Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,405,758	G→A	intergenic (‑7/‑221)	mcaS ← / → smrA	small regulatory RNA McaS/DNA endonuclease SmrA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,405,758	0	G	A	100.0%	35.6 / NA	13	intergenic (‑7/‑221)	mcaS/smrA	small regulatory RNA McaS/DNA endonuclease SmrA
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (4/9);  total (4/9)

GAAAGCGGCCTATTATTTGATTCAGCGGCGTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAATATAAGTTACATTATTAATATCGTGAATGAATAATCATGCATAAGTATTTTGCTTAAAATATCGGCAATATTTGGAACTTATTACTGGAAATTTGGGTAATACGTTGTTGGACCGACCCGGTCTGGTTATCATATCGCGCTCTTAATTGCGGGAGGATGTAACAT  >  NC_000913/1405544‑1405980                                                                                                                                                                                                                       |                                                                                                                                                                                                                               gAAAGCGGCCTATTATTTGATTCAGCGGCGTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTATTATAACgn                                                                                                                                                                                                                       <  1:211446/224‑2 (MQ=255)                                gATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTATTATAACGGTTTTAACCTTTAGTTg                                                                                                                                                                                                       <  1:165490/209‑1 (MQ=255)                                                      ccGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACTCACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTATTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGAtttn                                                                                                                                                                              <  1:217547/212‑2 (MQ=255)                                                                         aTTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTATTATAACGGTTTTAACCGTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAATATAAGTTACATTATTAATATCGTGAATGAATAATCATGCATAAGTAtttt                                                                                                                    <  1:334544/251‑1 (MQ=255)                                                                                                tGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGGACACACAGCAGTGCATCCGCGTCTTAAATCCGGCAGTGTCTCCTCTGTGCCGGTGACTGTATTATAACGGTTTTAACCTTTAGTTGCCAATGttcttc                                                                                                                                                                                           <  1:252934/157‑1 (MQ=255)                                                                                                tGCAAAGTNANNNCNNCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTANACACAGCAGTGCATCNGCNTCTTNAATNCGGCATTGTCTCCTCTGCGCCGGTGACTGTATTATAACGGTTTTAACCTTTAGTTGCCAATTttcttc                                                                                                                                                                                           >  2:252934/1‑157 (MQ=255)                                                                                                                           anngTCTGTNNACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTATTATaa                                                                                                                                                                                                                          <  2:16025/99‑1 (MQ=255)                                                                                                                             agTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGAGCCGGTGCCTGTATTCTAACGGTTTTAACCTTTAGTTg                                                                                                                                                                                                       >  1:188193/1‑116 (MQ=255)                                                                                                                                                           acacacAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTATTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAATATAAGTTACATTATTAAGATCGTGAATGAATAATCATGCATAATTATTTTGCTTAAAATATCGGCAATATTTGGAACTTATTACTGGAAATTGGGGTAATACGTTGTTGGACCGACCCGGTCTGGTTATc                                    <  1:159234/249‑1 (MQ=255)                                                                                                                                                                             gcgTCTTAAATCCGGCATCGTCTCCTCTGCGCCGGTGACTGCATTATAACGGTTTTCACATTTAGTTGCCAATTTTCTTAAGTGACAGATTTCACGACAATATACGTTACATTATTAATATCGTGCATGAATAATCATGCATAAGTATTTTGCTTAACATATCGGCAATATTTGGAACTTATTACTGGAAATTTGGGTAATCCGTTGTTGGACCGACCCGGTCTGGtt                                       >  1:192272/1‑228 (MQ=255)                                                                                                                                                                                   tAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTATTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAATATAAGTTACATTATTAATATCGTGAATGAATAATCATGCATAAGTATTTTGCTTAAAATATCGGCAATATTTGGAACTTATTACTGGAAATTTGGGTAATACGTTGTTGGACCGACCCGGTCTGGTTATCATATCGCGCTCTTAATTGCGggan            <  1:85456/249‑2 (MQ=255)                                                                                                                                                                                         cGGCATTGTCTCCTCGGCGCCGGTGACGGTATTATAACGGTTTTAACCTTTAGTTGCCAATGTTCTTCAGTGACAGATTTCACGAAAATATAAGTTACATTATGAATATCGTGAATGAATAATCAGGCAGAAGTATTTTGCTTAAAATATCGGCAATAGTTGGAACTTATTACTGGAAAGTTGGGTAATACGTTGTTGGACCGACCCGGTCTGGTTATCATATCGCGCTCTTAATTGc                 <  1:52720/238‑1 (MQ=255)                                                                                                                                                                                           gCATTGTCTCCTCTGCGCCGGTGACTGTATTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAATATAAGTTACATTATTAATATCGTGAATGAATAATCATGCATAAGTATTTTGCTTAAAATATCGGCAATATTTGGAACTTATTACTGGAAATTTGGGTAATACGTTGTTGGACCGACCCGGTCTGGTTATCATATCGCGCTCTTAATTGCGGGAGGATGTAACAt  >  1:176203/1‑251 (MQ=255)                                                                                                                                                                                                                       |                                                                                                                                                                                                                               GAAAGCGGCCTATTATTTGATTCAGCGGCGTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAATATAAGTTACATTATTAATATCGTGAATGAATAATCATGCATAAGTATTTTGCTTAAAATATCGGCAATATTTGGAACTTATTACTGGAAATTTGGGTAATACGTTGTTGGACCGACCCGGTCTGGTTATCATATCGCGCTCTTAATTGCGGGAGGATGTAACAT  >  NC_000913/1405544‑1405980

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑