Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,980,009	T→C	intergenic (‑6/+19)	mdtF ← / ← mdtE	multidrug transporter, RpoS‑dependent/multidrug resistance efflux transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,980,009	0	T	C	100.0%	131.3 / NA	36	intergenic (‑6/+19)	mdtF/mdtE	multidrug transporter, RpoS‑dependent/multidrug resistance efflux transporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (9/27);  total (9/27)

AATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGTCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCCTGGCTG  >  W3110S.gb/3979950‑3980064                                                            |                                                        aataatGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGccc                                                       <  1:1384791/62‑1 (MQ=255) aataatGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGccc                                                       <  1:434619/62‑1 (MQ=255)         cAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTaa                                                 >  1:2682119/1‑60 (MQ=255)         cAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTaa                                                 >  1:1788751/1‑60 (MQ=255)         cAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAg                                                >  1:4632207/1‑61 (MQ=255)         cAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAg                                                >  1:1548942/1‑61 (MQ=255)               cccAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCa                                          >  1:4593851/1‑61 (MQ=255)                 cAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACg                                       <  1:4586667/62‑1 (MQ=255)                 cAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACg                                       <  1:1916255/62‑1 (MQ=255)                  aGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACg                                       <  1:2584616/61‑1 (MQ=255)                     cAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTa                                    >  1:70089/1‑61 (MQ=255)                      aaaaaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTAtt                                  >  1:1070978/1‑62 (MQ=255)                      aaaaaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTAtt                                  >  1:1258366/1‑62 (MQ=255)                         aaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGtt                               <  1:1473493/62‑1 (MQ=255)                         aaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGtt                               <  1:3455674/62‑1 (MQ=255)                         aaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGtt                               <  1:3316245/62‑1 (MQ=255)                            cGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCg                            <  1:1026786/62‑1 (MQ=255)                            cGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCg                            <  1:3344770/62‑1 (MQ=255)                                       tAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCt                  <  1:1795014/61‑1 (MQ=255)                                       tAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCt                  <  1:528829/61‑1 (MQ=255)                                       tAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCt                  <  1:2782918/61‑1 (MQ=255)                                           aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt             <  1:2102002/62‑1 (MQ=255)                                           aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt             <  1:505481/62‑1 (MQ=255)                                           aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt             <  1:3905801/62‑1 (MQ=255)                                           aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt             <  1:3587058/62‑1 (MQ=255)                                           aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt             <  1:304520/62‑1 (MQ=255)                                           aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt             <  1:2727870/62‑1 (MQ=255)                                              gTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGtttt          >  1:3763954/1‑62 (MQ=255)                                                    cATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc    <  1:305033/62‑1 (MQ=255)                                                    cATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc    <  1:1462837/62‑1 (MQ=255)                                                    cATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc    <  1:1433343/62‑1 (MQ=255)                                                    cATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc    <  1:2583531/62‑1 (MQ=255)                                                     aTGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc    <  1:3067194/61‑1 (MQ=255)                                                     aTGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc    <  1:2135489/61‑1 (MQ=255)                                                      tGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggctg  <  1:258659/62‑1 (MQ=255)                                                      tGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggctg  <  1:1068549/62‑1 (MQ=255)                                                      tGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggctg  <  1:2578551/62‑1 (MQ=255)                                                      tGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggctg  <  1:2154066/62‑1 (MQ=255)                                                            |                                                        AATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGTCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCCTGGCTG  >  W3110S.gb/3979950‑3980064

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑