Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,785,565	T→C	*238* (TAA→TGA)	ydiV ←	anti‑FlhDC factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,785,565	0	T	C	100.0%	209.1 / NA	56	*238* (TAA→TGA)	ydiV	anti‑FlhDC factor
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (30/26);  total (30/26)

TAGGGGAAAGTGCTGTATAGGTTTCTGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTTATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGCCGTATCAATGCCTCCCGCAATGATGC  >  NZ_CP009273/1785435‑1785694                                                                                                                                   |                                                                                                                                  tAGGGGAAAGTGCTGTATAGGTTTCTGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTg                                                                                                                            >  2:708281/1‑138 (MQ=255) tAGGGGAAAGTGCTGTATAGGTTTCTGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTg                                                                                                                            >  1:306518/1‑138 (MQ=255) tAGGGGAAAGTGCTGTATAGGTTTCTGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTg                                                                                                                            >  1:363425/1‑138 (MQ=255)        aaGTGCTGTATAGGTTTCTGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAAcg                                                                                                                    >  2:262960/1‑139 (MQ=255)                     gTTTCTGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGAtt                                                                                                       >  2:122089/1‑139 (MQ=255)                        tCTGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTAt                                                                                                    >  1:743331/1‑139 (MQ=255)                          tGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATgg                                                                                                  >  2:34284/1‑139 (MQ=255)                          tGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATgg                                                                                                  >  1:31510/1‑139 (MQ=255)                          tGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATgg                                                                                                  >  1:355333/1‑139 (MQ=255)                          tGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATgg                                                                                                  >  1:623697/1‑139 (MQ=255)                          tGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATgg                                                                                                  >  1:409393/1‑139 (MQ=255)                                ttCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACgg                                                                                            <  2:482338/139‑1 (MQ=255)                                           aGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  1:546916/139‑1 (MQ=255)                                           aGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  2:743331/139‑1 (MQ=255)                                           aGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  2:409393/139‑1 (MQ=255)                                           aGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  2:647414/139‑1 (MQ=255)                                           aGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  2:623697/139‑1 (MQ=255)                                           aGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  1:262960/139‑1 (MQ=255)                                             cGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCCGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCa                                                                               <  2:35222/139‑1 (MQ=255)                                                                 cATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAAt                                                           >  2:181310/1‑139 (MQ=255)                                                                     gATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGa                                                        <  1:517014/138‑1 (MQ=255)                                                                     gATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGa                                                        <  1:181310/138‑1 (MQ=255)                                                                     gATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGa                                                        <  1:5836/138‑1 (MQ=255)                                                                     gATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGa                                                        <  2:106423/138‑1 (MQ=255)                                                                      aTCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAg                                                      <  2:490283/139‑1 (MQ=255)                                                                        cctcctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGTGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCcaca                                                                                   >  2:765573/1‑108 (MQ=255)                                                                        cctcctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCcaca                                                                                   <  1:765573/108‑1 (MQ=255)                                                                        cctcctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAggg                                                    >  1:744770/1‑139 (MQ=255)                                                                        cctcctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAggg                                                    >  1:580940/1‑139 (MQ=255)                                                                         ctcctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGGAATCGAAgggg                                                   >  2:244432/1‑139 (MQ=255)                                                                          tcctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 >  1:463135/1‑108 (MQ=255)                                                                          tcctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  2:463135/108‑1 (MQ=255)                                                                          tcctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAggggg                                                  >  1:212731/1‑139 (MQ=255)                                                                            ctGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAggggg                                                  <  1:437344/137‑1 (MQ=255)                                                                              gTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAAt                                              >  2:469572/1‑139 (MQ=255)                                                                               tttGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAAt                                              <  2:677771/138‑1 (MQ=255)                                                                                 tGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  1:471673/101‑1 (MQ=255)                                                                                 tGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 >  2:471673/1‑101 (MQ=255)                                                                                    tAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGc                                        >  2:144781/1‑139 (MQ=255)                                                                                       tgtAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCaa                                     >  1:142067/1‑139 (MQ=255)                                                                                         tAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGa                                                        <  2:183174/118‑1 (MQ=255)                                                                                         tAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGa                                                        >  1:183174/1‑118 (MQ=255)                                                                                                ttACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGc                            <  2:355333/139‑1 (MQ=255)                                                                                                ttACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGc                            >  1:271055/1‑139 (MQ=255)                                                                                                 tACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 <  2:356334/85‑1 (MQ=255)                                                                                                 tACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAgg                                                                                 >  1:356334/1‑85 (MQ=255)                                                                                                 tACTCTCGTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGcc                           >  1:605625/1‑139 (MQ=255)                                                                                                        gTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACTTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGCCGTATCa                     <  1:708281/138‑1 (MQ=255)                                                                                                        gTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCa                                                                                          >  2:294374/1‑69 (MQ=255)                                                                                                        gTCTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCa                                                                                          <  1:294374/69‑1 (MQ=255)                                                                                                          cTTAAACACCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGCCGTATCAATg                  >  1:150092/1‑139 (MQ=255)                                                                                                                 acCAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGCCGTATCAATGCCTCCCg           <  2:142067/139‑1 (MQ=255)                                                                                                                  ccAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGa                                                        >  1:837885/1‑93 (MQ=255)                                                                                                                  ccAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGa                                                        <  2:837885/93‑1 (MQ=255)                                                                                                                   cAGCAAACAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGCCGTATCAATGCCTCCCGc          >  2:685118/1‑138 (MQ=255)                                                                                                                          cAGAAGGGTCATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGCCGTATCAATGCCTCCCGCAATGATGc  <  2:31510/139‑1 (MQ=255)                                                                                                                                   |                                                                                                                                  TAGGGGAAAGTGCTGTATAGGTTTCTGGCAATTCATCGCGCCAGCGGGTAACAAAAGACAGGGTCATAGATCCTCCTGTTTGATAGTGTAGACGGTTACTCTCGTCTTAAACACCAGCAAACAGAAGGGTTATCGCTGAACCAACGTCGTTATCTGATTTATGGGAACGGCAGGCCACAGGCATCCCTGGAGAGCATGGAAATCGAAGGGGGTAATCTGTGCCAATATTTCTGCCGTATCAATGCCTCCCGCAATGATGC  >  NZ_CP009273/1785435‑1785694

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑