Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,426,288	G→A	intergenic (+206/‑166)	ydaY → / → tmpR	pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,426,288	0	G	A	100.0%	211.8 / NA	65	intergenic (+206/‑166)	ydaY/tmpR	pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (31/34);  total (31/34)

GGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAGTTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGC  >  NC_000913/1426154‑1426405                                                                                                                                       |                                                                                                                      ggggTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAattgt                                                                                                                   >  2:1375693/1‑139 (MQ=255)   ggTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTa                                                                                                                 >  1:1334995/1‑139 (MQ=255)            gcctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTac                                                                                                        >  2:436350/1‑139 (MQ=255)             cctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                       <  2:933744/139‑1 (MQ=255)             cctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                       <  2:1334995/139‑1 (MQ=255)               tttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACAct                                                                                                     <  1:980136/139‑1 (MQ=255)                     tctGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTa                                                                                               <  1:898336/139‑1 (MQ=255)                                       atatTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACAct                                                                                                     >  1:1289027/1‑115 (MQ=255)                                       atatTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACAct                                                                                                     <  2:1289027/115‑1 (MQ=255)                                         atTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                       >  2:916965/1‑111 (MQ=255)                                         atTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                       <  1:916965/111‑1 (MQ=255)                                         atTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCtt                                                                           >  2:1144348/1‑139 (MQ=255)                                           ttAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCACGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTtta                                                                         >  1:1022492/1‑139 (MQ=255)                                                  cTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtg                                                                                       >  2:1167523/1‑118 (MQ=255)                                                  cTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtg                                                                                       <  1:1167523/118‑1 (MQ=255)                                                  cTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAAt                                                                  >  2:1270090/1‑139 (MQ=255)                                                   tCATCCGGTATTGATTGGGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTGAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATc                                                                 >  2:1006408/1‑139 (MQ=255)                                                   tCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAAt                                                                                                               <  2:1349930/93‑1 (MQ=255)                                                   tCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAAt                                                                                                               >  1:1349930/1‑93 (MQ=255)                                                   tCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATc                                                                 >  1:719823/1‑139 (MQ=255)                                                     aTCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCga                                                               >  2:885059/1‑139 (MQ=255)                                                        cGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatga                                                            <  1:1144348/139‑1 (MQ=255)                                                         ggTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGTCCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatgat                                                           <  2:1022492/139‑1 (MQ=255)                                                         ggTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatgat                                                           <  1:1270090/139‑1 (MQ=255)                                                              tgattgaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTtta                                                                         <  2:32611/120‑1 (MQ=255)                                                              tgattgaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTtta                                                                         >  1:32611/1‑120 (MQ=255)                                                              tgattgaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTcc                                                      <  1:885059/139‑1 (MQ=255)                                                                    aGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatgat                                                           >  1:62832/1‑128 (MQ=255)                                                                    aGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatgat                                                           <  2:62832/128‑1 (MQ=255)                                                                    aGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTcc                                                      <  2:1391513/133‑1 (MQ=255)                                                                    aGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTcc                                                      >  1:1391513/1‑133 (MQ=255)                                                                     gcgcGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTc                                                       <  2:971898/131‑1 (MQ=255)                                                                     gcgcGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTc                                                       >  1:971898/1‑131 (MQ=255)                                                                     gcgcGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGaa                                               <  1:436350/139‑1 (MQ=255)                                                                                       aGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCg                             >  1:1238209/1‑139 (MQ=255)                                                                                       aGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCg                             >  2:743044/1‑139 (MQ=255)                                                                                        gTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGt                            <  2:642004/139‑1 (MQ=255)                                                                                          gATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTGATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTaa                          >  2:960933/1‑139 (MQ=255)                                                                                            tCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATc                        <  2:881977/139‑1 (MQ=255)                                                                                             cTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCg                       <  1:1070966/139‑1 (MQ=255)                                                                                               ttGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                     <  2:719823/139‑1 (MQ=255)                                                                                                tGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCta                    >  1:223445/1‑139 (MQ=255)                                                                                                 gCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCtat                   <  2:223445/139‑1 (MQ=255)                                                                                                 gCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCtat                   <  1:743044/139‑1 (MQ=255)                                                                                                    cTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATc                <  1:1375693/139‑1 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATg                                                                                  >  1:1003487/1‑70 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATg                                                                                  <  2:1003487/70‑1 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGgt                                                                                >  1:1362919/1‑72 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGgt                                                                                <  2:1362919/72‑1 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatgat                                                           >  2:808080/1‑93 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatgat                                                           <  1:808080/93‑1 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAg                                            >  2:109187/1‑108 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAg                                            <  1:109187/108‑1 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATctac             >  2:1362223/1‑139 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATctac             >  2:1190089/1‑139 (MQ=255)                                                                                                       gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATctac             >  2:975348/1‑139 (MQ=255)                                                                                                                tATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTc    <  2:95592/139‑1 (MQ=255)                                                                                                                  ttttCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGc  <  1:975348/139‑1 (MQ=255)                                                                                                                       aGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTg                                                    >  2:792396/1‑84 (MQ=255)                                                                                                                       aGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTg                                                    <  1:792396/84‑1 (MQ=255)                                                                                                                       aGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATc                <  2:481788/120‑1 (MQ=255)                                                                                                                       aGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATc                >  1:481788/1‑120 (MQ=255)                                                                                                                               tgtgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGc                      >  2:1206584/1‑106 (MQ=255)                                                                                                                               tgtgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGc                      <  1:1206584/106‑1 (MQ=255)                                                                                                                                 tgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                     <  2:159900/105‑1 (MQ=255)                                                                                                                                 tgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                     >  1:159900/1‑105 (MQ=255)                                                                                                                                       |                                                                                                                      GGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAGTTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGC  >  NC_000913/1426154‑1426405

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑