Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,655,682	T→G	10.9%	intergenic (‑86/+66)	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	5,655,682	0	T	G	10.9%	140.0 / 11.3	55	intergenic (‑86/+66)	epd/tktA	D‑erythrose 4‑phosphate dehydrogenase/transketolase A
Reads supporting (aligned to +/- strand):  ref base T (24/25);  new base G (2/4);  total (26/29)
Fisher's exact test for biased strand distribution p-value = 6.72e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.18e-01

GCAGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGAAGCCGGCGC  >  NC_002947/5655533‑5655831                                                                                                                                                       |                                                                                                                                                      gcAGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGttt                                                                                                                                                       <  2:1190428/150‑1 (MQ=255)   aGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCa                                                                                                                                                     <  1:376990/150‑1 (MQ=255)   aGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCa                                                                                                                                                     >  1:225107/1‑150 (MQ=255)    ggACACAGGGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTAGGGTAATTGGTGTGCACGGTTCAGTCCAATTGTCGTCAGCCTGCAGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCAt                                                                                                                                                    <  1:678522/150‑1 (MQ=255)          aGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCaaac                                                                                                                                              >  1:1419118/1‑148 (MQ=255)              gCCGATACGGCCATAGCCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGAAAGTTCAATTGTCGGCAGCCTGCGGGATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAAccctg                                                                                                                                           <  2:816018/150‑4 (MQ=37)               ccGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAAccctgt                                                                                                                                          <  1:839061/150‑5 (MQ=38)               ccGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGT‑GGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgtg                                                                                                                                        <  1:785531/150‑1 (MQ=255)                cGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgtg                                                                                                                                        <  2:1070618/150‑1 (MQ=255)                       gCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAACC‑CTGTGGGAGCgg                                                                                                                                 <  2:1175750/150‑1 (MQ=37)                                     gTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAAt                                                                                                                   <  1:856944/150‑1 (MQ=255)                                           cTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGc                                                                                                             <  2:1096341/150‑1 (MQ=255)                                            tttGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAgg                                                                                                              <  1:903095/148‑1 (MQ=255)                                            tttGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAgg                                                                                                              >  2:903095/1‑148 (MQ=255)                                                   ggACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                         >  2:1182242/1‑114 (MQ=255)                                                   ggACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCtgt                                                                                                                                         <  1:1182242/114‑1 (MQ=255)                                                            ggCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATc                                                                                            <  1:949311/150‑1 (MQ=255)                                                             gCATTCGGGGCTCACGAGACAGTTCAATTGTTGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCt                                                                                           >  1:1245516/1‑150 (MQ=255)                                                               aTTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCCCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCttt                                                                                         <  2:996917/150‑1 (MQ=255)                                                                  cGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTaaa                                                                                      <  2:1205162/150‑1 (MQ=255)                                                                   ggggCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAACC‑CTGTgg                                                                                                                                       <  2:209355/100‑1 (MQ=21)                                                                   ggggCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAGAGGTTGCATGAAACC‑CTGTgg                                                                                                                                       >  1:209355/1‑100 (MQ=21)                                                                     ggCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCgg                                                                                                                                 <  2:978346/104‑1 (MQ=255)                                                                     ggCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCgg                                                                                                                                 >  1:978346/1‑104 (MQ=255)                                                                      gCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTaa                                                                                       <  1:650307/145‑1 (MQ=255)                                                                      gCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTaa                                                                                       >  2:650307/1‑145 (MQ=255)                                                                        tCACGAGACAGTTCAATTGTCGTCAGTCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTgg                                                                                                                                       >  1:1417519/1‑95 (MQ=255)                                                                        tCACGAGACAGTTCAATTGTCGTCAGTCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTgg                                                                                                                                       <  2:1417519/95‑1 (MQ=255)                                                                            gagaCAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGc                                                                                                             >  2:328045/1‑117 (MQ=255)                                                                            gagaCAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCAACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGc                                                                                                             <  1:328045/117‑1 (MQ=255)                                                                                   ttCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGct                                                                     >  1:495879/1‑150 (MQ=255)                                                                                      aaTTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCtt                                                                  <  2:495879/150‑1 (MQ=255)                                                                                                 gCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCa                                                                                                                                                     <  1:359257/56‑1 (MQ=255)                                                                                                 gCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCa                                                                                                                                                     >  2:359257/1‑56 (MQ=255)                                                                                                   cTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGGTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAg                                                     >  2:1280400/1‑150 (MQ=255)                                                                                                               cGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAg                                         <  2:225107/150‑1 (MQ=255)                                                                                                                      gCATTCGCGGGCAAGCCCGCTCCCACAG‑GGGTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCCCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCATTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGCGTGAAg                                  >  1:505105/1‑150 (MQ=255)                                                                                                                                gCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCtt                        >  1:1252133/1‑150 (MQ=255)                                                                                                                                 caggCCCGCGCCCACAG‑GGTTTCATGCAATCTCTGTGTGAGCGGCCTTGTCTGCGAAGGAAGGCGACACCGCCCGCAGATCTTTAAATCATTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTc                       <  2:505105/147‑1 (MQ=255)                                                                                                                                    gCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGATACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGaa                    >  2:1099730/1‑150 (MQ=255)                                                                                                                                      ccGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACa                  >  1:216924/1‑150 (MQ=255)                                                                                                                                          tCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAg                                                     >  1:133565/1‑111 (MQ=255)                                                                                                                                          tCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAg                                                     <  2:133565/111‑1 (MQ=255)                                                                                                                                          tCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGc              >  1:841907/1‑150 (MQ=255)                                                                                                                                           cccACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCccgcaggctgacgacaattgaactgtctcgtgagccccgaatgccccaccgtccctacaaagttgcactcaacggttatggc                   <  1:352223‑M2/144‑83 (MQ=255)                                                                                                                                           cccACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCccgcaggctgacgacaattgaactgtctcgtgagccccgaatgccccaccgtccctacaaagttgcactcaacggttatggc                   >  2:352223‑M2/1‑62 (MQ=255)                                                                                                                                            ccACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCccgcaggctgacgacaattgaactgtctcgtgagccccgaatgccccaccgtccctacaaagttgcactcaacggttatggccgtatcg            <  1:1308853‑M2/150‑90 (MQ=255)                                                                                                                                             cacaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAggg                                       >  2:1280296/1‑122 (MQ=255)                                                                                                                                             cacaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAggg                                       <  1:1280296/122‑1 (MQ=255)                                                                                                                                             cacaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGa           >  1:925271/1‑150 (MQ=255)                                                                                                                                             cacaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGa           >  1:42466/1‑150 (MQ=255)                                                                                                                                              gcagaggTTGCATGAAACC‑CTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGaa          >  2:973554/6‑150 (MQ=38)                                                                                                                                              acaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAg                                                     <  1:1029764/107‑1 (MQ=255)                                                                                                                                              acaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAg                                                     >  2:1029764/1‑107 (MQ=255)                                                                                                                                              acaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGc              >  2:349064/1‑146 (MQ=255)                                                                                                                                              acaG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGc              <  1:349064/146‑1 (MQ=255)                                                                                                                                                       tCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGAAGCCGgcgc  <  2:1419118/150‑1 (MQ=255)                                                                                                                                                       |                                                                                                                                                      GCAGGACACAGCGGCCGATACGGCCATAACCGTTGAGTGCAACTTTGTAGGGACGGTGGGGCATTCGGGGCTCACGAGACAGTTCAATTGTCGTCAGCCTGCGGAATTTGCGGTGTGGCATTCGCGGGCAAGCCCGCTCCCACAG‑GGTTTCATGCAACCTCTGTGGGAGCGGGCTTGCCCGCGAATGAAGGCGACACCGCCCGCAGATCTTTAAATCAGTCTTCCAGCAGCTCTTCGGCAGTACCGAGGATGTTCTCCAGGGTGAAGCCAAACTCTTCGAACAATGCCGAAGCCGGCGC  >  NC_002947/5655533‑5655831

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: ‑