Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,172,535	C→T	S2S (AGC→AGT)	mdaB →	NADPH quinone reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,172,535	0	C	T	90.0%	52.2 / ‑0.8	20	S2S (AGC→AGT)	mdaB	NADPH quinone reductase
Reads supporting (aligned to +/- strand):  ref base C (1/1);  new base T (10/8);  total (11/9)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.57e-01

GGTGAGTCAGAGTAAGATCAGACTTTTGCTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGCAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTGGGCATGATGTCCGCATCGTTCGCGCCGACAGCGACTACG  >  NC_000913/3172407‑3172674                                                                                                                                 |                                                                                                                                            ggTGAGTCAGAGTAAGATCAGACTTTTGCTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATc                                                                                                                              <  8:132966/144‑1 (MQ=255) ggTGAGTCAGAGTAAGATCAGACTTTTGCTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATc                                                                                                                              >  7:132966/1‑144 (MQ=255)       tCAGAGTAAGATCAGACTTTTGCTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGa                                                                                                                    >  2:83841/1‑148 (MQ=255)               aGATCAGACTTTTGCTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAGAAAATTc                                                                                                            <  6:100869/148‑1 (MQ=255)                 aTCAGACTTTTGCTAAATTCGCAAAAGCCTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGc                                                                                                          >  1:13557/1‑148 (MQ=255)                 aTCAGACTTTTGCTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCTAAAAAATTCGc                                                                                                          <  2:13557/148‑1 (MQ=255)                  aaagtcTTTTGCGAATTTAGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGccc                                                                                                        >  6:43506/6‑149 (MQ=255)                        ttttGCTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTcc                                                                                                   >  1:73349/1‑148 (MQ=255)                             cTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGt                                                                                             <  2:73349/149‑1 (MQ=255)                              tAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGt                                                                                             >  4:2066/1‑148 (MQ=255)                                                     aTTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGaa                                                                     <  5:43506/149‑1 (MQ=255)                                                                  cACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGca                                                        >  5:36366/1‑149 (MQ=255)                                                                  cACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGc                                                         <  3:2066/148‑1 (MQ=255)                                                                                           taGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTGGGCATGATGt                               <  6:36366/149‑1 (MQ=255)                                                                                                          tcACCTTGAGGTTAAAAAATGAGCAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTg                                         <  4:117228/124‑1 (MQ=255)                                                                                                          tcACCTTGAGGTTAAAAAATGAGCAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTg                                         >  3:117228/1‑124 (MQ=255)                                                                                                                   ggTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTGGGCatga                                  >  2:70060/1‑122 (MQ=255)                                                                                                                   ggTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTGGGCatga                                  <  1:70060/122‑1 (MQ=255)                                                                                                                    gTTAAAAAATGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTGGGCATGATGTCCGCATCGTTCGCGCCGACAGCGAc      >  2:54452/1‑149 (MQ=255)                                                                                                                         aaaaTGAGTAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTGGGCATGATGTCCGCATCGTTCGCGCCGACAGCGACTACg  >  4:90612/1‑148 (MQ=255)                                                                                                                                 |                                                                                                                                            GGTGAGTCAGAGTAAGATCAGACTTTTGCTAAATTCGCAAAAGACTTTGCACATTTTGCTAATTTCACCGTACCGCTCTGTGACGTACTATAGTCGGCAAACGTCTCACCTTGAGGTTAAAAAATGAGCAACATCCTGATTATCAACGGCGCGAAAAAATTCGCCCACTCCAATGGTCAACTGAACGACACCCTGACCGAAGTCGCGGATGGCACACTGCGCGACCTTGGGCATGATGTCCGCATCGTTCGCGCCGACAGCGACTACG  >  NC_000913/3172407‑3172674

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑