATa      >  2:1087220/1‑140 (MQ=255)                                                                                                                                    ggTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATaa     >  2:825284/1‑140 (MQ=255)                                                                                                                                    ggTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATaa     >  1:352105/1‑140 (MQ=255)                                                                                                                                     gTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATaaa    >  2:389902/1‑140 (MQ=255)                                                                                                                                     gTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATaaa    >  1:1012571/1‑140 (MQ=255)                                                                                                                                     gTACTAC‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATaaa    >  2:935484/1‑140 (MQ=255)                                                                                                                                       actac‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATAAAct  >  2:460820/1‑140 (MQ=255)                                                                                                                                       actac‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATAAAct  >  2:22262/1‑140 (MQ=255)                                                                                                                                       actac‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATAAAct  >  2:1192888/1‑140 (MQ=255)                                                                                                                                       actac‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATAAAct  >  1:82765/1‑140 (MQ=255)                                                                                                                                       actac‑AAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATAAAct  >  1:147324/1‑140 (MQ=255)                                                                                                                                            |                                                                                                                                        AAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACCTCTCCCTGTTAAAAGCCTCACATTATACGGGGTACTACAAAAAAAATGCAGTACCCCGGTGTAGGGAGGTTTTAACGGCGTGCCAGCAACAGTCCTAGTACCAGCCCAACGGCCGCGCCCACACCAATTCCTTGCCAGGGTTTTTCGTGGACGTAGTCATCAGCACGATAAACT  >  NC_000913/2380550‑2380824

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑