Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,280,512	A→G	26.6%	intergenic (‑511/‑96)	PP_1117 ← / → PP_5742	hypothetical protein/membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,280,512	0	A	G	26.6%	19.0 / 4.2	15	intergenic (‑511/‑96)	PP_1117/PP_5742	hypothetical protein/membrane protein
Reads supporting (aligned to +/- strand):  ref base A (4/7);  new base G (2/2);  total (6/9)
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

TAGAAAACATTATCGCATCTCATTCGCATTCTGTAAATGAGTTTCCTGACTTTTAGTTGTTCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTGCTAGGCTAGCTCTTTTTGTAAGGAGTCGTTTGGTGAACAAATTCTGCAAGTGGG  >  NC_002947/1280383‑1280629                                                                                                                                  |                                                                                                                      tAGAAAACATTATCGCATCTCATTCGCATTCTGTAAATGAGTTTCCTGACTTTTAGTTGTTCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTa                                                                                                   <  1:20782/150‑1 (MQ=255)               gCATCTCATTCGCATTCTGTAAATGAGTTTCCTGACTTTTAGTTGTTCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCt                                                                                     >  2:437012/1‑150 (MQ=255)                cATCTCATTCGCATTCTGTAAATGAGTTTCCTGACTTTTAGTTGTTCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTGGTTAAATTGGTGA‑TTTTTAGGATTATGGCTTCtat                                                                                   >  1:223026/1‑150 (MQ=255)                                           ttCCTGACTTTTAGTTGTTCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGA‑TTTTTAGGATTATGGCTTCTCTATATGTTCTAATTTGTTGTAGAATCtt                                                        <  2:98416/150‑2 (MQ=255)                                               tGACTTTTAGTTGTTCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTgcta                                                     <  2:363371/150‑1 (MQ=255)                                                  cTTTTAGTTGTTCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTGGTTAAATTGGTGA‑TTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTgctaggct                                                 <  2:223026/150‑1 (MQ=255)                                                            ttCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTGCTAGGCTAGCTCtttt                                        >  1:382486/1‑150 (MQ=255)                                                                         tttCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTGCTAGGCTAGCTCTTTTTGTAAGGAGTCGt                           <  2:382486/150‑1 (MQ=255)                                                                           tCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTGCTAGGCTAGCTCTTTTTGTAAGGAGTCGttt                         <  1:82867/150‑1 (MQ=255)                                                                            cTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTCCTTTCTTGTAGAATCTGCTAGGCTAGCTCTTTTTGTAAGGAGTCGTTTg                        <  1:437012/150‑1 (MQ=255)                                                                                                  gagaAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTGCTAGGCTAGCTCTTTTTGTAAGGAGTCGTTTGGTGAACAAATTCTGCAAGTggg  >  2:251345/1‑150 (MQ=255)                                                                                                               atttattAAGCAAGTCAGTGGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATc                                                          <  1:124/81‑1 (MQ=255)                                                                                                               atttattAAGCAAGTCAGTGGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATc                                                          >  2:124/1‑81 (MQ=255)                                                                                                                   attaAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTGCTAGGCTAGCTCTTTTTGTAAGGAGTCGTTTg                        <  1:5543/111‑1 (MQ=255)                                                                                                                   attaAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTGCTAGGCTAGCTCTTTTTGTAAGGAGTCGTTTg                        >  2:5543/1‑111 (MQ=255)                                                                                                                                  |                                                                                                                      TAGAAAACATTATCGCATCTCATTCGCATTCTGTAAATGAGTTTCCTGACTTTTAGTTGTTCTTTGAGAGCATTTCTTATGCGAAGTATGGGGTGTGGAGAAGCTTCGCTATTTATTAAGCAAGTCAGTAGTTAAATTGGTGATTTTTTAGGATTATGGCTTCTATATATGTTCTAATTTCTTGTAGAATCTGCTAGGCTAGCTCTTTTTGTAAGGAGTCGTTTGGTGAACAAATTCTGCAAGTGGG  >  NC_002947/1280383‑1280629

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑