Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	REL606	3,367,986	G→A	R317C (CGC→TGC)	rpoA ←	DNA‑directed RNA polymerase subunit alpha

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	REL606	3,367,986	0	G	A	100.0%	248.4 / NA	67	R317C (CGC→TGC)	rpoA	DNA‑directed RNA polymerase subunit alpha
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (34/33);  total (34/33)

CCTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAG  >  REL606/3367913‑3368057                                                                          |                                                                        ccTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCATCGATGCTTGCCGGTGGCCAGTTTTCCAGGcaca                                                                       <  2:57917/76‑1 (MQ=255) ccTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGcaca                                                                       <  1:306989/76‑1 (MQ=255)  cTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACAt                                                                      <  1:345000/76‑1 (MQ=255)   ttCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATg                                                                     >  1:406188/1‑76 (MQ=255)    tctcAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGc                                                                    >  2:1018043/1‑76 (MQ=255)    tctcAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGc                                                                    >  1:1648397/1‑76 (MQ=255)    tctcAGAAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGc                                                                    >  1:1653842/1‑76 (MQ=255)        aGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCag                                                                <  2:820852/76‑1 (MQ=255)        aGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCag                                                                >  2:1515988/1‑76 (MQ=255)         gTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCaga                                                               >  2:1671338/1‑76 (MQ=255)           aaaaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAgaga                                                             >  2:710702/1‑76 (MQ=255)           aaaaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAgaga                                                             >  1:1388022/1‑76 (MQ=255)            aaaCCTTACCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGAc                                                            >  1:1645101/1‑76 (MQ=255)             aaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACa                                                           >  1:55297/1‑76 (MQ=255)               ccTTAACCTGTNCTCCGGTTACTCGTCAGCGATGCTCGCCGGTCNCCAGTTTTCCAGGCACAAGCCGAGAGACAGt                                                         <  1:212526/76‑1 (MQ=255)               ccTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGt                                                         <  1:557371/76‑1 (MQ=255)               ccTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGt                                                         <  1:844113/76‑1 (MQ=255)                   aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGCGACAGTCCAc                                                     <  1:1666942/76‑1 (MQ=255)                   aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCAc                                                     <  2:922726/76‑1 (MQ=255)                   aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCAc                                                     >  2:390367/1‑76 (MQ=255)                   aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCAc                                                     >  2:752668/1‑76 (MQ=255)                    aCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACg                                                    >  1:1122274/1‑76 (MQ=255)                     ccTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACgg                                                   <  1:763613/76‑1 (MQ=255)                     ccTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACgg                                                   >  2:132001/1‑76 (MQ=255)                     ccTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACgg                                                   >  2:1456146/1‑76 (MQ=255)                      cTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACggg                                                  <  1:1095554/76‑1 (MQ=255)                      cTGTGATCCGGCTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACggg                                                  >  1:105482/1‑76 (MQ=255)                        gtgCTCCGGTTACTCGACACCGATNCTTGCCGGTGGCCAGTTTTCCCGGCACATGCCCAGAGACAGTCCACGGGaa                                                >  1:153089/1‑76 (MQ=255)                        gtgATCCGGTTACTCGTCAGCGATGCTNGCCGGTGGACAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGaa                                                >  1:1542183/1‑76 (MQ=255)                         tgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAg                                               >  1:529465/1‑76 (MQ=255)                          gATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGCCCACGGGAAGc                                              >  1:774167/1‑76 (MQ=255)                           aTCCGGTTACTCGTCAGCGATGCCTGCCGGTGGCCAGTTNTCCAGCCACATGCCCNGAGACAGTCCACGGGAAGcc                                             >  2:1757337/1‑76 (MQ=255)                            tCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCa                                            <  1:1428510/76‑1 (MQ=255)                            tCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCa                                            <  1:980298/76‑1 (MQ=255)                             ccGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGGCAGTCCATGGGAAGCCAg                                           <  1:1663364/76‑1 (MQ=255)                             ccGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAg                                           <  1:1200736/76‑1 (MQ=255)                             ccGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAg                                           <  1:1218468/76‑1 (MQ=255)                              cGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGc                                          >  1:1036996/1‑76 (MQ=255)                                gTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCAc                                        <  1:797120/76‑1 (MQ=255)                                 ttACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACg                                       >  1:1214949/1‑76 (MQ=255)                                 ttACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACg                                       >  2:1176577/1‑76 (MQ=255)                                 ttACTCGTCAGCGATGCCTGCCGGTAGCCAGTTTTCCAGNCACATGCCCAGAGACNGTCCACAGGAAGCCAGCACg                                       >  2:1747239/1‑76 (MQ=255)                                  tACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTGCANGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGt                                      >  1:1725477/1‑76 (MQ=255)                                      cGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCttt                                  <  1:700513/76‑1 (MQ=255)                                       gTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTa                                 <  1:510679/76‑1 (MQ=255)                                        tCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTaa                                <  1:316140/76‑1 (MQ=255)                                         cAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAAt                               <  2:1115748/76‑1 (MQ=255)                                            cGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAAtctc                            >  2:310958/1‑76 (MQ=255)                                              aTGNTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAg                          >  1:1587105/1‑76 (MQ=255)                                              aTGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAg                          >  1:1361908/1‑76 (MQ=255)                                              aTGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAg                          <  2:356439/76‑1 (MQ=255)                                                 cTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCTCGGGAAGCCAGCACGTCTTTAATCTCAGTaa                       <  2:1574378/76‑1 (MQ=255)                                                 cTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTaa                       <  2:934049/76‑1 (MQ=255)                                                 cTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTaa                       <  1:1145884/76‑1 (MQ=255)                                                 cTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTaa                       <  2:1662732/76‑1 (MQ=255)                                                      cGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAt                  >  1:900511/1‑76 (MQ=255)                                                       ggTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAtt                 <  2:870160/76‑1 (MQ=255)                                                        gTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAttt                <  2:1455736/76‑1 (MQ=255)                                                             cAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAc           <  2:1013634/76‑1 (MQ=255)                                                             cAGTTTTCCAGGCACATGCCCACAGACAGGCCACGGGAAGCCAGCACGTCTTTAAACTCAGTAAGAGATTTTTTAc           <  2:137717/76‑1 (MQ=255)                                                               gTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCa         <  2:434977/76‑1 (MQ=255)                                                               gTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCa         <  1:1018046/76‑1 (MQ=255)                                                                 tttCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAg       >  2:1474700/1‑76 (MQ=255)                                                                  ttCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGTGATTTTTTACCAAg       >  1:1458889/1‑75 (MQ=255)                                                                  ttCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAgg      >  2:651756/1‑76 (MQ=255)                                                                  ttCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAg       <  2:1458885/75‑1 (MQ=255)                                                                    ccAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGtt    <  2:465026/76‑1 (MQ=255)                                                                      aGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAg  <  1:592709/76‑1 (MQ=255)                                                                      aGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATGTTTTACCAAGGTTAg  >  1:1460984/1‑76 (MQ=255)                                                                          |                                                                        CCTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAG  >  REL606/3367913‑3368057

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑