Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,435,114	A→G	W175R (TGG→CGG)	truA ←	tRNA pseudouridine(38‑40) synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,435,114	0	A	G	100.0%	210.6 / NA	57	W175R (TGG→CGG)	truA	tRNA pseudouridine(38‑40) synthase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (42/15);  total (42/15)

CCGACAATATTCCTGACCATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCACGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTACCG  >  NC_000913/2435011‑2435248                                                                                                        |                                                                                                                                       ccGACAATATTCCTGACCATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACg                                                                                                     >  2:782303/1‑139 (MQ=255)               gACCATATGATGTAC‑AAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATtct                                                                                      <  1:449254/139‑1 (MQ=255)                  cATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCa                                                                                                                 >  1:109306/1‑110 (MQ=255)                  cATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCa                                                                                                                 <  2:109306/110‑1 (MQ=255)                    tatGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGcc                                                                                  >  1:828645/1‑139 (MQ=255)                          gTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCagcaa                                                                            >  2:149455/1‑139 (MQ=255)                            aCAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCcgcg                                                                                                                                      >  2:151830/1‑79 (MQ=255)                            aCAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCagcaagc                                                                          >  1:962557/1‑139 (MQ=255)                              aaaaGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCAt                                                                        >  2:827669/1‑139 (MQ=255)                               aaaGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATTACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCTCCGCACGGAACGAGGTGAAATCATTCTCGCCCcgcaagcaat                                                                       >  2:868448/1‑137 (MQ=255)                                aaGCATTCGCTTTAATACCTACCACCACATAAGGACCGTGACGCGGGACATTAATATGCATAACTTTGCCCCGCGGGGTTCGGGACTGGCCCTGCACCGCCCGGAACGAGGTGAAATCATTCTCGCCAAGCAAGCATTg                                                                      >  2:564333/1‑139 (MQ=255)                                   cATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCAc                                                                                                                <  1:433417/94‑1 (MQ=255)                                   cATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCAc                                                                                                                >  2:433417/1‑94 (MQ=255)                                       cGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTgcg                                                                    >  1:426610/1‑134 (MQ=255)                                       cGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTgcg                                                                    <  2:426610/134‑1 (MQ=255)                                                    accaccACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGtt                                                  >  1:517650/1‑139 (MQ=255)                                                        ccacATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGc                                              >  1:1031022/1‑139 (MQ=255)                                                         cacaTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCg                                             >  2:283320/1‑139 (MQ=255)                                                           caTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTc                                           >  2:626066/1‑139 (MQ=255)                                                           caTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTc                                           >  1:300001/1‑139 (MQ=255)                                                           caTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTc                                           >  1:941339/1‑139 (MQ=255)                                                           caTAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTc                                           >  1:645863/1‑139 (MQ=255)                                                               aGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGc                                       >  2:39442/1‑139 (MQ=255)                                                                   ccGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGtt                                   >  2:673870/1‑139 (MQ=255)                                                                    cGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTc                                  <  1:296570/139‑1 (MQ=255)                                                                    cGTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTc                                  >  2:296570/1‑139 (MQ=255)                                                                     gTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATg                                                          >  2:494764/1‑114 (MQ=255)                                                                     gTGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATg                                                          <  1:494764/114‑1 (MQ=255)                                                                      tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTc                                  <  2:593686/137‑1 (MQ=255)                                                                      tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTc                                  >  1:593686/1‑137 (MQ=255)                                                                      tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  1:319871/1‑139 (MQ=255)                                                                      tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  2:322473/1‑139 (MQ=255)                                                                      tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  2:832297/1‑139 (MQ=255)                                                                      tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  1:847256/1‑139 (MQ=255)                                                                      tGACGCGTGACATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGt                                >  1:863237/1‑139 (MQ=255)                                                                                cATTAATATGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      <  1:564333/139‑1 (MQ=255)                                                                                        tGCATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCtt              >  1:200056/1‑139 (MQ=255)                                                                                          cATAACGTTGCGCCGCGGTGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTa            >  2:622314/1‑139 (MQ=255)                                                                                          cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCAt                                                       <  2:50555/96‑1 (MQ=255)                                                                                          cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCAt                                                       >  1:50555/1‑96 (MQ=255)                                                                                          cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      <  2:668413/129‑1 (MQ=255)                                                                                          cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      >  1:668413/1‑129 (MQ=255)                                                                                          cATAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGATACCCCTTTa            >  1:361773/1‑139 (MQ=255)                                                                                           aTAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAAt                                                                                            >  1:313772/1‑58 (MQ=255)                                                                                           aTAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAAt                                                                                            <  2:313772/58‑1 (MQ=255)                                                                                           aTAACGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTAc           >  1:542397/1‑139 (MQ=255)                                                                                               cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAg                                        <  2:150979/106‑1 (MQ=255)                                                                                               cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAg                                        >  1:150979/1‑106 (MQ=255)                                                                                               cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTagaaa                           <  1:764285/119‑1 (MQ=255)                                                                                               cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTaaaaa                           >  2:764285/1‑119 (MQ=255)                                                                                               cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAg       >  1:471283/1‑139 (MQ=255)                                                                                               cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAg       >  2:429413/1‑139 (MQ=255)                                                                                               cGTTGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAg       >  1:495492/1‑139 (MQ=255)                                                                                                  tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAAc                                                                                                      <  1:214345/41‑1 (MQ=255)                                                                                                  tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAAc                                                                                                      >  2:214345/1‑41 (MQ=255)                                                                                                  tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACt          <  2:149446/133‑1 (MQ=255)                                                                                                  tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACt          >  1:149446/1‑133 (MQ=255)                                                                                                  tGCGCCGCGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTAc    >  1:870271/1‑139 (MQ=255)                                                                                                    cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAAc                                                                                                      <  2:387845/39‑1 (MQ=255)                                                                                                    cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAAc                                                                                                      >  1:387845/1‑39 (MQ=255)                                                                                                    cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCg                                      >  1:791858/1‑103 (MQ=255)                                                                                                    cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCg                                      <  2:791858/103‑1 (MQ=255)                                                                                                    cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      >  2:642721/1‑119 (MQ=255)                                                                                                    cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGt                      <  1:642721/119‑1 (MQ=255)                                                                                                    cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTAccg  >  1:955860/1‑139 (MQ=255)                                                                                                    cgccgcGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTAccg  >  1:797065/1‑139 (MQ=255)                                                                                                        |                                                                                                                                       CCGACAATATTCCTGACCATATGATGTACAAAAGCATTCGCTTTAATATCTACCACCACATAAGGACCGTGACGCGTGACATTAATATGCATAACGTTGCGCCACGGGGTTCGGGACTGGCACTGCACCGCACGGAACGAGGTGAAATCATTCTCGCCCAGCAAGCATTGCGCAGCCCGATGCATCCGTTCAGCGTCCAGCGGTTCGTAAAAATGGGTTACCCCTTTACTCAGTACCG  >  NC_000913/2435011‑2435248

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑