Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	860,699	T→A	11.3%	intergenic (‑28/+76)	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	860,699	0	T	A	11.3%	139.0 / 7.3	53	intergenic (‑28/+76)	PP_0741/PP_0742	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (21/26);  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 = 1.00e+00

CAGCTGTTTACGGCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCATGCGCCCTCGACTCGGCCGGA  >  NC_002947/860555‑860846                                                                                                                                                 |                                                                                                                                                     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                                                                                                                                                      >  3:129416/1‑130 (MQ=255)                caGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGt                                                                                                                                                      <  4:129416/130‑1 (MQ=255)                caGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAgg                                                                                                                                   <  3:220164/149‑1 (MQ=255)                caGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAgg                                                                                                                                   >  6:226852/1‑149 (MQ=255)                  ggTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCCGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGtt                                                                                                                                 <  2:23645/149‑1 (MQ=255)                   gTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGtt                                                                                                                                 >  3:113623/1‑148 (MQ=255)                            cTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑Ca                                                                                                                         <  5:138457/146‑1 (MQ=255)                            cTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑Ca                                                                                                                         >  6:138457/1‑146 (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)                                                                                                                                                 |                                                                                                                                                     CAGCTGTTTACGGCACAGGTCGGAGGCCTTGTGGCCGCCGTTGTAGCGCACGCTGTGCCCGGTCAGGCAGGCGCTGATGGCGATACGCGGCTTGCTGTGGGCGGAAGGGTCGTGCATGGCTGCCTCCGAAAATAAACCTGTACGTGACTCGAAACTTGTACAGGTTTATTT‑CAGCACAGCGCTGAAGTTATGCAAACTAGTATTTTTGTATAGTTCGGCATCACTCAAGGTGTTCGAGCAAGCGCCGCGCTGCTTCCTGGCCACTGAGCCATGCGCCCTCGACTCGGCCGGA  >  NC_002947/860555‑860846

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: ‑