Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,986,841	T→A	100%	intergenic (+121/‑78)	PP_5245 → / → kefB‑III	AraC family transcriptional regulator/glutathione‑regulated potassium/H+ antiporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,986,841	0	T	A	100.0%	190.9 / NA	58	intergenic (+121/‑78)	PP_5245/kefB‑III	AraC family transcriptional regulator/glutathione‑regulated potassium/H+ antiporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (29/29);  total (29/29)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GCGGTGAACAGTCCGATTAGCGCTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGTCTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGT  >  NC_002947/5986701‑5986974                                                                                                                                               |                                                                                                                                       gCGGTGAACAGTCCGATTAGCGCTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGc                                                                                                                                 >  2:278626/1‑148 (MQ=255)        aCAGTCCGTTTAGCTCTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTAc                                                                                                                         <  1:291309/149‑1 (MQ=255)          aGTCCGATTAGCGCTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTatgc                                                                                                                       >  3:153669/1‑146 (MQ=255)                    gcgcTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTg                                                                                                             >  6:105116/1‑149 (MQ=255)                       cTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTcc                                                                                                          <  1:104779/149‑1 (MQ=255)                         gCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCg                                                                                                         >  4:26539/1‑148 (MQ=255)                          ccTTCTTCGCGGGCGCGCCCGGGCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGAACGGTCAATTTTTCTTCCCGTAA‑‑GATGATTGACTTACTCAACACTTCGCGTCAGAAtattgcgt                                                                                                        >  8:298392/1‑141 (MQ=255)                            ttcttcGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCa                                                                                                      >  4:20616/1‑148 (MQ=255)                                  gcgGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑t                                                                                               <  3:26539/148‑1 (MQ=255)                                           cccGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTg                                                                                     <  3:20616/149‑1 (MQ=255)                                            ccGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCa                                                                                                                   <  1:80044/119‑1 (MQ=255)                                            ccGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCa                                                                                                                   >  2:80044/1‑119 (MQ=255)                                            ccGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGc                                                                                    >  3:90759/1‑149 (MQ=255)                                                tCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCg                                                                                >  3:124898/1‑149 (MQ=255)                                                tCCCACAGAGATAGCACAGGCCTTGAGCCAAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGt                                                                                                            <  7:196105/122‑1 (MQ=255)                                                tCCCACAGAGATAGCACAGGCCTTGAGCCAAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGt                                                                                                            >  8:196105/1‑122 (MQ=255)                                                  ccACGGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCtaa                                                                                                                   >  2:276967/1‑111 (MQ=255)                                                  ccACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCt                                                                                                                     >  6:167443/1‑111 (MQ=255)                                                  ccACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCt                                                                                                                     <  5:167443/111‑1 (MQ=255)                                                  ccACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGc                                                                              <  5:105116/149‑1 (MQ=255)                                                   cacaGATATATCACAGGCCTTGATCCCAGGTAAGCGCCGGGACCGATTGTCACTCTGGACACGTCAATTTTTCTTCCCGTCATTGATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCgg                                                                               <  1:278626/149‑1 (MQ=255)                                                    acaGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCgg                                                                               >  2:44166/1‑146 (MQ=255)                                                    acaGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCa                                                                             <  1:44166/148‑1 (MQ=255)                                                      agagATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGc                                                                           >  8:185009/1‑148 (MQ=255)                                                      agagATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCt                                                                          >  5:316401/1‑149 (MQ=255)                                                         gaTAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCAt                                                                       >  5:320974/1‑149 (MQ=255)                                                          aTAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATg                                                                      <  6:320974/149‑1 (MQ=255)                                                          aTAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATg                                                                      <  4:116794/149‑1 (MQ=255)                                                          aTAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATg                                                                      <  4:90759/149‑1 (MQ=255)                                                              cacaGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCaaa                                                                                                    <  4:235164/116‑1 (MQ=255)                                                              cacaGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCaaa                                                                                                    >  3:235164/1‑116 (MQ=255)                                                                  ggCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACCATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGa                                                              <  7:185009/149‑1 (MQ=255)                                                                    ccTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATg                                                                      <  5:117304/139‑1 (MQ=255)                                                                    ccTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATg                                                                      >  6:117304/1‑139 (MQ=255)                                                                    ccTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGc                                                            >  4:329584/1‑149 (MQ=255)                                                                             cAGGTAAGCGCCGTCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCcac                                                   <  7:298392/149‑1 (MQ=255)                                                                               ggTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATg                                                                      >  7:25405/1‑128 (MQ=255)                                                                               ggTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATg                                                                      <  8:25405/128‑1 (MQ=255)                                                                                gTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGc                                                            <  2:129480/137‑1 (MQ=255)                                                                                gTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCagatcggg                                                   >  1:129480/1‑139 (MQ=255)                                                                                   aGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAg                                             <  4:124898/149‑1 (MQ=255)                                                                                        cGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGc                                        <  6:316401/149‑1 (MQ=255)                                                                                         ggCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAg                                             >  5:276543/1‑143 (MQ=255)                                                                                         ggCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAg                                             <  6:276543/143‑1 (MQ=255)                                                                                          gCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCt                                      >  4:24893/1‑149 (MQ=255)                                                                                              cGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCTg                                  >  1:217314/1‑149 (MQ=255)                                                                                                      aCTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCt                                   >  4:339565/1‑140 (MQ=255)                                                                                                      aCTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCt                                   <  3:339565/140‑1 (MQ=255)                                                                                                                 gacaATTTTTCTTCCCGTCA‑‑GATGTTTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTC‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTTCGAGCCAATGCCACACGATGGCAGCCTTCTg                                  <  8:221808/130‑1 (MQ=255)                                                                                                                 gacaATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGc                                                      >  6:339500/1‑110 (MQ=255)                                                                                                                 gacaATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGc                                                      <  5:339500/110‑1 (MQ=255)                                                                                                                 gacaATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCt                                   <  6:85475/129‑1 (MQ=255)                                                                                                                 gacaATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCt                                   >  5:85475/1‑129 (MQ=255)                                                                                                                 gacaATTTTTCTTCCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCTGCAAACCGCGGTGATCTTcc               <  3:329584/149‑1 (MQ=255)                                                                                                                         ttcttcCCGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTgc        <  3:24893/148‑1 (MQ=255)                                                                                                                               ccGTCA‑‑GATGATTGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTGCTTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGt  >  1:266123/1‑149 (MQ=255)                                                                                                                                            ttGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTa                                                                 <  5:164807/74‑1 (MQ=255)                                                                                                                                            ttGACTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTa                                                                 >  6:164807/1‑74 (MQ=255)                                                                                                                                               |                                                                                                                                       GCGGTGAACAGTCCGATTAGCGCTGCCTTCTTCGCGGGCGCGCCCGCTCCCACAGAGATAGCACAGGCCTTGAGCCCAGGTAAGCGCCGGCACCGATTGTCACTCTGGACAGGACAATTTTTCTTCCCGTCA‑‑GATGATTGTCTGACGCCACACTACCCCTCAGAATTGTCCGTCAAACTG‑TTCGAACGCTGCCCCGGCAGCTCATGGAGTACGAGCCAATGCCACACGAAGGCAGCCTTCTGCAAACCGCGGTGATCTTCCTGCTTGCCGCCGT  >  NC_002947/5986701‑5986974

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑