Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	463,457	G→A	45.0%	G515S (GGT→AGT)	ppiD →	periplasmic folding chaperone

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	463,457	0	G	A	45.0%	‑0.9 / 18.9	20	G515S (GGT→AGT)	ppiD	periplasmic folding chaperone
Reads supporting (aligned to +/- strand):  ref base G (7/4);  new base A (4/5);  total (11/9)
Fisher's exact test for biased strand distribution p-value = 6.53e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.37e-01

AGCGAGCACAAACCGGAAGCGGTGAAACCGTTGGCAGATGTTCAGGAACAAGTTAAGGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCAGCGAAAGACAAACCGAGCTACGGTATGGCGAC  >  NC_000913/463319‑463596                                                                                                                                           |                                                                                                                                            aGCGAGCACAAACCGGAAGCGGTGCAACAATTGGCAGATGTTCAGGAACCCGTTTTTTTATATTTTCACCACCTCTATTGTGAACAACAGGCGAGAGTGGATGCTGAGAAACTGCGGGGTGATTTGAAAGCCGGCACAGGTGc                                                                                                                                         >  2:281882/1‑143 (MQ=255)          aaaCCGGAAGCGGTGAAACCGTTGGCAGATGTTCAGGAACAAGTTAAGGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACGGCGGGTTGATTGGAAAGCCGGCAAAGGTGCCGCAGccag                                                                                                                                >  1:51240/1‑140 (MQ=255)               ggcaGCGGTGAACCCGTTGGAAGATGTTCAGGAAGAAGTTAAGGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAAGTGCGGAAGCTATGCAgg                                                                                                                           <  2:336090/140‑1 (MQ=255)               ggAAGCGGTGAAACCGTTGGCAGATGTTCAGGAACAAGTTAAGGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCACAGGTGCGGAAGCTATGCAgg                                                                                                                           >  2:317492/1‑143 (MQ=255)               ggAAGCGGTGAAACCGTAGGCAGATGTTCAGGAACAAGTTAAGGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAAGTGCGGAAGCTATGCAgg                                                                                                                           <  1:266933/143‑1 (MQ=255)                       tGAACCCCTTGGCAGACGTTCACGAACAAGTTAACGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAAGTGCGGAAGCTATGCAGGCTGCCGGt                                                                                                                   <  1:344161/143‑1 (MQ=255)                        gAAACCGTTGGCAGATGTTCAGGAACAAGTTAAGGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTc                                                                                                                  <  2:130172/143‑1 (MQ=255)                                            aGGAACAAGTTAAGTCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGaaa                                                                                              <  1:262115/143‑1 (MQ=255)                                                       aaGGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAAGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCCTAAGCCg                                                                                   >  2:393920/1‑143 (MQ=255)                                                          gCATTGGTTCAGCACAACAAAGCGGAACAACAGGCGAAAGTGGATGCGGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTc                                                                                <  1:226514/143‑1 (MQ=255)                                                                 ttCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGt                                                                         >  2:835/1‑143 (MQ=255)                                                                                           gCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGGTCCGGTCGTGACCCGATTAGCCAGgcggcgggtcc                                               >  2:60102/1‑138 (MQ=255)                                                                                                         tGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAAGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCAg                                 >  1:298512/1‑143 (MQ=255)                                                                                                          gagaAACTGCTGGTTGATTTGAAAGCCGGCAAAAGGGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCAGc                                <  1:219674/143‑1 (MQ=255)                                                                                                             aaaCTGCTGGTTGATTTGAAAGCCGCCAAAAGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCAGCGaa                             <  2:317013/143‑1 (MQ=255)                                                                                                                    tgGTTGATTTGAAAGCCGGCAAAAGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCCGCGAAAGACaaa                      >  2:102942/1‑143 (MQ=255)                                                                                                                          aTTTGAAAGCCGGCAAAAGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCAGCGAAAGGCAAACCGAGc                >  2:242551/1‑143 (MQ=255)                                                                                                                                   ccGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGACAACCTCAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACGGCCACTGCCAGCGAAAGACCAACCGAGCTACggcagc       >  1:149499/1‑139 (MQ=255)                                                                                                                                   ccGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCAGCGAAAGACAAACCGAGCTCCAGTATg       >  1:165852/1‑143 (MQ=255)                                                                                                                                        aaaGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCAGCGAAAGACAAACCGAGCTACGGTATGGCGAc  <  1:317492/143‑1 (MQ=255)                                                                                                                                           |                                                                                                                                            AGCGAGCACAAACCGGAAGCGGTGAAACCGTTGGCAGATGTTCAGGAACAAGTTAAGGCATTGGTTCAGCACAACAAAGCTGAACAACAGGCGAAAGTGGATGCTGAGAAACTGCTGGTTGATTTGAAAGCCGGCAAAGGTGCGGAAGCTATGCAGGCTGCCGGTCTGAAATTTGGCGAGCCGAAAACCTTAAGCCGTTCCGGTCGTGACCCGATTAGCCAGGCGGCGTTTGCACTGCCACTGCCAGCGAAAGACAAACCGAGCTACGGTATGGCGAC  >  NC_000913/463319‑463596

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑