Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,287,098	G→A	intergenic (+73/‑328)	agaI → / → yraH	putative deaminase AgaI/putative fimbrial protein YraH

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,287,098	0	G	A	91.7%	23.5 / ‑3.3	12	intergenic (+73/‑328)	agaI/yraH	putative deaminase AgaI/putative fimbrial protein YraH
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base A (6/5);  total (6/6)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.76e-01

GGTGACTGGCGAAGGAAAGCAGGATGCGACAGATCGTTTTCTCACGGCTAAAGTCTCTACCGCTATCCCGGCTTCATTTTTATGGCTGCACAGTAACTTTATTTGTTTAATTAACACCTAACCAGATGAAAAATTTGCTCAAAATGTTTAAATTAACTTATGTAACAGTCACGCATTATATTAAATAACATTTGACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATACATATAACTTGTTCTATTAATAAATCACCTCGTATTCTGACTCGCCCCCTGGCGCAGCAAAGTCAGGCATTTATACTCTTTTGAATACATAGAAAATTGATATCAATATAATGAAAATATCAAATATTTGCATATAAATATAATCTTAAAGTTCAGTC  >  NC_000913/3286905‑3287319                                                                                                                                                                                                  |                                                                                                                                                                                                                              ggTGACTGGCGAAGGAAAGCAGGATGCGACAGATCGTCTTCTCACGGCTAAAGTCTCTACCGCTATCCCGGCTTCATTTTTCTGGCTGCACAGTCACTTTATTTGTTTAATTAACACCTAACCAGATGAACAATTTGCTCAAAATGTTTACATTAACTTATGTAACAGTCCCGCATTATATTAAATAACATTTAACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAAtttt                                                                                                                                                                       >  1:151495/1‑250 (MQ=255)                                   cGTTTTCTCACGGCTAAAGTCTCTACCGCTATCCCGGCTTCATTTTTATGGCTGCACAGTAACTTTATTTGTTTAATTAACACCTAACCAGATGAAAAATTTGCTCAAAATGTTTAAATTAACTTATGTAACAGTCACGCATTATATTAAATAACATTTGACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATACATATAACTTGTTCTATTAATAAATCAc                                                                                                                                    <  1:19980/251‑1 (MQ=255)                                                                           naTTTTTATGGCTGCACAGTAACTTTATTTGTTTAATTAACACCTAACCAGATGAAAAATTTGCTCAAAATGTTTAAATTAACTTATGTAACAGTCACGCATTATATTAAATAACATTTAACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATACATATAACTTGTTCTATTAATAAATCACCTCGTATTCTGACTCGCCCCCTGGCGCAGCAAAGTCAGGc                                                                                            >  1:194617/2‑251 (MQ=255)                                                                                       tGCACAGTAACTTTATTTGTTTAATTAACACCTAACCAGATGAAAAATTTGCTCAAAATGTTTAAATTAACTTATGTAACAGTCACGCATTATATTAAATAACATTTAACTGGGTTGAACATAAAGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATACATATAACTTGTTCTATTAATAAATCACCTCGTATTCTGACTCGCCCCCTGGCGCAGCAAAGTCAGGCATTTATACTCtt                                                                                >  1:264789/1‑251 (MQ=255)                                                                                                                        aaCCAGATGAAAAATTTGCACAAAATGTTTAAATTAACTTATTTAACAGTCACGCATTATATTAAATAACATTTAACTGGGTTg                                                                                                                                                                                                                      <  1:186897/84‑1 (MQ=255)                                                                                                                                gAAAAATTTGCTCAAAATGTTTAAATTAACTTATGTAACAGTCACGCATTATATTAAATAACATTTAACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATACATATAAc                                                                                                                                                        >  1:183594/1‑138 (MQ=255)                                                                                                                                            nnaaaTGTNNAAATTAACTTATGTAACAGTCACGCATTATATTAAATAACGTTTAACTGGGTTGAACATATCGCCGATAGCAAAAGGAGTTATGtgca                                                                                                                                                                                    <  2:18940/96‑4 (MQ=255)                                                                                                                                                                 tGTAACAGTCACGCATTATATTAAATAACATTTAACTGGGTTGAACATAACGCCGATAGCAAAATGAGTTATGTTCAACAATTTAATTTTAGATATACATATAACTTGTTCTATTAATAAATCACCTCGTATTCTGa                                                                                                                        <  1:115019/137‑1 (MQ=255)                                                                                                                                                                     aCAGTCACGCATTATATTAAATAACATTTAACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATACATATAACTTGTTCTATTAATAAATCACCTCGTATTCTGACTCGCCCCCTGGCGCAGCAAAGTCAGGCATTTATACTCTTTTGAATACATAGAAAATTGATATCAATATAATGAAAATATCAAATATTTGCATATAAATATAATCTTAAAGTTCAGTc  <  1:25797/251‑1 (MQ=255)                                                                                                                                                                     aCAGTCACGCATTATATTAAATAACATTTAACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATACATATAACTTATTCTATTAATAAATCACCTCGTATTCTGACTCGCCCCCTGGCGCAGCAAAGTCAGGCATTTATACTCTTTTGAATACATAGAAAATTGATATCAATATAATGAAAATATCAAATATTTGCATATAAATATAATCTTAAAGTTCaatc  <  1:25788/251‑4 (MQ=255)                                                                                                                                                                          cACGCATTATATTAAATAACATTTAACTGGGTTGAACATAACGCCGAt                                                                                                                                                                                                        >  1:130448/1‑48 (MQ=255)                                                                                                                                                                                         aTAACATTTAACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATAAATATAACTTGTTCTATTAATAAATCACCTCGTATTCTGACTc                                                                                                                     >  1:309376/1‑116 (MQ=255)                                                                                                                                                                                                  |                                                                                                                                                                                                                              GGTGACTGGCGAAGGAAAGCAGGATGCGACAGATCGTTTTCTCACGGCTAAAGTCTCTACCGCTATCCCGGCTTCATTTTTATGGCTGCACAGTAACTTTATTTGTTTAATTAACACCTAACCAGATGAAAAATTTGCTCAAAATGTTTAAATTAACTTATGTAACAGTCACGCATTATATTAAATAACATTTGACTGGGTTGAACATAACGCCGATAGCAAAAGGAGTTATGTTCAACAATTTAATTTTAGATATACATATAACTTGTTCTATTAATAAATCACCTCGTATTCTGACTCGCCCCCTGGCGCAGCAAAGTCAGGCATTTATACTCTTTTGAATACATAGAAAATTGATATCAATATAATGAAAATATCAAATATTTGCATATAAATATAATCTTAAAGTTCAGTC  >  NC_000913/3286905‑3287319

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑