Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,941,426	G→A	7.0%	intergenic (‑107/‑76)	PP_1740 ← / → betX	beta (1‑6) glucans synthase/choline/betaine/carnitine ABC transporter substrate‑binding protein BetX

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,941,426	0	G	A	7.0%	158.6 / 2.9	57	intergenic (‑107/‑76)	PP_1740/betX	beta (1‑6) glucans synthase/choline/betaine/carnitine ABC transporter substrate‑binding protein BetX
Reads supporting (aligned to +/- strand):  ref base G (25/28);  new base A (2/2);  total (27/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.65e-01

GGCTACAACTGGGCATGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTGGGCACCGCCCTGGTAATGGCCATGAGCGCTG  >  NC_002947/1941280‑1941574                                                                                                                                                   |                                                                                                                                                     ggcTACAACTGGGCATGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAg                                                                                                                                                   <  1:1175802/150‑1 (MQ=255) ggcTACAACTGGGCATGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAg                                                                                                                                                   <  2:1201940/150‑1 (MQ=255)    tACAACTGGGCATGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTc                                                                                                                                                >  1:3742/1‑150 (MQ=255)     aCAACTGGGCATGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGAGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCg                                                                                                                                               >  2:537123/1‑150 (MQ=255)       aaCTGGGCATGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCa                                                                                                                                             >  2:1226397/1‑150 (MQ=255)              cATGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGAt                                                                                                                                      <  1:1226397/150‑1 (MQ=255)               aTGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATc                                                                                                                                     >  1:412829/1‑150 (MQ=255)                    gCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGgtc                                                                                                                                >  2:720992/1‑150 (MQ=255)                         ccATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCtt                                                                                                                           <  1:500459/150‑1 (MQ=255)                           aTCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCCCACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTtgt                                                                                                                         <  1:1084185/150‑1 (MQ=255)                            tCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTtgtg                                                                                                                        >  1:117615/1‑150 (MQ=255)                                cTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGc                                                                                                                    <  1:1161579/150‑1 (MQ=255)                                 tGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAgg                                                                                                                                  >  2:218432/1‑135 (MQ=255)                                 tGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAgg                                                                                                                                  <  1:218432/135‑1 (MQ=255)                                 tGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCa                                                                                                                   <  1:989053/150‑1 (MQ=255)                                       aaaaGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCa                                                                                                                   >  2:1282462/1‑144 (MQ=255)                                       aaaaGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCa                                                                                                                   <  1:1282462/144‑1 (MQ=255)                                          aGGTTAGAGAGTAGCGCGGTGCCAGAGCTTTGGCATGCGAGGATCGCGCAGGCCGAGGTAGGCCGAGGGGGCTAATCGCATAGTGCTGTCGCAGATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGAGTTGCAGTAAgatga                                                                                                          <  2:624034/150‑1 (MQ=255)                                           ggTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAgatgat                                                                                                         >  2:526898/1‑150 (MQ=255)                                             ttAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGc                                                                                                       >  2:1039395/1‑150 (MQ=255)                                               aGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCaa                                                                                                     >  1:367030/1‑150 (MQ=255)                                                gATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAAt                                                                                                    >  1:485785/1‑150 (MQ=255)                                                 aTAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAAtc                                                                                                   >  1:52458/1‑150 (MQ=255)                                                    gtagCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTcc                                                                                                <  1:767404/150‑1 (MQ=255)                                                      agCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCaa                                                                                              <  1:1039395/150‑1 (MQ=255)                                                       cttgcatgcCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAg                                                                                             >  2:1238316/8‑150 (MQ=255)                                                             cgcCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAgatgat                                                                                                         >  2:867679/1‑132 (MQ=255)                                                             cgcCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAgatgat                                                                                                         <  1:867679/132‑1 (MQ=255)                                                                cAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGa                                                                                    <  2:485785/150‑1 (MQ=255)                                                                           cATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCttt                                                                         <  2:3742/150‑1 (MQ=255)                                                                            aTGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTg                                                                        >  2:360020/1‑150 (MQ=255)                                                                                   gATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTg                                                                                                                                                      >  1:692370/1‑65 (MQ=255)                                                                                   gATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTg                                                                                                                                                      <  2:692370/65‑1 (MQ=255)                                                                                   gATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCaa                                                                 >  1:619041/1‑150 (MQ=255)                                                                                     tCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACt                                                               >  1:1185015/1‑150 (MQ=255)                                                                                       gcgcAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACttt                                                             <  1:866264/150‑1 (MQ=255)                                                                                          cAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTgaa                                                          <  1:70553/150‑1 (MQ=255)                                                                                          cAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTgaa                                                          <  2:367030/150‑1 (MQ=255)                                                                                           aGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTgaag                                                         <  2:117615/150‑1 (MQ=255)                                                                                                     aGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGAc                                               >  2:430269/1‑150 (MQ=255)                                                                                                           aTGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGc                                                                                                                    <  2:756720/75‑1 (MQ=255)                                                                                                           aTGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGc                                                                                                                    >  1:756720/1‑75 (MQ=255)                                                                                                                   aaTGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGAt                                                                      >  1:1316120/1‑113 (MQ=255)                                                                                                                   aaTGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGAt                                                                      <  2:1316120/113‑1 (MQ=255)                                                                                                                   aaTGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTg                                 <  1:709519/150‑1 (MQ=255)                                                                                                                   aaTGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTg                                 <  1:537123/150‑1 (MQ=255)                                                                                                                         aTAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTGGGCAcc                           >  1:177392/1‑150 (MQ=255)                                                                                                                             tGCTGTCGCATATGGGGCGGGTGCATGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTGGGCACCGccc                       >  1:744648/1‑150 (MQ=255)                                                                                                                              gCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTGCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTGGGCACCGCCCt                      <  1:526898/150‑1 (MQ=255)                                                                                                                                  tCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCa                                                                                                                   >  1:101547/1‑53 (MQ=255)                                                                                                                                  tCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCa                                                                                                                   <  2:101547/53‑1 (MQ=255)                                                                                                                                    gCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTGGGCACCGCCCTGGTAAt                <  2:412829/150‑1 (MQ=255)                                                                                                                                      atatGGGGCGGGTACAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGatgatg                                                                                                        >  1:1371796/1‑60 (MQ=255)                                                                                                                                      atatGGGGCGGGTACAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGatgatg                                                                                                        <  2:1371796/60‑1 (MQ=255)                                                                                                                                      atatGGGGCGGGTACAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGatgatg                                                                                                        <  2:1371468/60‑1 (MQ=255)                                                                                                                                      atatGGGGCGGGTACAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGatgatg                                                                                                        >  1:1371468/1‑60 (MQ=255)                                                                                                                                        atGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACttt                                                             <  2:193487/101‑1 (MQ=255)                                                                                                                                        atGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACttt                                                             >  1:193487/1‑101 (MQ=255)                                                                                                                                                  tGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTGGGCACCGCCCTGGTAATGGCCATGAGCGCTg  <  2:619041/150‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                     GGCTACAACTGGGCATGTGGCGGTCCATCGTCTGGCACAAAAGGTTAGATAGTAGCCCGGCGCCAAACCTTTGGCATGCAAGGATCGCGCAGGCCGAGGTAGGCCGATGGCGCTAATGGCATAGTGCTGTCGCATATGGGGCGGGTGCAGGTCGCAGCTGGATCAGGTCGTCTTGTGTTGCAGGAAGATGATGCAATCTCCAAGACCTGACGAGGGGATGCTTTGATGGCAACTTTGAAGAAAATGCGACGTTTCCTGGGCGTGGGCACCGCCCTGGTAATGGCCATGAGCGCTG  >  NC_002947/1941280‑1941574

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑