Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	85,763	C→T	intergenic (+244/‑358)	cra → / → mraZ	catabolite repressor/activator/division/cell wall cluster transcriptional repressor MraZ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	85,763	0	C	T	100.0%	223.5 / NA	58	intergenic (+244/‑358)	cra/mraZ	catabolite repressor/activator/division/cell wall cluster transcriptional repressor MraZ
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (28/30);  total (28/30)

TTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGT  >  NZ_CP009273/85636‑85893                                                                                                                                |                                                                                                                                   ttAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCaaa                                                                                                                         >  2:997251/1‑139 (MQ=255)  tAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCaaa                                                                                                                         <  2:133639/138‑1 (MQ=255)     aCCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCg                                                                                                                     <  2:310743/139‑1 (MQ=255)     aCCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCg                                                                                                                     <  1:997251/139‑1 (MQ=255)     aCCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCg                                                                                                                     <  1:75732/139‑1 (MQ=255)         gcccgTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTgg                                                                                                                 >  1:562429/1‑139 (MQ=255)             gTTAATTAACTCTCCATCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTGTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATGTAACAAACGCTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATc                                                                                                             <  2:1271574/139‑1 (MQ=255)             gTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATc                                                                                                             <  1:238021/139‑1 (MQ=255)             gTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATc                                                                                                             <  1:791065/139‑1 (MQ=255)                 attaaCTCACCAGCTGAAAGTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAg                                                                                                          <  2:934518/138‑1 (MQ=255)                    aaCTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAgcgc                                                                                                       >  2:424191/1‑138 (MQ=255)                     aCTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCca                                                                                                     >  2:882485/1‑139 (MQ=255)                         aCCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCcaca                                                                                                   <  1:861206/137‑1 (MQ=255)                         aCCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCcaca                                                                                                   <  1:882485/137‑1 (MQ=255)                          ccAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAg                                                                                                <  2:321265/139‑1 (MQ=255)                           cAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGa                                                                                               >  1:983176/1‑139 (MQ=255)                            aGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGAc                                                                                              <  2:921628/139‑1 (MQ=255)                                gAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTaa                                                                                          >  1:47018/1‑139 (MQ=255)                                    ttCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAg                                                                                      <  1:424191/139‑1 (MQ=255)                                    ttCACAATAATTAAGTGATATAGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAg                                                                                      <  2:910956/139‑1 (MQ=255)                                        caATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACt                                                                                  >  2:298343/1‑139 (MQ=255)                                                 aGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCg                                                                          <  1:262350/138‑1 (MQ=255)                                                   tGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCgggg                                                                       <  2:562429/139‑1 (MQ=255)                                                   tGATATCGACAGCGCGCTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCggg                                                                        >  2:537896/1‑138 (MQ=255)                                                     atatCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCgggg                                                                       >  2:1033498/1‑137 (MQ=255)                                                           aCAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATg                                                               >  2:322641/1‑139 (MQ=255)                                                             aGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTc                                                             >  1:1017894/1‑139 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACaa                                                                                       >  1:123829/1‑111 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACaa                                                                                       <  2:123829/111‑1 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGata                                                                 <  2:917826/133‑1 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGata                                                                 >  1:917826/1‑133 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTcc                                                            >  2:514738/1‑138 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTcc                                                            >  2:698103/1‑138 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTcc                                                            >  1:860819/1‑138 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTcc                                                            >  2:282379/1‑138 (MQ=255)                                                               cgcgTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTcc                                                            >  2:129788/1‑138 (MQ=255)                                                                                  gTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCg                                         <  1:514738/138‑1 (MQ=255)                                                                                        tGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACt                                   >  2:1071809/1‑138 (MQ=255)                                                                                        tGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACt                                   >  1:1265680/1‑138 (MQ=255)                                                                                        tGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACt                                   >  1:139800/1‑138 (MQ=255)                                                                                        tGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACt                                   >  2:790912/1‑138 (MQ=255)                                                                                        tGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACt                                   >  2:296732/1‑138 (MQ=255)                                                                                          cggcgATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGa                                 <  2:983176/138‑1 (MQ=255)                                                                                          cggcgATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGa                                 <  1:298343/138‑1 (MQ=255)                                                                                          cggcgATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGa                                 <  2:421721/138‑1 (MQ=255)                                                                                             cgATGAATTGCCGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACt                             >  1:1277627/1‑139 (MQ=255)                                                                                                       ccGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCTCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAGCTGACACTTTATATTTg                    <  2:678321/138‑1 (MQ=255)                                                                                                       ccGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCcaca                                                                                                   >  2:468006/1‑59 (MQ=255)                                                                                                       ccGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCcaca                                                                                                   <  1:468006/59‑1 (MQ=255)                                                                                                       ccGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGc                   >  1:260166/1‑139 (MQ=255)                                                                                                        cGATTTAACAAACACTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCt                  <  2:349433/139‑1 (MQ=255)                                                                                                                    cacTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCt                  <  2:68082/127‑1 (MQ=255)                                                                                                                    cacTTTTCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCt                  >  1:68082/1‑127 (MQ=255)                                                                                                                         ttCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCt                  <  1:237688/122‑1 (MQ=255)                                                                                                                         ttCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCt                  >  2:237688/1‑122 (MQ=255)                                                                                                                         ttCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGt  <  2:860819/138‑1 (MQ=255)                                                                                                                         ttCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGt  <  2:1265680/138‑1 (MQ=255)                                                                                                                         ttCTTTGTTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGt  <  2:103277/138‑1 (MQ=255)                                                                                                                                |                                                                                                                                   TTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGT  >  NZ_CP009273/85636‑85893

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑