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%	174.9 / NA	49	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 (28/21);  total (28/21)

ACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGAAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCATGGAT  >  NZ_CP009273/3572099‑3572363                                                                                                                                         |                                                                                                                                 aCAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAg                                                                                                                                >  1:17831/1‑139 (MQ=255)   aaaaGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCg                                                                                                                              <  1:180743/139‑1 (MQ=255)               ttCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCAcg                                                                                                                  <  1:349145/139‑1 (MQ=255)                  tctTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGa                                                                                                               >  1:391407/1‑139 (MQ=255)                          tAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGgagc                                                                                                        <  1:269793/138‑1 (MQ=255)                                           aaCCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCa                                                                                       >  2:422291/1‑138 (MQ=255)                                            aCCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCaa                                                                                      >  1:128729/1‑138 (MQ=255)                                              cTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCaaa                                                                                     >  1:453858/1‑137 (MQ=255)                                                tCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAagg                                                                                 >  1:416091/1‑139 (MQ=255)                                                tCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAagg                                                                                 >  1:681234/1‑139 (MQ=255)                                                tCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAagg                                                                                 >  2:284737/1‑139 (MQ=255)                                                tCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAagg                                                                                 >  2:432329/1‑139 (MQ=255)                                                 cccGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAagg                                                                                 <  1:452099/138‑1 (MQ=255)                                                          aaCAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCa                                                                        >  2:635753/1‑138 (MQ=255)                                                             aGTGCTTGTTTACAATTATTAGATATACACTAAATCAGTTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGa                                                                    <  1:653461/139‑1 (MQ=255)                                                                 cTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGcc                                                                >  2:405502/1‑139 (MQ=255)                                                                               ttaGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAAc                                                  <  2:128729/139‑1 (MQ=255)                                                                                      taCACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCggcggc                                           <  2:593075/139‑1 (MQ=255)                                                                                      taCACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCggcggc                                           <  2:301440/139‑1 (MQ=255)                                                                                        cacTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACcggcgg                                            >  2:98778/1‑136 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGcgagcgag                                                                                                 <  2:651543/78‑1 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGcgagcgag                                                                                                 >  1:651543/1‑78 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                     >  1:126777/1‑138 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                     >  2:217880/1‑138 (MQ=255)                                                                                             aaTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGAAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                     >  1:630689/1‑138 (MQ=255)                                                                                              aTCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGaa                                   <  2:17831/139‑1 (MQ=255)                                                                                                   ttGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTaa                                                    >  2:54224/1‑117 (MQ=255)                                                                                                   ttGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTaa                                                    <  1:54224/117‑1 (MQ=255)                                                                                                           cATTGTGCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCg                      <  1:405502/139‑1 (MQ=255)                                                                                                                tgCTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTAGCTgac                 >  2:244158/1‑137 (MQ=255)                                                                                                                  cTAACGACGCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCg                <  2:681234/138‑1 (MQ=255)                                                                                                                     acgacgCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCa                                                                                       >  2:115509/1‑64 (MQ=255)                                                                                                                     acgacgCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCa                                                                                       <  1:115509/64‑1 (MQ=255)                                                                                                                     acgacgCGGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTAt            >  2:95673/1‑139 (MQ=255)                                                                                                                         cgcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGAt                                       <  1:135169/108‑1 (MQ=255)                                                                                                                         cgcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGAt                                       >  2:135169/1‑108 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCGAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCg                      >  2:400008/1‑124 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCGAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCg                      <  1:400008/124‑1 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                     <  2:69058/109‑1 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCg                                     >  1:69058/1‑109 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCg                      >  2:387208/1‑124 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCg                      <  1:387208/124‑1 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa       <  1:422291/139‑1 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa       <  1:464480/139‑1 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa       >  1:594611/1‑139 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa       >  2:766177/1‑139 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCa       >  2:771085/1‑139 (MQ=255)                                                                                                                          gcgGCAAAACCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAAAACTTCGCTGTCGCTATCAGCa       >  2:455152/1‑139 (MQ=255)                                                                                                                               aaaaCCCCGGGAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCatggat  <  1:432329/139‑1 (MQ=255)                                                                                                                                         |                                                                                                                                 ACAAAAGAGATAGATTCTCTTAGTTTAACACGGACACATCAGAACCTTCCCGGGGAAAACAGTGCTTGTTTACAATTATTAGATATACACTAAATCAATTGCATCGCATTGTGCTAACGACGCGGCAAAACCCCGGAAGCGTACATCAGCACGCGACCGGAGCGAGCGAGGAAGCCTGCAAAAAGGCAGGCTTCAAAGATGCCGTTGAGTTTTAAACCGGCGGCAGATCGAACAGTAACACTTCGCTGTCGCTATCCGCATGGAT  >  NZ_CP009273/3572099‑3572363

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑