Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	221,335	T→C	noncoding (1078/1542 nt)	BW25113_RS01010 →	16S ribosomal RNA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	221,335	0	T	C	87.5%	28.7 / ‑0.3	16	noncoding (1078/1542 nt)	BW25113_RS01010	16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (9/5);  total (10/6)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.52e-01

TGACATCCACAGAACTTTCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGTGAAATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTATCTTTTGTTGCCAGCGGTCCG  >  NZ_CP009273/221249‑221395                                                                                       |                                                             tGACATCCACAGAACTTTCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGaa                                                           >  1:259043/1‑90 (MQ=255)  gACATCCACAGAACTTTCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGaaa                                                          >  1:382616/1‑90 (MQ=255)     aTCCACAGAACTTTCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGt                                                       <  2:382616/90‑1 (MQ=255)      tCCACAGAACTTTCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGTGa                                                            >  1:84260/1‑84 (MQ=255)      tCCACAGAACTTTCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGTGa                                                            <  2:84260/84‑1 (MQ=255)            gAACTTTCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTa                                                <  1:130159/90‑1 (MQ=255)                 ttCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTcc                                           >  1:23720/1‑90 (MQ=255)                           ggATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTCCCGCAACGGgc                                 >  2:190430/1‑90 (MQ=255)                           ggATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTCCCGCAACGAgc                                 >  2:60117/1‑90 (MQ=255)                              ttGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTCCCGCAACGAGCGCa                              <  1:131722/90‑1 (MQ=255)                              ttGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTCCCGCAACGAGCGCa                              <  1:277887/90‑1 (MQ=255)                                  tGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTCCCGCAACGAGCGCAAccc                          >  1:332317/1‑90 (MQ=25)                                     cTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTa                       >  1:235503/1‑90 (MQ=25)                                           gAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTATCtttt                 <  1:350578/90‑1 (MQ=255)                                                        ggTGCTGCATGGCTGTCGTCAGCTCGTGTTGCGAAATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTATCTTTTGTTGCCAGCGGTc    >  2:265882/1‑90 (MQ=18)                                                          tgctgcATGGCTGTCGTCAGCTCGTGGTGCGGAATGTTGGGTTAAGGCCCGCAACGAGCGCAACCCTTATCTTTTGTTGCCAGCGGTccg  >  2:80023/1‑90 (MQ=11)                                                                                       |                                                             TGACATCCACAGAACTTTCCAGAGATGGATTGGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGTGAAATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTATCTTTTGTTGCCAGCGGTCCG  >  NZ_CP009273/221249‑221395

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑