Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,063,192	C→A	10.7%	intergenic (+49/‑158)	PP_1838 → / → PP_1839	membrane protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,063,192	0	C	A	10.7%	114.3 / 6.4	47	intergenic (+49/‑158)	PP_1838/PP_1839	membrane protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (21/21);  new base A (2/3);  total (23/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.08e-01

GCCGGAAATGCTCAAGAAGCTGGAAGCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTGGTGTTCGTTGACTGAGAG  >  NC_002947/2063047‑2063339                                                                                                                                                   |                                                                                                                                                       gCCGGAAATGCTCAAGAAGCTGGAAGCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTTCCCCCGCCCACAGGCAtt                                                                                                                                                     >  4:254143/1‑149 (MQ=255)         tGCTCAAGAAGCTGGAAGCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑Aggg                                                                                                                                           <  1:69806/149‑1 (MQ=255)          gCTCAAGAAGCTGGAAGCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGt                                                                                                                                          >  2:89890/1‑149 (MQ=255)             cAAGAAGCTGGAAGCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCGCACAGGACCTGCAC‑‑AAGGtcc                                                                                                                                        >  6:167251/1‑146 (MQ=38)               agaagCTGGAAGCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGa                                                                                                                                     >  7:48603/1‑149 (MQ=255)                gaagCTGGAAGCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGAc                                                                                                                                    >  7:118397/1‑149 (MQ=255)                          gCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAgg                                                                                                                          <  5:14433/149‑1 (MQ=255)                           cGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGt                                                                                                                         <  8:118397/149‑1 (MQ=255)                               tatCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAACGGAAACCCGGGCCGCCTTGCGGCCCAATAGCCGGCATTCCCGCACCCACACGCATTTCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCt                                                                                                                      >  1:215839/1‑149 (MQ=255)                               tatCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCGCACAGGACCTGCAC‑‑AAGGTCCGAACCCTGTGCaatgcct                                                                                                                      <  6:163128/148‑7 (MQ=21)                                 tCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCCCAGGCATTGCAC‑‑ACGGTGCGGTCCATGGGCCGGTCCagtg                                                                                                                   >  6:220229/1‑149 (MQ=255)                                 tCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGTTTCGGACCTTGTGCAGGTCCtgtg                                                                                                                   <  3:215874/149‑1 (MQ=255)                                 tCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCtgt                                                                                                                    <  5:269250/148‑1 (MQ=255)                                  ccAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTtgtg                                                                                                                              >  8:111538/1‑137 (MQ=255)                                  ccAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTtgtg                                                                                                                              <  7:111538/137‑1 (MQ=255)                                       ccGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCGCACAGGACCTGCAC‑‑AAGGTCCGAACCCTGTGCAATGCCTGTGGGAGCg                                                                                                             <  5:167251/149‑1 (MQ=18)                                       ccGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCg                                                                                                             <  2:112722/149‑1 (MQ=255)                                       ccGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTAGCGGGCTTGCCCGCTCCCCCCGGCCTTGCAC‑‑AGGGTTCGGGCCTTTTGCAGGTCCAGTGcgcgcg                                                                                                             >  7:160719/1‑149 (MQ=255)                                                    ccTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGCGCGGGCAAGCCcgcg                                                                                                 >  5:55721/1‑148 (MQ=255)                                                      gcgtgGAAAACACCGCCGCGGGGGTCCACGCAACACCTAA‑TAAACCCGGGGCCGCGTGGCGCCCAATTCGCGGGCTTGCCCGCTCCCACCGCCTTGCCAC‑‑AGGGTCCGCCCTTTGTGCTGGTCCTGGGCGCGCGGGCAAGCCCGCGaa                                                                                               <  8:144485/145‑1 (MQ=255)                                                       gctgGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTAGGCCCGTGTGCAGGTGCGGTGCGCGCGGGCAAGCCcgcgca                                                                                               >  7:144485/1‑145 (MQ=38)                                                        ctgGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAAt                                                                                              <  8:48603/147‑1 (MQ=255)                                                        ctgGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATg                                                                                             <  2:215839/148‑1 (MQ=255)                                                           gATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCGCCCCCCGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGcc                                                                                         >  2:186001/1‑149 (MQ=255)                                                             tAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATgg                                                                                            <  6:127556/144‑1 (MQ=255)                                                             tAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATgg                                                                                            >  5:127556/1‑144 (MQ=255)                                                                  ccgccgGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCCCTGCCCCAGGCCTTGGCC‑‑AGGGGTCGGACCATGTGCAGGGGCTGTGCGCGCGGGCCAGCCCGCGAATGGGCCCCGcgc                                                                                   >  6:94908/1‑146 (MQ=37)                                                                      cgGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGACCTGCAC‑‑AAGGTCCGAACCCTGTGCAATGCCtgtggg                                                                                                                 >  5:29798/1‑112 (MQ=14)                                                                      cgGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGACCTGCAC‑‑AAGGTCCGAACCCTGTGCAATGCCtgtggg                                                                                                                 <  6:29798/114‑3 (MQ=14)                                                                                   ggCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCCCAGGCATTGCAC‑‑CGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAAc                                                                 <  5:227354/149‑1 (MQ=255)                                                                                     cacaCCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCtg                                                                                                                     <  4:243960/95‑1 (MQ=255)                                                                                     cacaCCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCtg                                                                                                                     >  3:243960/1‑95 (MQ=255)                                                                                       cacCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCtt                                                                                                                                 >  3:78338/1‑81 (MQ=255)                                                                                             a‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCCCAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCg                                                       >  6:250568/1‑149 (MQ=255)                                                                                                         gCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCa                                           <  3:108750/149‑1 (MQ=255)                                                                                                          ccGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACCGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCg                                                                         <  1:184714/119‑1 (MQ=255)                                                                                                          ccGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCg                                                                         >  2:184714/1‑119 (MQ=255)                                                                                                                  cGGCCCATGCGCGGGCTTGCCCGCTCCCAAAGGCATTGCAC‑‑AGGTTTCGGACCTTGTGCAGTTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCa                                   <  5:220229/148‑1 (MQ=255)                                                                                                                    gCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCACCTCTGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAg                                  <  1:89890/149‑1 (MQ=38)                                                                                                                                      ccGCTCCCACAGCCATTGCAC‑‑CGGGTTCGCACCTTGTCCAGGTCCTTGGCGAGCGGCAAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTGGTGTTc              <  3:136544/149‑1 (MQ=255)                                                                                                                                            ccACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCGCCCCCAAGGTCAGTTATTCAGGCATCACACACATGGTGTTCGTTGa         >  7:104725/1‑149 (MQ=255)                                                                                                                                            ccACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTgg                   <  2:256261/138‑1 (MQ=255)                                                                                                                                            ccACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTgg                   >  1:256261/1‑138 (MQ=255)                                                                                                                                            ccACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTGGTGTTCGTTgcc        >  7:199204/1‑147 (MQ=255)                                                                                                                                                 ggCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTGGTGTTCGTTGACTgaga   <  5:250568/149‑1 (MQ=255)                                                                                                                                                 ggCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTGGTGTTCGTTGACTgaga   <  1:186001/149‑1 (MQ=255)                                                                                                                                                  gCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTGGTGTTCGTTGACTGagag  >  1:171936/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                       GCCGGAAATGCTCAAGAAGCTGGAAGCGTATATCCAGACCGCGACCAAGAGCCTGCTGGATAACACCGCCGGCGTGGTGCACGGCACACCGAA‑GTAAACCGGGGCCGCGTTGCGGCCCATTCGCGGGCTTGCCCGCTCCCACAGGCATTGCAC‑‑AGGGTTCGGACCTTGTGCAGGTCCTGTGCGAGCGGGCAAGCCCGCGAATGGGCCCCGCACAATTTTCCCGGACTGAACATTATCCCCG‑CCCCAAGGTCAGTTATTCAGGCATCACACACCTGGTGTTCGTTGACTGAGAG  >  NC_002947/2063047‑2063339

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑