Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,103,600	+A	coding (588/1053 nt)	mutY →	adenine DNA glycosylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,103,597	1	.	A	96.0%	81.7 / ‑3.2	25	coding (585/1053 nt)	mutY	adenine DNA glycosylase
Reads supporting (aligned to +/- strand):  ref base . (1/0);  new base A (10/14);  total (11/14)
Fisher's exact test for biased strand distribution p-value = 4.40e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01

AAGCGGCTGGCCTGGGAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑AAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACTTTTTGCTAT  >  NC_000913/3103465‑3103724                                                                                                                                      |                                                                                                                                aaGCGGCTCGCCTGGGAAAAAATAGGTCGACAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCg                                                                                                                                  <  1:225552/133‑1 (MQ=255)  aGCGGCTGGCCTGGGAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑a                                                                                                                                >  2:608455/1‑133 (MQ=255)  aGCGGCTGGCCTGGGAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGAGTTGAGTGCGATGGTTTGTACGCGCTCG‑a                                                                                                                                >  2:225552/1‑133 (MQ=255)   gCGGCTGGACTGGGACAACAGAAGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑aa                                                                                                                               <  1:287357/133‑1 (MQ=255)     ggCTGGCCTGGGAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑aaaa                                                                                                                             >  2:555476/1‑132 (MQ=255)       cTGGCCTGGGAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑aaaacc                                                                                                                           >  2:98679/1‑130 (MQ=255)         ggCCTGGGAAAAAAGTGGTCGAGAATAAATTATGGAGTTTGGGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑aaaaccga                                                                                                                         <  2:240079/133‑6 (MQ=255)         ggCCTGGGAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑aaaaccga                                                                                                                         <  2:60325/133‑6 (MQ=255)          gCCTGGGAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGaa                                                                                                                         >  2:571935/1‑133 (MQ=255)              gggAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGt                                                                                                                     <  1:571935/133‑1 (MQ=255)                   aaaaGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGct                                                                                                                <  1:108343/133‑1 (MQ=255)                   aaaaGAGGCCGAGAACAACTTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGct                                                                                                                <  1:219419/133‑1 (MQ=255)                         ggTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTcc                                                                                                          <  1:98679/133‑1 (MQ=255)                          gTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCg                                                                                                         <  1:608455/133‑1 (MQ=255)                             gagaATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTa                                                                                                      <  2:570999/133‑1 (MQ=255)                                     aTTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACgg                                                                                              <  1:47609/133‑1 (MQ=255)                                              tttGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTgc                                                                                     >  2:309997/1‑133 (MQ=255)                                                tGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGa                                                                                             >  1:448069/1‑123 (MQ=255)                                                tGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGa                                                                                             <  2:448069/123‑1 (MQ=255)                                                tGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTgccg                                                                                   >  1:527303/1‑133 (MQ=255)                                                   gcgagcAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTgccgccg                                                                                <  1:555476/133‑1 (MQ=255)                                                      agcAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCca                                                                             >  2:534195/1‑133 (MQ=255)                                                                       gTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCtt                                                            >  2:50931/1‑133 (MQ=255)                                                                                  aCGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCaa                                                 <  1:50931/133‑1 (MQ=255)                                                                                                cGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGa                                   >  2:423160/1‑133 (MQ=255)                                                                                                cGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑AAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGTTTTTTCCGGGCAAAAAATCGAAACAGAc                                  >  2:264791/1‑133 (MQ=255)                                                                                                         aTTTGGGTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCgg                          >  2:356352/1‑133 (MQ=255)                                                                                                               gTGCGATGATTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCa                    <  1:534195/133‑1 (MQ=255)                                                                                                                   gatgatTTCTACGCGCTCG‑AAACCGAAATGGTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGc               <  1:264791/133‑1 (MQ=255)                                                                                                                    atgatTTGTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGGGCGCACCGGc               <  1:423160/133‑1 (MQ=255)                                                                                                                           gTACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACtttt        <  2:527303/133‑1 (MQ=255)                                                                                                                            tACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACtt          <  1:61176/130‑1 (MQ=255)                                                                                                                            tACGCGCTCGAAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACtt          >  2:61176/1‑130 (MQ=255)                                                                                                                                 gcTCGAAAACCGAAATGTTCGCTCTATCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACTTTTTGCTAt  >  2:422927/1‑133 (MQ=255)                                                                                                                                      |                                                                                                                                AAGCGGCTGGCCTGGGAAAAAAGAGGTCGAGAATAAATTATGGAGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCG‑AAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACTTTTTGCTAT  >  NC_000913/3103465‑3103724

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑