Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,623,404	G→A	R238R (CGC→CGT)	lplA ←	lipoate‑‑protein ligase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,623,404	0	G	A	93.9%	83.1 / ‑1.9	33	R238R (CGC→CGT)	lplA	lipoate‑‑protein ligase A
Reads supporting (aligned to +/- strand):  ref base G (0/2);  new base A (20/11);  total (20/13)
Fisher's exact test for biased strand distribution p-value = 1.48e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.76e-01

CCGGGAAGTCAACCAACAGCGCTTCGCACTCCTGTTGCAGCATATCTGCGCGGTACAGGCAGCCTTGCAGTCGTCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGCGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTG  >  NC_000913/4623157‑4623641                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                               ccGGGAAGTCAACCAACAGCGCTTCGCACTCCTGTTGCAGCATATCTGCGCGGTACAGGCAGCCTTGCAGTCGTCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACACCGCCCCAGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGCgg                                                                                                                                                                                                                                             <  1:101221/251‑1 (MQ=255)           aaccaacAGCGCTTCGCACTCTTGTTGCAGCATATCCGCGCGGTACAGGCAGCCTTGCAGGCGCCCGGCGAGGGCGTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATAGGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCAACCAGCAGATGCGAGAATGCCGGAGCCTGACCGCAGTTCCATTCCCAGCTACTCTGACGGGCAGAGGttt                                                                                                                                                                                                                                   >  1:318804/1‑251 (MQ=255)                 cAGCGCTTCGCACTCTTGTTGCAGCATATCCGCGCGGTACAGGCAGCCTTGCAGTCGCCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCg                                                                                                                                                                                                                              >  1:196687/1‑250 (MQ=255)                                  gTTGCAGCATATCCGCGCGGTACAGGAAGCCTTGCAGTCGCCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTGCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGc                                                                                                                                                                                                            <  2:196687/251‑1 (MQ=255)                                         catagccgcgcGGTACAGGCAGCCTTGCAGTCGCCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGt                                                                                                                                                                                                     <  1:11986/244‑1 (MQ=255)                                            atccgggcggtcacggCAGCCTGGCAGGCGTCTGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATAGGGACTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGCCTTGCGTTTTGtca                                                                                                                                                                                                   <  2:49170/236‑3 (MQ=255)                                              ccgcgcGGTACAGGCAGCCTTGCAGTCGCCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCgg                                                                                                                                                                                                 <  1:158828/248‑1 (MQ=255)                                                              gCCTTGCAGTCGCCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCtt                                                                                                                                                                                >  1:278896/1‑251 (MQ=255)                                                                cTTGCAGTCGCCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCa                                                                                                                                                                                                                                          <  1:112121/191‑1 (MQ=255)                                                                  tGCAGTCGCCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCGGGCGTTTTGTCCGGGGAGATGATTTCCGCTTct                                                                                                                                                                              <  1:149744/249‑2 (MQ=255)                                                                    cAGTCGCCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTctacac                                                                                                                                                                          >  1:180997/1‑246 (MQ=255)                                                                           ccGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGATATGATTTCCGCTTCTACACGCTCGcc                                                                                                                                                                   <  1:338447/251‑1 (MQ=255)                                                                                gAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAAt                                                                                                                                                              >  1:251072/1‑251 (MQ=255)                                                                                                gcgGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCtt                                                                                                                                              >  1:105012/1‑250 (MQ=255)                                                                                                    ggttgagtcgtacgttAAACTCCTGGGCGCTGGTGATACTGCTTTTTTAACCGTGGAAAGTCTGTTACACGCCGCCCATGCTAAATCTTTCATCCAGCATATGCGAGAATGCCGGAGCCTGACCGAAGTTCCAGTCCCAGCTACTCTGACGGGCAAATGTTTCGGCGAAGTTTGGCAAGTCTTGCGTTTTGTCCGGGGAGATGATTGCCGCTTCTACACTCTCGACATAATGGGCGaaaaatgctttggtt                                                                                                                                          <  2:33054/236‑11 (MQ=255)                                                                                                         aGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGc                                                                                                                                     >  1:226441/1‑251 (MQ=255)                                                                                                                cGGTAAACACATGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCa                                                                                                                               >  1:36506/1‑250 (MQ=255)                                                                                                                        acCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTc                                                                                                                      >  1:130535/1‑251 (MQ=255)                                                                                                                         ccTGGGCGCGGGTGATATAGCCTATTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACATGCta                                                                                                                      >  1:154240/1‑249 (MQ=255)                                                                                                                               cgcgGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTg                                                                                                               <  1:191277/251‑1 (MQ=255)                                                                                                                                                                gCAGTTCCACGCCGCCCCAGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGCGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCAc                                                                               <  1:104061/250‑1 (MQ=255)                                                                                                                                                                         cgccgcCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGGCACGCGGGaccgc                                                                     >  2:217510/1‑247 (MQ=255)                                                                                                                                                                         cgccgcCCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTACATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGATTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGATGGTCACGCGGGAACgc                                                                     >  1:55182/1‑250 (MQ=255)                                                                                                                                                                           ccgccCCAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACgcac                                                                   <  1:217510/251‑4 (MQ=255)                                                                                                                                                                              ccccAGCTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGAACGAAGATCCATTCCCAGCTACTCTGACGGGCAACGGATTCGGCGAAGTTTGGCACGTCTGACGTTTTGTCCGGGGCAATGATTTCCGCTTCTACACACTCGCCGTAATGGCCGAAAAGGGCCTTGGTTATGTCCTCGCAAACCTGCTCATGGGGGATCCCCGGACGCAGCTCGGTTCGTATGGTCACGCGGGGACgcattgg                                                                >  2:176096/1‑245 (MQ=255)                                                                                                                                                                                    ctAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AAt                                                         >  1:205750/2‑251 (MQ=255)                                                                                                                                                                                        aGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AATGCCt                                                     >  1:163005/1‑251 (MQ=255)                                                                                                                                                                                                    gtaggtGCGAGAATGCAGGAGCCTGGCCGAGGTTCCAGTCCCAGATACTCTGACGGGAAAAGGTTGCGGGGAAGTGGGGCAAGTCTGGCGTTTTGTCCGGGAAGATGATTTCCGTGTCAACACGCTCTCCATAATGGGCGAAAAAGGCCTGGGTTAGGGCCTCGCAACCCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AATGCCTTTCGCCGCCAGt                                         <  2:193712/246‑1 (MQ=255)                                                                                                                                                                                                      agATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AATGCCTTTCGCCGCCAGttt                                       >  1:150795/1‑251 (MQ=255)                                                                                                                                                                                                       gATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGACGGGCCAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGATCGGGGAGGTTGGTACCGCGGGAACGCACTGAGGT‑AATGCCTTTCGCCGCCCGTTTc                                      >  1:32411/1‑251 (MQ=255)                                                                                                                                                                                                                                          tCCCAGCTACTCTGACGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCt   >  1:369636/1‑251 (MQ=255)                                                                                                                                                                                                                                           cccAGCTACTCTGACGGGCAAAGGTTTCGGAGAAATTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATCATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑CAGGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCCGGCGGCt   >  1:99268/1‑250 (MQ=255)                                                                                                                                                                                                                                            tcagccaatctGACGGGCAAAGGTATCGGCGAAGTTTGGCAAGCCTGGCGATTTGTCCGGGGAGATGATTTGCGCTTCTACACGCTCGCCATAATGGGCGAAGAAGGCATTGGGTATGGCCTCGCAAACCTGCTCATGGGTGATCACCGGCAGCAGTTCGGTGAGGTTGGTCACGCGTGAACGCACTG‑CGTTAATGCCTTTCGGCGCCAGTTTCTTTTTATCCGGATTGAGTTAGTTTGCAAggcggcga  >  2:77052/9‑248 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                               CCGGGAAGTCAACCAACAGCGCTTCGCACTCCTGTTGCAGCATATCTGCGCGGTACAGGCAGCCTTGCAGTCGTCCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGCGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTG  >  NC_000913/4623157‑4623641

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑