Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,534,768	C→A	10.0%	intergenic (+55/‑100)	atoB → / → PP_3124	3‑oxoacid CoA‑transferase subunit B/short chain fatty acid transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,534,768	0	C	A	10.0%	168.3 / 7.1	57	intergenic (+55/‑100)	atoB/PP_3124	3‑oxoacid CoA‑transferase subunit B/short chain fatty acid transporter
Reads supporting (aligned to +/- strand):  ref base C (28/23);  new base A (4/2);  total (32/25)
Fisher's exact test for biased strand distribution p-value = 6.86e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01

GCGCCTGGGGTCAGCGTCGAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCCGCGCGCTTTGCCTTGC  >  NC_002947/3534627‑3534913                                                                                                                                              |                                                                                                                                                   gcgcCTGGGGTCAGCGTCGAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGAcc                                                                                                                                             >  6:174408/1‑149 (MQ=255)     cTGGGGTCAGCGTCGAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGAccgccg                                                                                                                                         <  8:306785/149‑1 (MQ=255)        gggTCAGCGTCGAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCAt                                                                                                                                      >  5:289646/1‑149 (MQ=255)             aGCGTCGAGGAAATCATCGAGAACACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTcgcg                                                                                                                                 <  5:118788/149‑1 (MQ=255)              gCGTCGAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTcgc                                                                                                                                  >  6:361564/1‑147 (MQ=255)              gCGTCGAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTcgc                                                                                                                                  <  5:361564/147‑1 (MQ=255)                   gAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAg                                                                                                                          >  2:231946/1‑149 (MQ=255)                   gAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAg                                                                                                                          >  2:330395/1‑149 (MQ=255)                          tcatcGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTc                                                                                                                   <  2:148582/149‑1 (MQ=255)                            atcGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTcc                                                                                                                  >  6:111620/1‑148 (MQ=255)                             tcGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTa                                                                                                                >  1:265005/1‑149 (MQ=255)                             tcGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTa                                                                                                                >  1:363432/1‑149 (MQ=255)                              cGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTAc                                                                                                               <  5:111620/149‑1 (MQ=255)                               gagaAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTAc                                                                                                               <  6:353981/148‑1 (MQ=255)                               gagaAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACa                                                                                                              <  2:265005/149‑1 (MQ=255)                                    aaCCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGttt                                                                                                         >  8:155101/1‑149 (MQ=255)                                        gccgGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTg                                                                                                     <  1:152015/149‑1 (MQ=255)                                           ggCAAACTGATCGTGCCGGATGATGTTAAGGAAATGACCTTCTAAGGCATGACGTGATCTAACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATAGAACCCCGCATTCGCGGGT‑AACCCTGTTCCTACAGGTTTTTTGCGt                                                                                                  >  5:312631/1‑149 (MQ=38)                                                    aTCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGTAAAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTgg                                                                                           <  1:231946/148‑1 (MQ=255)                                                     tCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTACTACAGGTTTTTTGCGTTGCCTGGCaa                                                                                        >  6:94428/1‑149 (MQ=255)                                                              atgatgTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTc                                                                               <  5:174408/149‑1 (MQ=255)                                                                      aaGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGAGTTTACCCCCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCAt                                                                        >  7:317574/1‑148 (MQ=255)                                                                          aaaTGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAAc                                                                   <  5:94428/149‑1 (MQ=255)                                                                           aaTGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATTAGTCGGTAAAATTACCCCCGCAATAGCGGGT‑AAGCCTGTTAGAAAAAGTTTTTTTAGTTGACAGGCCATAAACCTTAATACCaaaaaaa                                                                   >  2:349792/1‑147 (MQ=255)                                                                            aTGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCa                                                                 <  6:289646/149‑1 (MQ=255)                                                                                    cTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAACCCAATAAAAg                                                          >  7:273019/1‑148 (MQ=255)                                                                                    cTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAg                                                          >  1:232748/1‑148 (MQ=255)                                                                                    cTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAg                                                          >  2:301765/1‑148 (MQ=255)                                                                                       aGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATc                                                                            <  2:259745/127‑1 (MQ=255)                                                                                       aGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATc                                                                            >  1:259745/1‑127 (MQ=255)                                                                                           aTGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCaa                                                                <  6:175643/135‑1 (MQ=255)                                                                                           aTGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCaa                                                                >  5:175643/1‑135 (MQ=255)                                                                                                gTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTg                                             >  4:256419/1‑149 (MQ=255)                                                                                                gTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTg                                             <  1:255453/149‑1 (MQ=255)                                                                                                  gATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTgg                                            <  2:363432/148‑1 (MQ=255)                                                                                                   aTCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGc                                           <  3:256419/148‑1 (MQ=255)                                                                                                      tcACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCt                                       >  6:166472/1‑149 (MQ=255)                                                                                                      tcACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCt                                       >  3:164517/1‑149 (MQ=255)                                                                                                        aCCCTGTAGGCGCGGGTTTACCCGCGAATGTGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTg                                      >  3:358649/1‑148 (MQ=255)                                                                                                        aCCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTg                                      >  4:313838/1‑148 (MQ=255)                                                                                                          ccTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAAc                                                                   >  5:289596/1‑117 (MQ=255)                                                                                                          ccTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAAc                                                                   <  6:289596/117‑1 (MQ=255)                                                                                                              tAGGCGCGGGTTTACCCGCGAATGTGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCa                               <  4:358649/149‑1 (MQ=255)                                                                                                               attcgcgGGTAAACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCACATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCa                               >  8:155766/4‑148 (MQ=255)                                                                                                                            cccGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCcg                 >  3:81175/1‑149 (MQ=255)                                                                                                                             ccGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCcgc                >  8:249900/1‑149 (MQ=255)                                                                                                                             ccGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCagc                >  2:44774/1‑149 (MQ=255)                                                                                                                             ccGCGAATGCGGCGGTCAATGTACCGACGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATaaaa                                                           <  4:231867/106‑1 (MQ=25)                                                                                                                             ccGCGAATGCGGCGGTCAATGTACCGACGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATaaaa                                                           >  3:231867/1‑106 (MQ=25)                                                                                                                             ccGCGAATGCGGCGGTCAATGTACCGACGCATTCGCGGGT‑AAACCCGCGCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCaa                              <  2:291953/135‑1 (MQ=21)                                                                                                                             ccGCGAATGCGGCGGTCAATGTACAGACGCATTCGCGGGT‑AAACCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTAAAACGTGGCAGGTGAAATTCaa                              >  7:54125/1‑135 (MQ=25)                                                                                                                                   aTGCGGCGGTCAATGTACCGACGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTGCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCCGCGCGCtt          >  5:344348/1‑149 (MQ=38)                                                                                                                                    tGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCCGCGCGCttt         <  4:81175/149‑1 (MQ=255)                                                                                                                                    tGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCCGCGCGCttt         <  3:313838/149‑1 (MQ=255)                                                                                                                                      cGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCCGCGCGCTTTGc       <  5:83283/149‑1 (MQ=255)                                                                                                                                       ttCGGTACATTGACCTCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACTGCCGCTCCGCGCGCTTTGcc      <  6:312631/148‑1 (MQ=255)                                                                                                                                           gTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCCGCGCGCTTTGCCTTgc  >  1:156395/1‑149 (MQ=255)                                                                                                                                              |                                                                                                                                                   GCGCCTGGGGTCAGCGTCGAGGAAATCATCGAGAAAACCGCCGGCAAACTGATCGTGCCGGATGATGTGAAGGAAATGACCTTCTAAGGCATGACGTGATCTCACCCTGTAGGCGCGGGTTTACCCGCGAATGCGTCGGTACATTGACCGCCGCATTCGCGGGT‑AAGCCTGTTCCTACAGGTTTTTTGCGTTGCCTGGCAATACCGCTTCATCCCATAAAACCAATAAAAGGAATTCAACCGTGGCCGCTGAAATTCAAGACAGCCGCTCCGCGCGCTTTGCCTTGC  >  NC_002947/3534627‑3534913

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: ‑