Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	17,309	A→G	intergenic (+299/‑180)	sokC → / → nhaA	small regulatory RNA antitoxin SokC/Na(+):H(+) antiporter NhaA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	17,309	0	A	G	100.0%	111.7 / NA	34	intergenic (+299/‑180)	sokC/nhaA	small regulatory RNA antitoxin SokC/Na(+):H(+) antiporter NhaA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (20/14);  total (20/14)

TTTAACCCATTTTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTCATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTAATCCCTCAGGAATCCTCACCTTAAGCTATGATTATCTAGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAA‑CGCATCTCACCGCTGATGGCGCAAATTCTTCAATAGCTCGTAAAAAACGAATTATTCCTACACTATAATCTGATTTTAACGATGATTCGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATT  >  NC_000913/17074‑17548                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                 tttAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTc                                                                                                                                                                                                                                   >  1:224670/1‑251 (MQ=255)                     cGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGGGAGCGCTTACAGCCGTc                                                                                                                                                                                                                >  2:256134/1‑250 (MQ=255)                       aTTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCaaa                                                                                                                                                                                                             <  2:99925/251‑1 (MQ=255)                                                     gtgGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAAt                                                                                                                                                                                <  2:179370/250‑1 (MQ=255)                                                                 tttAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCTATTATTGTCGACTAGCTGGATTATTTTTGTATTATTGTCCTAACAAATAACGCCGACTGACAAGAATTTAATTATTACTTTTACAAATTAATCCATCAGAAATCCTCACTTTAAGCTATGTTTATCTGTGTTTAGGGTCAATCGTGAGCGCTTACAGCAGTCAAAAATCTGATCTAACAGCTGTTGGAGCAAATTCTTCactggagc                                                                                                                                                                   >  2:18780/1‑244 (MQ=255)                                                                    aaTGATTTAATTATTTAACTTTAATTTATCTCTTAATCGCAATTATTGTCTACAATCTGGATTATTATTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATGAAGCCCTCAGAAATCCTCACCTTAAGCGGTGATAATCTGGACTAAGGGGCACTCGGGAGCGCTTACAGCCTTCAAAAATCTCAGCGCACCGCTGATGGCGCAAATTCGTCAAtggacctt                                                                                                                                                                 <  2:471609/250‑8 (MQ=255)                                                                       gATTTAATTATTTAACTTTAATTTATCTATTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTaaa                                                                                                                                                              >  1:179382/1‑250 (MQ=255)                                                                          ttAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAAc                                                                                                                                                          >  1:412681/1‑251 (MQ=255)                                                                               tattTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGagt                                                                                                                                                      <  2:369855/250‑3 (MQ=255)                                                                                        ttAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTCCTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTac                                                                                                                                             <  1:256134/250‑1 (MQ=255)                                                                                             ttATCTCTTTATCGCAATTATTGACGCCAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTACTTATTACTTTTACTAATTAATCCCTCAGAACTCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAACTTCTTCAGTGGATCGTAAAAAACGAGTTATTCCTACACtat                                                                                                                                        >  1:477947/1‑250 (MQ=255)                                                                                             tgatctcattaTCGCAAGTATTGACGTCAATCTTGATTATTTTTGAAATTTTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTGCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACCCATCTCACCGCTGATGGCTCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACTCtat                                                                                                                                        <  2:323244/240‑1 (MQ=255)                                                                                                               tattGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAAAAATCCTCACCTTAAGCTATGTTTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAATTTCTTCATTGGATCGTAAAAAACGATTTATTCCTACACTATAATCTGATTTTAACgatg                                                                                                                      >  1:344002/1‑250 (MQ=255)                                                                                                                     cgacAAGCTGGATTATTTTTGAAATATTGACCTAACAAATAACGCCGACTGACAAGAAACTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTAAAGTTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTGAAATGGATCGTAAAAAACGAGTTATTCCTACTCTATAATCTGATTTTAACGATGATTtgtg                                                                                                               <  2:337829/251‑1 (MQ=255)                                                                                                                             tGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTACTCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGATTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAACAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTa                                                                                                        >  1:302941/1‑250 (MQ=255)                                                                                                                                 ttattTTTGAAATATTGGCCTAACAAATAACGCCGCCTGACAAGCATTTAATTATTACTTTTCCTAATTAATCCCTCAGACATCCTCACCTTAAGCTATGATTATCTGGTCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGTCGCAAATTCTTCAATGTATCGTAAAAACCGAGTTATTCCTACACTATAATCTGATTTTAACGATGAtttgatcggggaaacat                                                                                                    >  2:185605/1‑235 (MQ=255)                                                                                                                                   aattttGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCTCCGTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACTCTATAACCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGt                                                                                                 <  1:275742/249‑1 (MQ=255)                                                                                                                                    tttttGAAATATTATCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGt                                                                                                 >  1:394672/1‑250 (MQ=255)                                                                                                                                       ttGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTaaa                                                                                              >  1:100091/1‑250 (MQ=255)                                                                                                                                         gAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTACAATCGTAAAAAc                                                                                           >  2:284025/1‑251 (MQ=255)                                                                                                                                          aaaTATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACg                                                                                          >  1:71060/1‑251 (MQ=255)                                                                                                                                                  tcctaacaaataacGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTc                                                                                  >  1:99574/14‑251 (MQ=255)                                                                                                                                                                                                       agcccTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGAt                             <  1:458276/249‑1 (MQ=255)                                                                                                                                                                                                          ccTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTaaaa                                                                                                     >  1:202771/1‑176 (MQ=255)                                                                                                                                                                                                          ccTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACACGTGAGCGCTTACAGCCGGCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATGTGTGCGGGGTaaaa                                                                                                     <  2:202771/176‑1 (MQ=255)                                                                                                                                                                                                             cagaaatcataaCCTTAAGCTATGATTATCTGGGCTTAGGATCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGCTGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGATATTCCTACACTATAATCTGATTTTCACGCTGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGGGCAACATCTGCATCGATTCTTTAGCAGTGATGCATCg                       >  2:277613/12‑251 (MQ=255)                                                                                                                                                                                                                aaaTCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCggg                                                                                                           <  2:280707/163‑1 (MQ=255)                                                                                                                                                                                                                aaaTCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCggg                                                                                                           >  1:280707/2‑164 (MQ=255)                                                                                                                                                                                                                  aTCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTAAAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAgg                  >  1:80854/1‑251 (MQ=255)                                                                                                                                                                                                                             aaGCTATGATTATCTGGGCTTAGGGTCACGCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCtt        <  2:394672/250‑1 (MQ=255)                                                                                                                                                                                                                                 tATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTAACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTATTATCAt   >  2:73619/1‑251 (MQ=255)                                                                                                                                                                                                                                  aTGATTATCTGGGCATAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGTCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCAtt  <  1:385463/251‑1 (MQ=255)                                                                                                                                                                                                                                   tGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCg                                                                                                             <  2:364542/143‑1 (MQ=255)                                                                                                                                                                                                                                   tGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCg                                                                                                             >  1:364542/1‑143 (MQ=255)                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                 TTTAACCCATTTTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTCATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTAATCCCTCAGGAATCCTCACCTTAAGCTATGATTATCTAGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAA‑CGCATCTCACCGCTGATGGCGCAAATTCTTCAATAGCTCGTAAAAAACGAATTATTCCTACACTATAATCTGATTTTAACGATGATTCGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATT  >  NC_000913/17074‑17548

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑