Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,953,914	T→A	16.6%	L158Q (CTG→CAG)	cmoB →	tRNA (cmo5U34)‑carboxymethyltransferase, carboxy‑SAM‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,953,914	0	T	A	16.6%	50.4 / 3.9	24	L158Q (CTG→CAG)	cmoB	tRNA (cmo5U34)‑carboxymethyltransferase, carboxy‑SAM‑dependent
Reads supporting (aligned to +/- strand):  ref base T (11/9);  new base A (2/2);  total (13/11)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GAAATGGGATCGTGTTCTGCCCCATCTTTCTGATTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGAACAACTTCCGGCACTGAAAGCCTTTGATACCGTCTTTTCGATGGGCGTGCTTTACCATCGCCGTTCACCG  >  NC_000913/1953768‑1954056                                                                                                                                                   |                                                                                                                                               gAAATGGGTTGGTGTTCTGCGCCAGCTTTCTGATTTAACCGCACGCACCATTCTGGATGTCGCCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCt                                                                                                                                                <  2:76439/147‑1 (MQ=255) gAAATGGGATCGTGTTCTGCCCCATCTTTCTGATTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCtgt                                                                                                                                              >  6:376398/1‑149 (MQ=255) gAAATGGGATCGTGTTCTGCCCCATCTTTCTGATTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCt                                                                                                                                                <  8:214462/147‑1 (MQ=255)         aTCGTGTTCTGCCCCATCTTTCTGATTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGttt                                                                                                                                      <  5:376398/149‑1 (MQ=255)                      ccATCTTTCTGATTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGt                                                                                                                          >  3:123668/1‑148 (MQ=255)                      ccATCTTTCTGATTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTa                                                                                                                         <  4:156466/149‑1 (MQ=255)                                gATTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTggg                                                                                                               >  1:311281/1‑149 (MQ=255)                                 aTTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTgg                                                                                                                <  1:373569/147‑1 (MQ=255)                                      aCCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGa                                                                                                         <  1:45778/149‑1 (MQ=255)                                      aCCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGa                                                                                                         <  2:298198/149‑1 (MQ=255)                                               aCCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAgcgcgc                                                                                                >  1:261372/1‑149 (MQ=255)                                               aCCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAgcgcgc                                                                                                >  1:149277/1‑149 (MQ=255)                                               aCCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCAGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAgcgcgc                                                                                                >  4:199250/1‑149 (MQ=255)                                               aCCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCAGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAgcgcgc                                                                                                >  4:204234/1‑149 (MQ=255)                                                        gATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTg                                                                                         <  5:383405/147‑1 (MQ=255)                                                        gATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGtt                                                                                       <  8:273176/149‑1 (MQ=255)                                                                cTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAg                                                                               <  2:261372/149‑1 (MQ=255)                                                                        gCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGaa                                                                       <  2:311281/149‑1 (MQ=255)                                                                                 acaTGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGAACAACTTCCg                                                              >  7:127283/1‑149 (MQ=255)                                                                                          gcATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGAACAACTTCCGGCACTGa                                                       >  1:323278/1‑147 (MQ=255)                                                                                           cATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGCCCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGAACACCTTCCGGCACTGAAAg                                                    >  2:101399/1‑149 (MQ=255)                                                                                                           gcgcACCTCGCGGTGGGGATCGCCCCTACGCAACTGTTTCTGTGCCAGTGTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTAGTGAACAACTTCCGGCACGGAAAGCCTTTGATACCGGCtt                                    >  7:399548/1‑149 (MQ=255)                                                                                                                    gcgGTGGGGATCGACCCTACGCAACTGTTTCAGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGCTACCGTTAGGTATTGAACAACTTCCGGCACTGAAAGCCTTTGATACCGTCTTTTCGATgg                            <  3:199250/148‑1 (MQ=255)                                                                                                                    gcgGTGGGGATCGACCCTACGCAACTGTTTCAGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGCTACCGTTAGGTATTGAACAACTTCCGGCACTGAAAGCCTTTGATACCGTCTTTTCGATgg                            <  3:204234/148‑1 (MQ=255)                                                                                                                                     tACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGAACAACTTCCGGCACTGAAAGCCTTTGATACCGTCTTTTCGATGGGCGTGCTTTACCATCGcc          >  6:378467/1‑149 (MQ=255)                                                                                                                                      aCGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGAACAACTTCCGGCACTGAAAGCCTTTGa                                             >  1:309381/1‑113 (MQ=255)                                                                                                                                             tGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGAACAACTTCCGGCACTGAAAGCCTTTGATACCGTCTTTTCGATGGGCGTGCTTTACCATCGCCGTTCACCg  >  1:317091/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                               GAAATGGGATCGTGTTCTGCCCCATCTTTCTGATTTAACCGGACGCACCATTCTGGATGTCGGCTGCGGCAGCGGTTATCACATGTGGCGCATGATTGGCGCAGGCGCGCACCTCGCGGTGGGGATCGACCCTACGCAACTGTTTCTGTGCCAGTTTGAAGCGGTGCGTAAACTACTGGGTAATGATCAGCGCGCGCATTTGTTACCGTTAGGTATTGAACAACTTCCGGCACTGAAAGCCTTTGATACCGTCTTTTCGATGGGCGTGCTTTACCATCGCCGTTCACCG  >  NC_000913/1953768‑1954056

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑