Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,573,627	G→A	L526F (CTT→TTT)	pqqL ←	periplasmic metalloprotease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,573,627	0	G	A	90.9%	23.9 / NA	11	L526F (CTT→TTT)	pqqL	periplasmic metalloprotease
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (3/7);  minor base C (1/0);  total (4/7)
Fisher's exact test for biased strand distribution p-value = 3.64e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.30e-01

AACGCCGCTTCCGCTAACTGCTTTATTTGCCAGCGCGATAAGTGATTTTTGCTGCGCAGGGAAACTTAAATCGCCTTTATTCGATACGGCAATAATTTGTAGCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAGTGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTTGCTGCTAATTTCCGCCTGTGGGTCTGCGTCTACTGTTAACGATAAATTTCTGCCTGGGAAGACGTAAGCCGCCAGCTTTTTGTTGGCGTACTCCTTTTCCAGCGCCAGGATAGCCGCAGGAGACAATGCTTT  >  NC_000913/1573472‑1573795                                                                                                                                                            |                                                                                                                                                                         aaCGCCGCTTCCGCTAACTGCTTTATTTGCCAGCGCGATAAGTGATTTTTGCTGCGCAGGGAAACTTAAATCGCCTTTATTCGATACGGCAATAATTTGTAGCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAATGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTTGCTGCTAATTTCCGCCTGTGGGTCTGCGTCTACTGTTAAcn                                                                                             <  1:159955/233‑2 (MQ=255)                            tGCCAGCGCGATAAGTGATTTTTGCTGCGCAGGGAAACTTAAATCGCCTTTATTCGATACGGCAATAATTTGTAGCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAATGTTNATGNNNNNAgnnnnnnnnnn                                                                                                                                                 >  2:151606/1‑144 (MQ=255)                            tGCCAGCGCGATAAGTGATTTTTGCTGCGCAGGGAAACTTAAATCGCCTTTATTCGATACGGCAATAATTTGTAGCTTTTGCTCGTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAATGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTTGCTGCTAATTTCCGCCTGTGGGTCTGCGTCTACTGTTAACGATAAATTTCTGCCTGGGAAGACGTAAgccgn                                                              <  1:151606/237‑2 (MQ=255)                                                         cAGGGAAACT‑AAATCGCCTTTATTCGATACGGCAATAATTTGTAGCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAATGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTTGCTGCTAATTTCCGCCTGTGGGTCTGCGTCTACTGTTAACGATAAATTTCTGCCTGGGAAGACGTAAGCCGCCAGCTTTTTGTTGGCGGACTCCTTATCCAgcg                              <  1:211214/239‑1 (MQ=255)                                                             gAAACTTAAATCGCCTTTATTCGATACGGCAATAATTTGTAGCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAACTGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTTGCTGCTAATTTCCGCCTGTGGGTCTGCGTCTACTGTTAACGATAAATTTCTGCCTGGGAAGACGTAAGCCGCCAGCTTTTTGTTGGCGTACTCCTTTTCCAGCGCCAGGATAGcagc                 >  1:84565/1‑246 (MQ=255)                                                                 cTTAAATCGCCTTTATTCGATACGGCAATAATTTGTAGCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAATGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTtgc                                                                                                                                    <  1:147504/130‑1 (MQ=255)                                                                          ccTTTATTCGATACGGCAATAATTTGTAGGTTTTGCTCTTCTCTCGCTGATTTTGCCGGAATAGCCCTGGCACCATTGGAAAATGTTAATGATGTCAGATTCCCCGCCAGCGTTTCTTTGCTTGTAATTTCCGCCGGTGTGTCTGCGTCTGCTGGTAACGATAAATTTCTGCCTTGGAATACGTAAGGCGCCAGCTTGTTGTTGGCGTACTCCTTTTCTAGCGTCAGGAGAGCCTCAGGAGACAATGCttt  <  1:80544/251‑1 (MQ=255)                                                                                                      gCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAATGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTTGCTGCTAATTTCCGCCTGTGGGTCTGCGTCTACTGTTAACGATAAATTTCTGCCTGGGAAg                                                                         <  1:19539/152‑1 (MQ=255)                                                                                                      gCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAATGTTAATGATGTCAGATTCTCCGCCAGCGTTTCNNtgctgc                                                                                                                                 >  2:19539/1‑96 (MQ=255)                                                                                                                  naCCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAATGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTTGCTGCTAATTTCCGCCTGTGGGTCTGCGTCTCCTGTTAACGATAAATTTCTGCCTGGGAAGACGTAAGCCGCCAGCTTTTTGTTGGCGTACTCCt                                       >  1:156150/2‑174 (MQ=255)                                                                                                                                              nncANNNNNGGANAATGTCAATTAGGTCAGATTTTCCGCCAGCGTTTCTTTTCTGCTAACTTCCGCCTTTGGGTCTGCGTCTACTGTTAACGATAAATGTCTGCCTGGGAAGACGTAAGCCGCCAGCTTGTTGTTGGCGGACTccg                                       <  2:156150/144‑2 (MQ=255)                                                                                                                                                            |                                                                                                                                                                         AACGCCGCTTCCGCTAACTGCTTTATTTGCCAGCGCGATAAGTGATTTTTGCTGCGCAGGGAAACTTAAATCGCCTTTATTCGATACGGCAATAATTTGTAGCTTTTGCTCTTCACCCGCGGATTTTGCCAGAATAACCCTGGCACCATTGGAAAGTGTTAATGATGTCAGATTCTCCGCCAGCGTTTCTTTGCTGCTAATTTCCGCCTGTGGGTCTGCGTCTACTGTTAACGATAAATTTCTGCCTGGGAAGACGTAAGCCGCCAGCTTTTTGTTGGCGTACTCCTTTTCCAGCGCCAGGATAGCCGCAGGAGACAATGCTTT  >  NC_000913/1573472‑1573795

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑