Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_bme_pgi	4,235,408	Δ1 bp	intergenic (‑2175/‑499)	lysC ← / → yjbE	lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_bme_pgi	4,235,407	0	A	.	100.0%	241.7 / NA	54	intergenic (‑2174/‑500)	lysC/yjbE	lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (22/32);  total (22/32)

TCAATGCCTTCGATCAATGGGGCGTGGAACTGGGTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTGAATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACATAGCA  >  NC_000913_3_bme_pgi/4235259‑4235545                                                                                                                                                     |                                                                                                                                           tCAATGCCTTCGATCAATGGGGCGTGGAACTGGGTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTGa                                                                                                                                            <  2:524725/149‑1 (MQ=255)         ttCGATCAATGGGGCGTGGAACTGGGTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCAtcgtc                                                                                                                                   <  1:424810/149‑1 (MQ=255)           cGATCACGGGGGCGTGGAACGGGGTAAGGAACTGGCGACGGAACTTTGGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGa                                                                                                                                 <  2:333106/149‑1 (MQ=255)                aaTGGGGCGTGGAACTGGGTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGt                                                                                                                            <  1:319780/149‑1 (MQ=255)                 acggggCGTGGAACTGGGTAAGGGACTGGCGAAGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAATGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATACGTa                                                                                                                           <  2:617381/147‑1 (MQ=255)                  tGGGGCGTGGAACTGGGTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAg                                                                                                                          >  2:771465/1‑149 (MQ=255)                           gAACTGGGTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATaa                                                                                                                 <  2:278062/149‑1 (MQ=255)                             aCTGGGTCAGGAACTGGCGACGGAACTTTTGCCGGTTGTAACGGGCACGCAAGGAGCGAGTGGTGGCGACGCTTCCACGCAAGGGCGTGTCGCGCATCTGCATGCGCGACGGAAAGCTTG‑ATCCTCGTAGATATGTACGCCgcgtgacg                                                                                                               >  2:237933/1‑142 (MQ=255)                               tGGGTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCg                                                                                                             <  2:348672/149‑1 (MQ=255)                                 ggTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGCCGCGCATCTGCATGCGCGAAGGAAAGCTCG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGtt                                                                                                           >  1:686848/1‑149 (MQ=255)                                 ggTAAGGAACTGGCGACGGAACTTTCGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGACATGTAGGCCGGATAAGGCGtt                                                                                                           <  1:501582/149‑1 (MQ=255)                                  gTAAGGAACTGTCGACGGACCTTTTGCCGGTTGGATCGGGAAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTc                                                                                                          <  1:166966/149‑1 (MQ=255)                                   tAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCa                                                                                                         >  1:559223/1‑149 (MQ=255)                                      ggAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCAcgc                                                                                                      <  1:702943/149‑1 (MQ=255)                                              cGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCg                                                                                              <  2:257328/149‑1 (MQ=255)                                               gACGGAACTTTTGCCGGTTGTATCGGGAAAGAACCGAATGATTTGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg                                                                                             >  1:763770/1‑149 (MQ=38)                                                   taaCTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAc                                                                                         <  2:272347/148‑1 (MQ=255)                                                    aaCTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCAc                                                                                                        <  1:565922/133‑1 (MQ=255)                                                    aaCTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCAc                                                                                                        >  2:565922/1‑133 (MQ=255)                                                     aCTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCCAAATGTAGGCCGGAAAAGGCCTTACCGCCCCATCCGGCAAcca                                                                                       >  2:312113/1‑148 (MQ=255)                                                      cTTTTGCGTGTTGTATCGGGAAAGGAAGGGGCTATCGGACGGGACGCTTCCACTCAAAGGCTTGTGGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGGAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGa                                                                                      <  2:130/149‑1 (MQ=37)                                                       ttttGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGCGAACAAG‑ATCAGCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCACACGAt                                                                                     >  1:180030/1‑149 (MQ=38)                                                       ttttCCCGGTTGTACCGGGCAGGGAGGGGGCGAGTGGTCGCGACGCTTCCCCGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGAt                                                                                     <  1:216784/149‑1 (MQ=38)                                                         ttGCCGGTGGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGc                                                                                   <  2:297663/149‑1 (MQ=255)                                                              ggTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGAt                                                                              <  1:653273/149‑1 (MQ=255)                                                                   tATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCCTTCACGCCGCATCCGGCAACCGGTGCCTGGTGcacc                                                                         >  2:116284/1‑146 (MQ=255)                                                                           aaggaaggGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCAGGCGCGAAGGAAAGCGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACTGAGGCCTGATGCGACGCGGTcgc                                                                 >  1:433326/1‑149 (MQ=38)                                                                                  gggCGAGTGGTTGCGACGCTTCCACGCAAGGGACTGGCGCGCATCCGCATGCGCGAAGGAAACCTTG‑ATCATCGTCGATATGTATGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTAt                                                          <  2:200376/149‑1 (MQ=37)                                                                                  gggCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCTCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTac                                                          <  2:586703/149‑2 (MQ=255)                                                                                  gggCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGc                                                                                   >  2:501810/1‑124 (MQ=255)                                                                                  gggCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGc                                                                                   <  1:501810/124‑1 (MQ=255)                                                                                  gggCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCAACTGCTTGCGGGAAGGAAAGCTTG‑ATCATCGTCGATATCTAGGCCGGATAAGGCGTTCACGCCGCATCCGCCAACCGATGCCTGATGCGACGCGGTCGCGTCTTAt                                                          >  2:200080/1‑149 (MQ=38)                                                                                   ggCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGt                                                                    <  1:136528/138‑1 (MQ=255)                                                                                   ggCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGt                                                                    >  2:136528/1‑138 (MQ=255)                                                                                    gCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATGGTCGATATGTAGGCCAGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCa                                                        >  2:686251/1‑149 (MQ=255)                                                                                    gCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCa                                                        >  1:558400/1‑149 (MQ=255)                                                                                    gCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCa                                                        <  2:602761/149‑1 (MQ=255)                                                                                        gTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGcc                                                    <  1:43653/149‑1 (MQ=255)                                                                                           gTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTAc                                                 >  1:661832/1‑149 (MQ=255)                                                                                            tCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTAt                                                          <  2:156349/139‑1 (MQ=255)                                                                                            tCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTAt                                                          >  1:156349/1‑139 (MQ=255)                                                                                                    cTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATg                                        <  1:675813/149‑1 (MQ=255)                                                                                                     ttCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGc                                       <  2:752755/149‑1 (MQ=255)                                                                                                        cACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGa                                    >  2:141420/1‑149 (MQ=255)                                                                                                           gCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAg                                               >  1:71659/1‑135 (MQ=255)                                                                                                           gCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAg                                               <  2:71659/135‑1 (MQ=255)                                                                                                                 gCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCCTAATCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACAt                           >  1:380706/1‑149 (MQ=255)                                                                                                                 gCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACAt                           <  2:669043/149‑1 (MQ=255)                                                                                                                  cTTGTCGAGTGTGTGCATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATc                          <  2:276202/149‑1 (MQ=25)                                                                                                                     gTCGCTCATCGGCATGCGGGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAACGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTa                       <  1:294207/149‑1 (MQ=25)                                                                                                                                 cATGCGCGAAGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTaa           <  1:149825/149‑1 (MQ=255)                                                                                                                                    gcgcGTAGGAAAGCTTG‑ATCATGGTGGAGATGTTGGCCGGATAAGGCTTTCATGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCTCGTTTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATAc        <  2:621397/149‑1 (MQ=255)                                                                                                                                       cgAAGTAAAGCTTG‑CTCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACATa     <  1:116284/149‑1 (MQ=255)                                                                                                                                         aaGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACCTCGTATTCGGCAATTAATACATAGc   >  1:590711/1‑149 (MQ=255)                                                                                                                                          aGGAAAGCTTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACATAGCa  >  1:240308/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                           TCAATGCCTTCGATCAATGGGGCGTGGAACTGGGTAAGGAACTGGCGACGGAACTTTTGCCGGTTGTATCGGGCAAGGAAGGGGCGAGTGGTCGCGACGCTTCCACGCAAGGGCTTGTCGCGCATCTGCATGCGCGAAGGAAAGCTTGAATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACATAGCA  >  NC_000913_3_bme_pgi/4235259‑4235545

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑