Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	528,392	C→A	intergenic (+3/‑75)	allA → / → allR	ureidoglycolate lyase/HTH‑type transcriptional repressor AllR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	528,392	0	C	A	100.0%	229.1 / NA	57	intergenic (+3/‑75)	allA/allR	ureidoglycolate lyase/HTH‑type transcriptional repressor AllR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (24/33);  total (24/33)

ACCATCGTAACGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGCCTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCGGAGCCTGTGGCACAGAAGGGC  >  NZ_CP009273/528259‑528526                                                                                                                                      |                                                                                                                                       aCCATCGTAACGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGc                                                                                                                                    >  1:1066205/1‑138 (MQ=255)   cATCGTAACGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAAc                                                                                                                                 >  1:252529/1‑139 (MQ=255)       gTAACGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGAc                                                                                                                             >  2:395702/1‑139 (MQ=255)       gTAACGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGAc                                                                                                                             <  2:580954/139‑1 (MQ=255)       gTAACGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGAc                                                                                                                             <  1:926808/139‑1 (MQ=255)        tAACGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACt                                                                                                                            >  2:1225852/1‑139 (MQ=255)           cGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGc                                                                                                                         <  2:25642/139‑1 (MQ=255)                    tCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTCGCGTGACGACTGCAACCGACTTGCATAAGATaa                                                                                                                <  2:1100782/139‑1 (MQ=255)                           cTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAAtt                                                                                                         >  1:568640/1‑139 (MQ=255)                           cTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAAtt                                                                                                         <  2:166266/139‑1 (MQ=255)                                 gCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCa                                                                                                    <  1:967144/138‑1 (MQ=255)                                           gcgTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCt                                                                                         <  1:396198/139‑1 (MQ=255)                                                       ttCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGt                                                                              <  1:1225852/138‑1 (MQ=255)                                                       ttCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGt                                                                              <  2:41913/138‑1 (MQ=255)                                                       ttCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGt                                                                              <  1:896736/138‑1 (MQ=255)                                                            aCCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTg                                                                                   >  2:253563/1‑128 (MQ=255)                                                            aCCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTg                                                                                   <  1:253563/128‑1 (MQ=255)                                                                tcgatcgCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGt                                                                                                <  2:665309/111‑1 (MQ=255)                                                                tcgatcgCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGt                                                                                                >  1:665309/1‑111 (MQ=255)                                                                 cgatcgCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACg                                                                   >  1:1182036/1‑139 (MQ=255)                                                                 cgatcgCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCATGACGACTGCAACCGACTTGCa                                                                                                                        <  2:1110736/86‑1 (MQ=255)                                                                 cgatcgCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCATGACGACTGCAACCGACTTGCa                                                                                                                        >  1:1110736/1‑86 (MQ=255)                                                                   atcgCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAg                                                                         <  1:325103/131‑1 (MQ=255)                                                                   atcgCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAg                                                                         >  2:325103/1‑131 (MQ=255)                                                                                  aCAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGAc                                                         <  1:1040625/132‑1 (MQ=255)                                                                                  aCAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGAc                                                         >  2:1040625/1‑132 (MQ=255)                                                                                  aCAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGt                                                   >  1:860483/1‑138 (MQ=255)                                                                                              ttGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCgg                                       <  1:683515/138‑1 (MQ=255)                                                                                              ttGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCgg                                       <  1:1016882/138‑1 (MQ=255)                                                                                              ttGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCgg                                       <  2:847342/138‑1 (MQ=255)                                                                                                gAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAg                                    >  1:1211989/1‑139 (MQ=255)                                                                                                 aaaGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCgg                                       <  1:1101359/135‑1 (MQ=255)                                                                                                 aaaGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCgg                                       >  2:1101359/1‑135 (MQ=255)                                                                                                  aaGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGc                                  <  2:1066205/139‑1 (MQ=255)                                                                                                      aTTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATTAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGAc                                                         >  1:761528/1‑112 (MQ=255)                                                                                                      aTTCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATTAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGAc                                                         <  2:761528/112‑1 (MQ=255)                                                                                                       ttCCTGAACAGGAACTCTGTTTTGCGTGACGACTGGAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGa                             <  1:832504/139‑1 (MQ=255)                                                                                                       ttCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGa                             <  1:5241/139‑1 (MQ=255)                                                                                                       ttCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGa                             <  2:1211989/139‑1 (MQ=255)                                                                                                        tCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGa                             >  2:802697/1‑138 (MQ=255)                                                                                                        tCCTGAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGa                             >  2:5241/1‑138 (MQ=255)                                                                                                        tCCTAAACAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGa                             >  2:119775/1‑138 (MQ=255)                                                                                                             aaCAGGAACTCTGTTTTGCGTGACGACTGCAACCGAc                                                                                                                             <  1:624818/37‑1 (MQ=255)                                                                                                             aaCAGGAACTCTGTTTTGCGTGACGACTGCAACCGAc                                                                                                                             >  2:624818/1‑37 (MQ=255)                                                                                                             aaCAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCg                       <  2:740855/139‑1 (MQ=255)                                                                                                               cAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGa                             >  2:918699/1‑131 (MQ=255)                                                                                                               cAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGa                             <  1:918699/131‑1 (MQ=255)                                                                                                               cAGGAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCGGa                     <  1:25333/139‑1 (MQ=255)                                                                                                                 ggAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCa                                                                                                                        >  2:55730/1‑38 (MQ=255)                                                                                                                 ggAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCa                                                                                                                        <  1:55730/38‑1 (MQ=255)                                                                                                                  gAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGAc                                                         <  2:326850/100‑1 (MQ=255)                                                                                                                  gAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGAc                                                         >  1:326850/1‑100 (MQ=255)                                                                                                                  gAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCgg                                       <  1:733143/118‑1 (MQ=255)                                                                                                                  gAACTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCgg                                       >  2:733143/1‑118 (MQ=255)                                                                                                                    aCTCTGTTTTGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCGGAGCCtg                <  1:470063/139‑1 (MQ=255)                                                                                                                          ttttGCGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCGGAGCCTGTGGca           <  2:860483/138‑1 (MQ=255)                                                                                                                               cGTGACGACTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCGGAGCCTGTGGCACAGAAg     >  1:580267/1‑139 (MQ=255)                                                                                                                                  gacgacTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCGGAGCCTGTGGCACAGAAGGgc  >  1:642203/1‑139 (MQ=255)                                                                                                                                  gacgacTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCGGAGCCTGTGGCACAGAAGGgc  >  1:459184/1‑139 (MQ=255)                                                                                                                                      |                                                                                                                                       ACCATCGTAACGTCTGGCATCACCCACTTTTCGCCTGGCAGCGCGTCACCGATTTTCTGACCATCGATCGCGGCGGCAGTGACAACTGTGATGTTGAAAGTATTCCTGAACAGGAACTCTGTTTTGCGTGACGCCTGCAACCGACTTGCATAAGATAAACTAATTGTTCATTGTTTATGCTCACTTGTAGGTCGGAGTTAACGTAGGTATGACGGAAGTTAGACGGCGCGGCAGGCCAGGACAGGCGGAGCCTGTGGCACAGAAGGGC  >  NZ_CP009273/528259‑528526

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑