Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,623,473	G→A	R215R (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	4,623,473	0	G	A	96.2%	73.0 / ‑4.2	27	R215R (CGC→CGT)	lplA	lipoate‑‑protein ligase A
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base A (19/6);  total (19/8)
Fisher's exact test for biased strand distribution p-value = 2.69e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.11e-01

CCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGCGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCCGTGGTGGAAGCCGCGATCTTTGGTTTCGCGATAGGCCGAGCCT  >  NC_000913/4623231‑4623710                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                               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)                                                                                                                                                                                            cGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCg                                            >  1:94662/1‑251 (MQ=255)                                                                                                                                                                                              gCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTCAGGTCGGCATTGAGCAGCAAGGTGCCgtg                                          >  1:55998/1‑251 (MQ=255)                                                                                                                                                                                                       ggCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AATGCCTTTCGCCGCCAGTTTCtttt                                                                                                       <  1:200972/181‑1 (MQ=255)                                                                                                                                                                                                               tGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACACGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCCGTGGTGGAAGCCGCGATCtt                         >  1:188561/1‑251 (MQ=255)                                                                                                                                                                                                                                       ttCCGCTTCTCCCCGCTCGCCATAAGGGGCGAAAAAGGCCTGGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGGGAGGTTGGTCACGCGGGAACGCACTGAGGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGACAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTGGAAGCCACGATCTTTGGTTTCGCGATAGGcctatcct  <  2:130535/250‑7 (MQ=255)                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                               CCGGCGAGGGCTTCCAGCGGCGCGGGGTTGAGGCTGTCGGTAAACACCTGGGCGCGGGTGATATGGCCTTTTTCAACGTCGAAATGCAGTTCCACGCCGCCCCAGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGCGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGT‑AATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCCGTGGTGGAAGCCGCGATCTTTGGTTTCGCGATAGGCCGAGCCT  >  NC_000913/4623231‑4623710

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: ‑