Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,892,455	G→A	A281T (GCG→ACG)	mdtL →	multidrug efflux system protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,892,455	0	G	A	100.0%	172.8 / NA	54	A281T (GCG→ACG)	mdtL	multidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (27/27);  total (27/27)

CGCGGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCGCGGGC  >  NC_000913/3892323‑3892589                                                                                                                                     |                                                                                                                                        cgcgGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGCCGACGGGGa                                                                                                                                   <  1:890274/139‑1 (MQ=255)   cgGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGAt                                                                                                                                  >  1:528034/1‑138 (MQ=255)   cgGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGAt                                                                                                                                  <  2:528034/138‑1 (MQ=255)                    ttATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCAcc                                                                                                                <  1:40624/139‑1 (MQ=255)                       tGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑c                                                                                                            >  1:264851/1‑139 (MQ=255)                            cTGTCCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATg                                                                                                       <  2:1102949/139‑1 (MQ=255)                            cTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATg                                                                                                       >  2:235620/1‑139 (MQ=255)                            cTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATg                                                                                                       >  2:1082931/1‑139 (MQ=255)                            cTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATg                                                                                                       >  1:179661/1‑139 (MQ=255)                                    tGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTtct                                                                                               <  2:179661/139‑1 (MQ=255)                                           aGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTtct                                                                                               >  1:1070216/1‑132 (MQ=255)                                           aGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTtct                                                                                               <  2:1070216/132‑1 (MQ=255)                                                  ccGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCAc                                                                                 >  1:701030/1‑139 (MQ=255)                                                   cGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACg                                                                                <  2:498760/139‑1 (MQ=255)                                                    gTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGc                                                                               <  2:701030/139‑1 (MQ=255)                                                               cACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGcc                                                                    >  1:1289117/1‑139 (MQ=255)                                                               cACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGcc                                                                    >  2:419231/1‑139 (MQ=255)                                                                   ccATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCa                                                                                                         >  1:1068481/1‑98 (MQ=255)                                                                   ccATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCa                                                                                                         <  2:1068481/98‑1 (MQ=255)                                                                       ttGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTtctc                                                            <  1:1082931/139‑1 (MQ=255)                                                                         gcgcTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGa                                                                                                                                   >  2:198828/1‑67 (MQ=255)                                                                         gcgcTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGa                                                                                                                                   <  1:198828/67‑1 (MQ=255)                                                                          cgcTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGt                                                         <  1:121798/139‑1 (MQ=255)                                                                                gAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGttt                                                   <  2:264851/139‑1 (MQ=255)                                                                                    ttttAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGgt                                               <  2:263631/139‑1 (MQ=255)                                                                                         aGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGcc                                                                    >  1:1184198/1‑113 (MQ=255)                                                                                         aGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGcc                                                                    <  2:1184198/113‑1 (MQ=255)                                                                                             acgtacgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGt                                                         >  1:423916/1‑120 (MQ=255)                                                                                             acgtacgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGt                                                         <  2:423916/120‑1 (MQ=255)                                                                                              cgtacgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGt                                                         <  1:205598/119‑1 (MQ=255)                                                                                              cgtacgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGt                                                         >  2:205598/1‑119 (MQ=255)                                                                                              cgtacgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGa                                     >  2:576862/1‑139 (MQ=255)                                                                                               gtacgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAg                                    <  2:1289117/139‑1 (MQ=255)                                                                                                         gatCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTa                          >  1:466053/1‑139 (MQ=255)                                                                                                         gatCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTa                          <  2:1068338/139‑1 (MQ=255)                                                                                                         gatCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTa                          <  1:235620/139‑1 (MQ=255)                                                                                                          atCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAg                         >  2:1275892/1‑139 (MQ=255)                                                                                                            cACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGtt                                                                                          >  2:948971/1‑72 (MQ=255)                                                                                                            cACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGtt                                                                                          <  1:948971/72‑1 (MQ=255)                                                                                                             aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCg                                         >  2:166814/1‑120 (MQ=255)                                                                                                             aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCg                                         <  1:166814/120‑1 (MQ=255)                                                                                                             aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGc                      >  2:920063/1‑139 (MQ=255)                                                                                                               cTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCg                    >  1:766362/1‑139 (MQ=255)                                                                                                                 cGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGtt                  >  1:1266146/1‑139 (MQ=255)                                                                                                                 cGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGtt                  >  1:512792/1‑139 (MQ=255)                                                                                                                      gtgtTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGcc                                                                    >  2:1239759/1‑85 (MQ=255)                                                                                                                      gtgtTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGcc                                                                    <  1:1239759/85‑1 (MQ=255)                                                                                                                        gtTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCAc                                                                                                                 >  1:1272189/1‑38 (MQ=255)                                                                                                                        gtTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCAc                                                                                                                 <  2:1272189/38‑1 (MQ=255)                                                                                                                           aTTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTAcgc        >  2:522378/1‑139 (MQ=255)                                                                                                                            ttCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTAcgcg       <  1:419231/139‑1 (MQ=255)                                                                                                                            ttCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTAcgcg       <  2:512792/139‑1 (MQ=255)                                                                                                                                tGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGgtg                                              >  2:42122/1‑96 (MQ=255)                                                                                                                                tGGCGACGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGgtg                                              <  1:42122/96‑1 (MQ=255)                                                                                                                                 ggcgacGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTtct                                                                                               >  1:1134683/1‑46 (MQ=255)                                                                                                                                 ggcgacGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTtct                                                                                               <  2:1134683/46‑1 (MQ=255)                                                                                                                                 ggcgacGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCGCGGGc  >  2:577588/1‑139 (MQ=255)                                                                                                                                 ggcgacGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCGCGGGc  >  1:499529/1‑139 (MQ=255)                                                                                                                                 ggcgacGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCGCGGGc  >  2:135321/1‑139 (MQ=255)                                                                                                                                 ggcgacGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCGCGGGc  >  1:469440/1‑139 (MQ=255)                                                                                                                                 ggcgacGGGGATCACACTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGCTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCGCGGGc  >  2:876471/1‑139 (MQ=255)                                                                                                                                     |                                                                                                                                        CGCGGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCGTTTCACCTT‑CCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCGCGGGC  >  NC_000913/3892323‑3892589

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑