Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,801,456	C→G	10.2%	P45P (CCG→CCC) ‡	aroK ←	shikimate kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,801,456	0	C	G	10.2%	132.5 / 7.9	49	P45P (CCG→CCC) ‡	aroK	shikimate kinase
Reads supporting (aligned to +/- strand):  ref base C (23/20);  new base G (2/3);  total (26/23)
Fisher's exact test for biased strand distribution p-value = 6.60e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.33e-01

CACCCTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGCACAGAATCAACGACT  >  NC_002947/5801308‑5801603                                                                                                                                                     |                                                                                                                                                    cACCCTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCAc                                                                                                                                                     <  7:5490/149‑1 (MQ=255)  aCCCTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACg                                                                                                                                                    <  7:281720/149‑1 (MQ=255)   cccTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCAc                                                                                                                                                     <  4:95790/147‑1 (MQ=255)   cccTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCAc                                                                                                                                                     >  3:95790/1‑147 (MQ=255)   cccTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACgg                                                                                                                                                   <  3:169385/149‑1 (MQ=255)    ccTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCCCCACACCGTCGAGCGCGCACAACTCGGCAATCAGAGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACggg                                                                                                                                                  >  8:79061/1‑149 (MQ=255)    ccTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACgg                                                                                                                                                   >  4:37189/1‑148 (MQ=255)            aGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAACATCCCGTGGATATTcga                                                                                                                                          <  6:87995/149‑2 (MQ=255)             gcgcCTGCCGGTTGGCTTCGCGCATCACCGCCCCACCGCCGGTGGCCAGCACCACACCCTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCATACTTGTCGAATATCCACGGGATGATcgcg                                                                                                                                         >  4:99284/1‑149 (MQ=255)                 cTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACgg                                                                                                                                                   >  1:304347/1‑135 (MQ=255)                 cTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACgg                                                                                                                                                   <  2:304347/135‑1 (MQ=255)                        ttGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCAAGGGATGTTAGCGCCGCATCGCAg                                                                                                                              >  7:105976/1‑149 (MQ=255)                            cTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTc                                                                                                                           >  1:283849/1‑148 (MQ=255)                            cTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAACATCCCGTGGATATTcgac                                                                                                                                         <  8:99066/134‑3 (MQ=255)                            cTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAACATCCCGTGGATATTcgac                                                                                                                                         >  7:99066/1‑132 (MQ=255)                                       aCCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGt                                                                                                                <  3:287167/148‑1 (MQ=255)                                         cgcgCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCg                                                                                                              >  5:54859/1‑148 (MQ=255)                                         cgcgCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAACATCCCGTGGATATTcga                                                                                                                                          <  3:189556/120‑2 (MQ=255)                                         cgcgCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAACATCCCGTGGATATTcga                                                                                                                                          >  4:189556/1‑119 (MQ=255)                                              cACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATcc                                                                                                        >  5:85997/1‑149 (MQ=255)                                              cACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATcc                                                                                                        >  6:53647/1‑149 (MQ=255)                                              cACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATcc                                                                                                        <  3:37189/149‑1 (MQ=255)                                               aCCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCt                                                                                                       >  7:202474/1‑149 (MQ=255)                                                ccgccgGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCtt                                                                                                      <  4:277127/149‑1 (MQ=255)                                                ccgccgGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCtt                                                                                                      <  6:85997/149‑1 (MQ=255)                                                    cgGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATcc                                                                                                        <  5:37475/143‑1 (MQ=255)                                                    cgGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGAATCGCAGTTCGATTTCCTTGTCGGAATcc                                                                                                        >  6:37475/1‑143 (MQ=255)                                                       tGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGAtt                                                                                                                       <  6:258619/125‑1 (MQ=255)                                                       tGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGCCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGAtt                                                                                                                       >  5:258619/1‑125 (MQ=255)                                                          ccAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAgg                                                                                            <  8:175460/149‑1 (MQ=255)                                                          ccAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAgg                                                                                            <  6:54859/149‑1 (MQ=255)                                                           cAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGgc                                                                                           >  4:198997/1‑149 (MQ=255)                                                                   caacGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCGCGCCTTCCTTGTCGAATATCCTCGGGATGTTCGCTCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGctct                                                                                   <  1:86133/146‑1 (MQ=255)                                                                    acCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCtt                                                                                  >  5:181071/1‑149 (MQ=255)                                                                     ccGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCttt                                                                                 <  6:181071/149‑1 (MQ=255)                                                                                gcACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGc                                                                      <  2:283849/149‑1 (MQ=255)                                                                                         ggCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTAGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACATCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATgg                                                             >  2:218185/1‑149 (MQ=255)                                                                                                         tCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGcc                                             >  3:156614/1‑149 (MQ=255)                                                                                                             gATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATg                                         >  7:23975/1‑149 (MQ=255)                                                                                                                  cGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGccc                                    <  7:79061/149‑1 (MQ=255)                                                                                                                         ccGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAg                              >  2:179097/1‑148 (MQ=255)                                                                                                                                gcattccttGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCaaa                       <  1:218185/145‑1 (MQ=255)                                                                                                                                gCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCaaa                       <  4:156614/148‑1 (MQ=255)                                                                                                                                  cttccttGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAAttt                    >  2:105513/1‑149 (MQ=255)                                                                                                                                      cttGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGca                <  5:53647/149‑1 (MQ=255)                                                                                                                                      cttGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGca                <  1:179097/149‑1 (MQ=255)                                                                                                                                         gTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGca                >  7:58717/1‑146 (MQ=255)                                                                                                                                            gAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTc                   >  2:275981/1‑140 (MQ=255)                                                                                                                                            gAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTc                   <  1:275981/140‑1 (MQ=255)                                                                                                                                            gAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGCACAGAAt          >  1:238828/1‑149 (MQ=255)                                                                                                                                                  ccACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGCACAGAATCAACGa    >  4:213882/1‑149 (MQ=255)                                                                                                                                                  ccACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGCACAGAATCAACGa    >  1:148592/1‑149 (MQ=255)                                                                                                                                                     cGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGCACAGAATCAACGACt  >  5:192234/1‑148 (MQ=255)                                                                                                                                                     |                                                                                                                                                    CACCCTGATGCAGCGCCTGCCGGTTGGCTTCGCGCATCACCGCGCCACCGCCGGTGGCCAGCACCACACCGTCGAGCGCGCACAACTCGGCAATCATCGCTTGCTCGCGATCACGGAAACCCGGCTCGCCTTCCTTGTCGAATATCCACGGGATGTTCGCGCCGCATCGCAGTTCGATTTCCTTGTCGGAATCCTTGAACAGCAGGCGCAGCTCTTTGGCCAACAGGCGTCCGATGGTGCTTTTACCAGCGCCCATGGGCCCCACAAGTATCAAATTTCGCACAGAATCAACGACT  >  NC_002947/5801308‑5801603

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: ‑