Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,673,673	T→C	intergenic (‑172/‑240)	mdtJ ← / → tqsA	multidrug/spermidine efflux pump membrane subunit MdtJ/autoinducer 2 exporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,673,673	0	T	C	100.0%	191.3 / NA	53	intergenic (‑172/‑240)	mdtJ/tqsA	multidrug/spermidine efflux pump membrane subunit MdtJ/autoinducer 2 exporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (21/32);  total (21/32)

CGCTTAATTCAGCGAAACCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGTAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAA  >  NC_000913/1673536‑1673801                                                                                                                                          |                                                                                                                                 cGCTTAATTCAGCGAAACCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCaa                                                                                                                                >  2:608830/1‑140 (MQ=255) cGCTTAATTCAGCGAAACCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCaa                                                                                                                                <  1:921452/140‑1 (MQ=255)   cTTAATTCAGCGAAACCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAAt                                                                                                                              <  2:538071/140‑1 (MQ=255)           aGCGAAACCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGaaaa                                                                                                                      >  2:502322/1‑140 (MQ=255)             cGAAACCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATa                                                                                                                    <  1:305364/140‑1 (MQ=255)             cGAAACCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATa                                                                                                                    <  2:176626/140‑1 (MQ=255)                 aCCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGt                                                                                                                >  1:118650/1‑140 (MQ=255)                  ccAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTc                                                                                                               >  2:379591/1‑140 (MQ=255)                  ccAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTc                                                                                                               >  2:310818/1‑140 (MQ=255)                           agtGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACaaa                                                                                                      <  2:918506/140‑1 (MQ=255)                           agtGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACaaa                                                                                                      <  2:414458/140‑1 (MQ=255)                            gtGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAAt                                                                                                     >  2:911908/1‑140 (MQ=255)                             tGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAAtt                                                                                                    >  2:109599/1‑140 (MQ=255)                               gTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGt                                                                                                  >  2:942545/1‑140 (MQ=255)                               gTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGt                                                                                                  >  1:257425/1‑140 (MQ=255)                                tCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTc                                                                                                 <  2:118650/140‑1 (MQ=255)                                  aaGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCa                                                                                               <  2:82084/140‑1 (MQ=255)                                  aaGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCa                                                                                               <  1:310818/140‑1 (MQ=255)                                    gCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCata                                                                                             >  1:164898/1‑140 (MQ=255)                                     ccccGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCataa                                                                                            <  2:164898/140‑1 (MQ=255)                                         gcgcATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACaaa                                                                                                      >  1:477642/1‑126 (MQ=255)                                         gcgcATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACaaa                                                                                                      <  2:477642/126‑1 (MQ=255)                                                 cgcAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTAt                                                                                >  1:39949/1‑140 (MQ=255)                                                 cgcAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTAt                                                                                <  1:379591/140‑1 (MQ=255)                                                    aaGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAG‑TGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGc                                                                            <  1:455073/140‑1 (MQ=255)                                                    aaGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAG‑TGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGc                                                                            <  1:308155/140‑1 (MQ=255)                                                     aGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGc                                                                            <  2:583866/140‑1 (MQ=255)                                                          tGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAgtgt                                                                       <  2:269367/140‑1 (MQ=255)                                                          tGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAgtgt                                                                       <  1:911908/140‑1 (MQ=255)                                                                         cTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATcg                                                        <  1:648/140‑1 (MQ=255)                                                                           aaaGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATcgcg                                                      <  1:115806/140‑1 (MQ=255)                                                                            aaGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCgg                                                     >  1:17921/1‑140 (MQ=255)                                                                            aaGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCgg                                                     >  1:567437/1‑140 (MQ=255)                                                                              gcgcGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTAGTCATCGCGgat                                                   <  2:640398/140‑1 (MQ=255)                                                                                         cAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTcc                                        <  2:923238/140‑1 (MQ=255)                                                                                           gTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTc                                      <  1:205859/140‑1 (MQ=255)                                                                                            tgctgcTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCg                                     <  2:257425/140‑1 (MQ=255)                                                                                            tgctgcTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCg                                     >  2:746123/1‑140 (MQ=255)                                                                                             gctgctCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCgg                                    <  2:17921/140‑1 (MQ=255)                                                                                                gctCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAg                                 <  1:109599/140‑1 (MQ=255)                                                                                                     ccTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGaa                            <  2:701452/140‑1 (MQ=255)                                                                                                     ccTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGaa                            <  1:608830/140‑1 (MQ=255)                                                                                                             cAAGATAGTGGATGAGGTACGTAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTg                    >  2:682988/1‑140 (MQ=255)                                                                                                               aGATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGAt                  <  1:145428/140‑1 (MQ=255)                                                                                                                gATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGaa                            <  1:462968/129‑1 (MQ=255)                                                                                                                gATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGaa                            >  2:462968/1‑129 (MQ=255)                                                                                                                gATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGAtt                 >  2:3292/1‑140 (MQ=255)                                                                                                                gATAGTGGATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGAtt                 <  1:31874/140‑1 (MQ=255)                                                                                                                       gATGAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCa          <  2:39949/140‑1 (MQ=255)                                                                                                                          gAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGAt                  <  1:784770/129‑1 (MQ=255)                                                                                                                          gAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAg       >  2:41321/1‑140 (MQ=255)                                                                                                                          gAGGTACGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGCTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGAt                  >  2:784770/1‑129 (MQ=255)                                                                                                                               aCGAAGATGGGCAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTaa  >  2:527846/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                 CGCTTAATTCAGCGAAACCAAAGTAAAGTGGTCAAGCCCCGCGCATAGCGCAAGCTTTGGCAGAAGAAAGGACTAAAGCGCGTTGCGCCAGTGCTGCTCACCTACGAGCAAGATAGTGGATGAGGTACGAAGATGGGTAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAA  >  NC_000913/1673536‑1673801

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑