Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,559,149	C→T	A648T (GCG→ACG)	unknown ←	Phosphoglycerate transport system sensor protein PgtB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,559,149	0	C	T	100.0%	114.5 / NA	41	A648T (GCG→ACG)	unknown	Phosphoglycerate transport system sensor protein PgtB
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (12/29);  total (12/29)

TCTAATCCTGAAATGCCCAGCAATAATACGTCGCAAATCACAACGCCATACCAATTTTCCGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGCATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCAATCTCCGGTTTTTCATGCTGCATAGCTTCCAGTG  >  1/1558919‑1559388                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                tctaatcCTGAAATGCCCAGCAATAATACGTCGCAAATCACAACGCCATACCAATTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAg                                                                                                                                                                                                                             <  1:196323/251‑1 (MQ=255)                     cAATAATACGTCGCAAATCACAACGCCATACCAATTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGa                                                                                                                                                                                                         >  1:578002/1‑251 (MQ=255)                       ataataCGTCGCAAATCACAACGCCATACCAATTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGaa                                                                                                                                                                                                                              <  1:737832/228‑1 (MQ=255)                        taataCGTCGCAAATCACAACGCCATACCAATTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACAt                                                                                                                                                                                                      <  1:40952/251‑1 (MQ=255)                        taataCGTCGCAAATCACAACGCCATACCAATTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACAt                                                                                                                                                                                                      <  1:261453/251‑1 (MQ=255)                                      tCACAACGCCATACCAATTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATtaata                                                                                                                                                                                                                    <  1:763912/223‑1 (MQ=255)                                            cGCCATACCAATTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACt                                                                                                                                                                                  <  1:837162/251‑1 (MQ=255)                                                   ccAATTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGAt                                                                                                                                                                           <  1:103449/251‑1 (MQ=255)                                                      aTTTTCTGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGt                                                                                                                                                                                                                 <  1:178215/210‑1 (MQ=255)                                                               aaTTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGcc                                                                                                                                                                <  1:139963/250‑1 (MQ=255)                                                                             tctcTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGcc                                                                                                                                                                <  1:114138/236‑1 (MQ=255)                                                                                              gTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACt                                                                                                                                                                                  <  1:667499/201‑1 (MQ=255)                                                                                              gTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGcc                                                                                                                                                                <  1:417966/219‑1 (MQ=255)                                                                                               ttGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGt                                                                                                                                 <  1:373759/249‑1 (MQ=255)                                                                                               ttGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGt                                                                                                                                 <  1:373799/249‑1 (MQ=255)                                                                                               ttGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGt                                                                                                                                 <  1:510750/249‑1 (MQ=255)                                                                                                                  ttcttGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAg                                                                                                                                                                                                                             <  1:283099/138‑1 (MQ=255)                                                                                                                      tgttgtAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAg                                                                                                                                                                                                                  <  1:306307/145‑1 (MQ=255)                                                                                                                                     gCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTAt                                                                                         >  1:483987/1‑251 (MQ=255)                                                                                                                                             ttCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAAtt                                                                                                                                                          <  1:56712/178‑1 (MQ=255)                                                                                                                                                   aaTATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAAt                                                                           <  1:328251/251‑1 (MQ=255)                                                                                                                                                     tatCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTc                                                                         <  1:673044/251‑1 (MQ=255)                                                                                                                                                            atcatcatcAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACt                                                                                                                                                                                  >  1:48236/1‑139 (MQ=255)                                                                                                                                                                 catcaATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATc                                                             <  1:233254/251‑1 (MQ=255)                                                                                                                                                                               aCATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCAt                                                                                                                                                                                              >  1:342493/1‑108 (MQ=255)                                                                                                                                                                               aCATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAAt                                                                           <  1:682195/223‑1 (MQ=255)                                                                                                                                                                                           tAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCaa                                   >  1:437118/1‑251 (MQ=255)                                                                                                                                                                                             aTTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAg                                                                                                                                                                                                                  >  1:651283/1‑74 (MQ=255)                                                                                                                                                                                                   cATTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCAATCTCCGGt                           >  1:308608/1‑251 (MQ=255)                                                                                                                                                                                                    aTTATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATc                                                                                        >  1:488371/1‑189 (MQ=255)                                                                                                                                                                                                     ttATCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAAtt                                                                          >  1:692097/1‑202 (MQ=255)                                                                                                                                                                                                       aTCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCAt                                                                                                                                                                                              <  1:600520/84‑1 (MQ=255)                                                                                                                                                                                                       aTCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACtt                                                                                                                                                                                 <  1:256939/97‑1 (MQ=255)                                                                                                                                                                                                       aTCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATcc                                                            <  1:738622/214‑1 (MQ=255)                                                                                                                                                                                                       aTCTACCACCTTAAATTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCAATCTCCGGttttt                       >  1:470412/1‑251 (MQ=255)                                                                                                                                                                                                                    aaTTCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCAATCTCCGGTTTTTCATGCTGCATAGc          <  1:811138/251‑1 (MQ=255)                                                                                                                                                                                                                      ttCCAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTCATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCAATCTCCGGTTTTTCATGCTGCATAGCtt        <  1:423417/251‑1 (MQ=255)                                                                                                                                                                                                                        ccAAAATAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTAtct                                      <  1:537341/219‑1 (MQ=255)                                                                                                                                                                                                                          aaaaTAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGAt                                                                                                                                                                           >  1:201270/1‑84 (MQ=255)                                                                                                                                                                                                                            aaTAACCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCAATCTCCGGTTTTTCATGCTGCATAGCTTCCAGTg  <  1:240723/251‑1 (MQ=255)                                                                                                                                                                                                                               aaCCAGCGTATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCAATCTCCGGTTTTTCATGCTGCATAGCtt        >  1:841573/1‑242 (MQ=255)                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                TCTAATCCTGAAATGCCCAGCAATAATACGTCGCAAATCACAACGCCATACCAATTTTCCGGAATTTGATTAATAATCTCTTTAGGTTCGGCAGTTGCAAATACAGAATAGCCTTCTTGTTGTAATAAATCGGCATACGATTCCAAAATATCAAAATCATCATCAATTAATAAAACATTATTCTGATAATTAAACATTATCTACCACCTTAAATTCCAAAATAACCAGCGCATTTTTTGTCAATGTAGAAGCAATTAATAAGTTTCCTTGACATTGTTGCATAATGGATAGACTTATTGATAATCCTAAGCCTAAATTAATGGATTTACTACTGGAGAAAGGTTGTAGTAATTTATCTGACAACGGCCAACCGGAACCATTATCAGAAACCCATAATTCTACTCTCTGATCCGATATATTTTGTATTTTTATCTCAATCTCCGGTTTTTCATGCTGCATAGCTTCCAGTG  >  1/1558919‑1559388

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑