BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,873,627	Δ1 bp	coding (506/672 nt)	yidX →	putative replicase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,873,625	0	G	.	100.0%	454.1 / NA	99	coding (504/672 nt)	yidX	putative replicase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (59/40); total (59/40)

Only 100 of 106 total aligned reads displayed.

TTACTCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCGGGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCAATTT  >  NC_000913/3873550‑3873695

ttACTCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCg                                                                        >  1:904672/1‑76 (MQ=255)

 tACTCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCgg                                                                       >  1:125223/1‑76 (MQ=255)

   cTCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCggat                                                                     >  2:2617319/1‑74 (MQ=255)

   cTCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCggat                                                                     >  2:1024051/1‑74 (MQ=255)

   cTCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCggat                                                                     >  2:1028512/1‑74 (MQ=255)

   cTCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCggat                                                                     >  1:1643137/1‑74 (MQ=255)

    tCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCggatg                                                                    >  2:4365268/1‑73 (MQ=255)

      aaaGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGgt                                                                 >  1:1367751/1‑76 (MQ=255)

      aaaGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGgt                                                                 >  1:3805752/1‑76 (MQ=255)

      aaaGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGgt                                                                 >  1:4490652/1‑76 (MQ=255)

      aaaGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGgt                                                                 >  2:3125381/1‑76 (MQ=255)

       aaGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGgtg                                                                >  2:291833/1‑76 (MQ=255)

       aaGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGgtg                                                                >  2:271036/1‑76 (MQ=255)

         ggTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGtt                                                              >  1:1321852/1‑76 (MQ=255)

           tGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTc                                                            >  2:687631/1‑76 (MQ=255)

            gATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTcc                                                           >  2:3753719/1‑76 (MQ=255)

              tGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgc                                                         <  1:1665319/76‑1 (MQ=255)

               ggCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCCTTCC‑GGATGGTGTTTCCgca                                                        >  2:4715888/1‑76 (MQ=255)

                gCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcag                                                       <  2:4473279/76‑1 (MQ=255)

                gCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcag                                                       <  1:4179137/76‑1 (MQ=255)

                gCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcag                                                       >  1:60500/1‑76 (MQ=255)

                 cGTTCTACCATCCATTTAAAGTGCGATTTTCTGAATCCTCTTCCCCCAGAGCACTTCC‑GGATGGTGTTTCCgcagc                                                      >  2:3540888/1‑76 (MQ=255)

                 cGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcagc                                                      <  2:2205208/76‑1 (MQ=255)

                 cGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcagc                                                      >  2:3522163/1‑76 (MQ=255)

                 cGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcagc                                                      <  1:4480838/76‑1 (MQ=255)

                 cGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcagc                                                      <  1:2382315/76‑1 (MQ=255)

                  gTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcagcc                                                     >  2:176669/1‑75 (MQ=255)

                  gTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcagca                                                     >  1:2814214/1‑76 (MQ=255)

                  gTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCgcagca                                                     <  1:1235783/76‑1 (MQ=255)

                   ttCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCAt                                                    <  1:2617319/76‑1 (MQ=255)

                    tCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTGC‑GCATGGTGTTTCCgcagcact                                                   >  2:4584880/1‑74 (MQ=255)

                    tCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCAtt                                                   >  1:3756364/1‑76 (MQ=255)

                       aCCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACt                                                >  2:260639/1‑76 (MQ=255)

                       aCCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACt                                                >  2:4208271/1‑76 (MQ=255)

                       aCCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACt                                                >  2:3217203/1‑76 (MQ=255)

                        ccatccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTg                                               >  1:3484408/1‑76 (MQ=255)

                         catccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGc                                              <  1:3839570/76‑1 (MQ=255)

                         catccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGc                                              >  2:3601883/1‑76 (MQ=255)

                         catccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGc                                              <  1:1024052/76‑1 (MQ=255)

                         catccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGc                                              >  2:1568976/1‑76 (MQ=255)

                          gtccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGcc                                             <  1:4741780/75‑1 (MQ=255)

                          atccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGcc                                             >  1:1711805/1‑76 (MQ=255)

                          atccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGcc                                             <  1:248878/76‑1 (MQ=255)

                           tccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCa                                            >  2:3055783/1‑76 (MQ=255)

                            ccatTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAg                                           >  2:3615830/1‑76 (MQ=255)

                             catTTAAAGTGCGCTTTTATGAATACTATTCACCCAGTGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGt                                          <  2:3289348/76‑1 (MQ=255)

                             catTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGt                                          >  1:818571/1‑76 (MQ=255)

                                 tcaaGTGCGATTTTATGAAGCCTCTTCACCCAGAGGCCTTCC‑GGATGGGGTTTCCGCAGCATTACTTCCAGTGACt                                      >  2:3933499/3‑76 (MQ=255)

                                 tAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACt                                      >  2:3463323/1‑76 (MQ=255)

                                 tAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACt                                      <  2:1632041/76‑1 (MQ=255)

                                 tAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACt                                      >  2:3895856/1‑76 (MQ=255)

                                 tAAAGTGCGATTTTAGAAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACt                                      <  1:847914/76‑1 (MQ=255)

                                  aaaGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGATTCCGCAGCATTACTGCCAGTGACTg                                     >  1:2829428/1‑76 (MQ=255)

                                   aaGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGCCTGt                                    >  2:4806870/1‑76 (MQ=255)

                                    aGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGtt                                   >  1:2927976/1‑76 (MQ=255)

                                    aGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGtt                                   >  2:1818855/1‑76 (MQ=255)

                                      tGCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTAc                                 <  1:1125673/76‑1 (MQ=255)

                                       gCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACg                                >  1:3158498/1‑76 (MQ=255)

                                       gCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACg                                >  2:763409/1‑76 (MQ=255)

                                       gCGATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACg                                <  2:3801985/76‑1 (MQ=255)

                                         gATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCt                              <  1:1028513/76‑1 (MQ=255)

                                         gATTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCt                              >  2:1939935/1‑76 (MQ=255)

                                          aTTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTg                             >  2:4782051/1‑76 (MQ=255)

                                          aTTTTATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTg                             <  2:4737186/76‑1 (MQ=255)

                                           ttttATGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTgg                            >  1:2783816/1‑76 (MQ=255)

                                               aTGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGAcat                        <  2:3833668/76‑1 (MQ=255)

                                                tGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGAcatc                       <  1:1996607/76‑1 (MQ=255)

                                                tGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGAcatc                       <  2:1584584/76‑1 (MQ=255)

                                                tGAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGAcatc                       >  1:4061282/1‑76 (MQ=255)

                                                 gAATACTATTCACCCAGCGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGAcatca                      <  2:4323874/76‑1 (MQ=255)

                                                 gAATACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGAcatca                      <  2:4285102/76‑1 (MQ=255)

                                                   aTACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCAtt                    <  2:3835885/76‑1 (MQ=255)

                                                   aTACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCAtt                    <  2:3824354/76‑1 (MQ=255)

                                                   aTACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCAtt                    >  1:3499552/1‑76 (MQ=255)

                                                   aTACTATTCACCCAGAGGCATTCC‑GGATGGAGTTGCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCAtt                    >  2:2771316/1‑76 (MQ=255)

                                                    tACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCAttc                   >  2:187773/1‑75 (MQ=255)

                                                    tACTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAACATTACTGCCAGTGACTGTTACGCTGGACATCATTa                   <  1:4454167/76‑1 (MQ=255)

                                                     aCTATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTAc                  <  1:343384/76‑1 (MQ=255)

                                                       tATTCCCCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTg                <  1:4563828/76‑1 (MQ=255)

                                                       tATTCACGCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTg                <  1:526801/76‑1 (MQ=255)

                                                       tATTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTg                <  1:1261533/76‑1 (MQ=255)

                                                        aTTCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGc               >  2:2613598/1‑76 (MQ=255)

                                                         ttCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCCTTACTGCa              >  2:1820833/1‑76 (MQ=255)

                                                          tCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACCTCCTTACTGCAc             >  2:4603083/1‑76 (MQ=255)

                                                          tCACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCAc             >  1:2161189/1‑76 (MQ=255)

                                                           cACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCAcc            >  2:3954914/1‑76 (MQ=255)

                                                           cACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCAcc            <  1:687631/76‑1 (MQ=255)

                                                           cACCCAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCAcc            >  1:4717390/1‑76 (MQ=255)

                                                             cccAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCAcccc          >  2:537636/1‑74 (MQ=255)

                                                             cccAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGc          >  1:2502613/1‑76 (MQ=255)

                                                              ccAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCt         >  1:3096429/1‑76 (MQ=255)

                                                               cAGAGGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTg        >  2:3204468/1‑76 (MQ=255)

                                                                agagGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGc       <  2:3544232/76‑1 (MQ=255)

                                                                  agGCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCaa     <  2:439710/76‑1 (MQ=255)

                                                                   ggCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCAAt    >  2:880799/1‑76 (MQ=255)

                                                                    gCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCAAtt   <  1:1649342/76‑1 (MQ=255)

                                                                    gCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCAAtt   <  1:1614033/76‑1 (MQ=255)

                                                                    gCATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCAAtt   <  1:1220142/76‑1 (MQ=255)

                                                                     cATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCAAttt  <  1:1898511/76‑1 (MQ=255)

                                                                     cATTCC‑GGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCAAttt  >  1:4171693/1‑76 (MQ=255)

TTACTCAAAGGTGATGGCGTTCTACCATCCATTTAAAGTGCGATTTTATGAATACTATTCACCCAGAGGCATTCCGGGATGGTGTTTCCGCAGCATTACTGCCAGTGACTGTTACGCTGGACATCATTACTGCACCGCTGCAATTT  >  NC_000913/3873550‑3873695

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`