Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,981,207	G→A	23.6%	intergenic (+103/‑197)	rpsA → / → ihfB	30S ribosomal protein S1/integration host factor subunit beta

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,981,207	0	G	A	23.6%	22.2 / 4.9	17	intergenic (+103/‑197)	rpsA/ihfB	30S ribosomal protein S1/integration host factor subunit beta
Reads supporting (aligned to +/- strand):  ref base G (7/6);  new base A (2/2);  total (9/8)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.60e-01

CACCATGGCTGCGCTGCTGCGCGAAGCAATGGCCAAGCAGAACTGAGTTCTGTTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCGCCACTGGCCTATCTAAGCGGTAGACCATTCTTGAATTACTTCAATCTTGAATTTTTTTATTAAGTCAAGATCCACCCTGTTC  >  NC_002947/1981059‑1981335                                                                                                                                                     |                                                                                                                                 caccaTGGCTGCGCTGCTGCGCGAAGCAATGGCCAAGCAGAACTGAGTTCTGTTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAgg                                                                                                                                 >  1:150522/1‑150 (MQ=255)                            aaTGGCCAAGCAGAACTGAGTTCTGTTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGt                                                                                                      <  2:150522/150‑1 (MQ=255)                                  gtgttaGAACTGAGTTCTGTTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCAccc                                                                                                >  1:238776/6‑150 (MQ=255)                                  cAAGCAGAACTGAGTTCTGTTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGTCTGGCGAAGCCCGTTGTAGGAGCGGGTTCAccc                                                                                                <  2:202936/150‑1 (MQ=255)                                  cAAGCAGAACTGAGTTCTGTTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCAccc                                                                                                >  2:358903/1‑150 (MQ=255)                                  cAAGCAGAACTGAGTTCTGTTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCAccc                                                                                                <  2:311212/150‑1 (MQ=255)                                    aacAGAACTCAGTTCTGCTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACAAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCcgc                                                                                              >  2:5600/3‑150 (MQ=255)                                                         aTCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCGCCACTGGCCTa                                                                         >  1:280753/1‑150 (MQ=255)                                                                     ggCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCCTGAAGCTGGCgtgtt                                                                                                                       >  2:88646/1‑88 (MQ=255)                                                                     ggCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCCTGAAGCTGGCgtgtt                                                                                                                       <  1:88646/92‑5 (MQ=255)                                                                     ggCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCCTGAAGCTGGCg                                                                                                                           <  2:249430/88‑1 (MQ=255)                                                                     ggCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCCTGAAGCTGGCg                                                                                                                           >  1:249430/1‑88 (MQ=255)                                                                                           tttttGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCGCCACTGGCCTATCTAAGCGGTAGACCATTCTTGAATTACTTCAAt                                       <  1:358903/150‑1 (MQ=255)                                                                                                             gtggtgCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCGCCACTGGCCTATCTACATGCTAGACCATTCTTGAATTACTTCAATCTTGAATTTTTTTATTaa                     <  2:238776/150‑1 (MQ=255)                                                                                                                              aCTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCTAAGCAGGCGCCACTGGCCTATCTAAGCGGTAGACCATTCTTGAATTACTTCAATCTTGAATTTTTTTATTAAGTCAAGATCCACCCTGt    <  1:5600/150‑1 (MQ=255)                                                                                                                              aCTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCGCCACTGGCCTATCTAAGCGGTAGACCATTCTTGAATTACTTCAATCTTGAATTTTTTTATTAAGTCAAGATCCACCCTGt    >  1:50719/1‑150 (MQ=255)                                                                                                                              aCTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCGCCACTGGCCTATCTAAGCGGTAGACCATTCTTGAATTACTTCAATCTTGAATTTTTTTATTAAGTCAAGATCCACCCTGt    >  1:274020/1‑150 (MQ=255)                                                                                                                                tgctgGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCGCCACTGGCCTATCTAAGCGGTAGACCATTCTTGAATTACTTCAATCTTGAATTTTTTTATTAAGTCAAGATCCACCCTGTTc  >  1:443116/1‑150 (MQ=255)                                                                                                                                                     |                                                                                                                                 CACCATGGCTGCGCTGCTGCGCGAAGCAATGGCCAAGCAGAACTGAGTTCTGTTTGATCGGTAAAAAGGGCGACCCTCGGGTCGCCCTTTTTTTTGCTCCGCGACCAGGTGGTGCGGCGGATGGCACTGCTGGAACACGCCAGCTTCAGGCTGGCGAAGCCCGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCGCCACTGGCCTATCTAAGCGGTAGACCATTCTTGAATTACTTCAATCTTGAATTTTTTTATTAAGTCAAGATCCACCCTGTTC  >  NC_002947/1981059‑1981335

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑