Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	17,039	C→T	intergenic (+29/‑450)	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	17,039	0	C	T	100.0%	40.2 / NA	15	intergenic (+29/‑450)	sokC/nhaA	small regulatory RNA antitoxin SokC/Na(+):H(+) antiporter NhaA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (9/6);  total (9/6)

GTGAACCTCACAGAGGTCTTTTCTCGTTACCAGCGCCGCCACTACGGCGGTGATACAGATGACGATCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGCTCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCT‑ACATGTGTTCAGCATATAGGAGGCCTCGGGTTG‑ATGGTAAAATATCACTCGGGGCTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACAGACAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTTTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTCATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTA  >  NC_000913/16805‑17271                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                         gtgAACCTCACAGAGGTCTTTTCTCGTTACCAGCGCCGCCACTACGGCGGTGATACAGATGACGCTCAGGGCGACAATCATCGCCTTTTGCTGCTTCCTTGCTCTCTTCTCCTTGACCTTACGGTCCGTAAGAGGCACTCT‑ACCTGTGTTCAGCATTTAGGGGGCCTCGGGGTG‑GTAGTAAAATATCACTCGGGGCTTTTTTCTATCTGCCGTTCAGCTAATGCCTTCGACAGATAGACTCAAGCACccgc                                                                                                                                                                                                                          >  2:381066/1‑251 (MQ=255) gggAACCCCACAGAGGTCTTTTCTCGTTACCGTCGCCGCCACTACGGCGGTGATACAGATGACGATCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGCTCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCT‑ACATGTGTTCAGCATATAGGGGGCCTCGGGTTG‑ATAGTAAAATATCACTCGGGGCTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACccg                                                                                                                                                                                                                           <  1:82526/248‑1 (MQ=255)                                            aCGGCGGTGATACAGATGACGATCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGCTCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCT‑ACATGTGTTCAGCATATAGGGGGCCTCGGGTTG‑ATAGTAAAATATCACTCGGGGCTTTTCTCTATCTTCCGTTCAGCTAAAGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGAtt                                                                                                                                                                               >  1:369855/1‑251 (MQ=255)                                                                    ggggCGACAACCTCCGCTTTATGCTTCTTCTTTCCTCTCTTCCCCTTGCCTTTACGGTCAGAAAGAGCCCCTCT‑ACATGTGTACAGAATAGAGGGGGCCGGGGTTTG‑ATAAAAAAATACCCCCGGGGGTTTTTCTTTATCTCCCGTTCAGCTAATGCCTGAGACAAATACCCACAACCCCCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCAtt                                                                                                                                                       <  1:381066/250‑1 (MQ=255)                                                                      ggCGACAATCATCGCCTTATGCTGCTTCCTTGCTCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCT‑ACATGTGTTCAGCATATAGGGGGCCTCGGGTTG‑ATAGTAAAATATCACTCGGGGCTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCAtttt                                                                                                                                                     >  1:91166/1‑251 (MQ=255)                                                                                    ccTTATGCTGCTTCATTGCTCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCT‑ACATGTGTTCAGCATATAGGGGGCCTCGGGTTG‑ATAGTAAAATATCACTCGGGGCTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAAtttt                                                                                                                                       >  1:411026/1‑251 (MQ=255)                                                                                         tgctgcTTCATTGCTCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCT‑ACATGTGTTCAGCATATAGGGGGCCTCGGGTTG‑ATAGTAAAATATCACTCGGGGCTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAAt                                                                                                                                  >  1:152647/1‑251 (MQ=255)                                                                                                     ccccttttccccTTGACTTTACGGTAAGTAAG‑GGCCCTTTTACATGTTTTCAGCATATGGGGGGCCTGGGGTTG‑ATAAAAAAATACCACTCGGGTTTTTTCTTTATCTGCCGTTCAGCTAATGCCTGAGACAGATACCCTAAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAattat                                                                                                                       <  1:239557/240‑1 (MQ=255)                                                                                                               ccttgccctgccgggcagaaaGAGCCACTCT‑AAATGTGTTCAGCATATGGGGGGCCTCGGTTTG‑ATAGAAAAATCTCCCTGGGGGTTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACATATCGCCACAAGCCCCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAAt                                                                                                            <  1:11312/232‑1 (MQ=255)                                                                                                                   gtcctgacgggaaGTAAGAGGCACTCT‑ACTTGTTTTCAGATTATGGGGGGCCTCGGTTTG‑TTAGTAAAATATCCCTCGGGGTTTTTCTCTATCTCCCGTTCATCTAATCCCGGAAACAGATTGCCCCAAGCTCCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTAt                                                                                                        <  1:229718/239‑1 (MQ=255)                                                                                                                         gtggtcataaaGAGCCACTCT‑ACATGTTTTCAGCGTATGGGGGCCCTCGG‑TTGTAGAGTAAAATATCCCTGGGGTTTTTTTTCTATCTGCCTGTCAGCTAATGTCGGAGACAGATCGCCTCAAACACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCttt                                                                                                  <  1:109444/242‑2 (MQ=255)                                                                                                                           ggTCAGTAAGAGGCACTCT‑ACATGTGTTCAGCATATAGGGGGCCTCGGGTTG‑ATAGTAAAATATCACTCGGGGCTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCCTTCTGTTTTATCGCTTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCtttat                                                                                                >  2:201977/1‑248 (MQ=255)                                                                                                                                                                                               cTCGGGGCTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGac                               >  1:13292/1‑250 (MQ=255)                                                                                                                                                                                                                         cAGCTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGACCTACCAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCtaat    >  1:337829/1‑251 (MQ=255)                                                                                                                                                                                                                            cTAATGCCTGAGACAGATAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTCTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTTATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGTCCTAACAAATAACGCCGACTGACAAGAAATTAATTATTACTTTTCCtaatta  >  1:205316/1‑250 (MQ=255)                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                         GTGAACCTCACAGAGGTCTTTTCTCGTTACCAGCGCCGCCACTACGGCGGTGATACAGATGACGATCAGGGCGACAATCATCGCCTTATGCTGCTTCATTGCTCTCTTCTCCTTGACCTTACGGTCAGTAAGAGGCACTCT‑ACATGTGTTCAGCATATAGGAGGCCTCGGGTTG‑ATGGTAAAATATCACTCGGGGCTTTTCTCTATCTGCCGTTCAGCTAATGCCTGAGACAGACAGCCTCAAGCACCCGCCGCTATTATATCGCTCTCTTTAACCCATTTTGTTTTATCGATTCTAATCCTGAAGACGCCTCGCATTTTTGTGGCGTAATTTTTTAATGATTTAATTATTTAACTTTAATTTATCTCTTCATCGCAATTATTGACGACAAGCTGGATTATTTTTGAAATATTGGCCTAACAAGCATCGCCGACTGACAACAAATTAATTATTACTTTTCCTAATTA  >  NC_000913/16805‑17271

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑