Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,379,241	T→A	N7Y (AAC→TAC)	menD ←	2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylate synthase; SEPHCHC synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,379,241	0	T	A	100.0%	212.3 / NA	53	N7Y (AAC→TAC)	menD	2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylate synthase; SEPHCHC synthase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (24/29);  total (24/29)

TCATCGAAATGGGTGTGGTGAATGAATGCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTTAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGTAATAAAGTACGCAGCCCTGCCGCTTT  >  NC_000913/2379096‑2379386                                                                                                                                                  |                                                                                                                                                  tCATCGAAATGGGTGTGGTGAATGAATGCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATg                                                                                                                                              >  1:628080/1‑151 (MQ=255)  cATCGAAATGGGTGTGGTGAATGAATGCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAAt                                                                                                                                               <  1:188640/149‑1 (MQ=255)   aTCGAAATGGGTGTGGTGAATGAATGCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATgcg                                                                                                                                            >  1:71485/1‑151 (MQ=255)      gAAATGGGTGTGGTGAATGAATGCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCtt                                                                                                                                         >  2:476989/1‑151 (MQ=255)               gtggtgAATGAATGCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATg                                                                                                                                <  2:604502/151‑1 (MQ=255)                     aatgaatgCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTg                                                                                                                          >  1:262446/1‑151 (MQ=255)                          atgCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCgg                                                                                                                     >  1:598138/1‑151 (MQ=255)                           tgCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGt                                                                                                                    >  1:663535/1‑151 (MQ=255)                             cGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTAt                                                                                                                  >  2:479104/1‑151 (MQ=255)                                aaTTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATACGCTTACTGACATGAGTTTGTCCGGTATCa                                                                                                                >  2:371831/1‑150 (MQ=255)                                 aTTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAat                                                                                                              <  2:612457/151‑1 (MQ=255)                                      ccgccgccgCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGc                                                                                                         <  2:295291/151‑1 (MQ=255)                                       cgccgccgcTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCg                                                                                                        <  1:517121/151‑1 (MQ=255)                                             cgcTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTa                                                                                                    >  1:537026/1‑149 (MQ=255)                                              gcTAACGTTAACGGGGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGt                                                                                                 >  1:263370/1‑151 (MQ=255)                                                 aaCGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGtat                                                                                               <  1:434291/150‑1 (MQ=255)                                                 aaCGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGtat                                                                                               <  2:75482/150‑1 (MQ=255)                                                   cGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAg                                                                                            <  1:7197/151‑1 (MQ=255)                                                    gTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAgg                                                                                           >  1:320935/1‑151 (MQ=255)                                                       aaCGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAg                                                                                         <  1:343770/150‑1 (MQ=255)                                                          ggTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTAc                                                                                     >  1:49906/1‑151 (MQ=255)                                                                     cgAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGatt                                                                          <  2:266691/151‑1 (MQ=255)                                                                           tGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGat                                                                    >  1:501468/1‑151 (MQ=255)                                                                            ggggCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGat                                                                    <  1:154767/150‑1 (MQ=255)                                                                               gCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGa                                                                <  2:259750/151‑1 (MQ=255)                                                                                cGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGaa                                                               <  2:357806/151‑1 (MQ=255)                                                                                   tACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATc                                                             <  2:16994/150‑1 (MQ=255)                                                                                      aGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGt                                                          >  1:205014/1‑150 (MQ=255)                                                                                      aGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGt                                                          >  1:424137/1‑150 (MQ=255)                                                                                            gtCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAatgatg                                                   <  2:443910/151‑1 (MQ=255)                                                                                               tGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCg                                                 >  1:172204/1‑150 (MQ=255)                                                                                                  cGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTc                                             <  2:109874/151‑1 (MQ=255)                                                                                                  cGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTc                                             >  1:347485/1‑151 (MQ=255)                                                                                                  cGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTc                                             <  1:11800/151‑1 (MQ=255)                                                                                                   gCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTc                                             >  2:667505/1‑150 (MQ=255)                                                                                                       tGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTAc                                        >  2:624954/1‑151 (MQ=255)                                                                                                        gACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACt                                       <  1:214953/151‑1 (MQ=255)                                                                                                         aCGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTa                                      <  2:292343/151‑1 (MQ=255)                                                                                                            cgTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTc                                   <  2:69583/151‑1 (MQ=255)                                                                                                             gTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTcc                                  >  1:415933/1‑151 (MQ=255)                                                                                                               tAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCAt                                >  2:84806/1‑151 (MQ=255)                                                                                                                   gCTTCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTg                             <  1:405334/150‑1 (MQ=255)                                                                                                                      tCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGtaat                         >  1:150482/1‑151 (MQ=255)                                                                                                                      tCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGtaa                          <  1:299986/150‑1 (MQ=255)                                                                                                                      tCCAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGta                           <  2:71483/149‑1 (MQ=255)                                                                                                                       ccAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGtaata                        <  2:561671/151‑1 (MQ=255)                                                                                                                       ccAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGtaata                        <  1:579291/151‑1 (MQ=255)                                                                                                                       ccAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGtaat                         >  2:77210/1‑150 (MQ=255)                                                                                                                        cAGAATGACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGtaataa                       <  1:562578/151‑1 (MQ=255)                                                                                                                              gACCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGTAATAAAGTAc                  <  1:630849/150‑1 (MQ=255)                                                                                                                               aCCGCCGCCCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGTAATAAAGTACGc                >  2:491160/1‑151 (MQ=255)                                                                                                                                   ccgccCAGCGTCGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGTAATAAAGTACGCAGcc            <  2:188819/151‑1 (MQ=255)                                                                                                                                              cGGTAAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGTAATAAAGTACGCAGCCCTGCCGCttt  <  1:386056/150‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                  TCATCGAAATGGGTGTGGTGAATGAATGCGGAATTCTCCGCCGCCGCTAACGTTAACGGTGTAGAACGCGAGCCTGGGGCGATACAGATGTGTCTGACGCCGTGACGCGTTAATGCTTCCAGAATGACCGCCGCCCAGCGTCGGTTAAATGCGCTTACTGACATGAGTTTGTCCGGTATCAATATTGCGGCTAAGTATAAGGAGCTACAAAAATAGATTATTGATATGAATCGGTAATGATGCGACTCATTACTATTCCATTTGTAATAAAGTACGCAGCCCTGCCGCTTT  >  NC_000913/2379096‑2379386

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑