Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,843,971	C→T	100%	A275T (GCG→ACG)	gacS ←	sensor protein GacS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,843,971	0	C	T	100.0%	173.9 / NA	52	A275T (GCG→ACG)	gacS	sensor protein GacS
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (24/28);  total (24/28)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TCGAGCTGGCGCGGTGTCATCTCGCTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGCCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATGCCGTGGGCCAGTTCGTC  >  NC_002947/1843829‑1844115                                                                                                                                               |                                                                                                                                                 tCGATCTGGCGCGGTGTCATCTAGCTTTTTTGCAGCAGGTGGTTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTc                                                                                                                                            <  4:263471/149‑1 (MQ=255)   gAGCTGGCGCGGTGTCATCTCGCTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCGAGTGCCTCTTTGCGCGTCATGTCCa                                                                                                                                          <  2:2307/149‑1 (MQ=255)      cTGGCGCGGTGTCATCTCGCTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCt                                                                                                                                       <  8:108211/149‑1 (MQ=255)         gcgcGGTGTCATCTCGCTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCg                                                                                                                                     <  3:310370/148‑1 (MQ=255)                 tCATCTCGC‑TTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGa                                                                                                                           >  3:147085/1‑149 (MQ=255)                     ctcGCTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTc                                                                                                                                            <  8:272830/129‑1 (MQ=255)                     ctcGCTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTc                                                                                                                                            >  7:272830/1‑129 (MQ=255)                        gCTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGa                                                                                                                     >  5:299625/1‑149 (MQ=255)                        gCTTTTTTGCAGCAGGGGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGAttt                                                                                                                        <  4:5913/146‑1 (MQ=255)                        gCTGTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGAttt                                                                                                                        <  5:301502/146‑1 (MQ=255)                         gctttttGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGAttt                                                                                                                        <  4:147085/143‑1 (MQ=255)                         cTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATATCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGAt                                                                                                                    <  1:316973/149‑1 (MQ=255)                         cTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGGGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGAt                                                                                                                    <  5:363885/149‑1 (MQ=255)                          ttttttGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATg                                                                                                                   >  7:50087/1‑149 (MQ=255)                          ttttttGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTCTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATg                                                                                                                   >  2:299833/1‑149 (MQ=255)                                 cagcatGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCa                                                                                                            <  3:295623/149‑1 (MQ=255)                                     agGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTCTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGtt                                                                                                        <  1:299833/149‑1 (MQ=255)                                          ggTAAAGCCGAGGATGCCATTGAGCGGGGTTCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTgg                                                                                                    <  8:201308/148‑1 (MQ=255)                                          ggTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCGTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTgg                                                                                                    <  1:353812/148‑1 (MQ=255)                                           gTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGgcg                                                                                                  >  4:149603/1‑149 (MQ=255)                                               aGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACg                                                                                              >  5:361266/1‑149 (MQ=255)                                                     ggATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCg                                                                                        <  1:257723/149‑1 (MQ=255)                                                     ggATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCg                                                                                        >  3:362866/1‑149 (MQ=255)                                                     ggATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCg                                                                                        <  1:263040/149‑1 (MQ=255)                                                        tGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTg                                                                                     >  6:39967/1‑149 (MQ=255)                                                          ccATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGc                                                                                   <  4:317601/149‑1 (MQ=255)                                                           cATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGAAAAATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGcc                                                                                  >  1:125583/1‑149 (MQ=39)                                                                    gggTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATg                                                                         <  6:299625/149‑1 (MQ=255)                                                                      gTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCt                                                                       >  4:376896/1‑149 (MQ=255)                                                                       tGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCtg                                                                      <  8:50087/149‑1 (MQ=255)                                                                            aTTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTg                                                                 <  1:332132/149‑1 (MQ=255)                                                                                 gTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGtt                                                            >  2:141494/1‑149 (MQ=255)                                                                                 gTGGCACATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGtt                                                            >  7:250021/1‑149 (MQ=255)                                                                                     cTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGttcttc                                                        >  6:138939/1‑149 (MQ=255)                                                                                         tGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTgg                                                    >  2:190985/1‑149 (MQ=255)                                                                                                 aGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTg                                            >  7:53086/1‑149 (MQ=255)                                                                                                  ggAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGc                                           <  3:376896/149‑1 (MQ=255)                                                                                                          gACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCGGTTCTTCGTGGGCATTCTGCAGGGTTTc                                   >  5:42973/1‑149 (MQ=255)                                                                                                                    ggCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCgg                         <  6:335995/149‑1 (MQ=255)                                                                                                                     gCTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGt                        <  2:125583/149‑1 (MQ=255)                                                                                                                      cTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATTCGGtt                       <  4:362866/149‑1 (MQ=255)                                                                                                                      cTGGCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGtt                       <  6:361266/149‑1 (MQ=255)                                                                                                                         gCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGAt                    <  5:138939/149‑1 (MQ=255)                                                                                                                         gCCTCAAGTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCNTCGGTGGCCTGGTCGATGATGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGAt                    >  1:124556/1‑149 (MQ=255)                                                                                                                          ccTCAACTGCCTCTTTGCGCGTCATGTCCAGCTCGATGTTCAGGATTACGATGGTGTCCAGGTTCTGGCGCACGTGTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATg                   <  8:67480/149‑1 (MQ=255)                                                                                                                                   ccTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATGCCGTGGGc           >  7:80143/1‑148 (MQ=255)                                                                                                                                   ccTCTTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATGCCGTGGGc           >  3:100795/1‑148 (MQ=255)                                                                                                                                    ctctTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATGCCGTGGGc           >  2:108168/1‑147 (MQ=255)                                                                                                                                     tctTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAgg                                        <  6:108863/117‑1 (MQ=255)                                                                                                                                     tctTTGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAgg                                        >  5:108863/1‑117 (MQ=255)                                                                                                                                     tctTTGCGCGTCATGTCCAGCCCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATGCCGTGGGCCAg        >  5:87557/1‑149 (MQ=255)                                                                                                                                         tGCGCGTCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATGCCGTGGGCCAGTTCg    >  6:173972/1‑149 (MQ=255)                                                                                                                                          gcgcgtCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGt                        >  6:286905/1‑128 (MQ=255)                                                                                                                                          gcgcgtCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGt                        <  5:286905/128‑1 (MQ=255)                                                                                                                                           cgcgtCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATGCCGTGGGCCAGTTCGTc  <  1:141494/149‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                 TCGAGCTGGCGCGGTGTCATCTCGCTTTTTTGCAGCAGGTGGGTAAAGCCGAGGATGCCATTGAGCGGGGTGCGGATTTCGTGGCTCATGTTGGCCAGGAACTCCGACTTGATGCGGCTGGCCTCAAGTGCCTCTTTGCGCGCCATGTCCAGCTCGATGTTCTGGATTTCGATGGTTTCCAGGTTCTGGCGCACGTCTTCGGTGGCCTGGTCGATGCTGTGTTGCAGTTCTTCGTGGGCATTCTGCAGGGTTTCGGCCATGCGGTTGATGCCGTGGGCCAGTTCGTC  >  NC_002947/1843829‑1844115

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑