Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,494,123	T→C	E195G (GAA→GGA)	ydcK ←	YdcK family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,494,123	0	T	C	75.8%	46.8 / 18.7	33	E195G (GAA→GGA)	ydcK	YdcK family protein
Reads supporting (aligned to +/- strand):  ref base T (3/5);  new base C (14/11);  total (17/16)
Fisher's exact test for biased strand distribution p-value = 4.38e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01

CTATGCCAGCTTTCACCTGCGCGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTTCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAATTTGTGCCTGG  >  NZ_CP009273/1494046‑1494206                                                                              |                                                                                    ctATGCCAGCTTTCACCTGCGCGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTTCAATACTGGCaa                                                                         <  2:603386/90‑1 (MQ=255) ctATGCCAGCTTTCACCTGCGCGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCaa                                                                         <  2:605251/90‑1 (MQ=255) ctATGCCAGCTTTCACCTGCGCGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCaa                                                                         <  1:405890/90‑1 (MQ=255)   aTGCCAGCTTTCACCTGCGCGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTTCAATACTGGCaaaa                                                                       >  1:544047/1‑90 (MQ=255)   aTGCCAGCTTTCACCTGCGCGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCaaaa                                                                       >  1:448605/1‑90 (MQ=255)        aGCTTTCACCTGCGCGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCaaa                                                                  >  1:82417/1‑90 (MQ=255)                   gcgcGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGgcgc                                                       >  1:459455/1‑90 (MQ=255)                   gcgcGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGgcgc                                                       <  2:264755/90‑1 (MQ=255)                        tGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTTCAATACTGGCAAAATCAAAAACTTCGGCGCGATGt                                                  <  2:408512/90‑1 (MQ=255)                        tGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGt                                                  <  2:459455/90‑1 (MQ=255)                        tGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGt                                                  <  1:359355/90‑1 (MQ=255)                        tGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGt                                                  <  1:288788/90‑1 (MQ=255)                             gTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAAt                                             >  1:62578/1‑90 (MQ=255)                             gTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAAt                                             <  1:293795/90‑1 (MQ=255)                                    ttAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTTCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCa                                      >  1:693016/1‑90 (MQ=255)                                    ttAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCa                                      >  2:140089/1‑90 (MQ=255)                                           aaTCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGga                               >  2:37776/1‑90 (MQ=255)                                            aTCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGgac                              >  1:182088/1‑90 (MQ=255)                                            aTCGCATAGCCAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGgac                              >  2:342047/1‑90 (MQ=255)                                                     ccAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAACCTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATc                     <  2:380391/90‑1 (MQ=255)                                                     ccAGACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATc                     <  1:824920/90‑1 (MQ=255)                                                        gACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCGAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGcc                  >  2:535091/1‑90 (MQ=255)                                                        gACATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGcc                  >  1:746113/1‑90 (MQ=255)                                                          cATTGTTCTCTTCATTACCTTCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCAt                <  1:115481/90‑1 (MQ=255)                                                          cATTGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCAt                <  1:610104/90‑1 (MQ=255)                                                            ttGTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATaa              >  2:714221/1‑90 (MQ=255)                                                              gTTCTCTTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAAt            >  1:610481/1‑90 (MQ=255)                                                                   ctTCATTACCTTCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAATTtgtg       >  1:370037/1‑90 (MQ=255)                                                                   ctTCATTACCTTCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAATTtgtg       <  1:361305/90‑1 (MQ=255)                                                                   ctTCATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAATTtgtg       >  2:330551/1‑90 (MQ=255)                                                                     tCATTACCTTCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAATTTGTGcc     <  2:72008/90‑1 (MQ=255)                                                                      cATTACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAATTTGTGCCt    <  2:255606/90‑1 (MQ=255)                                                                        ttACCTCCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAATTTGTGCCtgg  >  2:633540/1‑90 (MQ=255)                                                                              |                                                                                    CTATGCCAGCTTTCACCTGCGCGTGACCGTAGACTTTAGCGCAATCGCATAGCCAGACATTGTTCTCTTCATTACCTTCAATACTGGCAAAATCAAAAACTTCGGCGCGATGTTCAATAAAAGCATACCGGACGACGGCATCGCCATAAATTTGTGCCTGG  >  NZ_CP009273/1494046‑1494206

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑