Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,111,315	A→C	9.8%	intergenic (+36/‑74)	PP_0970 → / → PP_0971	cyanate MFS transporter/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,111,315	0	A	C	9.8%	113.9 / 4.9	41	intergenic (+36/‑74)	PP_0970/PP_0971	cyanate MFS transporter/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (19/18);  new base C (2/2);  total (21/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01

ACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTGGATGCCGACGCCATGCT  >  NC_002947/1111175‑1111462                                                                                                                                             |                                                                                                                                                      aCGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCgg                                                                                                                                               <  2:332699/149‑1 (MQ=255)      aCTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTg                                                                                                                                          <  3:100233/149‑1 (MQ=255)                 tttttGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGCCCTCTTGGCAGGCACGAGGACgg                                                                                                                                               >  8:271741/1‑133 (MQ=38)                 tttttGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGCCCTCTTGGCAGGCACGAGGACgg                                                                                                                                               <  7:271741/133‑1 (MQ=38)                     tGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCgg                                                                                                                            <  4:295591/148‑1 (MQ=255)                       cGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCgggg                                                                                                                          >  2:308561/1‑148 (MQ=255)                          tGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCaaa                                                                                                                      >  7:314475/1‑147 (MQ=255)                                          cGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTc                                                                                                      <  1:146056/149‑1 (MQ=255)                                                gtTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAAcc                                                                                                 >  6:21761/1‑148 (MQ=255)                                                                gggcgggcGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGcccc                                                                              >  3:1570/1‑149 (MQ=255)                                                                   cgggcgCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCaa                                                                           <  4:1570/149‑1 (MQ=255)                                                                      gcgcTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGa                                                                        <  4:61719/149‑1 (MQ=255)                                                                           gCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGAt                                                                   >  4:169649/1‑149 (MQ=255)                                                                            cATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATg                                                                  >  2:59364/1‑149 (MQ=255)                                                                               gtgCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGcc                                                                >  4:16332/1‑148 (MQ=255)                                                                                          cTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCt                                                     >  5:298708/1‑148 (MQ=255)                                                                                          cTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTg                                                    <  5:21761/149‑1 (MQ=255)                                                                                           tGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGa                                                   >  5:48101/1‑149 (MQ=255)                                                                                             cGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGAt                                                  >  7:58942/1‑148 (MQ=255)                                                                                                       tGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTc                                        >  7:214430/1‑148 (MQ=255)                                                                                                         aGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGttt                                                                                                        >  3:149674/1‑84 (MQ=255)                                                                                                         aGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGttt                                                                                                        <  4:149674/84‑1 (MQ=255)                                                                                                         aGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTc                                        <  3:16332/146‑1 (MQ=255)                                                                                                               gTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGGCTTGAGGCCCCAATGAGTGATGGCAACCGCGCCCTGATCACCCGTTTCTACCCgg                                 >  1:116466/1‑149 (MQ=255)                                                                                                                   tAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTc                            <  8:271524/148‑1 (MQ=255)                                                                                                                   tAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTc                            <  1:308561/148‑1 (MQ=255)                                                                                                                   tAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTc                            <  6:48101/148‑1 (MQ=255)                                                                                                                       aGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAgcg                       <  3:169649/149‑1 (MQ=255)                                                                                                                        gTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAAATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAgcgc                      <  8:314475/149‑1 (MQ=255)                                                                                                                         tCCCGCCCTCTTGGCAGGCACGAGGACGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTcc                           >  4:284481/1‑143 (MQ=39)                                                                                                                         tCCCGCCCTCTTGGCAGGCACGAGGACGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTcc                           <  3:284481/143‑1 (MQ=39)                                                                                                                           ccGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGt                                                                      <  5:330467/98‑1 (MQ=255)                                                                                                                           ccGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCt                    <  6:298708/148‑1 (MQ=255)                                                                                                                            cGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTg                   >  2:37192/1‑148 (MQ=255)                                                                                                                                 tCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTGGATGcc             >  5:241691/1‑149 (MQ=255)                                                                                                                                       ctgccAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTGGATGCCGACGcc       <  5:357226/149‑1 (MQ=255)                                                                                                                                       ctgccAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTGGATGCCGACGc        >  2:210786/1‑148 (MQ=255)                                                                                                                                        tgccAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCt                    <  6:269729/135‑1 (MQ=255)                                                                                                                                        tgccAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCt                    >  5:269729/1‑135 (MQ=255)                                                                                                                                        tgccAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTGGATGCCGACGCCa      >  6:206641/1‑149 (MQ=255)                                                                                                                                         gccAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCTCCTGGATGCCGACGCCAt     >  2:302530/1‑149 (MQ=255)                                                                                                                                            aaGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTGGATGCCGACGCCATGCt  >  4:267923/1‑149 (MQ=255)                                                                                                                                             |                                                                                                                                                      ACGGCACTGGGTTGGATTTTTGCGGTGCTGGGCGTTGGCGCCGTGGTGTTCGGGCTGGGTGCCGGGCGGGCGCTGCATGTGCAGGTGACCTGCGAAAAAGTCTGAGGCCTGTTTTAGCAGTCCCGTCCTCGTGCCTGCCAAGAGGGCGGGACTGGCATAAGCCACCGGGGCAGATTATCGTGCAGTTTTCGAACCTAGGACGGAC‑‑CAGCCCCCAATGAGTGATGCCAACCGCGCCCTGATCACCCGTTTCTACCAGGCTTTCCAGCGCCTGGATGCCGACGCCATGCT  >  NC_002947/1111175‑1111462

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: ‑