Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	17,436	C→T	intergenic (+426/‑53)	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	17,436	0	C	T	100.0%	89.8 / NA	32	intergenic (+426/‑53)	sokC/nhaA	small regulatory RNA antitoxin SokC/Na(+):H(+) antiporter NhaA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (23/9);  total (23/9)

TGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTAATCCCTCAGGAATCCTCACCTTAAGCTATGATTATCTAGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑A‑C‑GCATCTCACCGCTGATGGCGCAAATTCTTCAATAGCTCGTAAAAAACGAATTATTCCTACACTATAATCTGATTTTAACGATGATTCGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAACAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATCAACAAAAACATGCTGTTATGGATAAAT  >  NC_000913/17198‑17680                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                     tGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTa                                                                                                                                                                                                                                            >  1:283480/1‑250 (MQ=255)     ttattTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACACTGATTTGTGCGGGGTAAAAt                                                                                                                                                                                                                                        >  2:205449/1‑250 (MQ=255)                atatTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGAt                                                                                                                                                                                                                            >  2:138053/1‑251 (MQ=255)                       cctaacaaataacGCCGACTGACAAGCAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATACTCTGATTTTAACGATGTTTTGTGCGGGGTAAAATAGTAAAAACGATCTATTc                                                                                                                                                                                                                      >  1:3109/13‑250 (MQ=255)                                  acGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTTAGCTATGATTATCTGGGCTTAGGGTCACGCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAACTTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAgaga                                                                                                                                                                                                          <  1:249995/250‑1 (MQ=255)                                        aCTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATaaa                                                                                                                                                                                                    <  1:470459/251‑1 (MQ=255)                                           tacaagaAATTAATTTTTATTTTTCCTAATTAATCCCACAGAAAACCTCACCTTAAGTTATTATTATCTGTGCTTAGGTTCACTCATGAGCACTTACAGCCTTCAAAA‑AAC‑TAAACTCACCGCTGATGGCGCAAATTCTTCAATTGATCGTAAAAAACGAGTTATTCCTACACTATAATCTTATATTAACGATAATTTGTACGATATAAAATAGTAAAAACGATCTATTCACCTGAAAtaaaaataaaaa                                                                                                                                                                                                  <  2:300693/249‑1 (MQ=255)                                           gacaagcaattaattATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATTGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAACCGATCTATTCACCTGAAAGAGAAATaaaaa                                                                                                                                                                                                  <  1:395651/243‑1 (MQ=255)                                               agaaaTTAATTATTTCTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGAGCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATa                                                                                                                                                                                                                                       <  2:218654/207‑1 (MQ=255)                                               agaaaTTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATa                                                                                                                                                                                                                                       >  1:218654/3‑209 (MQ=255)                                                     taattaTTACATTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTCAGATAGTAAAAACGATCTATTCACCTGAAGGAGAAGTAAAAAGTGAAACAtat                                                                                                                                                                                       >  2:290283/1‑249 (MQ=255)                                                                tttCCTAATAAATCCCTCAGAAAGTCGCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACGCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATGTGTGCGGGGTAAAAGAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGAtt                                                                                                                                                                              <  2:204489/249‑1 (MQ=255)                                                                        ttaatCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCgg                                                                                                                                                                                                                                                <  1:292186/175‑1 (MQ=255)                                                                        ttaatCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCgg                                                                                                                                                                                                                                                >  2:292186/1‑175 (MQ=255)                                                                         taatCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGACACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTg                                                                                                                                                                   >  1:238315/1‑251 (MQ=255)                                                                           atCCCTCAGAAATACTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCCTCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTATTTAGCAGTGAt                                                                                                                                                                 >  1:241281/1‑251 (MQ=255)                                                                                 cagaaaTCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑A‑CCTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGGTATTCCTCCACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTAAAACATCTGCATCGATTCTTTAGCAGTGATGACTCg                                                                                                                                                           >  1:631843/5‑251 (MQ=255)                                                                                                 aaGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCtt                                                                                                                                            >  1:597271/1‑250 (MQ=255)                                                                                                             tctgggCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTACAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCt                                                                                                                                >  1:273351/5‑250 (MQ=255)                                                                                                                       gggTCACTCGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCgat                                                                                                                     >  1:502311/1‑251 (MQ=255)                                                                                                                            aCTCGTGAGCGCTTACAGCCGTAAAAATA‑C‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGATATTCCTACACTATAATCTGATTTTAAAGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATAGCTTCTTTAGCAGTGATGACTCGGGAGGCATTATTATTATCATTGCCGCTCTCCTGGAGATGAttt                                                                                                                >  2:416918/1‑250 (MQ=255)                                                                                                                               cGTGAGCGCTTACAGCCGTCAAAA‑AAC‑TCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTCTAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATgg                                                                                                             >  2:308093/1‑251 (MQ=255)                                                                                                                                                              aTCTCACCGCTGATGGCGCAAATTCTTCACTGGATCGTAAAAAACGAGGTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATCGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGCTTATGGCCAATAGCGGCGCAACCAGTGGATGGTAt                                                                                >  1:336392/1‑251 (MQ=255)                                                                                                                                                                     cGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGCGGCATTATTCTTATCATTGCCGCTATCCTGGCGTTGATTATGTCCAATAGCGGCGCAACCAGTggtagggagcccgact                                                                         >  2:507176/1‑237 (MQ=255)                                                                                                                                                                          aTGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTg                                                                    >  1:132114/1‑251 (MQ=255)                                                                                                                                                                                                           gagttattCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCCCCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTc                                   <  1:150418/248‑1 (MQ=255)                                                                                                                                                                                                                 ttCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATc                             >  2:408826/1‑251 (MQ=255)                                                                                                                                                                                                                                cTGATTATAACGATGAATTGTGAGAGGAAACATAGTAAACAAGATCTATTCAACTGAAAGCGAAATAAAAAGTGAAACATCAGCAACAATTCTTTAGCAGTGATGCATCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGCTGGTATCACGTCTTTCTGGAGAAGCCGGTTAAGCTCCGAGATGGTTCACTCGCAATccgagaaaacatcatg              >  2:382493/1‑236 (MQ=255)                                                                                                                                                                                                                                  gATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGACACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATGGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATCAACAAAATCATGCTGtt            <  2:225794/251‑1 (MQ=255)                                                                                                                                                                                                                                     tttAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGGTGGTTCACTCGAAATCAACAAAAACATGCTGTTATg         >  1:202592/1‑251 (MQ=255)                                                                                                                                                                                                                                           gatgatTTGTGAGGGGTAAAATAGCAAAAACGATCTATTCACCTGAAAGAGAAATAACAAGTGAAACATCTACATCAATTCTTTAGAAGTGCTGCCTCGGGAGGAATTATTCTTCTCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGCTGGTATCACGACTTTCTGAAGACACAGGTTCCGCTCCGGGTTGTTTACCTCACAAAAAACAAAAACATGCTGTTATGGaaaa    >  2:562080/1‑247 (MQ=255)                                                                                                                                                                                                                                            atgatTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGCTGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATCAACAAAAACATGCTGTTATGGATAAAt  >  1:86043/1‑251 (MQ=255)                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                     TGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTAATCCCTCAGGAATCCTCACCTTAAGCTATGATTATCTAGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAA‑A‑C‑GCATCTCACCGCTGATGGCGCAAATTCTTCAATAGCTCGTAAAAAACGAATTATTCCTACACTATAATCTGATTTTAACGATGATTCGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAACAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATCAACAAAAACATGCTGTTATGGATAAAT  >  NC_000913/17198‑17680

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑