Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	884,189	A→G	32.4%	M173V (ATG→GTG)	mdfA →	multidrug efflux system protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	884,189	0	A	G	32.4%	37.8 / 5.6	33	M173V (ATG→GTG)	mdfA	multidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base A (11/9);  new base G (9/2);  total (21/12)
Fisher's exact test for biased strand distribution p-value = 2.41e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTGCTGGCGTGGATCGCCCAGTCGCCGATTATCA  >  NC_000913/883965‑884408                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                cAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGGAT‑CAAAATCACCGCGCTGCTGGCGAACCTGGCGCTGATTGCTCCGC‑TACTTGGGCCGCTGGCGGGCGCGGCGGGGGTCCATGTGCTGCCCCGGGAGGGGGTG‑TTtgtttt‑gttt                                                                                                                                                                                                                 >  1:260843/1‑239 (MQ=255)      ttGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCCCGCTGGTGGCGAACGTGGAGCCGATTGTTCCGC‑TCCTTGTGCCCCTGGGGGGCGCGGGGGGGGTCCACGTGCTGGCCTGGGGGGGGGGG‑TGtgtttt‑tttttgcg                                                                                                                                                                                                             >  2:8439/1‑234 (MQ=255)            gcgcAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCGGGGGGGCGCGGCGTGGATCCATGTGCTGGCCTGTGGGGGGGTG‑TTTGGTTT‑GTTTTCCCGATTGGc                                                                                                                                                                                                      >  1:656192/1‑239 (MQ=255)                       tGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCCCCCTGATTGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGGTCCATGTGCTGCCCTGGGAGGGGGTG‑TTTTTTTT‑TTTTTCCGCCTTGGCcgcgcgctc                                                                                                                                                                                             >  1:441468/1‑232 (MQ=255)                          aCAATTCACCCTTTTTCGCTTCTTGCAGGGCATAAGCCTCTTTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCtttt                                                                                                                                                                                      <  1:643310/239‑1 (MQ=255)                            aaTTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGGGTGGGTCCCTGTGCTTCCCTGGGGGGGGGGG‑TTTGTTTT‑TGTTGCCGCATTGGCAGCGGC‑TT‑CCTTTTTc                                                                                                                                                                                    >  1:17628/1‑239 (MQ=255)                                      gTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGGT‑CT‑CCTTTTTCGGTCTGCaaa                                                                                                                                                                          >  1:671023/1‑238 (MQ=255)                                      gTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGGAT‑CAAGATCACCGCGCTGTTGGCGAACGTAGCGCCGGCTCGTCCGC‑TACTGTGTGCGCTGCTGGGCGCGGCCTGGGTCCCTTGGCGTCCCTGGGAGGGGGGGTTTTTTTTT‑GGTTG‑CGCGTTGGCAGCGGG‑GT‑CCTGTTTGGGTGTGCGAc                                                                                                                                                                          >  2:913888/1‑239 (MQ=255)                                      gTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGGTTGTAT‑CAAAATCACCGCGCTGATAGCGAACGTGGGGCTGATTGCTCCGC‑TCCTTGGTCCGCTGGTGGGCGCGGCGGGGAGCCCTGTGGCGGCCTGGGGGGGGGTG‑GTTGTTTT‑GTTTTGCCCAGTGGCAGCGAG‑CC‑CCCTTTTTGGttgtcaaa                                                                                                                                                                          >  2:542073/1‑232 (MQ=255)                                        tGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGCAGGCGGACGTGGCGCTGATTGCTCCGC‑TACTTGGGCCGCTGGCGGGCGCGGCGGGGGTCCATGGGCTGCCCCGGGGGGGGGTG‑TTTGTTTTGGTTTGCGGC‑TTGGCGGCGGTGCC‑CCTTTTTGGGT‑TGCAAcca                                                                                                                                                                        >  2:786375/1‑237 (MQ=255)                                        tGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGGGGGCGCGGCGTGGATCCACTTGCTGCCCTGGGGGGGGGTG‑TTTGTTTT‑GTTTGCCGCATTGGCAGAGAG‑CT‑CCTTTTTTGGGTTGCAACgg                                                                                                                                                                        >  1:525568/1‑238 (MQ=255)                                            ttttttGCGGGGCATAAGCCTTTGTTTCATGGGCGTTGTGGGATACGCCCCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCCCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGcc                                                                                                                                                                     <  2:441468/234‑1 (MQ=255)                                                                        aTTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCCTGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑TTTTTCCGCATTGGCAGCGAT‑CT‑CCCTTTTTGGTCTGCAACGAGCCATGCCTGAAACCGCCACCCGTATAGGCgg                                                                                                                                        >  1:350950/1‑238 (MQ=255)                                                                         ttGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGGT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCggg                                                                                                                                       >  1:123938/1‑237 (MQ=255)                                                                          gggtgtgggggtgacgcgggaagttCGGGACTCTTTGGAGGGGGGGGTTGGTAA‑CAAGATCCCGGCGCGGGTGGCGAACGGGGGGGTGTTTGC‑CCGCGTATTGGATCGGGGGGGGGGGGGGGCGGGGATCCGTGTGCTGCCATGGGAGGGGGTG‑TTTTTTTT‑GTTTGCGGCATTGGCAGCGTT‑CT‑CCTTTTTCGGTCTGCAACGAGCCAGGCCTGAAACCGCCACGCGTATAGGCgaga                                                                                                                                      <  2:144637/216‑1 (MQ=255)                                                                                  ggggacccccccgaaTTCAGGAACTCTGCGGAG‑GGGGGTTTTTGTGCAAGCTCCCCGCGCGGGGGGAGAACGGGGCTGGGTTTGCTCCGT‑TACTTGGCCCGGTGGTGGGCGGGGGGGGGACCCAGGTGGTGCCCGGGGAGGGGATG‑TTTGTTTT‑TTTTGCCGCATGGGCAGCGAT‑CT‑CCTTTTCCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCa                                                                                                                              <  2:671023/226‑1 (MQ=255)                                                                                                   cAGGAATCCTCCGAAGGGGCGGTTTGTAT‑CAAGATCCCCGCGCGGAGGGCGAACGTGGCGCTGATTGCCCCGC‑TCCTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCGGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCg                                                                                                             <  1:542073/239‑1 (MQ=255)                                                                                                       aacccTTCGAAGGGGCGTTTTGTAT‑CAGGTTCACCGGGCTGATGGCGAACGTGGCGCGGATTGCTCGGT‑TCTTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGt                                                                                                            <  1:750207/233‑1 (MQ=255)                                                                                                       aaTCTTTGGAGGGGGCGGTTTGTAT‑CAAGATCCCCGCGCGGTTGGCGAACGTGGCGCTGATTGCTCCGC‑TATTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGt                                                                                                            <  1:8439/236‑1 (MQ=255)                                                                                                                                    gATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGCGGGGCTG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAGAAACTCGGTCGTGACCATAAGCTGGGGCTGAAGAACGGCCGCt                                                                             >  2:918357/1‑239 (MQ=255)                                                                                                                                        aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGGGAAACTGTCCCTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTtgt                                                                         >  1:882373/1‑239 (MQ=255)                                                                                                                                        aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGCAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTtgt                                                                         >  1:89292/1‑239 (MQ=255)                                                                                                                                        aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAACAAACTCGGGCGTGACTATAAGCTGGTGCTGAAGAACGGCCGGttttg                                                                         >  2:151901/1‑237 (MQ=255)                                                                                                                                        aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAAc                                                                                                                    >  1:327042/1‑196 (MQ=255)                                                                                                                                        aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGGGCTGAAGAACGGCCGCTTtgt                                                                         >  1:223226/1‑239 (MQ=255)                                                                                                                                                           tGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGggggccgggggcg                                                      >  1:183852/1‑234 (MQ=255)                                                                                                                                                                   aTTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGc                                                                                                  <  1:802527/187‑1 (MQ=255)                                                                                                                                                                   aTTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGc                                                                                                  >  2:802527/1‑187 (MQ=255)                                                                                                                                                                    gcgctcgggctttgtGGTCCGGGGGGGGGGGGGGGGTGGGTCATTGGGCTGCCGGGGGGGGTGATG‑TTGGTTTT‑GTTGGCCGAATGGGCAGGGAC‑CT‑CGTTGTCGGGGCTGAAAGGGGCAATGGCGGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCg                                               <  2:353094/224‑1 (MQ=255)                                                                                                                                                                                 ttGGTCCGTTGGGGGTGGGGGGGGGGCTCCTTTTGTTCCCCTGGGGGGGGTTG‑TTTGTTGT‑TTGTGCCCAGTGGGCAG‑GAT‑ATCCCTTTTTCGGTCTGCAACGACCCAGGCGTGAAACCGCCACGCGTAGAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGTGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTg                                 <  2:223226/239‑1 (MQ=255)                                                                                                                                                                                   ggTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTCTAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCGGGCGCCggggctgtgtatttgtccccgtc                                >  1:353094/1‑218 (MQ=255)                                                                                                                                                                                                               gtgggccgcCCGGGGGGGGGGTG‑TTTGTTTT‑GTTTCCCGCATTGGCAGCGAT‑CC‑CCTTTTTCGGTCCGAAAGGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTGCTGGCGTGGATCGCCCAGTCGCCGATTatc   <  1:396571/232‑1 (MQ=255)                                                                                                                                                                                                                  tgctgcCCGGGGAGGGGATT‑GTTTTTTT‑GTTTGCCGCTTGGGCAGGGAT‑TC‑CTTTTTTCGGTCGGCAACGGGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTGCTGGCGTGGATCGCCCAGTCGCCGATTatca  <  1:201059/237‑1 (MQ=255)                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                CAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTGCTGGCGTGGATCGCCCAGTCGCCGATTATCA  >  NC_000913/883965‑884408

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑