Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,173,251	G→A	9.8%	intergenic (‑292/+40)	fadD‑I ← / ← fadD‑II	long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,173,251	0	G	A	9.8%	133.1 / 5.0	51	intergenic (‑292/+40)	fadD‑I/fadD‑II	long‑chain‑fatty acid‑‑CoA ligase/long‑chain‑fatty acid‑‑CoA ligase
Reads supporting (aligned to +/- strand):  ref base G (24/22);  new base A (3/2);  total (27/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.08e-01

AAAACAGGCCTTATGGTCACAAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACTTTGTAGCCGGTGAAGTTGGCC  >  NC_002947/5173103‑5173399                                                                                                                                                      |                                                                                                                                                      aaaaCAGGCCTTATGGTCACAAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAg                                                                                                                                                       >  5:172591/1‑149 (MQ=255)          cTTATGGTCACAAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGc                                                                                                                                              <  1:274984/149‑1 (MQ=255)          cTTATGGTCACAAAAATGACTCAATGAACAATACAGCTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACACTG‑CCCAATGTAGGAGc                                                                                                                                              <  2:43492/149‑1 (MQ=39)           ttATGGTCACAAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGATAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCg                                                                                                                                             >  5:132368/1‑149 (MQ=255)                 tCACAAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTTAAACCCCAACTAAATTG‑TGCAGTGTATGACGGGG‑ttt                                                                                                                                       >  6:53406/1‑148 (MQ=255)                 tCACAAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTa                                                                                                                                      <  6:172591/149‑1 (MQ=255)                 tCACAAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTa                                                                                                                                      >  2:178504/1‑149 (MQ=255)                  cacaAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTAc                                                                                                                                     >  1:73158/1‑149 (MQ=255)                   acaAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTAcc                                                                                                                                    <  2:73158/149‑1 (MQ=255)                                aaTGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑GTTACCCGCGAAGAAGcc                                                                                                                        >  3:180707/1‑148 (MQ=255)                                   gAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATcc                                                                                                                    >  2:111920/1‑149 (MQ=255)                                       aaTACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGt                                                                                                                <  7:86152/149‑1 (MQ=255)                                            aGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCAc                                                                                                           >  7:134448/1‑149 (MQ=255)                                              gTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGc                                                                                                         >  6:332906/1‑149 (MQ=255)                                                        gagTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGATAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATcgcg                                                                                                <  6:132368/148‑1 (MQ=255)                                                                 tCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCcgcg                                                                                                                                <  8:81622/107‑1 (MQ=255)                                                                 tCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCcgcg                                                                                                                                >  7:81622/1‑107 (MQ=255)                                                                 tCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCccgc                                                                                      >  7:202496/1‑149 (MQ=255)                                                                    aaaaTGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGAATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCccgccg                                                                                    >  1:133100/1‑148 (MQ=255)                                                                          tggCATATAAGGCTGTATAGAGCGTGTTAGAGCGGTTTACGGCATGCGGGGTTAAACCCGCTCGTACATTG‑GGCCGTGTCGTAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAAt                                                                              <  1:178504/146‑1 (MQ=255)                                                                            gCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCtt                                                                           <  8:134448/149‑1 (MQ=255)                                                                            gCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCtt                                                                           >  1:266203/1‑149 (MQ=255)                                                                              aGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGGTTTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTg                                                                          <  1:271248/149‑1 (MQ=255)                                                                              aGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGc                                                                         <  8:1196/149‑1 (MQ=255)                                                                              aGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGc                                                                         <  2:133100/149‑1 (MQ=255)                                                                                    ggCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGGGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATcgcg                                                                                                <  1:246272/120‑1 (MQ=255)                                                                                    ggCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATcgcg                                                                                                >  2:246272/1‑120 (MQ=255)                                                                                    ggCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATc                                                                             <  3:34807/139‑1 (MQ=255)                                                                                    ggCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATc                                                                             >  4:34807/1‑139 (MQ=255)                                                                                        gTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTg                                                                          >  7:80310/1‑138 (MQ=255)                                                                                        gTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTg                                                                          <  8:80310/138‑1 (MQ=255)                                                                                             gagCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTGCGTCCGGGATACCCCCAC‑AATACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATg                                                           <  1:111920/149‑1 (MQ=255)                                                                                                  tGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACTGGCGTCATGGGCAAc                                                     >  1:217325/1‑149 (MQ=255)                                                                                                         gCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTcgc                                              >  3:88731/1‑149 (MQ=255)                                                                                                             tttAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCgcag                                          >  4:27280/1‑149 (MQ=255)                                                                                                                aaGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATgg                                                          >  1:264225/1‑130 (MQ=255)                                                                                                                aaGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATgg                                                          <  2:264225/130‑1 (MQ=255)                                                                                                                 aGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGAATCGCGCAGCAc                                       >  5:348811/1‑148 (MQ=255)                                                                                                                         gcgGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCtt                              <  2:266203/149‑1 (MQ=255)                                                                                                                           ggggAAACCCGCTCCTACTTTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTgg                            <  3:83698/149‑1 (MQ=255)                                                                                                                           gggTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTgg                            <  8:202496/149‑1 (MQ=255)                                                                                                                             gTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTggg                           >  5:280795/1‑148 (MQ=255)                                                                                                                              tAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTa                         >  1:133097/1‑149 (MQ=255)                                                                                                                               aaaCCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTcgcg                                             >  3:67560/1‑128 (MQ=255)                                                                                                                               aaaCCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTcgcg                                             <  4:67560/128‑1 (MQ=255)                                                                                                                                  cacGCTCCTACACTG‑CCCAATGTAGGAGCGGG‑TTTACACGCGAAGATGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACttt                     >  3:120473/3‑149 (MQ=38)                                                                                                                                   ccGCTCCTACACTG‑CCCAATGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACTTTg                    >  8:210707/1‑149 (MQ=255)                                                                                                                                     gCTCCTACACTG‑CCCAATGTAGGAGCGGG‑TTTACCCGCGAATAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCAGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACTTTg                    >  3:266300/1‑147 (MQ=38)                                                                                                                                         cTACACTG‑CCCAATGTAGGAGCGGG‑TTTACCCGCGAATAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACTTTGTAGcc               <  4:266300/148‑1 (MQ=39)                                                                                                                                            cATTG‑GTCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACTTTGTAGCCgg             <  4:88731/147‑1 (MQ=255)                                                                                                                                            cATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACTTTGTAGCCGGTg           <  5:332906/149‑1 (MQ=255)                                                                                                                                             aTTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGACGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAAACTTGCCCACCCGCGTCATGGGCACCGATTCGCGCAGCACGATGTGCTTGGGTACATTGAAGCCGGtc           >  2:34990/1‑147 (MQ=255)                                                                                                                                                      gtgtAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACTTTGTAGCCGGTGAAGTTGGcc  <  6:348811/149‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                      AAAACAGGCCTTATGGTCACAAAAATGACTCAATGAACAATACAGGTCATTTTTAGAGTAATTATCCAAAATGTCGCAGATAAGGCTGTATAGAGCCTGTTAGAGCGGTTTAAGGCATTCGCGGGTAAACCCGCTCCTACATTG‑GGCAGTGTAGGAGCGGG‑TTTACCCGCGAAGAAGCCATCCCGGTATCACGCTATATCGCGCAACTCCCGCCGCAAAATCTTGCCCACCGGCGTCATGGGCAACGATTCGCGCAGCACGATGTGCTTGGGTACTTTGTAGCCGGTGAAGTTGGCC  >  NC_002947/5173103‑5173399

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑