Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947	1,070,248	+GA	intergenic (+48/+94)	aroP‑I → / ← PP_0928	aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,070,246	1	.	G	94.1%	156.5 / 4.1	51	intergenic (+46/+96)	aroP‑I/PP_0928	aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein
Reads supporting (aligned to +/- strand):  ref base . (0/3);  new base G (24/24);  total (24/27)
Fisher's exact test for biased strand distribution p-value = 2.38e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.20e-01
*	NC_002947	1,070,246	2	.	A	94.1%	159.5 / 3.8	51	intergenic (+46/+96)	aroP‑I/PP_0928	aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein
Reads supporting (aligned to +/- strand):  ref base . (0/3);  new base A (24/24);  total (24/27)
Fisher's exact test for biased strand distribution p-value = 2.38e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.20e-01

CCTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGT‑‑GATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACA  >  NC_002947/1070098‑1070379                                                                                                                                                      ||                                                                                                                                      ccTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCtgt                                                                                                                                         <  1:90131/149‑1 (MQ=255)     aCGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGT‑‑Ga                                                                                                                                     <  2:161660/147‑1 (MQ=255)       gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCtgt                                                                                                                                         >  7:120608/1‑143 (MQ=255)       gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGT‑‑Gagatc                                                                                                                                 <  6:136789/149‑5 (MQ=255)          gccgATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGTGCCTGT‑‑Gagatcgag                                                                                                                              <  4:68160/149‑8 (MQ=255)                             aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCt                                                                                                              <  7:167561/148‑1 (MQ=255)                             aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTc                                                                                                             <  1:142448/149‑1 (MQ=255)                                cTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGAt                                                                                                          >  3:198002/1‑149 (MQ=255)                                cTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGa                                                                                                           <  8:28557/148‑1 (MQ=38)                                 tGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGGtc                                                                                                         >  7:14709/1‑149 (MQ=255)                                 tGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGAtc                                                                                                         >  4:73361/1‑149 (MQ=255)                                 atctCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGAtc                                                                                                         <  3:261190/146‑1 (MQ=38)                                   aTCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGAtct                                                                                                        >  6:352457/1‑148 (MQ=255)                                   aTCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGAtct                                                                                                        >  3:241953/1‑148 (MQ=255)                                      ccGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGAtc                                                                                                         >  4:261190/1‑144 (MQ=38)                                       cGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAg                                                                                                   >  7:174265/1‑149 (MQ=255)                                          cATGGATCGGTTTGGTGTGGGTTGCTTTCAAGCTGAAGAAGGCTCGCCTGGCCAATGGCTGATGGGGTTTTTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGGTCTCAGAGGCg                                                                                                <  8:14709/149‑1 (MQ=25)                                               aTCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGa                                                                                            >  3:273829/1‑148 (MQ=255)                                               aTCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGa                                                                                            >  5:264222/1‑148 (MQ=255)                                               aTCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGa                                                                                            >  5:87259/1‑148 (MQ=255)                                                   ctgtgctgtgGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGTGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCTGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGcc                                                                                       <  6:344506/149‑1 (MQ=38)                                                      tgctgtgGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTa                                                                                     >  4:18981/1‑148 (MQ=255)                                                      tgctgtgGGTGCCTTTCAAGCTGAACAAGGCGCGCCCGGCCAAGGGCTGATCGGTTTTGGTCGTAAGGGGTAGGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTaa                                                                                    <  6:45400/149‑1 (MQ=37)                                                           ggggtggCTTTCAAGCTGAAGACGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTAAGCCTTTAGGCTTTCATCGCCTGTGAGATCGAGCGCCGCCCGCGCGGGGCTCGATCTCACAGGCGCCGAAAACCTaaccg                                                                                 <  1:266744/146‑4 (MQ=17)                                                               tggCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCg                                                                           >  7:23556/1‑149 (MQ=255)                                                                  cTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCt                                                                        <  1:224426/149‑1 (MQ=255)                                                                   tttCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGCTTTCATCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGa                                                                                                           >  8:104128/1‑113 (MQ=21)                                                                   tttCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGCTTTCATCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGa                                                                                                           <  7:104128/113‑1 (MQ=21)                                                                         gCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGcc                                                                 <  6:264222/149‑1 (MQ=255)                                                                             aagaagGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGa                                                             >  2:306545/1‑149 (MQ=255)                                                                             aagaagGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGa                                                             >  2:302354/1‑149 (MQ=255)                                                                              agaagGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGAc                                                            >  8:115707/1‑149 (MQ=255)                                                                                    cTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTc                                                      >  3:136509/1‑149 (MQ=255)                                                                                     tCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTca                                                     >  6:299641/1‑148 (MQ=255)                                                                                      cGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTccc                                                    <  3:18981/149‑1 (MQ=255)                                                                                        ccAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCt                                                  >  7:207402/1‑149 (MQ=255)                                                                                         cAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGaaa                                                                                          >  6:198391/1‑108 (MQ=255)                                                                                         cAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGaaa                                                                                          <  5:198391/108‑1 (MQ=255)                                                                                              cAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGc                                                                                        <  4:273611/105‑1 (MQ=255)                                                                                               aaGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGc                                           <  8:174265/149‑1 (MQ=255)                                                                                                   gCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCt                                       >  1:130859/1‑149 (MQ=255)                                                                                                          gggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgct                                <  3:2252/149‑1 (MQ=255)                                                                                                           ggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgctg                               <  6:87259/149‑1 (MQ=255)                                                                                                           ggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgct                                <  8:168232/148‑1 (MQ=255)                                                                                                           ggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAAtgct                                >  7:168232/1‑148 (MQ=255)                                                                                                                 ttCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCg                         <  8:207402/149‑1 (MQ=255)                                                                                                                    gTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGcc                       <  8:120608/148‑1 (MQ=255)                                                                                                                     tAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCa                                     >  6:224530/1‑133 (MQ=255)                                                                                                                     tAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCa                                     <  5:224530/133‑1 (MQ=255)                                                                                                                               gCCGTTAGGTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTc                                                <  1:359621/112‑1 (MQ=255)                                                                                                                                       gTTTTCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTa    >  7:20981/1‑148 (MQ=255)                                                                                                                                        ttttCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACa  <  3:73361/149‑1 (MQ=255)                                                                                                                                        ttttCGGCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACa  <  7:115707/149‑1 (MQ=255)                                                                                                                                                      ||                                                                                                                                      CCTGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCTGT‑‑GATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTTCCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACA  >  NC_002947/1070098‑1070379

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑