Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,655,677:1	+A	13.2%	intergenic (‑81/+71)	epd ← / ← tktA	D‑erythrose 4‑phosphate dehydrogenase/transketolase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,655,677	1	.	A	13.2%	186.7 / 25.0	53	intergenic (‑81/+71)	epd/tktA	D‑erythrose 4‑phosphate dehydrogenase/transketolase A
Reads supporting (aligned to +/- strand):  ref base . (21/25);  new base A (3/4);  total (24/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.89e-01

GCGCGCAGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGAAGC  >  NC_002947/5655529‑5655825                                                                                                                                                      |                                                                                                                                                     gcgcgcAGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAg‑g                                                                                                                                                     <  1:171465/150‑1 (MQ=255)      cAGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTc                                                                                                                                                <  2:1181486/150‑1 (MQ=255)       aGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAAATTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCa                                                                                                                                               <  1:308898/150‑1 (MQ=255)        ggACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATGCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCAt                                                                                                                                              <  2:1006704/150‑1 (MQ=255)                   ccGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                   <  2:1436417/150‑1 (MQ=255)                   ccGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGCTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                   <  2:1122077/150‑1 (MQ=255)                    cGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGGCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCACACAG‑GGTTTCATGCAACCTCtgtg                                                                                                                                  <  1:1362809/150‑1 (MQ=255)                     gATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAACC‑CTGTgg                                                                                                                                 <  1:1398382/150‑1 (MQ=38)                       tACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAT‑GGTTTCATGCAACCTCTGTggg                                                                                                                                <  1:631519/149‑1 (MQ=255)                       tACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTggg                                                                                                                                >  2:631519/1‑149 (MQ=255)                       tACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGAATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGTGGTGTGGCATTCGCGGGCAAGCCCGCTCGCACAG‑CGTTTCATGCAACCTCTGTGGGa                                                                                                                               <  2:523722/150‑1 (MQ=255)                         cGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAACC‑CTGTGGGAGc                                                                                                                             <  1:742805/150‑1 (MQ=37)                          ggCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCg                                                                                                                            >  2:1459691/1‑150 (MQ=255)                           gCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTgggcgagg                                                                                                                           <  2:1096492/150‑6 (MQ=255)                           gCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGCGGGAGCgg                                                                                                                           <  2:1292585/150‑1 (MQ=255)                            ccATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCggg                                                                                                                          <  1:481369/150‑1 (MQ=255)                              aTAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAg                                                                                                                                                       <  2:1601031/120‑1 (MQ=255)                              aTAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAg                                                                                                                                                       >  1:1601031/1‑120 (MQ=255)                               tAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCtt                                                                                                                       <  1:491371/150‑1 (MQ=255)                                               cTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGc                                                                                                       <  1:384329/150‑1 (MQ=255)                                                 ttGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGa                                                                                                     <  1:1480079/150‑1 (MQ=255)                                                       ggACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTc                                                                                                                                                <  1:390656/101‑1 (MQ=255)                                                       ggACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTc                                                                                                                                                >  2:390656/1‑101 (MQ=255)                                                       ggACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                   >  2:1588608/1‑114 (MQ=255)                                                       ggACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                   <  1:1588608/114‑1 (MQ=255)                                                                    ttCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTa                                                                                  >  2:195989/1‑150 (MQ=255)                                                                            tCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GCTATCAAGAAACCTCTGTTGGAGCGGGCTTGCCCGCCAATGAAGGAGCCACTTCCCGCAGGTCATTAAATCAGTc                                                                          >  1:282767/1‑150 (MQ=37)                                                                                     aGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAg‑g                                                                                                                                                     <  1:1447335/66‑1 (MQ=255)                                                                                     aGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAg‑g                                                                                                                                                     >  2:1447335/1‑66 (MQ=255)                                                                                       ttCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGct                                                               >  2:435706/1‑150 (MQ=255)                                                                                          aaTTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAACC‑CTGTGGGAGCGGGc                                                                                                                         <  1:718216/89‑1 (MQ=17)                                                                                          aaTTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAACC‑CTGTGGGAGCGGGc                                                                                                                         >  2:718216/1‑89 (MQ=17)                                                                                          aaTTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                   >  1:1496829/1‑79 (MQ=255)                                                                                          aaTTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                   >  1:1496807/1‑79 (MQ=255)                                                                                          aaTTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                   <  2:1496829/79‑1 (MQ=255)                                                                                          aaTTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                   <  2:1496807/79‑1 (MQ=255)                                                                                          aaTTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑AGTTTCATGCAACTTCTGGGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCtt                                                            >  1:608678/1‑150 (MQ=255)                                                                                            ttGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCGGCTCCCACAG‑GGTTTCATGCCACCTCTGTGGGAGCGTGATTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATACGTCTTCCAGCAGCCCTTCg                                                          >  2:93144/1‑150 (MQ=255)                                                                                                    aGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTAcc                                                  <  1:195989/150‑1 (MQ=255)                                                                                                             aaTTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGtt                                         >  1:1425908/1‑150 (MQ=255)                                                                                                                     gtgtGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAggg                                 <  2:282767/150‑1 (MQ=255)                                                                                                                                 cgGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTGGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAAct                     <  1:1593345/150‑1 (MQ=255)                                                                                                                                      aaGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATg                                           <  2:349924/123‑1 (MQ=255)                                                                                                                                      aaGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATg                                           >  1:349924/1‑123 (MQ=255)                                                                                                                                          ccGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACa            >  2:1282517/1‑150 (MQ=255)                                                                                                                                            gCTCCCACAG‑GTTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAAt          >  1:1372304/1‑150 (MQ=255)                                                                                                                                              tCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCGGGGTGAAGCCAAACTCTTCGAACAATGc        >  2:99916/1‑150 (MQ=255)                                                                                                                                                ccACAGAGGTTGCATGAAACC‑CTGTGGGAGCGGGCTTGCCCGCGAATGCAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCg      >  1:1611478/1‑150 (MQ=37)                                                                                                                                                ccACAGAGGTTGCATGAAACC‑CTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATc                                                                              >  2:1556743/1‑78 (MQ=17)                                                                                                                                                ccACAGAGGTTGCATGAAACC‑CTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATc                                                                              <  1:1556743/78‑1 (MQ=14)                                                                                                                                                ccACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTcc                                                                      <  2:1410835/86‑1 (MQ=255)                                                                                                                                                ccACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTcc                                                                      >  1:1410835/1‑86 (MQ=255)                                                                                                                                                 cacaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGa     >  1:789340/1‑150 (MQ=255)                                                                                                                                                  acaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATg                                           >  2:1025864/1‑111 (MQ=255)                                                                                                                                                  acaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGaa    >  1:352591/1‑150 (MQ=255)                                                                                                                                                  acaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGaa    >  2:6528/1‑150 (MQ=255)                                                                                                                                                  acaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATATTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATg                                           <  1:1025864/111‑1 (MQ=255)                                                                                                                                                    aG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGAAGc  <  2:608678/150‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                     GCGCGCAGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGAAGC  >  NC_002947/5655529‑5655825

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: ‑