BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,474,769	C→T	6.0%	intergenic (‑165/+104)	bcr_1 ← / ← tcaA	Bicyclomycin resistance protein/Membrane‑associated protein TcaA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,474,769	0	C	T	6.0%	403.5 / 7.8	136	intergenic (‑165/+104)	bcr_1/tcaA	Bicyclomycin resistance protein/Membrane‑associated protein TcaA
Reads supporting (aligned to +/- strand): ref base C (66/56); new base T (6/2); total (72/64)
Fisher's exact test for biased strand distribution p-value = 2.97e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.21e-01

Only 100 of 139 total aligned reads displayed.

TTAGTTTATAACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAATTGCAAGCGGTC  >  USA300TCH1516_ALE/2474629‑2474908

ttAGTTTATAACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTc                                                                                                                                             <  4:155973/141‑1 (MQ=255)

 tAGTTTATAACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTcc                                                                                                                                            >  4:418615/1‑141 (MQ=255)

   gTTTATAACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCcac                                                                                                                                          <  2:68190/141‑1 (MQ=255)

    tttATAACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTcgtgg                                                                                                                                         <  1:714682/141‑5 (MQ=255)

    tttATAACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCcaca                                                                                                                                         >  2:198294/1‑141 (MQ=255)

      tataACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACaaa                                                                                                                                       >  1:871379/1‑141 (MQ=255)

      tataACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACaaa                                                                                                                                       >  1:756232/1‑141 (MQ=255)

       ataACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACaaaa                                                                                                                                      <  4:25977/141‑1 (MQ=255)

        taACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCGTGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACaaaaa                                                                                                                                     >  1:1084531/1‑141 (MQ=255)

          aCTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAAc                                                                                                                                   >  1:193023/1‑141 (MQ=255)

            tATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACaa                                                                                                                                 >  4:111967/1‑141 (MQ=255)

             aTCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAAt                                                                                                                                <  1:743983/141‑1 (MQ=255)

             aTCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCAAAAAAAACAAt                                                                                                                                >  2:959058/1‑141 (MQ=255)

              tCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATc                                                                                                                               >  1:1011142/1‑141 (MQ=255)

                 cGAACAGAAACTAAATTTAAATATGCACTTATATATATTAGCATTAGTCACAAGTTGCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAAAAATAAAAAAAAAAACAATCCCt                                                                                                                            <  2:485009/141‑1 (MQ=255)

                  gAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCtt                                                                                                                           >  3:291298/1‑141 (MQ=255)

                   aaCAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTc                                                                                                                          >  1:441808/1‑141 (MQ=255)

                   aaCAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTc                                                                                                                          >  1:138109/1‑141 (MQ=255)

                     cAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGACCATCATTACAACTTATATAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCaa                                                                                                                        <  4:343621/141‑1 (MQ=255)

                     cAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCaa                                                                                                                        >  3:292300/1‑141 (MQ=255)

                     cAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCaa                                                                                                                        >  2:700024/1‑141 (MQ=255)

                     cAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTACTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTCCATAAATTTTTTCACAAAAAACAATCCCTTCaa                                                                                                                        >  3:278825/1‑141 (MQ=255)

                       gAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAg                                                                                                                      >  3:110861/1‑141 (MQ=255)

                        aaaCTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGt                                                                                                                     >  1:909163/1‑141 (MQ=255)

                           cTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAAt                                                                                                                  >  3:361346/1‑141 (MQ=255)

                           cTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAAt                                                                                                                  <  2:462925/141‑1 (MQ=255)

                           cTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAAt                                                                                                                  <  3:15777/141‑1 (MQ=255)

                           cTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAAt                                                                                                                  >  2:788871/1‑141 (MQ=255)

                              aaTTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCTTAAATTTTTCCACAAAAAACAATCCCTTCAGAGTAATTca                                                                                                               <  4:385088/141‑1 (MQ=255)

                               aTTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTcac                                                                                                              <  2:975602/141‑1 (MQ=255)

                                 ttAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCacac                                                                                                            >  2:520854/1‑141 (MQ=255)

                                 ttAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCacac                                                                                                            <  2:638076/141‑1 (MQ=255)

                                  tAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACt                                                                                                           <  2:143203/141‑1 (MQ=255)

                                     atatGCTCTTTTATATATTAGCGTTAGTCACAAGTTTCATGAACATCATTACAACTCATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAAt                                                                                                        >  4:446423/1‑141 (MQ=255)

                                     atatGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAAt                                                                                                        >  3:147292/1‑141 (MQ=255)

                                       atGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTg                                                                                                      <  3:418615/141‑1 (MQ=255)

                                        tGCTCTTTTATATATTAGCATTAGTCACAAGTTTGATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAAATTAAAAAAAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGt                                                                                                     <  2:944897/141‑1 (MQ=255)

                                        tGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGt                                                                                                     <  2:283920/141‑1 (MQ=255)

                                            ctTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAAt                                                                                                 <  2:391188/141‑1 (MQ=255)

                                                  tatatTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTg                                                                                           >  2:752154/1‑141 (MQ=255)

                                                  tatatTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTg                                                                                           >  1:82563/1‑141 (MQ=255)

                                                      ttAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAg                                                                                       >  4:82081/1‑141 (MQ=255)

                                                      ttAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAg                                                                                       >  2:980952/1‑141 (MQ=255)

                                                      ttAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAg                                                                                       >  4:200754/1‑141 (MQ=255)

                                                         gCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATACCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGAt                                                                                    >  1:697392/1‑141 (MQ=255)

                                                               gTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATgttgtt                                                                              >  1:40543/1‑141 (MQ=255)

                                                               gTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATgttgtt                                                                              <  1:1022187/141‑1 (MQ=255)

                                                               gTCACAAGTCTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATgttgtt                                                                              <  2:40624/141‑1 (MQ=255)

                                                               gTCACAAGGTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATgttgtt                                                                              <  2:271424/141‑1 (MQ=255)

                                                                tCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGttgttt                                                                             <  4:324311/141‑1 (MQ=255)

                                                                tCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGttgttt                                                                             <  3:75876/141‑1 (MQ=255)

                                                                  acaAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGttgtttgt                                                                           >  2:34273/1‑141 (MQ=255)

                                                                  acaAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGttgtttgt                                                                           <  2:555766/141‑1 (MQ=255)

                                                                    aaGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTAt                                                                         <  2:577624/141‑1 (MQ=255)

                                                                     aGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTAtt                                                                        >  1:670642/1‑141 (MQ=255)

                                                                       tttCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATACATTTTTCCACAAAAAACAATCCCTTCACAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTcc                                                                      <  3:195132/141‑1 (MQ=255)

                                                                       tttCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTcc                                                                      <  1:424812/141‑1 (MQ=255)

                                                                         tCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCAt                                                                    >  2:320731/1‑141 (MQ=255)

                                                                         tCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATCCCAt                                                                    >  1:648941/1‑141 (MQ=255)

                                                                         tCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAACGGAGTTGTTTGTATTCCAt                                                                    >  1:555792/1‑141 (MQ=255)

                                                                           aTGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGa                                                                  >  2:588923/1‑141 (MQ=255)

                                                                           aTGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGa                                                                  >  4:102004/1‑141 (MQ=255)

                                                                                catcatTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACAt                                                             >  3:11891/1‑141 (MQ=255)

                                                                                       aCAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTCCATAAATTTTTTCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCtt                                                      >  3:147590/1‑141 (MQ=255)

                                                                                          aCTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTAtt                                                   <  2:928215/141‑1 (MQ=255)

                                                                                              ataAAAGGTATAAAATGATATAAACCTCAGCACTCCATAAATTTTTTCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAg                                               >  4:271912/1‑141 (MQ=255)

                                                                                                 aaaGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGttt                                            >  2:589424/1‑141 (MQ=255)

                                                                                                  aaGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGtttt                                           >  4:8526/1‑141 (MQ=255)

                                                                                                  aaGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGtttt                                           >  3:372592/1‑141 (MQ=255)

                                                                                                  aaGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGtttt                                           >  2:399983/1‑141 (MQ=255)

                                                                                                    ggTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTtat                                         >  1:158764/1‑141 (MQ=255)

                                                                                                       ataAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATAct                                      >  1:1017095/1‑141 (MQ=255)

                                                                                                       ataAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATAct                                      >  4:44219/1‑141 (MQ=255)

                                                                                                       ataAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATAct                                      <  1:362452/141‑1 (MQ=255)

                                                                                                       ataAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATGCAGACTAATTGTGATTACTTTGAAAGGTGGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATAct                                      >  1:647203/1‑141 (MQ=255)

                                                                                                        taAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATActc                                     <  1:700913/141‑1 (MQ=255)

                                                                                                           aaTGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTAt                                  <  1:403954/141‑1 (MQ=255)

                                                                                                            aTGATATAAACCTCAGCACTCCATAAATTTTTTCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTAtt                                 <  1:446182/141‑1 (MQ=255)

                                                                                                             tGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTAttt                                <  4:283209/141‑1 (MQ=255)

                                                                                                             tGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTAttt                                <  1:51505/141‑1 (MQ=255)

                                                                                                               atatAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTAttttt                              >  2:233981/1‑141 (MQ=255)

                                                                                                                tataAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTACCCCATTTCACATGCATCTTATTTAAGTTTTATACTCTATTTTTc                             <  1:1062650/141‑1 (MQ=255)

                                                                                                                 attaaCCTCAGCACTTCATAAATTTTTCCAAAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCt                            <  4:392836/138‑1 (MQ=255)

                                                                                                                 ataAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCt                            <  2:233257/141‑1 (MQ=255)

                                                                                                                    aaCCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGAt                         >  2:715737/1‑141 (MQ=255)

                                                                                                                     aCCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATg                        >  1:993559/1‑141 (MQ=255)

                                                                                                                       cTCAGCACTCCATAAATTTTTTCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTc                      <  2:11174/141‑1 (MQ=255)

                                                                                                                        tCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCt                     <  1:273207/141‑1 (MQ=255)

                                                                                                                         cAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCtt                    >  4:226810/1‑141 (MQ=255)

                                                                                                                          aGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTg                   >  2:209541/1‑141 (MQ=255)

                                                                                                                               ttCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTaa              <  2:336701/141‑1 (MQ=255)

                                                                                                                                tCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAAt             <  1:1002453/141‑1 (MQ=255)

                                                                                                                                  aTAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAATTg           <  3:121338/141‑1 (MQ=255)

                                                                                                                                   tAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTg                           >  1:919782/1‑124 (MQ=255)

                                                                                                                                   tAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAATTGc          >  2:499144/1‑141 (MQ=255)

                                                                                                                                    aaaTTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAATTGCa         <  4:31591/141‑1 (MQ=255)

                                                                                                                                     aaTTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAATTGCaa        <  2:107374/141‑1 (MQ=255)

                                                                                                                                        tttgCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACGCTATTTTTCTGATGTCTTGATTAATTGCAAGCg     <  2:1020263/141‑1 (MQ=255)

                                                                                                                                         tttCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAATTGCAAGCgg    <  2:496755/141‑1 (MQ=255)

                                                                                                                                           tCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAATTGCAAGCGGTc  <  4:145677/141‑1 (MQ=255)

TTAGTTTATAACTATCACGAACAGAAACTAAATTTAAATATGCTCTTTTATATATTAGCATTAGTCACAAGTTTCATGAACATCATTACAACTTATAAAAGGTATAAAATGATATAAACCTCAGCACTTCATAAATTTTTCCACAAAAAACAATCCCTTCAAAGTAATTCACACTAATTGTAAATACTTTGAAAGGATGTTGTTTGTATTCCATGACACATGCATCTTATTTAAGTTTTATACTCTATTTTTCTGATGTCTTGATTAATTGCAAGCGGTC  >  USA300TCH1516_ALE/2474629‑2474908

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`