Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,266,103	C→T	13.3%	intergenic (+20/+39)	PP_2863 → / ← PP_2864	membrane protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,266,103	0	C	T	13.3%	107.4 / 8.0	45	intergenic (+20/+39)	PP_2863/PP_2864	membrane protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (23/16);  new base T (2/4);  total (25/20)
Fisher's exact test for biased strand distribution p-value = 3.83e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.44e-01

TTTCGGCACAAGACCCGCAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAACACCTCACACAGTTCATCACGCCCCATGGGGTAGGGCGG  >  NC_002947/3265964‑3266249                                                                                                                                            |                                                                                                                                                    tttCGGCACAAGACCCGCAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCgg                                                                                                                                              <  6:127034/147‑1 (MQ=255)        acaAGACCCGCAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCcg                                                                                                                                     >  4:59789/1‑149 (MQ=255)         caAGACCCGCAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCcgc                                                                                                                                    <  3:267728/149‑1 (MQ=255)           aGACCCGCAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCcgcg                                                                                                                                   >  4:249696/1‑148 (MQ=255)            gACCCGCAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGa                                                                                                                                  >  6:64756/1‑148 (MQ=255)                cGCAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTTCCGGCCCTTTCGCGGCTTTACCCGCGaagagg                                                                                                                             >  4:62337/1‑145 (MQ=38)                  cAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTTCCGGCCCTTTCGCGGCTTTACCCGCGAAGAGGcc                                                                                                                           <  3:62337/149‑1 (MQ=38)                       tttCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTTCCGGCCCTTTCGCGGCTTTACCCGCGAAGAGGCCG‑GTAc                                                                                                                     <  8:281961/149‑1 (MQ=37)                            ttCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCCTTTCGCGGCTTTACCCGCGAAGAGGCCg‑gt                                                                                                                       >  3:137534/1‑141 (MQ=38)                            ttCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCCTTTCGCGGCTTTACCCGCGAAGAGGCCg‑gt                                                                                                                       <  4:137534/142‑2 (MQ=38)                                aGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGAt                                                                                                             >  7:64231/1‑148 (MQ=255)                                      tgtgCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGa                                                                                                      <  3:249696/149‑1 (MQ=255)                                           tGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCTGTTGTACCGGCGTCTTCGCGGGTa                                                                                                                                           <  1:276656/108‑1 (MQ=255)                                           tGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTa                                                                                                                                           >  2:276656/1‑108 (MQ=255)                                           tGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGt                                                                                                                 <  8:295233/133‑1 (MQ=255)                                           tGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGt                                                                                                                 >  7:295233/1‑133 (MQ=255)                                                     tgctgctgcACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGc                                                                                        >  7:1026/1‑148 (MQ=255)                                                      gctgctgcACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCaa                                                                                      >  7:271182/1‑149 (MQ=255)                                                       ctgctgcACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCaa                                                                                      <  8:1026/148‑1 (MQ=255)                                                          ctgcACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAAcc                                                                                    <  5:64756/147‑1 (MQ=255)                                                           tgcACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCt                                                                                 >  1:17978/1‑149 (MQ=255)                                                            gcACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCtt                                                                                >  5:108545/1‑149 (MQ=255)                                                            gcACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCtt                                                                                >  1:67818/1‑149 (MQ=255)                                                              aCCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTgg                                                                              <  2:67818/149‑1 (MQ=255)                                                                           ggCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCTCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCAc                                                                 <  6:108545/149‑1 (MQ=255)                                                                           ggCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGa                                                                                                              >  8:163648/1‑104 (MQ=255)                                                                           ggCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGa                                                                                                              <  7:163648/104‑1 (MQ=255)                                                                            gCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCAc                                                                 >  5:343734/1‑148 (MQ=255)                                                                               gACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTAcc                                                             <  6:343734/149‑1 (MQ=255)                                                                                aCTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTAc                                                              >  1:137911/1‑147 (MQ=255)                                                                                            ttGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCCCTACCAGCTGGTTCGAcc                                                >  8:134109/1‑149 (MQ=255)                                                                                               aCGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGc                                              <  8:271182/148‑1 (MQ=255)                                                                                                   gCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCaa                                         <  3:59789/149‑1 (MQ=255)                                                                                                   gCGTTATCTGCCCCTTGGTTGATGTGCAGTTCTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCaa                                         >  4:200567/1‑149 (MQ=255)                                                                                                              cccTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAacac                                      <  6:284207/141‑1 (MQ=255)                                                                                                              cccTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAacac                                      >  5:284207/1‑141 (MQ=255)                                                                                                              cccTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAACACCTcaca                                >  6:263841/1‑147 (MQ=255)                                                                                                               ccTTGGTTGATGTGGAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAACACCTCACACAg                             >  3:28288/1‑149 (MQ=255)                                                                                                                cTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCGCTTACAGGTCGATCACGTGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGATGGTGCGACCGCTGCAACACCTCACACAg                             >  1:283313/1‑149 (MQ=255)                                                                                                                            gCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGTGACCGCTGCAACACCTCACACAGTTCATCACGccc                 >  5:55834/1‑148 (MQ=255)                                                                                                                                   tACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACGTGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAACACCTCACACAGTTCATCACGCCCCATGGGGt         <  2:283313/149‑1 (MQ=255)                                                                                                                                    aCCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGc                                           <  6:348381/114‑1 (MQ=255)                                                                                                                                    aCCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGc                                           >  5:348381/1‑114 (MQ=255)                                                                                                                                    aCCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAACACCTCACACAGTTCATCACGCCCCATgggg          >  7:173993/1‑147 (MQ=255)                                                                                                                                      cGGCCCTTTCGCGGCTTTACCCGCGAAGGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAACACCTCACACAGTTCATCACGCCCCATGGGGTAgg      <  6:145484/149‑1 (MQ=255)                                                                                                                                          ctctTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAACACCTCACACAGTTCATCACGCCCCATGGGGTAGggcgg  >  8:143153/1‑149 (MQ=255)                                                                                                                                            |                                                                                                                                                    TTTCGGCACAAGACCCGCAAGGTTTCGTTCCAGGTGGTGTGCTGGGGGATTGTGCTGCTGCACCAGGTGTTCTGGGCAGACTGGCTGTTTCTTGACGGGCGTTATCTGCCCCTTGGTTGATGTGCAGTTGTACCGGCCTCTTCGCGGGTAAAGCCGCGAAAGGGCCG‑GAACAGGTCGATCACATGACCAACCCCACCTGCAACCGCTTGGGCAACCGACGCACTACCAGCTGGTGCGACCGCTGCAACACCTCACACAGTTCATCACGCCCCATGGGGTAGGGCGG  >  NC_002947/3265964‑3266249

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑