Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,572,235	A→G	intergenic (‑149/+75)	gntR ← / ← yhhW	gluconate operon transcriptional repressor GntR/quercetin 2,3‑dioxygenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,572,235	0	A	G	100.0%	124.5 / NA	36	intergenic (‑149/+75)	gntR/yhhW	gluconate operon transcriptional repressor GntR/quercetin 2,3‑dioxygenase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (21/15);  total (21/15)

ACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGAAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCATGGATGGAG  >  NZ_CP009273/3572099‑3572367                                                                                                                                         |                                                                                                                                     aCAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTTAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAg                                                                                                                                    >  2:517552/1‑139 (MQ=255)             gatTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCa                                                                                                                        <  1:416693/139‑1 (MQ=255)               ttCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCAcg                                                                                                                      <  1:536209/139‑1 (MQ=255)                  tctTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGa                                                                                                                   >  2:318909/1‑139 (MQ=255)                            acacGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGgagcgag                                                                                                         >  1:339412/1‑139 (MQ=255)                                 gACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGcgagcgag                                                                                                     >  1:86788/1‑138 (MQ=255)                                      aTCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGcc                                                                                               >  1:280129/1‑139 (MQ=255)                                            aCCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCaa                                                                                          >  2:317635/1‑138 (MQ=255)                                                tCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAagg                                                                                     >  1:194337/1‑139 (MQ=255)                                                tCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAagg                                                                                     >  2:19069/1‑139 (MQ=255)                                                 cccGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAagg                                                                                     <  1:23819/138‑1 (MQ=255)                                                  ccGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAaggca                                                                                   <  2:537525/139‑1 (MQ=255)                                                                                    tataCACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACcggcg                                                 <  1:19069/139‑1 (MQ=255)                                                                                    tataCACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACcggcg                                                 >  1:434593/1‑139 (MQ=255)                                                                                       acacTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGga                                                                                                              >  2:16674/1‑75 (MQ=255)                                                                                       acacTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGga                                                                                                              <  1:16674/75‑1 (MQ=255)                                                                                         acTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAaggca                                                                                   >  1:347648/1‑100 (MQ=255)                                                                                         acTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAaggca                                                                                   <  2:347648/100‑1 (MQ=255)                                                                                          cTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGAt                                           <  2:280129/139‑1 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                         <  2:86788/138‑1 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                         >  2:424870/1‑138 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                         >  1:440854/1‑138 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                         <  1:461634/138‑1 (MQ=255)                                                                                                 aaTTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAg                                    <  2:561029/139‑1 (MQ=255)                                                                                                           cATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCggcggc                                               <  1:508205/118‑1 (MQ=255)                                                                                                           cATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCggcggc                                               >  2:508205/1‑118 (MQ=255)                                                                                                           cATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                         <  2:337100/124‑1 (MQ=255)                                                                                                           cATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                         >  1:337100/1‑124 (MQ=255)                                                                                                                tgCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGga                                                                                                              <  1:7263/50‑1 (MQ=255)                                                                                                                tgCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGga                                                                                                              >  2:7263/1‑50 (MQ=255)                                                                                                                tgCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTc                     >  2:139995/1‑139 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa           >  2:28408/1‑139 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa           >  2:167129/1‑139 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa           >  2:129866/1‑139 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCAAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa           >  2:559399/1‑139 (MQ=255)                                                                                                                                   ccccGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCATGGATGgag  <  2:440854/139‑1 (MQ=255)                                                                                                                                         |                                                                                                                                     ACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGAAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCATGGATGGAG  >  NZ_CP009273/3572099‑3572367

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑