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%	91.0 / NA	29	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 (19/10);  total (19/10)

CGACAAGCTGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTAATCCCTCAGGAATCCTCACCTTAAGCTATGATTATCTAGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAA‑CGCATCTCACCGCTGATGGCGCAAATTCTTCAATAGCTCGTAAAAAACGAATTATTCCTACACTATAATCTGATTTTAACGATGATTCGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAACAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATCAACAAAAACATGCT  >  NC_000913/17190‑17667                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                        cgacAAGCTGGATTATTTTTGAAATATTGACCTAACAAATAACGCCGACTGACAAGAAACTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTAAAGTTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTGAAATGGATCGTAAAAAACGAGTTATTCCTACTCTATAATCTGATTTTAACGATGATTtgtg                                                                                                                                                                                                                                      <  2:337829/251‑1 (MQ=255)         tGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTACTCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGATTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAACAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTa                                                                                                                                                                                                                               >  1:302941/1‑250 (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                                                                                                                                                                                                                                  >  1:280707/2‑164 (MQ=255)                                                                                            aaaTCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCggg                                                                                                                                                                                                                                  <  2:280707/163‑1 (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                                                                                                                                                                                                                                    >  1:364542/1‑143 (MQ=255)                                                                                                               tGATTATCTGGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCg                                                                                                                                                                                                                                    <  2:364542/143‑1 (MQ=255)                                                                                                                            ttAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGACACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGc                                                                                                           >  2:132697/1‑251 (MQ=255)                                                                                                                            ttAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAAACTCATCTCACCGCTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGc                                                                                                           >  1:296174/1‑251 (MQ=255)                                                                                                                                                                             cTGATGGCGCAAATTCTTCAATGGATCGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGGTGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACttt                                                          >  2:383286/1‑251 (MQ=255)                                                                                                                                                                                   gcgcAAATTCTTCAATGGAACGTAAAAAACGAGTTATTCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGgag                                                    <  2:152647/251‑1 (MQ=255)                                                                                                                                                                                        aattattcaaaggatCGTAAAAAACGAGTTATTACTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTCTCCTGGCGATGATTATGGCCAATAGCGGTGCAACCAGTGGATGGTAGCACGACTTTCTGGAGACGcc                                               <  2:205316/237‑1 (MQ=255)                                                                                                                                                                                                                cgagttattCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGCTGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACt                       >  2:478436/5‑251 (MQ=255)                                                                                                                                                                                                                  agttattCCTACACTATAATCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGCGACGCCGGTTCAGCTCCGGGTTGGTTCACTCg                     >  1:417445/3‑251 (MQ=255)                                                                                                                                                                                                                  agttattCCTACACTATAATCTGATTTTAACAATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGAGACACATCTGCATCGATTCTTTAGCAGTGATGACTCGGGAGGCATTATTCTTATCATTGCAGCTATCCTGACGATGATTATGGCCAATAGCAGCGCAACCAGTGGATGGTATAACGACTATCTGGCGCCGCCGGGTCCACTCCGGGTTGATTCAcacc                     >  2:428429/3‑248 (MQ=255)                                                                                                                                                                                                                                   aaTCTGATTTTAACGATGATTTGTGCGGTGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATCAACAAAAACATg    <  1:73619/251‑1 (MQ=255)                                                                                                                                                                                                                                     tCTGATTTTAACGATGATTTGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAATAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATCAACAAAAACATGCt  >  1:412924/1‑251 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                        CGACAAGCTGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTAATCCCTCAGGAATCCTCACCTTAAGCTATGATTATCTAGGCTTAGGGTCACTCGTGAGCGCTTACAGCCGTCAAAAA‑CGCATCTCACCGCTGATGGCGCAAATTCTTCAATAGCTCGTAAAAAACGAATTATTCCTACACTATAATCTGATTTTAACGATGATTCGTGCGGGGTAAAATAGTAAAAACGATCTATTCACCTGAAAGAGAAATAAAAAGTGAAACATCTGCATCGATTCTTTAGCAGTGATGCCTCGGGAGGCATTATTCTTATCATTGCCGCTATCCTGGCGATGATTATGGCCAACAGCGGCGCAACCAGTGGATGGTATCACGACTTTCTGGAGACGCCGGTTCAGCTCCGGGTTGGTTCACTCGAAATCAACAAAAACATGCT  >  NC_000913/17190‑17667

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: ‑