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%	149.8 / NA	47	A281T (GCG→ACG)	mdtL	multidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (25/22);  total (25/22)

TGAGCGCGGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCG  >  NC_000913/3892319‑3892584                                                                                                                                         |                                                                                                                                  tGAGCGCGGGGAATACGCCACCAGTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGgcgacg                                                                                                                                 >  1:1313881/1‑139 (MQ=255)       cgGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATc                                                                                                                           >  1:261673/1‑139 (MQ=255)                    accaTTAGGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTTGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGttt                                                                                                              >  1:895516/1‑139 (MQ=255)                      caTTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCa                                                                                                            >  1:395771/1‑139 (MQ=255)                        ttATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCAcc                                                                                                          <  2:1313881/139‑1 (MQ=255)                                 tGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGc                                                                                                 <  2:1049242/139‑1 (MQ=255)                                     cGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGtt                                                                                             >  2:152476/1‑139 (MQ=255)                                      gCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGttt                                                                                            <  2:603412/139‑1 (MQ=255)                                        tGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTtct                                                                                          <  2:1066752/139‑1 (MQ=255)                                                      ccGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGTCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCAc                                                                            >  2:1167691/1‑139 (MQ=255)                                                                 tcCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCAcc                                                                                                          <  1:684108/98‑1 (MQ=255)                                                                 tcCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCAcc                                                                                                          >  2:684108/1‑98 (MQ=255)                                                                   cACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGcc                                                               >  1:1106117/1‑139 (MQ=255)                                                                     cGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCgg                                                             >  2:455778/1‑139 (MQ=255)                                                                        cATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGttt                                                          >  1:1081690/1‑139 (MQ=255)                                                                           ttGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTcc                                                                                                      <  1:515566/92‑1 (MQ=255)                                                                           ttGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTcc                                                                                                      >  2:515566/1‑92 (MQ=255)                                                                              cgcTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGt                                                    <  1:152476/139‑1 (MQ=255)                                                                                cTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCgg                                                     <  2:759137/136‑1 (MQ=255)                                                                                cTGGGAATTTTTAAGCCAAGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCgg                                                     >  1:759137/1‑136 (MQ=255)                                                                                    gAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGttt                                              <  2:261673/139‑1 (MQ=255)                                                                                                  cgtacgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTgcg                                                                 >  1:888300/1‑106 (MQ=255)                                                                                                  cgtacgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTgcg                                                                 <  2:888300/106‑1 (MQ=255)                                                                                                      cgtTGATGATCCCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCa                            <  2:895516/139‑1 (MQ=255)                                                                                                      cgtTGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCa                            <  2:1035239/139‑1 (MQ=255)                                                                                                        ttGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAgg                          <  2:1081690/139‑1 (MQ=255)                                                                                                        ttGATGATCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAgg                          <  1:455778/139‑1 (MQ=255)                                                                                                            tgatCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGTCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGtt                      <  1:1167691/139‑1 (MQ=255)                                                                                                             gatCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTa                     >  1:14451/1‑139 (MQ=255)                                                                                                             gatCACCTCGCAGGTGTTATTCCTGGCGAC‑GGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCa                            >  1:77154/1‑131 (MQ=255)                                                                                                             gatCACCTCGCAGGTGTTATTCCTGGCGAC‑GGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCa                            <  2:77154/131‑1 (MQ=255)                                                                                                              atCACCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAg                    >  2:198741/1‑139 (MQ=255)                                                                                                                 aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATg                                                                                                  <  2:166890/58‑1 (MQ=255)                                                                                                                 aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATg                                                                                                  >  1:166890/1‑58 (MQ=255)                                                                                                                 aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTtctc                                                                                         >  1:564331/1‑67 (MQ=255)                                                                                                                 aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTtctc                                                                                         <  2:564331/67‑1 (MQ=255)                                                                                                                 aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGc                 >  2:1325200/1‑139 (MQ=255)                                                                                                                 aCCTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGCTTCTCGCTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGc                 >  1:397306/1‑139 (MQ=255)                                                                                                                  ccTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGcc                >  2:702690/1‑139 (MQ=255)                                                                                                                   cTCGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCg               >  1:377619/1‑139 (MQ=255)                                                                                                                     cGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGTCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGtt             >  2:589434/1‑139 (MQ=255)                                                                                                                     cGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCg                                                      <  1:527180/98‑1 (MQ=255)                                                                                                                     cGCAGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCg                                                      >  2:527180/1‑98 (MQ=255)                                                                                                                        aGGTGTTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTc          >  2:1205452/1‑139 (MQ=255)                                                                                                                           tgtTATTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCAtt       <  2:377619/139‑1 (MQ=255)                                                                                                                               aTTCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTAcgc   >  2:1071923/1‑139 (MQ=255)                                                                                                                                tttcTGGCGACGGGGATCACTCTTGCCCTTTCACCTTCCCCTGCGGTTTCTTTGTTTGGTATCACGCTGATTTGCGCCGGTTTCCCGGTAGGGTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTAcgcg  <  2:1104378/136‑1 (MQ=255)                                                                                                                                ttCCTGGCGACGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTAcgcg  <  1:1325200/139‑1 (MQ=255)                                                                                                                                     ggcgacGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTtct                                                                                          >  2:485327/1‑46 (MQ=255)                                                                                                                                     ggcgacGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTtct                                                                                          <  1:485327/46‑1 (MQ=255)                                                                                                                                         |                                                                                                                                  TGAGCGCGGTGAATACGCCACCATTATGGCGCTGACCGCTGGCGTCAGCATGACCGTTTCATTCTCCACGCCATTTGCGCTGGGAATTTTTAAGCCACGTACGTTGATGATCACCTCGCAGGTGTTATTCCTGGCGGCGGGGATCACTCTTGCCGTTTCACCTTCCCATGCGGTTTCTCTGTTTGGTATCACGCTGATTTGCGCCGGTTTCTCGGTAGGTTTTGGTGTGGCGATGAGTCAGGCGTTAGGGCCGTTTTCATTACGCG  >  NC_000913/3892319‑3892584

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑