Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	860,698	G→A	11.7%	intergenic (‑27/+77)	PP_0741 ← / ← PP_0742	hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	860,698	0	G	A	11.7%	137.1 / 7.5	53	intergenic (‑27/+77)	PP_0741/PP_0742	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (21/25);  new base A (3/3);  total (24/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.46e-01

TGTTCCAGCTGTTTACGGCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCATGCGCCCTCGACTCGGCCGGA  >  NC_002947/860550‑860846                                                                                                                                                     |                                                                                                                                                      tGTTCCAGCTGTTTACGGCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACg                                                                                                                                                       >  2:96119/1‑149 (MQ=255)      cAGCTGTTTACGGCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGAc                                                                                                                                                   <  6:145406/148‑1 (MQ=255)       aGCTGTTTACGGCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCCGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTc                                                                                                                                                 >  1:23645/1‑149 (MQ=255)            tttACGGCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAAc                                                                                                                                            <  6:197410/149‑1 (MQ=255)            tttACGGCACAGGGCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGGTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAAc                                                                                                                                            <  5:14979/149‑1 (MQ=255)                 ggCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTa                                                                                                                                       <  6:50552/149‑1 (MQ=255)                    acaGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAg                                                                                                                                    >  4:220164/1‑149 (MQ=255)                     caGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGt                                                                                                                                                      <  4:129416/130‑1 (MQ=255)                     caGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGt                                                                                                                                                      >  3:129416/1‑130 (MQ=255)                     caGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAgg                                                                                                                                   >  6:226852/1‑149 (MQ=255)                     caGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAgg                                                                                                                                   <  3:220164/149‑1 (MQ=255)                       ggTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCCGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGtt                                                                                                                                 <  2:23645/149‑1 (MQ=255)                        gTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGtt                                                                                                                                 >  3:113623/1‑148 (MQ=255)                                 cTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑Ca                                                                                                                         >  6:138457/1‑146 (MQ=255)                                 cTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑Ca                                                                                                                         <  5:138457/146‑1 (MQ=255)                                 cTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACAAGTTTCGAGTCACGTACAGGTTTAtttt                                                                                                                           >  5:209712/1‑144 (MQ=38)                                 cTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACAAGTTTCGAGTCACGTACAGGTTTAtttt                                                                                                                           <  6:209712/145‑2 (MQ=38)                                           ccgTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACCTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACACCGCTGaa                                                                                                            <  7:94721/149‑1 (MQ=255)                                                 tAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTAt                                                                                                       <  5:226852/148‑1 (MQ=255)                                                                  ggTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGtt                                                                                                                                 >  4:87062/1‑106 (MQ=255)                                                                  ggTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGtt                                                                                                                                 <  3:87062/106‑1 (MQ=255)                                                                   gTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGta                                                                                    >  6:236952/1‑149 (MQ=255)                                                                        gcaggcGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAgc                                                                                                                  <  5:198725/114‑1 (MQ=255)                                                                        gcaggcGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAgc                                                                                                                  >  6:198725/1‑114 (MQ=255)                                                                          aggcGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGGTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCg                                                                             >  5:158278/1‑149 (MQ=255)                                                                               cTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATc                                                                        <  6:158278/149‑1 (MQ=255)                                                                                       gATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTTACTCTAAACTTTTAAAGGTTTATTTCCAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAg                                                                 <  1:96119/149‑1 (MQ=255)                                                                                         tACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACa                                                                                                                                     >  4:210684/1‑79 (MQ=255)                                                                                         tACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACa                                                                                                                                     <  3:210684/79‑1 (MQ=255)                                                                                            gcgGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTc                                                           >  1:174026/1‑149 (MQ=255)                                                                                              ggCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGa                                                         <  4:113623/149‑1 (MQ=255)                                                                                                      gtgGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGtt                                                                                                         <  6:238146/93‑1 (MQ=255)                                                                                                      gtgGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGtt                                                                                                         >  5:238146/1‑93 (MQ=255)                                                                                                         ggCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGcgccgc                                              <  5:236952/149‑1 (MQ=255)                                                                                                           cGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCgcgc                                            >  7:144561/1‑149 (MQ=255)                                                                                                            ggAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCa                                                                       >  2:98022/1‑121 (MQ=255)                                                                                                            ggAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCa                                                                       <  1:98022/121‑1 (MQ=255)                                                                                                            ggAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCgct                                           >  2:201172/1‑149 (MQ=255)                                                                                                             gAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCgctg                                          <  2:174026/149‑1 (MQ=255)                                                                                                                  gTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCAt                                                                         >  1:180533/1‑113 (MQ=255)                                                                                                                  gTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCAt                                                                         <  2:180533/113‑1 (MQ=255)                                                                                                                   tCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCt                                    <  8:181463/149‑1 (MQ=255)                                                                                                                   tCGTGCATGGCTGCCGCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCt                                    <  4:268058/149‑1 (MQ=255)                                                                                                                      tGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGCGTTCGAGCAAGCGCCGCGCTGCTTCCTGGc                                 >  3:193560/1‑149 (MQ=255)                                                                                                                        cATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCa                               <  1:201172/149‑1 (MQ=255)                                                                                                                              tGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTg                                   >  7:332055/1‑139 (MQ=255)                                                                                                                              tGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTg                                   <  8:332055/139‑1 (MQ=255)                                                                                                                                ccTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCAc                              >  7:248671/1‑142 (MQ=255)                                                                                                                                ccTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCAc                              <  8:248671/142‑1 (MQ=255)                                                                                                                                    ctgaaaTAAACCTGTACAAGTTTCGAGTCACGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCAt                      >  6:176193/4‑146 (MQ=37)                                                                                                                                    ctgaaaTAAACCTGTACAAGTTTCGAGTCACGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCAt                      <  5:176193/143‑1 (MQ=37)                                                                                                                                     tgaaaTAAACCTGTACAAGTTTCGAGTCACGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTc                                      <  7:236875/127‑1 (MQ=37)                                                                                                                                     tgaaaTAAACCTGTACAAGTTTCGAGTCACGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTc                                      >  8:236875/3‑129 (MQ=37)                                                                                                                                               cTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCATGCGCCCTCGACTCg        >  3:91266/1‑149 (MQ=255)                                                                                                                                                     gTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCATGCGCCCTCGACTCGGCCGGa  <  4:91266/149‑1 (MQ=255)                                                                                                                                                     gTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTAATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCATGCGCCCTCGACTCGGCCGGa  >  1:246981/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                      TGTTCCAGCTGTTTACGGCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCATGCGCCCTCGACTCGGCCGGA  >  NC_002947/860550‑860846

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: ‑