Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	17,085	T→C	intergenic (+75/‑404)	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	17,085	0	T	C	100.0%	88.8 / NA	27	intergenic (+75/‑404)	sokC/nhaA	small regulatory RNA antitoxin SokC/Na(+):H(+) antiporter NhaA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (18/9);  total (18/9)

GATGACGATCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGC‑TCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGAGGCCTCGGGTTGATGGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGACAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTTTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTCATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTAATCCCTCAGGAATCCTCACCTTAAGCTATGATTATCTAGGCTTAGGGTCACTCG  >  NC_000913/16862‑17325                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                 gATGACGATCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGC‑TCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGGGGCCTCGGGTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTCTCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGAc                                                                                                                                                                                                                       >  1:254263/1‑251 (MQ=255)  aTGACGATCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGA‑TCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGGGGCCTCGGGATGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTTAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCCTTCTGTTTTATCGATTCTAATCCTgtcgacg                                                                                                                                                                                                                      >  2:476368/1‑245 (MQ=255)         tCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGC‑TCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGGGGCCTCGGGTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGc                                                                                                                                                                                                                >  1:216223/1‑250 (MQ=255)               cGACAAACACCGCTTTATGCTGCTTC‑TTGCCTCTTTTCCCCTTGCCCTTACGGTAAGAAAGAGGCACTCTACATGTGTTCAGCATAAGGGGGGCCGGGGTTTGAAAATAAAATATCCCCGGGGGCTTTTC‑TTTTTCTGCCGTTCAGCTAAGGCTGGAGACATATAGCCTCAACCCCCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTtg                                                                                                                                                                                                         <  1:263560/251‑1 (MQ=255)                gACAATCATCGCCTTATGCTGCTTCATTGC‑TCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGGGGCCTCGGGTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTtgt                                                                                                                                                                                                        >  1:591731/1‑251 (MQ=255)                               atcctgctTCTTTTC‑TCCCTTCCCCTTGCCCTTGGGGTAGGTAAGAGCCACTCTACTTGTTTTCAGCATAGAGGGGGCCTCGGGTGAATAAAAAAATATCAC‑CGGGGGTTTTCCTTTCCCTCCCGTTCATTTAATGCCTGAAACAGACAGCCTAATGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTaa                                                                                                                                                                                         <  2:431476/248‑1 (MQ=255)                                 gctgctTCATTGC‑TCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGGGGCCTCGGGTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATg                                                                                                                                                                                       >  1:205211/1‑251 (MQ=255)                                   gctttcttttc‑tctctTCTCCTTGTCTTTACGGTAATTAAGAGCCCCTCTACATTTGTCCAGCATATGGGGGCCCTGGGGTTAATAGTAAAATATCCCTCGGGTTTTTTC‑TCTATCTGCGGTTCACCTAATCCCGGAGACAGATACCCACAAGCATCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGAt                                                                                                                                                                                     <  1:13536/241‑1 (MQ=255)                                                          tGACCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGGGGCCTCGGGTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAAttt                                                                                                                                                                >  1:209526/1‑250 (MQ=255)                                                            aCCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGGGGCCTCGGGTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATCTAtc                                                                                                                                                             >  1:5222/1‑251 (MQ=255)                                                                   ggTCAGTAAGAGGCACTCTACTTGTGTTCGGAATAAAGGGGGCCGCGGTTTGAAAGTAAAATTTCCCGCGGGGTTTTTT‑TCTATCTGCCGTGCAGCTAAGGCCGGAAACAGAAACCCACAATCGTCCGCCGCTATTATATCGCTCTCTTTAACCCAGTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTAAATTATTTAACTTTAATTTATCTCtttat                                                                                                                                                      <  1:269246/251‑4 (MQ=255)                                                                          aaGAGGCACTCTACATGTGTTCAGCATATAGGGGGCCTCGGGTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAatt                                                                                                                                               >  1:291636/1‑251 (MQ=255)                                                                                     tACATGTGTTCAGCATATAGGGGGCCTCGGGTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACa                                                                                                                                     >  1:51532/1‑250 (MQ=255)                                                                                                               tCGGGTTGATAGTAAAATATCCCTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGACGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGCTTATTTTTGAAATCTTgtcc                                                                                                          >  2:124606/1‑248 (MQ=255)                                                                                                                  ggTTGATAGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTa                                                                                                        >  1:24580/1‑250 (MQ=255)                                                                                                                                 atCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTCTTATATCGCTCTATTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACt                                                                                        >  2:624850/1‑251 (MQ=255)                                                                                                                                                              ttCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCt                                                             >  1:342360/1‑250 (MQ=255)                                                                                                                                                                    tAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTACTCCTGAAGACGACTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGTCAAGCTGGATTATTTTTGAAATATTGTCATAACAAATAACGCCGACTGACAAGAAATTACTTATTACTTTTCCtaattaat                                                      >  1:95923/1‑251 (MQ=255)                                                                                                                                                                              gacagataGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGACGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAgaa                                             >  2:531747/1‑248 (MQ=255)                                                                                                                                                                                          cAAGCCCCCGCCGCTATTATATCGCTCTCTT‑AACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAg                               <  1:70291/251‑1 (MQ=255)                                                                                                                                                                                          aatcatcccGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATTCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTAGTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCtt                                  <  2:55128/243‑1 (MQ=255)                                                                                                                                                                                                   gccgcTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGAtt                       >  2:41290/1‑251 (MQ=255)                                                                                                                                                                                                         attctatCGCACTCTTTAACCCCACCTGCTTTATCGCTTCTAATCCTGAAGCAGCCTCGCATTTTTCTAGCGTAATTTTTTACTGATTTAATTATTTAACTTTATTTTCTCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTATTGCAATATTGTCCTAACTAGTAAAGCCCACTGACAAGAATTTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCtgg                 >  2:63286/5‑249 (MQ=255)                                                                                                                                                                                                           tataTCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCtggg                <  2:480018/250‑4 (MQ=255)                                                                                                                                                                                                                         tAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACttt                                                                 <  2:340888/187‑1 (MQ=255)                                                                                                                                                                                                                         tAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACttt                                                                 >  1:340888/1‑187 (MQ=255)                                                                                                                                                                                                                         tAACCCATTCTGTTTTATCGATTCTAATCCTGAAAACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCTAATTAATCCCTCAGAAATCCTCACCTTAAGCTATGATTATCTGGGCTTAGGGTCACTCg  <  2:484162/250‑1 (MQ=255)                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                 GATGACGATCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGC‑TCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCTACATGTGTTCAGCATATAGGAGGCCTCGGGTTGATGGTAAAATATCACTCGGGGCTTTTC‑TCTATCTGCCGTTCAGCTAATGCCTGAGACAGACAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTTTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTCATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTAATCCCTCAGGAATCCTCACCTTAAGCTATGATTATCTAGGCTTAGGGTCACTCG  >  NC_000913/16862‑17325

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑