Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP025268	1,204,628	A→G	V2A (GTA→GCA)	ymfD ←	class I SAM‑dependent methyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP025268	1,204,628	0	A	G	96.6%	181.0 / ‑1.4	59	V2A (GTA→GCA)	ymfD	class I SAM‑dependent methyltransferase
Reads supporting (aligned to +/- strand):  ref base A (1/1);  new base G (28/29);  total (29/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.92e-01

GCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGAGAATGATAAAA  >  NZ_CP025268/1204492‑1204757                                                                                                                                         |                                                                                                                                  gCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATGTACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCa                                                                                                                                <  1:2955104/140‑1 (MQ=255) gCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCa                                                                                                                                <  2:1168668/140‑1 (MQ=255)       aTCAAGGGCGTGGCCATTTTTCTCATTGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAAt                                                                                                                          <  2:3228353/140‑1 (MQ=255)       aTCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGAGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAACTGCCATTCAAt                                                                                                                          <  1:4641662/140‑1 (MQ=255)         cAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTa                                                                                                                        <  2:3660450/140‑1 (MQ=255)            gggCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGGTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATg                                                                                                                     >  2:4983758/1‑140 (MQ=255)            gggCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGGTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATg                                                                                                                     >  2:4983857/1‑140 (MQ=255)                     cATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTa                                                                                                            <  1:4668779/140‑1 (MQ=255)                                              cTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATGTTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGt                                                                                   >  1:2172773/1‑140 (MQ=255)                                               tCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTc                                                                                  <  1:3245537/140‑1 (MQ=255)                                                               agGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgact                                                                  <  2:2642475/140‑1 (MQ=255)                                                                 ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAAt                                                                                                                          >  1:906549/1‑82 (MQ=255)                                                                 ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAAt                                                                                                                          <  2:906549/82‑1 (MQ=255)                                                                 ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgacttg                                                                <  1:2362808/140‑1 (MQ=255)                                                                 ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgacttg                                                                >  1:3922196/1‑140 (MQ=255)                                                                 ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgacttg                                                                >  2:959062/1‑140 (MQ=255)                                                                 ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgacttg                                                                >  1:480759/1‑140 (MQ=255)                                                                 ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATGATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgacttg                                                                >  2:2689623/1‑140 (MQ=255)                                                                    aTCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgacttgact                                                             >  1:4053127/1‑140 (MQ=255)                                                                            aGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTc                                                     <  1:5459944/140‑1 (MQ=255)                                                                                tttGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTggg                                                 >  1:5274234/1‑140 (MQ=255)                                                                                  tgctgcATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGACAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCt                                               <  1:4340329/140‑1 (MQ=255)                                                                                      gcATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAAc                                           <  1:1484569/140‑1 (MQ=255)                                                                                          tctcTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTc                                       <  2:3922196/140‑1 (MQ=255)                                                                                            tctGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaa                                     >  2:5444454/1‑140 (MQ=255)                                                                                               gAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagc                                  <  1:5451257/140‑1 (MQ=255)                                                                                               gAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagc                                  <  1:3025562/140‑1 (MQ=255)                                                                                               gAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagc                                  <  2:2423585/140‑1 (MQ=255)                                                                                               gAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagc                                  <  2:480759/140‑1 (MQ=255)                                                                                                aGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagca                                 <  1:959062/140‑1 (MQ=255)                                                                                                aGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagca                                 <  2:1460962/140‑1 (MQ=255)                                                                                                 gCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACttt                                                           >  2:1654386/1‑113 (MQ=255)                                                                                                 gCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACttt                                                           >  2:1654332/1‑113 (MQ=255)                                                                                                 gCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACttt                                                           <  1:1654332/113‑1 (MQ=255)                                                                                                 gCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACttt                                                           <  1:1654386/113‑1 (MQ=255)                                                                                                 gCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagcaa                                >  1:4004433/1‑140 (MQ=255)                                                                                                 gCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagcaa                                >  2:3283807/1‑140 (MQ=255)                                                                                                    aaTATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGa                             <  2:2263412/140‑1 (MQ=255)                                                                                                    aaTATTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGa                             <  2:2263648/140‑1 (MQ=255)                                                                                                      tatTAACTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGata                           >  1:928541/1‑140 (MQ=255)                                                                                                          aaCTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATAc                       <  2:1083332/140‑1 (MQ=255)                                                                                                            cTCCGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACca                     <  2:2648264/140‑1 (MQ=255)                                                                                                              ccGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcact                   <  2:5291808/140‑1 (MQ=255)                                                                                                               cGTGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGGGAAAAATTCTTTTATTGTATCGTTCGGGATTTTTCCGACTTGACTTTCAGTTCTGTGCGGAACTGTAAAAGCAAAGATAATAAcactc                  >  2:1928961/1‑140 (MQ=255)                                                                                                                 tGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac                >  1:938686/1‑140 (MQ=255)                                                                                                                 tGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac                >  1:2088076/1‑140 (MQ=255)                                                                                                                 tGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac                >  1:2749004/1‑140 (MQ=255)                                                                                                                 tGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac                >  1:2749046/1‑140 (MQ=255)                                                                                                                 tGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac                >  1:3935567/1‑140 (MQ=255)                                                                                                                 tGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac                >  2:3151661/1‑140 (MQ=255)                                                                                                                 tGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac                >  1:5129985/1‑140 (MQ=255)                                                                                                                 tGCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac                >  2:2652029/1‑140 (MQ=255)                                                                                                                  gaatatTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTCTTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATCATACcactcact               <  1:3452443/138‑1 (MQ=255)                                                                                                                  gCATATTATAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcact               <  1:5444454/140‑1 (MQ=255)                                                                                                                     tattatAGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTgag            <  1:3842378/140‑1 (MQ=255)                                                                                                                           aGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGAGAATGAt      >  2:3585597/1‑140 (MQ=255)                                                                                                                           aGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGAGAATGAt      >  2:3546576/1‑140 (MQ=255)                                                                                                                           aGTTCAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGACTTAACTGTCAAAGCAATGATAATACCACTCACTGAGAATGAt      >  1:5095586/1‑140 (MQ=255)                                                                                                                               cAAAGCAAGTGCCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGAGAATGATaaaa  >  2:1303987/1‑140 (MQ=255)                                                                                                                                         |                                                                                                                                  GCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGAGAATGATAAAA  >  NZ_CP025268/1204492‑1204757

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑