Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,268,367	C→T	S68F (TCT→TTT)	kdsA →	3‑deoxy‑D‑manno‑octulosonate 8‑phosphate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,268,367	0	C	T	96.7%	84.0 / ‑3.7	30	S68F (TCT→TTT)	kdsA	3‑deoxy‑D‑manno‑octulosonate 8‑phosphate synthase
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base T (15/14);  total (15/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.15e-01

AATCGACATTTTACTCAAGATTAAGGCGATCCTATGAAACAAAAAGTGGTTAGCATTGGCGACATCAACGTAGCAAATGACCTGCCGTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTCTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCGGTGCGGTAATTAACGTCAAGAAACCACAGTTTGTCAGCCCGGGACAGATGGGTA  >  NC_000913/1268132‑1268612                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                      aatCGACATTTTACTCAAGATTAAGGCGATCCTATGAAACAAAAAGTGGTTAGCATTGGCGACATCAACGTAGCAAATGACCTGCCGTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCggg                                                                                                                                                                                                                                        >  1:527562/1‑251 (MQ=255)     gACATTTTACTCAAGATTAAGGCGATCCTATGAAACAAAAAGTGGTTAGCATTGGCGACATCAACGTAGCAAATGACCTGCCGTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTCTTATCGTGGACCGGGCCTg                                                                                                                                                                                                                                    <  1:49341/251‑1 (MQ=255)                cAAGATTAAGGCGATCCTATGAAACAAAAAGTGGTTAGCATTGGCGCAATCAACGTAGCAAATGACCTGCCGTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGTGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCATCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGACTGGAAGAAGGGAt                                                                                                                                                                                                                         >  1:264228/1‑251 (MQ=255)                            gATCCTATGAAAAAAAAAGTGTTAAGCATTGGCGACATCAACGTAGCAAATGTCCTGCCGTTCGTACTTTGTGGCGGTATGAACGTGTTGGAATCTCGCGATCAGGCGATGCGCATTTGCGAGCACGACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCTCTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCa                                                                                                                                                                                                             <  2:466299/251‑1 (MQ=255)                                        cAAAAAGTGGTTAGCATTGGCGACATCAACGTAGCAAATGACCTGCCGTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACCACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAACCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCa                                                                                                                                                                                                 <  1:547645/251‑1 (MQ=255)                                               tGGTTAGCATTGGCGACATCAACGTAGCAAATGACCTGCCGCTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGCGTTGAAGCAGACtttt                                                                                                                                                                                          >  1:520939/1‑251 (MQ=255)                                                            cGACATCAACGTAGCAAATGACCTGCCGTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGTTGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGACTGGATGAAGGGAAGAAAATCTTCCAGGAGATGTAGCAGACTTTTGGCGTGAAAAtt                                                                                                                                                                              >  1:133550/1‑250 (MQ=255)                                                                aTCAACGTAGCAAATGACCTGCCGTTCGTACTGGTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCAc                                                                                                                                                                         <  1:308159/251‑1 (MQ=255)                                                                        aGCAAATGACCTGCCGTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGtt                                                                                                                                                                  <  1:184545/250‑1 (MQ=255)                                                                                       gTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAgg                                                                                                                                                  >  1:17542/1‑251 (MQ=255)                                                                                       gTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAgg                                                                                                                                                  >  1:368719/1‑251 (MQ=255)                                                                                                        gTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGAt                                                                                                                                 <  1:299353/251‑1 (MQ=255)                                                                                                            gAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGaagaag                                                                                                                                                                                                                             >  1:372159/1‑155 (MQ=255)                                                                                                            gAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCGCTTTTGACAAAGCCAACCGCTCCTCCATCCACGTTTACCGTGGACCTGGCCTGGaagaag                                                                                                                                                                                                                             <  2:372159/155‑1 (MQ=255)                                                                                                               cGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCggg                                                                                                                                                                                                                                        <  1:283391/141‑1 (MQ=255)                                                                                                               cGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCggg                                                                                                                                                                                                                                        >  2:283391/1‑141 (MQ=255)                                                                                                                                       gATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGTTGTCGTGGATGTGATTCAGTTGCCGGCGtttt                                                                                                  >  2:182514/1‑250 (MQ=255)                                                                                                                                        aTGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCt                                                                                                 >  2:360135/1‑251 (MQ=255)                                                                                                                                        aTGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCt                                                                                                 <  1:360135/251‑1 (MQ=255)                                                                                                                                                        aCTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGACGGGATGAAAATCTTCCAGGAGTTGAAGAAGACTTTTGGCGTGAAAATTGTCACCGCCGTTAACGAACCAAGTCAGGCAAGGCCAGTTGCTGATGTCGTGGATGTGATTCTGTTGCCGGCGTTTTGTGCTCACCAGACTGAc                                                                                 >  2:359006/1‑251 (MQ=255)                                                                                                                                                                       cccAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATg                                                                  <  1:185338/251‑1 (MQ=255)                                                                                                                                                                                 gggTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAAc                                                          <  1:479302/249‑1 (MQ=255)                                                                                                                                                                                 gggTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCg                                                        >  1:58333/1‑251 (MQ=255)                                                                                                                                                                                  ggTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCgg                                                       >  1:166603/1‑251 (MQ=255)                                                                                                                                                                                       cccTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCGGTGCg                                                   <  1:368784/250‑1 (MQ=255)                                                                                                                                                                                                                gtcAAAGCCAACCGCTCCTCCATACCCTTTTATCGTGGACCTGGCCTGGAAGAAGGGAGGAAAATCTGCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTAGCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCGGTGCGGTAATTAACGTCAAGAAACCACAGtg                         <  2:36870/249‑2 (MQ=255)                                                                                                                                                                                                                   aaaGCCAACCGCTCCTCCATCCACTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCGGTGCGGTAATTAACGTCAAGAAACCACAGTTTGt                      >  1:399020/1‑251 (MQ=255)                                                                                                                                                                                                                          aCCGCACCTCCATCCACTTTTATCGTGGACCTGGCCTGGAAGAAGGTATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCGGTGCGGTAATTAACGTCAAGAAACCACAGTTTGTCAGCCCg               <  2:17542/251‑1 (MQ=255)                                                                                                                                                                                                                                     atccaCTTTTATCGTGGACCGGGCCTGGAAGAAGGGAGGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCGGTGCGGTAATTAACGTCAAGAAACCACAGTTTGTCAGCCCGGGACAGATggg    <  1:31784/251‑1 (MQ=255)                                                                                                                                                                                                                                        caCTTTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCGGTGCGGTAATTAACGTCAAGAAACCACAGTTTGTCAGCCCGGGACAGATGGGTa  >  1:465725/1‑250 (MQ=255)                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                      AATCGACATTTTACTCAAGATTAAGGCGATCCTATGAAACAAAAAGTGGTTAGCATTGGCGACATCAACGTAGCAAATGACCTGCCGTTCGTACTGTTTGGCGGTATGAACGTGTTGGAATCTCGCGATCTGGCGATGCGCATTTGCGAGCACTACGTAACTGTGACCCAGAAACTGGGTATCCCTTACGTGTTCAAAGCCTCTTTTGACAAAGCCAACCGCTCCTCCATCCACTCTTATCGTGGACCGGGCCTGGAAGAAGGGATGAAAATCTTCCAGGAGTTGAAGCAGACTTTTGGCGTGAAAATTATCACCGACGTTCACGAACCAAGTCAGGCACAGCCCGTTGCTGATGTCGTGGATGTGATTCAGTTGCCGGCGTTTCTTGCTCGCCAGACTGACCTGGTTGAAGCCATGGCGAAAACCGGTGCGGTAATTAACGTCAAGAAACCACAGTTTGTCAGCCCGGGACAGATGGGTA  >  NC_000913/1268132‑1268612

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑