Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,641,217	T→A	V92V (GTT→GTA)	yjtD →	putative tRNA/rRNA methyltransferase YjtD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,641,217	0	T	A	90.5%	52.9 / ‑0.4	22	V92V (GTT→GTA)	yjtD	putative tRNA/rRNA methyltransferase YjtD
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base A (11/8);  total (12/10)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.12e-01

CGCCAGAGCAGAAAATATTGGGGCAGCGGCGCGGGCAATGAAAACGATGGGGTTTAGCGATCTGCGGATTGTCGATAGTCAGGCACACCTGGAGCCAGCCACCCGCTGGGTCGCACATGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACATTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCCACGCCAGTTGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCTCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTG  >  NC_000913/4640971‑4641437                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                             cGCCAGAGCAGAAAATATTGGGGCAGCGGCGCGGGCAATGAAAACGATGGGGTTTAGCGATCTGCGGATTGTCGATAGTCAGGCACACCTGGAGCCAGCCACCCGCTGGGTCGCACATGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACATTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCCACGCCAGTTGAAc                                                                                                                                                                                                                          >  1:158857/1‑251 (MQ=255)            aaaaTATTGGGGCAGCGGCGCGGGCAATAAAACCGATGGGTTTTAGCGTACTGCGGATTGGCGATAGTCAGGCACACCTGTAGCCAGCCACCCGCTGGGTCGCACAGTGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATAGCATTACTACGCTACTCCAGTAGAACTGGTACCGCTg                                                                                                                                                                                                               <  2:350921/251‑1 (MQ=255)                                  ggCAATGAAAACGATGGGTTTTAGCGAACTGCGGATTGTCGATAGTCAGGCACACCTTGAGCCAGCCACCCGCTGGGTCGCACATGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCATTAGAACTGGTTCCGCTGTTAGAGGAAAAATCTTCATGGa                                                                                                                                                                                         <  1:384754/251‑1 (MQ=255)                                    aaaTGAAAACGATGGGGTTTAGCGATCTGCGGATTGTCGATAGTCAGGCACACCTGGAGCCAGCCACCCGCTGGGTCGCACATGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACATTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCCACGCCAGTTGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATg                                                                                                                                                                                       <  2:158857/250‑1 (MQ=255)                                                                                cAGGCACACCTGGAGCCAGCCACCCGCTGGGTCGCACATGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGAc                                                                                                                                           >  1:66593/1‑251 (MQ=255)                                                                                 aGGCACACCTGGAGCCAGCCACCCGCTGGGTCGCACATGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCCGTCGGGCGAAATATCATTACTACGCTACGCCCGTAGAACTGGTACCGCTGTTAGCGGGAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACt                                                                                                                                          >  2:47813/1‑251 (MQ=255)                                                                                               cctgccaCCCTCTGGGTCGCACAGGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGTTCGAAATATCATTTCTACGCTACGCCAGTAGAACTGGTACCGCGGTTAGAGGAAAAATCTTCATGGAGGGGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGc                                                                                                                            <  1:236985/248‑1 (MQ=255)                                                                                                     aCCCGCTGGGTCGCACATGGATCTGGTGATATTATTGATAATATTAAAGTTTTCACGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGACGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGTAGAGTTAGCGTTGGc                                                                                                                      >  1:306682/1‑251 (MQ=255)                                                                                                            gggTCGCCCATGGATCGGGTGATATTATTGATAATATTAAAGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCTCTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGACGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGt                                                                                                                <  1:46100/250‑1 (MQ=255)                                                                                                                    caTGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTgg                                                                                                       >  1:313326/1‑251 (MQ=255)                                                                                                                             ggtattatatatgatatatttAAAGTTTTCCCGACACTGGCTGAATCGTTACGCGATGTCGATTTC‑ACTGTCTCCACGACGGCGCGCAGTCGGGCGAAATAGCATTACTACGCTACGCCAGTCGAACGGTTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGAGCGGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                                                                                              <  2:142672/232‑1 (MQ=255)                                                                                                                                   attattTAAAATATTAAAGTTGTCCCGACACGGGTTGAATCGGTACACGATGTCG‑TTTCTACTTTCGCCACCTCTGCGCGCAGTCGGGCGAAATATCATTACTACGCTTCGCCATTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGTCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAtggtgg                                                                                         <  2:304579/250‑1 (MQ=255)                                                                                                                                   attattGATAATATTAAAGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCAACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGATAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGTAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGc                                                                                        >  1:84805/1‑251 (MQ=255)                                                                                                                                                    aGTTTTCCCGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCa                                                                       <  1:206155/251‑1 (MQ=255)                                                                                                                                                            cGACACTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCAATCTgggg                                                               >  1:207890/1‑251 (MQ=255)                                                                                                                                                                       gAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGCGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCAATCTGGGGCAGGCAGTGAt                                                    >  1:18769/1‑251 (MQ=255)                                                                                                                                                                       gAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCAATCTGGGGCAGGCAGTGAt                                                    <  1:360292/251‑1 (MQ=255)                                                                                                                                                                                   gATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCAATCTGGGGCAGGCAGTGATGGTCTATTGCt                                         >  1:75912/1‑250 (MQ=255)                                                                                                                                                                                         gATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCAATCTGGGGCAGGCAGTGATGGTCTATTGCTATCAAtt                                  <  1:323728/251‑1 (MQ=255)                                                                                                                                                                                                            acTGCGCGCAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCAATCTGGGGCAGGCAGTGATGGTCTATTGCTATCAATTAGCAACATTAATacaac                 >  1:363576/1‑250 (MQ=255)                                                                                                                                                                                                                    cAGTCGGGCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCAATCTGGGGCAGGCAGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCgacg         >  1:159903/1‑247 (MQ=255)                                                                                                                                                                                                                           gCGAAATATCATTACTACGCTACGCCAGTAGAACTGGTACCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCAGATTATCCTTCGCTCAATCTGGGGCAGGCAGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGCCGAAAAGTg  >  2:90097/1‑250 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                             CGCCAGAGCAGAAAATATTGGGGCAGCGGCGCGGGCAATGAAAACGATGGGGTTTAGCGATCTGCGGATTGTCGATAGTCAGGCACACCTGGAGCCAGCCACCCGCTGGGTCGCACATGGATCTGGTGATATTATTGATAATATTAAAGTTTTCCCGACATTGGCTGAATCGTTACACGATGTCGATTTC‑ACTGTCGCCACCACTGCGCGCAGTCGGGCGAAATATCATTACTACGCCACGCCAGTTGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCTCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTG  >  NC_000913/4640971‑4641437

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑