Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,541,559	G→A	*201* (TAG→TAA)	fimB →	tyrosine recombinase/inversion of on/off regulator of fimA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,541,559	0	G	A	100.0%	175.6 / NA	54	*201* (TAG→TAA)	fimB	tyrosine recombinase/inversion of on/off regulator of fimA
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (24/30);  total (24/30)

ATACGCGACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAGAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACGATATATCAAAAATGATTAACCATTTATTAATTGATGTTATTGTAAGTGTGATTCTTAATTATCATAATAAACA  >  NC_000913/4541426‑4541681                                                                                                                                      |                                                                                                                           aTACGCGACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGAt                                                                                                                        <  1:1037563/138‑1 (MQ=255) aTACGCGACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGAt                                                                                                                        >  2:1037563/1‑138 (MQ=255)     gcgACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTg                                                                                                                   <  2:833599/139‑1 (MQ=255)     gcgACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTg                                                                                                                   <  1:391877/139‑1 (MQ=255)      cgACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  <  2:756695/139‑1 (MQ=255)      cgACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  >  1:906579/1‑139 (MQ=255)       gACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTgag                                                                                                                 <  2:881726/139‑1 (MQ=255)                 ggATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGa                                                                                                       <  2:906579/139‑1 (MQ=255)                        cTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGtt                                                                                                <  2:793540/139‑1 (MQ=255)                             gCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTaaaaa                                                                                           <  1:70856/139‑1 (MQ=255)                                 cGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGAt                                                                                                                        >  1:1033226/1‑106 (MQ=255)                                 cGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGAt                                                                                                                        <  2:1033226/106‑1 (MQ=255)                                 cGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  >  1:1009953/1‑112 (MQ=255)                                 cGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  <  2:1009953/112‑1 (MQ=255)                                  gCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAATACTACa                                                                                      <  2:30821/139‑1 (MQ=255)                                                         tataCCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGtt                                                                                                                    <  2:102849/86‑1 (MQ=255)                                                         tataCCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGtt                                                                                                                    >  1:102849/1‑86 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTgag                                                                                                                 >  2:895475/1‑84 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTgag                                                                                                                 <  1:895475/84‑1 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  <  1:475454/83‑1 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  >  2:475454/1‑83 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGAt                                                                                                               >  2:253662/1‑86 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGAt                                                                                                               <  1:253662/86‑1 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATAcc                                                                                                            >  1:823546/1‑89 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATAcc                                                                                                            <  2:823546/89‑1 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACa                                                                                      <  2:1005047/111‑1 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACa                                                                                      >  1:1005047/1‑111 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACGATATATCAAAAATGAtt                                                          >  2:817116/1‑139 (MQ=255)                                                              cGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAAAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACGATATATCAAAAATGAtt                                                          >  2:181536/1‑139 (MQ=255)                                                                ccAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTgag                                                                                                                 >  1:527687/1‑82 (MQ=255)                                                                ccAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTgag                                                                                                                 <  2:527687/82‑1 (MQ=255)                                                                  aGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  <  1:394983/79‑1 (MQ=255)                                                                  aGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  >  2:394983/1‑79 (MQ=255)                                                                  aGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACat                                                                                     >  2:555370/1‑108 (MQ=255)                                                                  aGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACat                                                                                     <  1:555370/108‑1 (MQ=255)                                                                                  tttACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATaaag                                                                                                                          >  2:913710/1‑55 (MQ=255)                                                                                  tttACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATaaag                                                                                                                          <  1:913710/55‑1 (MQ=255)                                                                                          aTCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTg                                                                                                                   <  2:153109/54‑1 (MQ=255)                                                                                          aTCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTg                                                                                                                   >  1:153109/1‑54 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  >  2:892024/1‑44 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  >  1:1128219/1‑44 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  <  1:892024/44‑1 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTga                                                                                                                  <  2:1128219/44‑1 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTg                                                                                                                   >  2:446410/1‑43 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTg                                                                                                                   <  1:446410/43‑1 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGa                                                                                                       <  2:400158/55‑1 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGa                                                                                                       >  1:400158/1‑55 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACa                                                                                      <  2:272097/72‑1 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACa                                                                                      >  1:272097/1‑72 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACg                                                                           <  1:1081816/83‑1 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACg                                                                           >  2:1081816/1‑83 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACGATATATCAAAAATGATTAACCATTTATTAATTGATGTTATTGTaa                              <  2:867374/128‑1 (MQ=255)                                                                                                     agCCAGAGGACGACAGCGTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACGATATATCAAAAATGATTAACCATTTATTAATTGATGTTATTGTaa                              >  1:867374/1‑128 (MQ=255)                                                                                                           agGACGACAGCGTCACGCTGTTTTATAAAGATAGTTg                                                                                                                   <  1:153624/37‑1 (MQ=38)                                                                                                           agGACGACAGCGTCACGCTGTTTTATAAAGATAGTTg                                                                                                                   >  2:153624/1‑37 (MQ=38)                                                                                                                      gTCACGCTGTTTTATAAAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACGATATATCAAAAATGATTAACCATTTATTAATTGATGTTATTGTAAGTGTGATTCTTAATTATCATAATAAACa  <  1:817116/139‑1 (MQ=255)                                                                                                                                      |                                                                                                                           ATACGCGACTTATCCAGGATTATCTTGGGCATCGCAATATTCGTCATACTGTCTGGTATACCGCCAGCAATGCAGGGCGTTTTTACGGCATCTGGGATAGAGCCAGAGGACGACAGCGTCACGCTGTTTTATAGAGATAGTTGAGATACCAGGGATGGTGTTAAAAACTACATTATTCTTACGATATATCAAAAATGATTAACCATTTATTAATTGATGTTATTGTAAGTGTGATTCTTAATTATCATAATAAACA  >  NC_000913/4541426‑4541681

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑