Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,701,276	G→C	18.6%	intergenic (+18/‑45)	phaA → / → phaB	poly(3‑hydroxyalkanoate) polymerase/poly(3‑hydroxyalkanoate) depolymerase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,701,276	0	G	C	18.6%	95.0 / 19.0	43	intergenic (+18/‑45)	phaA/phaB	poly(3‑hydroxyalkanoate) polymerase/poly(3‑hydroxyalkanoate) depolymerase
Reads supporting (aligned to +/- strand):  ref base G (19/16);  new base C (5/3);  total (24/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.45e-01

CCTGGTGGTTGCACTGGCAGAGTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCCCGGCAAGCCGCACCTGACGCCGTTGCTGA  >  NC_002947/5701128‑5701417                                                                                                                                                     |                                                                                                                                              cctactggtggCACTGGCAGAGTTGCCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGCGCGTTGAGTTACAGCGCCGTggcggc                                                                                                                                              <  1:126786/145‑1 (MQ=255)  cTGGTGGTTGCACTGGCAGAGTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGcc                                                                                                                                             >  1:1403762/1‑150 (MQ=255)     gtggtTGCACTGGCAGAGTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGc                                                                                                                                          >  1:1160562/1‑150 (MQ=255)             aCTGGCAGAGTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGcc                                                                                                                                  >  2:758224/1‑150 (MQ=255)                 gCAGAGTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCATCTACGTTGACGAGCGTTGAGTTACAGCGCCGTGGCGCCGTGCAGGCCGCCACgg                                                                                                                              <  2:519846/150‑1 (MQ=255)                 gCAGAGTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACgg                                                                                                                              >  1:610595/1‑150 (MQ=255)                  cAGAGTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGgt                                                                                                                             <  1:142507/150‑1 (MQ=255)                    gagTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGgtgt                                                                                                                           <  1:1055331/150‑1 (MQ=255)                      gTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGttt                                                                                                                         <  2:1403762/150‑1 (MQ=255)                          gCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACtt                                                                                                                     >  2:715750/1‑150 (MQ=255)                             gggCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCAc                                                                                                                  <  2:1072051/150‑1 (MQ=255)                                 gAGCGTGCCGGCGCGCTGAAAAAGGCACCGTCCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCaa                                                                                                              <  1:246814/150‑1 (MQ=255)                                                                   gCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTggcggc                                                                                                                                              >  1:183789/1‑84 (MQ=255)                                                                   gCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTggcggc                                                                                                                                              <  2:183789/84‑1 (MQ=255)                                                                   gCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAg                                                                            <  2:610595/150‑1 (MQ=255)                                                                          cAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTc                                                                     <  1:715750/150‑1 (MQ=255)                                                                             ccGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCta                                                                                     >  2:1070981/1‑131 (MQ=255)                                                                             ccGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCta                                                                                     <  1:1070981/131‑1 (MQ=255)                                                                              cGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGc                                                                 <  1:758224/150‑1 (MQ=255)                                                                                tACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTg                                                               <  1:580868/150‑1 (MQ=255)                                                                                    tATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCGAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCt                                                                >  2:1386968/1‑145 (MQ=255)                                                                                    tATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCGAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCt                                                                <  1:1386968/145‑1 (MQ=255)                                                                                    tATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACa                                                           >  2:285262/1‑150 (MQ=255)                                                                                    tATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGCCGTGCAGGCCGCCAc                                                                                                                                <  2:1005850/81‑1 (MQ=37)                                                                                    tATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGCCGTGCAGGCCGCCAc                                                                                                                                >  1:1005850/1‑81 (MQ=37)                                                                                         cgccgGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCt                                                                                                                                            >  2:1058714/1‑64 (MQ=255)                                                                                         cgccgGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCt                                                                                                                                            <  1:1058714/64‑1 (MQ=255)                                                                                              gCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCAt                                                 >  1:526925/1‑150 (MQ=255)                                                                                                        cccAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGCTAACCAGTCCATCCGCACCGCt                                       >  2:108676/1‑150 (MQ=255)                                                                                                        cccAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAAc                                                         <  2:238523/132‑1 (MQ=255)                                                                                                        cccAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAAc                                                         >  1:238523/1‑132 (MQ=255)                                                                                                          cAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTc                                                                              >  2:842847/1‑109 (MQ=255)                                                                                                          cAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTc                                                                              <  1:842847/109‑1 (MQ=255)                                                                                                                 cTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTGCCCCAAGAGTCACGTTCATACCGCAACCCTATATTTTCAGGACCGTGGAGCTGGACAACCGGTCCATCCGCACCGCTGTTCGcccc                              >  2:377055/1‑150 (MQ=255)                                                                                                                 cTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAAcc                                                        >  1:917680/1‑124 (MQ=255)                                                                                                                 cTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAAcc                                                        <  2:917680/124‑1 (MQ=255)                                                                                                                               gTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCCCGGCAAGCCGCACCt                >  1:775824/1‑150 (MQ=255)                                                                                                                                ttGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCCCGGCAAGCCGCACCTg               >  2:844375/1‑150 (MQ=255)                                                                                                                                     ttACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCACGGCAAGCCGCACCTGACGcc          >  2:731584/1‑150 (MQ=255)                                                                                                                                         ggcgcCGTGCAGGCCGCCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCACCCCGGCAAGCCACACCTGACGCCGCTg      >  2:993731/2‑150 (MQ=255)                                                                                                                                           caccGTGGCGCCGTGCAGGCCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCCCGGCAAGCCGCACCTGACGCCGTTGCt    >  1:190731/3‑150 (MQ=255)                                                                                                                                           caccGTGGCGCCGTGCAGGCCGCCACGGCGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCCCGGCAAGCCGCACCTGACGCCGTTGCt    >  2:1338648/3‑150 (MQ=255)                                                                                                                                            accGTGGCGCCGTGCAGGCCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGtt                                    <  2:267155/116‑1 (MQ=255)                                                                                                                                            accGTGGCGCCGTGCAGGCCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGtt                                    >  1:267155/2‑117 (MQ=255)                                                                                                                                            accGTGGCGCCGTGCAGGCCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCCCGGCAAGCCGCACCTGACGCCGTTGCTg   >  1:939781/2‑150 (MQ=255)                                                                                                                                             ccGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCCCGGCAAGCCGCACCTGACGCCGTTGCTGa  <  1:565290/150‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                              CCTGGTGGTTGCACTGGCAGAGTTGGCTGGGCGAGCGTGCCGGCGCGCTGAAAAAGGCACCGACCCGCCTGGGCAACCGTACCTATGCCGCCGGCGAAGCCTCCCCAGGCACCTACGTTCACGAGCGTTGAGTTACAGCGCCGTGGCGGCCTGCACGGCGCCACGGTGTTTACTTCACCCAAGAGTCACGTGCATGCCGCAACCCTATATTTTCAGGACCGTCGAGCTGGACAACCAGTCCATCCGCACCGCTGTTCGCCCCGGCAAGCCGCACCTGACGCCGTTGCTGA  >  NC_002947/5701128‑5701417

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑