Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,506,923	A→G	15.4%	intergenic (+44/‑73)	petC → / → sspA	ubiquinol‑‑cytochrome c reductase cytochrome c1 subunit/stringent starvation protein A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,506,923	0	A	G	15.4%	85.0 / 9.3	39	intergenic (+44/‑73)	petC/sspA	ubiquinol‑‑cytochrome c reductase cytochrome c1 subunit/stringent starvation protein A
Reads supporting (aligned to +/- strand):  ref base A (19/14);  new base G (2/4);  total (21/18)
Fisher's exact test for biased strand distribution p-value = 3.87e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.20e-01

AAGCCAGCGCATCGGCACCTATGTGTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCGGGTTCGCCTGGTTCT  >  NC_002947/1506783‑1507069                                                                                                                                              |                                                                                                                                                   aaGCCAGCGCATCGGCACCTATGTGTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTAtt                                                                                                                                            <  4:130655/149‑1 (MQ=255)    ccAGCGCATCGGCACCTATGTGTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGc                                                                                                                                          >  3:68944/1‑148 (MQ=255)        cgcATCGGCACCTATGTGTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTGGCAATACTGCTAGGc                                                                                                                                     <  5:160314/149‑1 (MQ=255)          cATCGGCACCTATGTGTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTGGCAATACTGCTAGGCCa                                                                                                                                   <  8:144847/149‑1 (MQ=255)                  ccTATGTGTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGgc                                                                                                                           <  2:285369/149‑1 (MQ=255)                     aTGTGTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTTGGCTAGCAGTATTTGCACGCCACCCCCGGcgcg                                                                                                                        >  1:371935/1‑149 (MQ=255)                      tgtgTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGcgcg                                                                                                                        <  4:331758/148‑1 (MQ=255)                                       cTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGca                                                                                                      >  8:248809/1‑149 (MQ=255)                                       cTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGca                                                                                                      <  4:68944/149‑1 (MQ=255)                                               ttcGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGTAGCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGca                                                                                                      >  1:268584/1‑142 (MQ=255)                                               ttcGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGca                                                                                                      <  2:268584/141‑1 (MQ=255)                                                        gCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCgag                                                                                      >  3:92045/1‑148 (MQ=255)                                                             cTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGc                                                                                  <  4:83502/147‑1 (MQ=255)                                                              ttGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGc                                                                               >  2:19862/1‑149 (MQ=255)                                                                    aaGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATg                                                                         >  7:345113/1‑149 (MQ=255)                                                                       cGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGgc                                                                      <  7:292765/149‑1 (MQ=255)                                                                        gTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGgcg                                                                     <  8:345113/149‑1 (MQ=255)                                                                            aTACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTGGCAATACTGCTAGGcc                                                                                                                                    <  5:210/82‑1 (MQ=25)                                                                            aTACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTGGCAATACTGCTAGGcc                                                                                                                                    >  6:210/1‑82 (MQ=25)                                                                                tGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGcaaccaa                                                              >  4:351712/1‑148 (MQ=255)                                                                                tGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGcaa                                                                  >  6:261673/1‑144 (MQ=255)                                                                                tGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGcaa                                                                  <  5:261673/144‑1 (MQ=255)                                                                                  gAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTTAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACAAgg                                                                        >  1:153074/1‑136 (MQ=255)                                                                                  gAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAg                                                           >  1:56457/1‑149 (MQ=255)                                                                                        cGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGc                                                     <  4:92045/149‑1 (MQ=255)                                                                                         gT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCCCCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGcc                                                    >  3:344744/1‑149 (MQ=255)                                                                                                  aTCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTc                                            <  1:19862/149‑1 (MQ=255)                                                                                                                        ttgAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATtc                       <  3:351712/148‑1 (MQ=255)                                                                                                                              gcgcCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCgg                <  2:56457/149‑1 (MQ=255)                                                                                                                                gcCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCGGGt              >  6:380076/1‑149 (MQ=255)                                                                                                                                  ccGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCGGGTTc            >  1:212081/1‑149 (MQ=255)                                                                                                                                      ggTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCg                 <  2:88240/140‑1 (MQ=255)                                                                                                                                      ggTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCg                 >  1:88240/1‑140 (MQ=255)                                                                                                                                      ggTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCGGGTTCGCCt        >  5:266786/1‑149 (MQ=255)                                                                                                                                        tGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATACCGCTGATCACTATTCTCATCGGGTTCGCATgg      >  8:180408/1‑149 (MQ=255)                                                                                                                                         ggCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGGTGATCACTATTGTCATAGGGTTCGCCTGGt     >  2:178775/1‑149 (MQ=255)                                                                                                                                           ccTGGCAATACTGCTAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGgc                                                                      <  4:299571/82‑1 (MQ=25)                                                                                                                                           ccTGGCAATACTGCTAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGgc                                                                      >  3:299571/1‑82 (MQ=25)                                                                                                                                            cTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGAGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCGGGTTCGCCTGGTTCt  >  4:90575/1‑149 (MQ=255)                                                                                                                                              |                                                                                                                                                   AAGCCAGCGCATCGGCACCTATGTGTTGCTGTATCTGGCTTTCTTCTTCGTATTCGCCTACTTGCTCAAGCGTGAATACTGGAAGGACGT‑GCACTGATCACGCAGTAGTTTCTGGTTGTTGAACGCGCCCGGGGTGGCCTAGCAGTATTGCCAGGCCACCCCGGGCGCGTTTTCATTTAAAGTTGCACAAGCATCCGTGCGAGGAGCCGCTACATGGGCGCAACCAACAGGTTAGCCTGCTATTCCGATCCCGCTGATCACTATTCTCATCGGGTTCGCCTGGTTCT  >  NC_002947/1506783‑1507069

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: ‑