Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	295,678	T→A	9.1%	intergenic (+26/+116)	PP_0241 → / ← PP_0242	transporter/TetR family transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	295,678	0	T	A	9.1%	117.7 / 3.8	44	intergenic (+26/+116)	PP_0241/PP_0242	transporter/TetR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (18/22);  new base A (2/2);  total (20/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.77e-01

CGGCTTCGGGTATCGTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGCCAGAAACGGCGGCA  >  NC_002947/295531‑295825                                                                                                                                                    |                                                                                                                                                      cGGCTTCGGGTATCGTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCtt                                                                                                                                                      >  5:27127/1‑149 (MQ=255)       cGGGTATCGTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCa                                                                                                                                                  <  8:314710/147‑1 (MQ=255)       cGGGTATCGTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAg                                                                                                                                                 <  2:305040/148‑1 (MQ=255)         ggTATCGTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCAAAGCAGccc                                                                                                                                              <  5:242003/149‑1 (MQ=255)           tATCGTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCAAAGCAGcc                                                                                                                                               <  3:58490/146‑1 (MQ=255)           tATCGTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCAAAGCAGcc                                                                                                                                               >  4:58490/1‑146 (MQ=255)               gTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGcc                                                                                                                                        >  4:296578/1‑149 (MQ=255)               gTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGcc                                                                                                                                        >  7:81657/1‑149 (MQ=255)                  aCTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCgg                                                                                                                                      <  8:222257/148‑1 (MQ=255)                              accaccCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTcc                                                                                                                        <  1:299872/148‑1 (MQ=255)                               cctcccGTTCCGTGCGGGTGCTTGAGTTGCAGGTGGGCAGTTAAGTGATTGCCTTTGTTAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATTTTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCca                                                                                                                      <  6:323704/146‑1 (MQ=38)                                  cccGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAg                                                                                                                   <  6:304906/149‑1 (MQ=255)                                           tGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGc                                                                                                           >  6:128857/1‑148 (MQ=255)                                                   cTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAg                                                                                                  >  5:278587/1‑149 (MQ=255)                                                      gAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAgg                                                                                                 <  3:296578/147‑1 (MQ=255)                                                      gAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGt                                                                                               <  5:80506/149‑1 (MQ=255)                                                                   gCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGctct                                                                                  <  8:81657/149‑1 (MQ=255)                                                                     agtgaagtgaTTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCCTAGATCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGctct                                                                                  >  1:309024/1‑149 (MQ=255)                                                                     agtgaagtgaTTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCtgt                                                                                <  1:57959/149‑1 (MQ=255)                                                                       tgaagtgaTTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTgg                                                                              >  8:85177/1‑149 (MQ=255)                                                                         aagtgaTTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCa                                                                                                          <  8:64461/119‑1 (MQ=255)                                                                         aagtgaTTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCa                                                                                                          >  7:64461/1‑119 (MQ=255)                                                                          agtgaTTGCCTTTGTTAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGTGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGa                                                                            <  6:31906/148‑1 (MQ=255)                                                                            tgaTTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCca                                                                                                                      >  6:116605/1‑104 (MQ=255)                                                                            tgaTTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCca                                                                                                                      <  5:116605/104‑1 (MQ=255)                                                                                    tttGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGcc                                                                 >  7:34092/1‑149 (MQ=255)                                                                                        tgAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGct                                                                                    >  3:264642/1‑126 (MQ=255)                                                                                        tgAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGct                                                                                    <  4:264642/126‑1 (MQ=255)                                                                                            gTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAgg                                                         <  5:128857/149‑1 (MQ=255)                                                                                              cGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCAAGCCcgctcccaca                                                       <  7:85177/149‑8 (MQ=255)                                                                                               gACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGgcc                                                      >  6:71000/1‑149 (MQ=255)                                                                                                         tttctggCCAAGCTGGGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGc                                            <  7:149131/143‑1 (MQ=255)                                                                                                         tCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGc                                            >  2:154559/1‑149 (MQ=255)                                                                                                                  aaGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGTGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGa                                      <  5:308919/146‑1 (MQ=255)                                                                                                                  aaGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGTGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGa                                      >  6:308919/1‑146 (MQ=255)                                                                                                                   aGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTtc                                  >  5:241889/1‑149 (MQ=255)                                                                                                                     cTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTtctc                                <  5:71000/149‑1 (MQ=255)                                                                                                                                  ggTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCtt                   <  6:278587/149‑1 (MQ=255)                                                                                                                                   gTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTg                  >  7:87505/1‑149 (MQ=255)                                                                                                                                      gATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGc                <  6:27127/148‑1 (MQ=255)                                                                                                                                        tatTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGc                >  8:211818/1‑146 (MQ=255)                                                                                                                                          gaagggCTGCAAAGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGCCAGa            >  8:329741/4‑148 (MQ=255)                                                                                                                                            ggggCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGCCAGAAAc         >  8:223081/1‑149 (MQ=255)                                                                                                                                              ggCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGCCAGAAAcgg       >  5:124926/1‑149 (MQ=255)                                                                                                                                              ggCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGCCAGAAAcgg       <  8:34092/149‑1 (MQ=255)                                                                                                                                                   ctTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGCCAGAAACGGCGGCa  <  7:223081/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                      CGGCTTCGGGTATCGTCACTTCGGTGATTACCACCCGTTCCGTGCGGGAGCTGGAGTTGCAGGTGGGCAGTGAAGTGATTGCCTTTGTGAAGTCGACCGAAGTGTCTATCGCCAAGCTGTGATGCGGCGGGTCGATATTGGGGCTGCTTTGCAGCCCTTCGCCGGCACGCCC‑‑GCTCCCACAGGTACTCGCAAGCTCCAGGGTGCGCGCGGGCTCTGTGGGAGCGGGCTTGCCCGCGAAGGGCCGCCAAGCGGCCCCAGATTTCTCAGCTGGAACGCTTGGCCAGAAACGGCGGCA  >  NC_002947/295531‑295825

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: ‑