Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,438,607	T→C	intergenic (‑20356/‑52928)	unknown ← / → unknown	SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,438,607	0	T	C	100.0%	109.9 / NA	37	intergenic (‑20356/‑52928)	unknown/unknown	SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (18/19);  total (18/19)

TTAAAATTACCCAAGAAATCTGTTTATAATTGTTTTTATCTTTCGAATTATTATTAATTGTAGTCGGGGCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTATAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAGAGATATGGTCTAAGGTTAAATTTAAGAAAGGAAAGTCAGAAAGTCAGAACAAATCAGCTTATATG  >  1/1438395‑1438850                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                    ttaaaattaTCCAAGAAATCTGTTTATAATTGTTTTTATCTTTCGAATTATTATTAATTGTAGTCGGGGCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTg                                                                                                                                                                                                               <  1:891421/251‑1 (MQ=255)    aaattaTCCAAGAAATCTGTTTATAATTGTTTTTATCTTTCGAATTATTATTAATTGTAGTCGGGGCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTAt                                                                                                                                                                                                            <  1:443153/251‑1 (MQ=255)           ccAAGAAATCTGTTTATAATTGTTTTTATCTTTCGAATTATTATTAATTGTAGTCGGGGCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACAt                                                                                                                                                                                                     <  1:190785/251‑1 (MQ=255)                                gTTTTTATCTTTCGAATTATTATTAATTGTAGTCGGGGCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTAcagt                                                                                                                                                                                                                                                  <  1:466048/185‑1 (MQ=255)                                              aaTTATTATTAATTGTAGTCGGGGCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGttagttag                                                                                                                                                                                                                                           >  1:483722/1‑178 (MQ=255)                                                                tCGGGGCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAAc                                                                                                                                                <  1:296850/251‑1 (MQ=255)                                                                   gggCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTAt                                                                                                                                                                                                            >  1:694212/1‑188 (MQ=255)                                                                      cTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGAt                                                                                                                                                                                                                                    >  1:271625/1‑161 (MQ=255)                                                                           atatTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTc                                                                                                                                                                            >  1:31689/1‑212 (MQ=255)                                                                           atatTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGAt                                                                                                                                      >  1:855819/1‑250 (MQ=255)                                                                                 aTTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTAt                                                                                                                                                                                                            <  1:546051/174‑1 (MQ=255)                                                                                      gtagATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAgg                                                                                                                           >  1:275453/1‑250 (MQ=255)                                                                                        agATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTttgttg                                                                                                                                                                               >  1:492211/1‑196 (MQ=255)                                                                                        agATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTaa                                                                                                                        >  1:748486/1‑251 (MQ=255)                                                                                          atatAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCAc                                                                                                                                 >  1:713398/1‑240 (MQ=255)                                                                                          atacaaCTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACAtt                                                                                                                                                                                                    <  1:440499/169‑1 (MQ=255)                                                                                               aCTTTGGAAAGATTGAAAGCTCGCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTAcagtt                                                                                                                                                                                                                                                 <  1:448610/123‑1 (MQ=255)                                                                                                         gATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAAt                                                                                                                                                                  >  1:306142/1‑192 (MQ=255)                                                                                                         gATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAAt                                                                                                                                                        <  1:819332/202‑1 (MQ=255)                                                                                                          aTTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACagttagtt                                                                                                                                                                                                                                             <  1:708176/116‑1 (MQ=255)                                                                                                          aTTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTc                                                                                                                                                                            >  1:181013/1‑181 (MQ=255)                                                                                                                        gTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGAt                                                                                                                                      >  1:277705/1‑205 (MQ=255)                                                                                                                             tttttGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGAt                                                                                                                                      <  1:128707/200‑1 (MQ=255)                                                                                                                             tttttGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGAt                                                                                                                              >  1:561408/1‑208 (MQ=255)                                                                                                                                          ggATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAAcc                                                                                                                                                                       <  1:509286/154‑1 (MQ=255)                                                                                                                                               aaTGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTagag                                                                 <  1:239641/251‑1 (MQ=255)                                                                                                                                                aTGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAgaga                                                                <  1:197709/251‑1 (MQ=255)                                                                                                                                                  gAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAg                                                                               <  1:268580/234‑1 (MQ=255)                                                                                                                                                       cacTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAGAGATATGGt                                                          >  1:616807/1‑250 (MQ=255)                                                                                                                                                            aaGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAGAGATATGGTCTAAgg                                                    <  1:108992/251‑1 (MQ=255)                                                                                                                                                                 aaTTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTc                                                                                       >  1:897582/1‑211 (MQ=255)                                                                                                                                                                  aTTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTagag                                                                 <  1:516264/232‑1 (MQ=255)                                                                                                                                                                           gggtgggAATCGTAGCTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCAt                                                                                                                                         <  1:698346/151‑1 (MQ=255)                                                                                                                                                                                          cTGTAAGAAATGGGATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGAt                                                                                                                              >  1:81435/1‑147 (MQ=255)                                                                                                                                                                                                      ggATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTcac                                                                                                                                                                                                       >  1:270380/1‑62 (MQ=255)                                                                                                                                                                                                      ggATTATTACTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAGAGATATGGTc                                                         <  1:623983/204‑1 (MQ=255)                                                                                                                                                                                                             taCTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAGAGATATGGTCTAAGGTTAAATTTAAGAAAGGAAAGTCAGAAAGTCAGAACAAATCAGCTTatat   >  1:645657/1‑251 (MQ=255)                                                                                                                                                                                                              aCTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAGAGATATGGTCTAAGGTTAAATTTAAGAAAGGAAAGTCAGAAAGTCAGAACAAATCAGCTTATATg  <  1:317852/251‑1 (MQ=255)                                                                                                                                                                                                               cTGGTACAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAGAGATATGGTCTAAGGt                                                   <  1:708429/201‑1 (MQ=255)                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                    TTAAAATTACCCAAGAAATCTGTTTATAATTGTTTTTATCTTTCGAATTATTATTAATTGTAGTCGGGGCTACAATATTCATTTAGTAGATATAACTTTGGAAAGATTGAAAGCTCCCTGTTTATTTTTGTGTTGGGGGATAAATGAAAACACTTAAGCAAATTTACAGTGGGTGGGAATCGTAGCTGTAAGAAATGGGATTATTACTGGTATAGTTAGTTAGAGGAGATTTGCCAATTAAAGCTTCTTTGTATCTCACATTGGAATTTTAATCATTTTGTTGTTCTAACCAAAATTACTAAAAATTATGCAACTATTCATGATCCCACGATAGGTAAAAGAAAATTTTCTATAAAACAATTATCCAATTCATTTACAGGTGTTACTTTAGAGATATGGTCTAAGGTTAAATTTAAGAAAGGAAAGTCAGAAAGTCAGAACAAATCAGCTTATATG  >  1/1438395‑1438850

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑