Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,619,957	G→A	*128* (TAG→TAA)	marA →	multiple antibiotic resistance transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,619,957	0	G	A	100.0%	224.0 / NA	68	*128* (TAG→TAA)	marA	multiple antibiotic resistance transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (33/35);  total (33/35)

ATGGCTTCGAGTCGCAACAAACTCTGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAGTTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGCCAGTTGTTACTTCTTGTGCCAATGT  >  NC_000913/1619824‑1620092                                                                                                                                      |                                                                                                                                        atGGCTTCGAGTCGCAACAAACTCTGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGaa                                                                                                                                    <  2:668404/139‑1 (MQ=255)        cGAGTCGCAACAAACTCTGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGa                                                                                                                             <  2:315483/139‑1 (MQ=255)        cGAGTCGCAACAAACTCTGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGa                                                                                                                             >  1:918771/1‑139 (MQ=255)        cGAGTCGCAACAAACTCTGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTG‑AAACGTGAc                                                                                                                            <  2:1429178/139‑1 (MQ=255)          aGTCGCAACAAACTCTGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACa                                                                                                                           >  2:1729176/1‑139 (MQ=255)           gTCGCAACAAACTCTGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACaa                                                                                                                          <  2:918771/139‑1 (MQ=255)                        ctGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCa                                                                                                             <  1:129852/139‑1 (MQ=255)                        ctGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCa                                                                                                             <  1:1729176/139‑1 (MQ=255)                          gACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGaaaa                                                                                                                                  <  2:351695/116‑1 (MQ=255)                          gACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGaaaa                                                                                                                                  >  1:351695/1‑116 (MQ=255)                                aaCCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGt                                                                                                                               >  2:211872/1‑113 (MQ=255)                                aaCCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGt                                                                                                                               <  1:211872/113‑1 (MQ=255)                                 aCCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGaaa                                                                                                    >  1:1662258/1‑139 (MQ=255)                                         aaaTTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTc                                                                                            <  2:271663/139‑1 (MQ=255)                                            ttACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATc                                                                                         <  2:1662258/139‑1 (MQ=255)                                                  tGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAAc                                                                                                                         <  2:1689312/101‑1 (MQ=255)                                                  tGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAAc                                                                                                                         >  1:1689312/1‑101 (MQ=255)                                                          cgccgcATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATagcag                                                                              >  1:1272855/1‑136 (MQ=255)                                                          cgccgcATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATagcag                                                                              <  2:1272855/136‑1 (MQ=255)                                                             cgcATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTgcgc                                                                        <  1:1258332/139‑1 (MQ=255)                                                                      aCCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTgcg                                                                         <  1:1676678/129‑1 (MQ=255)                                                                      aCCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTgcg                                                                         >  2:1676678/1‑129 (MQ=255)                                                                         ggATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGt                                                                                                                               <  2:258815/72‑1 (MQ=255)                                                                         ggATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGt                                                                                                                               >  1:258815/1‑72 (MQ=255)                                                                          gATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGt                                                                                                                               >  2:1480038/1‑71 (MQ=255)                                                                          gATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGt                                                                                                                               <  1:1480038/71‑1 (MQ=255)                                                                          gATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTc                                                           >  1:1267345/1‑139 (MQ=255)                                                                                  atatGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCa                                                     <  2:906805/137‑1 (MQ=255)                                                                                  atatGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCa                                                     >  1:906805/1‑137 (MQ=255)                                                                                        aGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTg                                             >  1:802447/1‑139 (MQ=255)                                                                                        aGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTg                                             >  1:286905/1‑139 (MQ=255)                                                                                          ggCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCtt                                                                      <  1:446648/112‑1 (MQ=255)                                                                                          ggCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCtt                                                                      >  2:446648/1‑112 (MQ=255)                                                                                            cGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCtt                                                                      >  2:330127/1‑110 (MQ=255)                                                                                            cGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCtt                                                                      <  1:330127/110‑1 (MQ=255)                                                                                             gAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGc                                                                                                              <  1:86493/69‑1 (MQ=255)                                                                                             gAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGc                                                                                                              >  2:86493/1‑69 (MQ=255)                                                                                             gAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGaa                                        >  1:1488336/1‑139 (MQ=255)                                                                                               aTCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGGAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGtt                                              <  2:1158653/131‑1 (MQ=255)                                                                                               aTCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGGAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAACTGCGCTTATTCTCTTTTCCGCGCAGGGCGtt                                              >  1:1158653/1‑131 (MQ=255)                                                                                               aTCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAggg                                                  <  2:1303239/127‑1 (MQ=255)                                                                                               aTCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAggg                                                  >  1:1303239/1‑127 (MQ=255)                                                                                               aTCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACa                                      >  1:74675/1‑139 (MQ=255)                                                                                                     cTTTTTACATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCAc                                >  1:1680402/1‑139 (MQ=255)                                                                                                           aCATCCATTAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGcc                          <  2:286905/139‑1 (MQ=255)                                                                                                                  ttAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCa                                                                                                             >  2:1227243/1‑49 (MQ=255)                                                                                                                  ttAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCa                                                                                                             <  1:1227243/49‑1 (MQ=255)                                                                                                                  ttAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATc                                                                                         >  1:282501/1‑69 (MQ=255)                                                                                                                  ttAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATc                                                                                         <  2:282501/69‑1 (MQ=255)                                                                                                                  ttAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGtt                                              <  2:546890/112‑1 (MQ=255)                                                                                                                  ttAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGtt                                              >  1:546890/1‑112 (MQ=255)                                                                                                                  ttAAATCATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGCCAgttgtt                   >  1:1552621/1‑139 (MQ=255)                                                                                                                        cATTACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGCCAGTTGTTActtct             <  2:802447/139‑1 (MQ=255)                                                                                                                           tACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGaaa                                                                                                    <  2:266009/49‑1 (MQ=255)                                                                                                                           tACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGaaa                                                                                                    >  1:266009/1‑49 (MQ=255)                                                                                                                           tACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATtct                                                                 >  1:848671/1‑84 (MQ=255)                                                                                                                           tACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATtct                                                                 <  2:848671/84‑1 (MQ=255)                                                                                                                           tACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCAc                                <  1:1483249/117‑1 (MQ=255)                                                                                                                           tACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGcc                          <  1:712828/123‑1 (MQ=255)                                                                                                                           tACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGcc                          >  2:712828/1‑123 (MQ=255)                                                                                                                           tACAACAGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGAGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCAc                                >  2:1483249/1‑117 (MQ=255)                                                                                                                               acaGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGCCAGTTGTTACTTCTTGTGCCa      <  2:1552621/139‑1 (MQ=255)                                                                                                                                caGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATcc                                                                                        <  1:1519401/56‑1 (MQ=255)                                                                                                                                caGCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATcc                                                                                        >  2:1519401/1‑56 (MQ=255)                                                                                                                                  gCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCAc                                <  1:1681610/110‑1 (MQ=255)                                                                                                                                  gCTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCAc                                >  2:1681610/1‑110 (MQ=255)                                                                                                                                   cTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCAc                                <  1:1541611/109‑1 (MQ=255)                                                                                                                                   cTAATTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGCCAGTTGTTACTTCTTGTGCCAATGt  >  2:534978/1‑139 (MQ=255)                                                                                                                                      |                                                                                                                                        ATGGCTTCGAGTCGCAACAAACTCTGACCCGAACCTTCAAAAATTACTTTGATGTTCCGCCGCATAAATACCGGATGACCAATATGCAGGGCGAATCGCGCTTTTTACATCCATTAAATCATTACAACAGCTAGTTGAAAACGTGACAACGTCACTGAGGCAATCATGAAACCACTTTCATCCGCAATAGCAGCTGCGCTTATTCTCTTTTCCGCGCAGGGCGTTGCGGAACAAACCACGCAGCCAGTTGTTACTTCTTGTGCCAATGT  >  NC_000913/1619824‑1620092

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑