Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,618,702	T→C	S158S (AGT→AGC)	deoA →	thymidine phosphorylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,618,702	0	T	C	88.0%	48.6 / 1.0	26	S158S (AGT→AGC)	deoA	thymidine phosphorylase
Reads supporting (aligned to +/- strand):  ref base T (1/2);  new base C (9/13);  total (11/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.36e-01

GAATGGCCCGATTGTTGATAAACACTCCACCGGTGGCGTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGTTCACTGGCTCCGGCTGATAAACGTTTCTACGCG‑ACCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTTGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGTTTATGCCGACCTACGAACTCTCTGAAGCCCTTGCCGAAGCGATTGTTGGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTC  >  NC_000913/4618459‑4618945                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                      gAATGGCCCGATTGTTGATAAACATTCCACTGGTGGCGTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTCACTgg                                                                                                                                                                                                                                                <  1:63213/251‑1 (MQ=255) gAATGGCCCGATTGTTGATAAACACTCCACCGGTGGCGTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGTTCa                                                                                                                                                                                                                                                    <  1:152873/247‑1 (MQ=255)        ccGATTGTTGAGTAACATTCCACTGGGGTCGTCGGTGATTTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTTCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTGTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTTACTGGCTCCGGc                                                                                                                                                                                                                                         <  2:152265/251‑1 (MQ=255)        cagATTGTTGATAAACATTCCACTGGTGGCGTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTCACTGGCTCCGGc                                                                                                                                                                                                                                         <  1:174427/249‑1 (MQ=255)             tgttgATAAACACTCCACCGGTGGCGTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGTTCACTGGCTCCGGCTGAt                                                                                                                                                                                                                                     <  1:197277/250‑1 (MQ=255)                    aaaCATTCCACTGGTGGCGTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTCACTGGCTCCGGCGGATAAACGtt                                                                                                                                                                                                                              <  1:384639/250‑1 (MQ=255)                       cattCCACTGGGGGCGTCGGCGTTGTGACTCCGCTGATGTTGGGGCCGATGGTCGCTGCCTGCGGCGGCTATATTCCGGTGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTCCGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTCACTGGCTCCGGCGGATAAACGTTTCTa                                                                                                                                                                                                                          <  2:156017/248‑1 (MQ=255)                                    gCGTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTCACTGGCTCCGGCGGATAAACGTTTCTACGCG‑ACCCGTGat                                                                                                                                                                                                            <  1:200833/251‑1 (MQ=255)                                      gTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGGTGACAACCGTTTCCGCGGAATTATTAAAAACGTCGGCGTGGCGGTTATC‑GGTTCGACCAGCTCACTGGGTCCGGCGGAGAAAAGTTTTTACCCC‑ACCCGTGgtat                                                                                                                                                                                                          >  1:129708/1‑251 (MQ=255)                                                      cGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGGATCCATCCCTGGCTTCGACATTTTCCCCGATGACAACCGTTTCCGCGAAATTATTTAAAACGGCGGCGTGGCGATTCTCCGGCCA‑AACAACTCCCTTGATCCCGCGGATAAACTTTTCTACGCG‑ACCCCGGATATTAcccacaccctggcc                                                                                                                                                                                          >  1:305705/1‑239 (MQ=255)                                                          gaggTTGGGGCTGATGGTCCCCGCCTGCGGCGGCTATATTCCGTGGAGCTCTGGTCGCGGCCACGGTCTTACTGGCGGTACGCTCGACAAACTGGAAGCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGTTTATC‑GGTCATCCCAGCTCACTGGCTCCGGCGGATAACCGTTTCTACGCG‑ACCCGTGATATTCCCGCAACCGTGGAC‑Tc                                                                                                                                                                                       <  2:116576/246‑1 (MQ=255)                                                                     cGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTAACCTCGACAAACTGGAATACATCCCTGGCTTCGGCATTTTCCCCGATGACAACCGGTTCCGCGAAATTATTAAAAACGTCGGCGTGGCGATTTTC‑GGTCAGACCAGCTCACTGGAGCCGGCGGGTAAAAGCTTTTACGCGCACCC‑TGATATTTCCGCCACCGTgggcttctacccccctgat                                                                                                                                                                           >  2:148799/1‑234 (MQ=255)                                                                                               tttCCTATGATCTCTGGTGGCGGCCTCGGCCATTGTGGCGGTCCGCCCTCCAAACTGGAATCCACCCCTGGCTTCGACATGTCCCCGAATGACACCCGTTACCGCGAATTTATTAAGGCCGTGGGCGTGGCGTTTATC‑GGTCAGACCAGCTAACTGGCCCCGGCGGATAACCGTTTCTACGCG‑CCCCGTGATATTCCCGCACCCGGGAAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAAc                                                                                                                                                 <  1:275766/249‑1 (MQ=255)                                                                                                            ctGGGCGCGGCCTCGGTCATACTGGCGGTACGCTCGAAAAACTGGAATCCACCCCGGGCTTCGACATTTCCCCGGATGACACCCGTTTCCGCGAAATTATTAAAGCCGTCGGCGTGGCGATTATC‑GGTCAGCCCAGCTCACTGGCTCCGGCGGATAAACTTTTCTACGCG‑CCCCGTGATATTCCCGCAACCGTGGAC‑TCCACCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAg                                                                                                                                        <  1:148799/246‑1 (MQ=255)                                                                                                                           gTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTCACTGGCTCCGGCGGATAAACGTTTCTACGCG‑ACCCGAGATATTAACGCCACCGTGGAC‑TCCATCCCGCTGCTCCCCGCCTCTATTCTGGCTGAGAAACTGGCGGAAGGTCTGGACGCGCTGGGGATg                                                                                                                    >  1:276909/1‑251 (MQ=255)                                                                                                                                    gctgTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGTTCACTGGCTCCGGCTGATAAACGTTTCTACGCG‑ACCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGTAGAAACTTGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGaa                                                                                                            >  1:197078/4‑250 (MQ=255)                                                                                                                                               aaCAAACTGGAACCCATCCCTTGCTGCTATATTTTCCCGGATCACATCCTTTTCCGCAAAATTATTAAAGGCGTCTGCGTGGCTATTATC‑GTTCAGACCAGCTCACTGGCTCCGGCGGATAAACGTTTCTACTCG‑CCCCGTGATTTTCCCCCAACCG‑GGACCTCCACCCCGCTGACCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAgcgg                                                                                                <  1:125547/250‑1 (MQ=255)                                                                                                                                                      gggAATCCATCCCTGCTTTCAACATTTTCCCGGATGCCAACCGTTCCCGAGAAATTATTAAAGGCGCCGGCGGGGCGTTTATC‑GGTCAGACCAGCTCACTGGCGCCGGCGGATAACCTTTTCTACGCG‑ACCTGTTATATTGCCGCACCCGTGGCC‑GCCTTCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGttt                                                                                         <  1:48242/250‑1 (MQ=255)                                                                                                                                                            ccatcaCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTCACTGGCTCCGGCGGATAAACGTTTCTACGCG‑ACCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAGGTCTGGACGCGCTGGTGATGGACGGGAAAGTGGGTAGCGGCGCGTTTATGCCg                                                                                   >  1:304051/1‑251 (MQ=255)                                                                                                                                                                cccTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGACATTATTAAAGACCTCGGCCTGGCGATTATC‑GGTCACACCAGCCCCCTGGCTCCGGCGGATAAACGTTTCTCCGCG‑ACCAGAGATATTACCGCAACCGTGGAC‑TCCACCCCGCTGATCACCGCCTCTATTCTGGCGAAGAACCTGGCGGAAGGTCTGGTAGCGCTGGGGATGGACGTGAACGAGGGTAGCGGGGCGTTTATGGCGAccc                                                                               >  1:165713/1‑250 (MQ=255)                                                                                                                                                                cccTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGATCACTGGCTCCGGCGGATAAACGTTTCTACGCG‑ACCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGTTTATggcggcct                                                                               >  1:271611/1‑244 (MQ=255)                                                                                                                                                                       ttCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGCTCACTGGCTCCGGCGGATAAACGTTTCTACGCG‑ACCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACAGGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGTTTATGCCGACCTACGGAct                                                                        >  1:149201/1‑251 (MQ=255)                                                                                                                                                                                           aacccGTTTCGGCGAAATTATAAAATACGTCGGCGTGGCAATTATC‑GGTAAGACCAGCTCACTGCCTCCGGCGGATAAACTTTTCTACGCG‑CCCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGTTTATGCCGACCTACGAACTCTCTGAAGCCCTTGCCGAAg                                                    <  1:249160/248‑1 (MQ=255)                                                                                                                                                                                                                      cGTCGGCGTGGCTATTATC‑GTTCAGCCCACCTCACTGCCTCCGGCGGAAAAACGTTTCTACGCG‑CCCCGTGATATCACCGCACCCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGTTTATGCCGACCTACGAACTCTCTGAAGCCCTTGCCGAAGCGATTGTTGGCGTGGCTAACGGCGCTg                         <  1:286872/251‑1 (MQ=255)                                                                                                                                                                                                                                   aTTATC‑GGTCAGACCAGCTCACTGGCTCCGGCGGATAAACGTTTCTACGCG‑ACCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGTTTATGCCGACCTACGAACTCTCTGAAGCCCTTGCCGAAGCGATTGTTGGCGTGGCTAACGGCGCTGGCGTGCGcaccac            >  1:23199/1‑251 (MQ=255)                                                                                                                                                                                                                                              aGACCAGCTCACTGGCTCCGGCGGATAAACGTTTCTACGCG‑ACCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTGGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGTTTATGCCGACCTACGAACTCTCTGAAGCCCTTGCCGAAGCGATTGTTGGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTc  >  1:116673/1‑251 (MQ=255)                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                      GAATGGCCCGATTGTTGATAAACACTCCACCGGTGGCGTCGGCGATGTGACTTCGCTGATGTTGGGGCCGATGGTCGCAGCCTGCGGCGGCTATATTCCGATGATCTCTGGTCGCGGCCTCGGTCATACTGGCGGTACGCTCGACAAACTGGAATCCATCCCTGGCTTCGACATTTTCCCGGATGACAACCGTTTCCGCGAAATTATTAAAGACGTCGGCGTGGCGATTATC‑GGTCAGACCAGTTCACTGGCTCCGGCTGATAAACGTTTCTACGCG‑ACCCGTGATATTACCGCAACCGTGGAC‑TCCATCCCGCTGATCACCGCCTCTATTCTGGCGAAGAAACTTGCGGAAGGTCTGGACGCGCTGGTGATGGACGTGAAAGTGGGTAGCGGCGCGTTTATGCCGACCTACGAACTCTCTGAAGCCCTTGCCGAAGCGATTGTTGGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTC  >  NC_000913/4618459‑4618945

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑