Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,619,338	C→T	R370R (CGC→CGT)	deoA →	thymidine phosphorylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,619,338	0	C	T	90.6%	72.0 / 0.3	33	R370R (CGC→CGT)	deoA	thymidine phosphorylase
Reads supporting (aligned to +/- strand):  ref base C (2/1);  new base T (11/18);  total (14/19)
Fisher's exact test for biased strand distribution p-value = 5.52e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.24e-01

CGCCGAAGCGCGCGCGAAATTGCAGGCGGTGCTGGACAACGGTAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACAAAAAGGCCCGACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGACGCCGTCAGGCATCTGACACCATCGATTACAGCGTCGGCTTTACTGATATGGCGCGTCTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAACTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCGGAAAGCACACCAACTGTCTATCGCCGTATCAGCGAATAACGGTATACTGATCTGATCATTTA  >  NC_000913/4619107‑4619574                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                              cGCCGAAGCGCGCGCGAAATTGCAAGCAGTGCTGGACAACGGTAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACAAAAAGGCCCAACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACACGCGCGATGGGGATGGCAGAGGTTGCAATGGGCGGCGGTCGTCGTCAGGAATCTGACAcc                                                                                                                                                                                                                             >  1:124274/1‑250 (MQ=255)    cGAAGCGCGCGCGAAATTGCAAGCAGTGCTGGAAAACGGTAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACAAAACGGCCCCACCGACTTCGTTGAGAACTACGCGAAGGATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTAAGTGAAATGGATAACCGCGCGCTGGGGATGACAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGAATCTGAAACCAttg                                                                                                                                                                                                                         >  2:218653/1‑249 (MQ=255)      aaGCGCGCGCGAAATTGCAGGCGGTGCTGGACAACGGGAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACCAAAAGGCCCGACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGACGCCGTCAGGCATCTGACACCATCGAt                                                                                                                                                                                                                       >  1:187785/1‑251 (MQ=255)               cgAAATTGCAAGCAGTGCTGGACAACGGTAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACAAAAAGGCCCAACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAACGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGGGGTCGTCGTCAGGCAtatggaaccattggttccagcgtc                                                                                                                                                                                                              >  2:277255/1‑228 (MQ=255)                   aTTGCAAGCAGTGCTGGACAACGGTAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACAAAAAGGCCCAACCGACTTCGTTGAGAACTACGCGAAGTAGCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCt                                                                                                                                                                                                          <  2:122036/251‑1 (MQ=255)                          gcagTGCTGGACAACGGTAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACAAAAAGGCCCAACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGa                                                                                                                                                                                                   <  1:138132/248‑1 (MQ=255)                               gCTGGAAAACGATAAAGCGGCAAAAGTCTTTGCTCGTATGGTAGCGGCACCAAAAGGCCAAACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAACGATGCTGACGAAAGCAGTCTATGCTGATACCGACGGTTTTGTCAGTGAAATGGATACCAGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCTGTCAGCGCAAGGCATCTGACACCATTGATTACATCGTCGGCCTTaatgttatcg                                                                                                                                                                                              >  2:241580/1‑242 (MQ=255)                                  ggACAACGGTAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACAAAAAGGCCCAACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGgcgc                                                                                                                                                                                           <  1:84403/251‑1 (MQ=255)                                                     gaagtagttgggcgttgtgTAGCGGCACAAAAAGGCCCGACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGACGCCGTCAGGCATCTGACACCATCGATTACAGCGTCGGCTTTACTGATATGGCGCGTCGGGGct                                                                                                                                                                                  <  2:105839/223‑2 (MQ=255)                                                     gAAGTCTTTGGTCGTATGGTAGCGGCACAAAAAGGCCCGACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGACGCCGTCAGGCATCTGACACCATCGATTACAGCGTCGGCTTTACTGATATGGCGCGTCTGGGCg                                                                                                                                                                                  >  1:105839/1‑241 (MQ=255)                                                      aattCTTTGGTGGTATGGTAGCGTCACAAAAAGGCCCAACTGACTTCGTTTAGAACTACTCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATTCCGAAGGTTTTTTCAGTGAAATGGATACCGGCGCGCTGGGGATGGCAGTGGTTGCGATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCGTTACTGATATGGCGCGTTTGGGCGACCAGGTAGAc                                                                                                                                                                       <  2:158906/248‑1 (MQ=255)                                                      aaGTCTTTGGTCGTAAGGTAGCGGCACAAAAAGGCACAACCGAATTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGCTGCTGACGAAAGCAGTCTATGCTGATACCGAAGGGTTTGTCAGTGAAATGGATACCCGCGCGATGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTAGGCAGGCTTCTGCCACCCTTGATTACCGCGTAGGATTTACTTGTAAGGCGCGTTTggggtccaagggagac                                                                                                                                                                       >  2:290908/1‑238 (MQ=255)                                                                    aTGGTAGCGGCACAAAAAGGCCCAACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACACGCGCGCTGGGGATGGCAGAGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGCCACCATTGATTACAGCGTCGGCTTGACTGATATGGCCCGTTTGGGCGACCAGGTAGACGGACAGTGTcctct                                                                                                                                                         >  2:208679/1‑248 (MQ=255)                                                                             gCACAAAAAGGCCCAACCGACTTCGTTGAGAACTTCGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGGCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCTCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTTGCGG‑TTAt                                                                                                                                               <  1:213166/251‑1 (MQ=255)                                                                                    aaGGCCCAACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCAcgcg                                                                                                                                        >  1:49485/1‑251 (MQ=255)                                                                                                                           tGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGGGTTTTCC‑CGCGGAAGACGAAAAAAGCTGGCCGGGAGCGGCGAAAGCgggg                                                                                                 >  1:47395/1‑249 (MQ=255)                                                                                                                              cGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGaaa                                                                                              <  1:59220/251‑1 (MQ=255)                                                                                                                              cGACAGCGATGCTGACGAAAGCAGACTATGCTGATACCGAGGGTTTTGTCAGTGAAATGGATACCCGCGCGATGGGGATGGCAGTGGTTGCACTGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTGCTGATATGGCGCGGTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTGTCCCCGCTGAAGAGGAAAACAGCTGGCCGGAAgcggcggaaaaggtgaa                                                                                               >  1:20843/1‑239 (MQ=255)                                                                                                                                aCAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGc                                                                                            <  1:112755/251‑1 (MQ=255)                                                                                                                                  aGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGAAGACGGTCAGCGTCCGCTGGCGG‑GTATTCACGAGAAAAAAGAAAGAAACTGACAGGAAGCGGCGAAAGAGGTGGAAgggg                                                                                          >  1:58610/1‑248 (MQ=255)                                                                                                                                           gACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTaa                                                                                   <  1:290908/249‑1 (MQ=255)                                                                                                                                                           gCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCAc                                                                  <  1:53974/250‑1 (MQ=255)                                                                                                                                                             tGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATTGCAGTGGTTGCAAGGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCtt                                                                                                                                                                                                         <  2:218963/114‑1 (MQ=255)                                                                                                                                                             tGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCtt                                                                                                                                                                                                         >  1:218963/1‑114 (MQ=255)                                                                                                                                                              gATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCg                                                                <  1:382663/249‑1 (MQ=255)                                                                                                                                                                     aaGGTTGTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCGGAAAGcaca                                                       <  2:47395/251‑1 (MQ=255)                                                                                                                                                                                       tGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTTTCCACGCGAAAGACGGAAACAGCTGGCAGGAAGGGGCGAAAGCGGGGAAAGAGGCAATTAAACTTTCCGATAAAGCACCCGGAAGCACCCCCACTGGCTATCGCCgg                                     >  1:56314/1‑250 (MQ=255)                                                                                                                                                                                         gATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCGGAAAGCACACCAACTGTCTATCGCCGTAt                                   <  1:212704/251‑1 (MQ=255)                                                                                                                                                                                                gcgcgcTGGGGATGGCAGTGGTTGCAATGGGCGGCGTTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCGGAAAGCACACCAACTGTCTATCGCCGTATCAGCGaa                            <  1:196411/251‑1 (MQ=255)                                                                                                                                                                                                 cgcgcTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACt                                                                                <  1:123870/198‑1 (MQ=255)                                                                                                                                                                                                    gcTGGGGATGGCAGTGGTTGCAATGGGCGGCGGTCGTCGTCAGGCATCTGACACCATTGATTACAGCGTCGGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCGGAAAGCACACCAACTGTCTATCGCCGTATCAGCGAATAAc                        <  1:123634/251‑1 (MQ=255)                                                                                                                                                                                                                    gTTGCAATGGGCTGCGGTCGTCGTCAGTCATCTGACACCATTGATTACCGCGTCTGCTTTACTGATATGGCGCGTTTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATACACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCGTAAAGCACACCAACTGTCTATCGTCGTATCAGCGAATAACGGTATActgatctgat        <  1:140176/251‑1 (MQ=255)                                                                                                                                                                                                                          gtGGGCGGCGGTCTTCGTCAGGCAACTGAACCCATTGATTACGGCGTCGGCTTTACTGATATGGCGCGTTGGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAGCTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCGGAAAGCACACCAACTGTCTATCGCCGTATCAGCGAATAACGGTATACTGATCTGATCATTTa  <  2:56314/250‑1 (MQ=255)                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                              CGCCGAAGCGCGCGCGAAATTGCAGGCGGTGCTGGACAACGGTAAAGCGGCAGAAGTCTTTGGTCGTATGGTAGCGGCACAAAAAGGCCCGACCGACTTCGTTGAGAACTACGCGAAGTATCTGCCGACAGCGATGCTGACGAAAGCAGTCTATGCTGATACCGAAGGTTTTGTCAGTGAAATGGATACCCGCGCGCTGGGGATGGCAGTGGTTGCAATGGGCGGCGGACGCCGTCAGGCATCTGACACCATCGATTACAGCGTCGGCTTTACTGATATGGCGCGTCTGGGCGACCAGGTAGACGGTCAGCGTCCGCTGGCGG‑TTATCCACGCGAAAGACGAAAACAACTGGCAGGAAGCGGCGAAAGCGGTGAAAGCGGCAATTAAACTTGCCGATAAAGCACCGGAAAGCACACCAACTGTCTATCGCCGTATCAGCGAATAACGGTATACTGATCTGATCATTTA  >  NC_000913/4619107‑4619574

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑