Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,982,684	(C)8→9	noncoding (79/87 nt)	leuT →	tRNA‑Leu

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,982,676	1	.	C	96.2%	89.0 / ‑3.1	26	noncoding (71/87 nt)	leuT	tRNA‑Leu
Reads supporting (aligned to +/- strand):  ref base . (0/1);  new base C (13/12);  total (13/13)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01

TGTGATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCCTCT  >  NC_000913/3982542‑3982800                                                                                                                                        |                                                                                                                              tgtgATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑‑ccccc                                                                                                                         <  1:342195/140‑1 (MQ=255)   tgATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑‑ccccccc                                                                                                                       >  1:311912/1‑140 (MQ=255)     aTTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑‑ccccccccc                                                                                                                     >  2:285668/1‑139 (MQ=255)            ttGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGcacc                                                                                                               >  2:308469/1‑140 (MQ=255)                 gTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGcacca                                                                                                              <  1:205467/136‑1 (MQ=255)                 gTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGcacca                                                                                                              >  2:205467/1‑136 (MQ=255)                                          ccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCa                                                                                 <  2:39129/140‑1 (MQ=255)                                          ccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCa                                                                                 >  2:155796/1‑140 (MQ=255)                                            attattAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaa                                                                               <  2:193403/140‑1 (MQ=255)                                            attattAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaa                                                                               <  2:331014/140‑1 (MQ=255)                                               attaGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAg                                                                            <  2:195194/140‑1 (MQ=255)                                                    aaGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTa                                                                       <  1:155796/140‑1 (MQ=255)                                                       ttGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTAttt                                                                    >  2:262022/1‑140 (MQ=255)                                                       ttGTGACAATGCGAAGGTGGCGGAATTAGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTAttt                                                                    >  2:180938/1‑140 (MQ=255)                                                        tgtgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTc                                                                   >  2:147406/1‑140 (MQ=255)                                                             cAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGa                                                              <  1:262022/140‑1 (MQ=255)                                                                 gCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAg                                                          <  1:256727/140‑1 (MQ=255)                                                                 gCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAg                                                          >  2:340396/1‑140 (MQ=255)                                                                   gAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAgcg                                                        <  1:340396/140‑1 (MQ=255)                                                                          gCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg                                                                  <  2:26062/123‑1 (MQ=255)                                                                          gCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg                                                                  >  1:26062/1‑123 (MQ=255)                                                                          gCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTg                                                 >  2:385933/1‑140 (MQ=255)                                                                                        cgcgCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGt                                   >  2:301207/1‑140 (MQ=255)                                                                                          cgcTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAAc                                       <  2:359082/134‑1 (MQ=255)                                                                                          cgcTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAAc                                       >  1:359082/1‑134 (MQ=255)                                                                                                 ttCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAg                         <  2:311912/140‑1 (MQ=255)                                                                                                   cAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAg                         <  2:335462/140‑1 (MQ=255)                                                                                                                 cTTACGGACGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCg          >  2:298270/1‑140 (MQ=255)                                                                                                                         cGTGGGGGTTCAAGTC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCctct  >  2:87096/1‑140 (MQ=255)                                                                                                                                        |                                                                                                                              TGTGATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCCTCT  >  NC_000913/3982542‑3982800

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: ‑