Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	966,040	A→G	D399G (GAT→GGT)	ycaQ →	winged helix DNA‑binding protein YcaQ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	966,040	0	A	G	100.0%	111.4 / NA	29	D399G (GAT→GGT)	ycaQ	winged helix DNA‑binding protein YcaQ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (17/12);  total (17/12)

GTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATTGCCTGCCCGGTTTG  >  NZ_CP009273/965912‑966169                                                                                                                                 |                                                                                                                                  gTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCAcc                                                                                                                         >  2:265482/1‑139 (MQ=255) gTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCAcc                                                                                                                         >  1:74947/1‑139 (MQ=255)     cAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCt                                                                                                                     >  2:638164/1‑139 (MQ=255)     cAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCt                                                                                                                     <  1:462713/139‑1 (MQ=255)     cAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCt                                                                                                                     <  1:541862/139‑1 (MQ=255)         aaGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTggg                                                                                                                  >  1:338836/1‑138 (MQ=255)           ggTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTg                                                                                                                    >  2:521073/1‑134 (MQ=255)           ggTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTg                                                                                                                    <  1:521073/134‑1 (MQ=255)           ggTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGaaa                                                                                                               >  1:206146/1‑139 (MQ=255)                      aaCGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTc                                                                                                    >  1:133581/1‑139 (MQ=255)                       aCGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCg                                                                                                   >  2:750508/1‑139 (MQ=255)                       aCGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCg                                                                                                   >  2:548468/1‑139 (MQ=255)                       aCGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCg                                                                                                   >  1:468061/1‑139 (MQ=255)                            aaCGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATaa                                                                                              <  2:468061/139‑1 (MQ=255)                                cTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGa                                                                                          >  2:44799/1‑139 (MQ=255)                                             tACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCgg                                                                                                                       <  2:592246/97‑1 (MQ=255)                                             tACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCgg                                                                                                                       >  1:592246/1‑97 (MQ=255)                                             tACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGAtt                                                                             >  2:18500/1‑139 (MQ=255)                                                 tCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATg                                                                         <  1:638164/139‑1 (MQ=255)                                                    ggCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCg                                                                                                      >  1:582323/1‑107 (MQ=255)                                                    ggCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCg                                                                                                      <  2:582323/107‑1 (MQ=255)                                                               aTTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGa                                                           <  1:402714/139‑1 (MQ=255)                                                                        aCTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTgg                                                  <  1:585169/139‑1 (MQ=255)                                                                                            gTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTc                              <  2:133581/139‑1 (MQ=255)                                                                                                  ttAGGATGCTGCCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTg                        <  1:707897/139‑1 (MQ=255)                                                                                                           tgcCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATtg               >  2:243054/1‑139 (MQ=255)                                                                                                           tgcCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATtg               >  1:736973/1‑139 (MQ=255)                                                                                                           tgcCCGCAAGGCCTCTTTACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATtg               >  2:633385/1‑139 (MQ=255)                                                                                                                          tttACTGGTTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATTGCCTGCCCGGTTTg  <  2:736973/137‑1 (MQ=255)                                                                                                                                 |                                                                                                                                  GTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATTGCCTGCCCGGTTTG  >  NZ_CP009273/965912‑966169

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: ‑