BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,027,006	G→A	5.9%	A314V (GCT→GTT)	vraS ←	Sensor protein VraS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,027,006	0	G	A	5.9%	241.2 / 2.9	87	A314V (GCT→GTT)	vraS	Sensor protein VraS
Reads supporting (aligned to +/- strand): ref base G (43/37); new base A (3/3); total (47/40)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01

TATACGTACCATTTCATGATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACTTTTGTACCGTTTG  >  USA300TCH1516_ALE/2026866‑2027144

tataCGTACCATTTCATTGTCATCCACAAAAAATACTTTAATCGTTATGCGTTTGTTTCCGATTTAAAGATTCTTGCAGCTTGATTTGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCATCA‑ATTTCCAAAg                                                                                                                                            <  2:354902/141‑1 (MQ=255)

  taCGTACCATTTCATGATCATCCACCAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGct                                                                                                                                          <  2:741688/141‑1 (MQ=255)

        ccATTTCATGATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCa                                                                                                                                    >  1:211966/1‑141 (MQ=255)

           tttCATGATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGc                                                                                                                                 >  1:680557/1‑141 (MQ=255)

           tttCATGATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGc                                                                                                                                 >  1:443715/1‑141 (MQ=255)

           tttCATGATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGc                                                                                                                                 >  1:288020/1‑141 (MQ=255)

            ttctgtatcttcCACAAACGATATGTTGATTGTTAAACTAATTCTCCTTATGTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCa                                                                                                                                <  2:423581/135‑1 (MQ=255)

             tCATGATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATATAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCAAAAGCTCATTAAccaat                                                                                                                               >  2:30537/1‑137 (MQ=255)

               aTGATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGAGCACACACCTCGATACGTGTACCTGAATCTAGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCatat                                                                                                                             >  1:29449/1‑141 (MQ=255)

                 gATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATAttt                                                                                                                           <  1:635810/141‑1 (MQ=255)

                 gATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGCAACGTTTCACGC‑ATTTCCAACGCTCTTTCACGTATAttt                                                                                                                           >  2:475501/1‑141 (MQ=255)

                        cacaAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTc                                                                                                                    >  1:707647/1‑141 (MQ=255)

                        cacaAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTc                                                                                                                    <  1:191353/141‑1 (MQ=255)

                           aaacaaTACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCAt                                                                                                                 <  1:701246/141‑1 (MQ=255)

                           aaacaaTACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAACTCTTTCACGCATATTTTTAAGTCCAt                                                                                                                 <  2:610298/141‑1 (MQ=255)

                           aaacaaGACTTTAATCGTCATACGAATCCTCCGTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCAt                                                                                                                 <  2:364551/141‑1 (MQ=255)

                              caaTACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAACTCTTTCACGCATATTTTTAAGTCAATAAc                                                                                                              >  2:738273/1‑141 (MQ=255)

                               aaTACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTCTACCTGAATCTGGCAATTATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACTCATATTTTTCCCTCCTTAACt                                                                                                             >  2:101490/1‑141 (MQ=255)

                                  aCTTTAAACGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTg                                                                                                          >  2:534008/1‑141 (MQ=255)

                                   cTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGt                                                                                                         <  1:687409/141‑1 (MQ=255)

                                    tttAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATCGAACGTTGCACCA‑ATTTCCAACACTCTTTCACCCATCTTTTTAACTCCATAACTTTGtt                                                                                                        >  2:156109/1‑141 (MQ=255)

                                    tttAATCGTCATACGAATCCTCCTTATATAAAGGTGCTTTCACCTAGAAACAAAAAACTGAATCTAGCAATGATACAATATGGACCGATGCACCA‑ATTTCCAAACCTCTTTCACCCATACATTTCAATACATAACTTTgat                                                                                                        >  2:518347/1‑139 (MQ=255)

                                      tAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTCCCTGATTCTTTCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCt                                                                                                      <  1:368588/141‑1 (MQ=255)

                                             cATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAAttttt                                                                                               >  1:331114/1‑141 (MQ=255)

                                             cATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAAttttt                                                                                               >  1:64079/1‑141 (MQ=255)

                                             cATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAAttttt                                                                                               >  1:676842/1‑141 (MQ=255)

                                                 cGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTtcatc                                                                                           >  2:743987/1‑141 (MQ=255)

                                                     tccttcTTATGTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACa                                                                                       <  1:561498/141‑1 (MQ=255)

                                                       ctcctTATTTATAGGTGCTTTCATCTCGATACGTGTATCTGAATCTGGCAATCATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATATCTTTGTTCTAATTTTTCATCAACAtt                                                                                     <  2:694074/141‑1 (MQ=255)

                                                       ctcctTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACAtt                                                                                     <  2:76896/141‑1 (MQ=255)

                                                        tcctTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTa                                                                                    >  1:235963/1‑141 (MQ=255)

                                                          ctTATTTCAAGGTGGTTTCTATTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGGACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTaaa                                                                                  <  2:361580/141‑1 (MQ=255)

                                                             aTTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAAcc                                                                               <  2:176290/141‑1 (MQ=255)

                                                               tgaaaGGTGCTTTCACCTCGATACGAGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAACTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCtt                                                                             <  1:397792/139‑1 (MQ=255)

                                                                tAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCttt                                                                            <  1:534008/141‑1 (MQ=255)

                                                                   aGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTAcc                                                                         >  1:621467/1‑141 (MQ=255)

                                                                    ggTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCa                                                                        >  1:566357/1‑141 (MQ=255)

                                                                     gTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAAGGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCAt                                                                       <  2:503471/141‑1 (MQ=255)

                                                                          ttCACCTCGATACTTGTACTCGAATCTGGCAATGATACAATATTGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCt                                                                  <  2:627801/141‑1 (MQ=255)

                                                                          ttCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCt                                                                  <  2:258041/141‑1 (MQ=255)

                                                                          ttCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCt                                                                  <  1:476710/141‑1 (MQ=255)

                                                                          ttCACCTCGATACATGTATCTGAGTCTGGCAATGATACAATATGGAAAGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTATTCTAATTTTTCATCAACATTAAATCCTTCACTATCATCt                                                                  >  2:481386/1‑141 (MQ=255)

                                                                            cACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTCCCATTATCttc                                                                >  1:480785/1‑140 (MQ=255)

                                                                            cACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTg                                                                <  1:125298/141‑1 (MQ=255)

                                                                            cACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCAAAATAGATAGAAAGAT‑TGTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTg                                                                <  1:368341/141‑1 (MQ=255)

                                                                             aCCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAACACCTTTACCATTATCTTGa                                                               >  2:160134/1‑141 (MQ=255)

                                                                              ccTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAACACCTTTACCATTATCTTGaa                                                              >  2:328395/1‑141 (MQ=255)

                                                                                tCGATACGTGTTCCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAAtt                                                            <  2:430440/141‑1 (MQ=255)

                                                                                    tACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCAATATCTTTAATTCTca                                                        >  2:31967/1‑141 (MQ=255)

                                                                                        tgtACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTcaacaa                                                    >  1:213392/1‑141 (MQ=255)

                                                                                        tgtACCTGAATCTGGCAATGATACAATATGGAACGTTGCACAA‑AATTCCAAAGCTATTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCCcaacaa                                                    >  2:558726/1‑141 (MQ=255)

                                                                                          tACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTCCCATTATCTTGAATTCTCAACaata                                                  <  1:412460/141‑1 (MQ=255)

                                                                                            ccTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACaataaa                                                >  1:135996/1‑141 (MQ=255)

                                                                                            ccTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACaataaa                                                <  1:160903/141‑1 (MQ=255)

                                                                                              tGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGATCTTTCACGCATATTTTTAAGTCAATAACTTTGTTATAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACactaaata                                              >  2:248469/1‑141 (MQ=255)

                                                                                                 aTCTGGAAATGATACGATATGGAACGTTGCGCCA‑ATTTACGTCAGGCTTTTACGCATATTTTTAAGTGCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATc                                           <  2:351662/141‑1 (MQ=255)

                                                                                                     ggCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTCAGACCATAACTTTGTTCTAATTTTTCATCAACATTCAAACCTTTACCATTATCTTGAATTCTCAACACTAACTAATCGTCt                                       >  2:238963/1‑141 (MQ=255)

                                                                                                     ggCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCt                                       <  1:748352/141‑1 (MQ=255)

                                                                                                     ggCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCt                                       >  1:556975/1‑141 (MQ=255)

                                                                                                     ggCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCt                                       <  1:158931/141‑1 (MQ=255)

                                                                                                     ggCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCt                                       <  1:631167/141‑1 (MQ=255)

                                                                                                      gCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCGCTTTCACGCATATTTTTAAGTCCATAACTTTGTGCTAATTTTTCATCAACATTAAAAGCTTTACCATTATCTTGAATTCTCAACAATAAGTAATCGTCtt                                      >  2:155295/1‑141 (MQ=255)

                                                                                                          tGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTttatt                                  <  2:687492/141‑1 (MQ=255)

                                                                                                            aTACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTaa                                <  1:165326/141‑1 (MQ=255)

                                                                                                               cAATAGGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACa                             <  2:506174/141‑1 (MQ=255)

                                                                                                                 atatGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAAt                           >  1:134962/1‑141 (MQ=255)

                                                                                                                     ggAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTa                       >  1:168372/1‑141 (MQ=255)

                                                                                                                       aaCGTTGTACTA‑ATTTTCAAAGCTCTTTCACGCATATTTTTAAGTCCATAGCTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACt                     <  1:56168/141‑1 (MQ=255)

                                                                                                                        aCGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTg                    <  2:212044/141‑1 (MQ=255)

                                                                                                                         cGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTACGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCATCTTTATTAAACACTTCTCCTGt                   >  2:637963/1‑141 (MQ=255)

                                                                                                                          gTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTc                  <  1:230483/141‑1 (MQ=255)

                                                                                                                            tGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTCTTAAACACTTCTACTGTCAc                >  2:466792/1‑141 (MQ=255)

                                                                                                                            tGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCAc                >  1:147287/1‑141 (MQ=255)

                                                                                                                            tGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATACCACACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCAc                >  1:145407/1‑141 (MQ=255)

                                                                                                                             gCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATGAACATTAAAACCTTTCCAATTATCTTGGATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACt               >  1:407434/1‑141 (MQ=255)

                                                                                                                             gCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCAATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACt               >  2:150846/1‑141 (MQ=255)

                                                                                                                              cACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACtt              >  1:387599/1‑141 (MQ=255)

                                                                                                                              cACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACtt              >  2:645190/1‑141 (MQ=255)

                                                                                                                              cACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCAATATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACtt              >  1:33733/1‑141 (MQ=255)

                                                                                                                               aCCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTTAACAATAAATAATCGTCTTCATTATACAATTCTACTATCACttt             >  2:86200/1‑141 (MQ=255)

                                                                                                                                ccA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACtttt            <  1:672300/141‑1 (MQ=255)

                                                                                                                                ccA‑ATTTCCAAAACTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACtttt            >  2:533292/1‑141 (MQ=255)

                                                                                                                                    aTTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACTTTTGTa         <  2:652219/141‑1 (MQ=255)

                                                                                                                                    aTTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACTTTTGTa         <  1:30537/141‑1 (MQ=255)

                                                                                                                                         cAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTCTTAAACAATTCTACTGTCACTTTTGTACCGtt    >  2:255836/1‑141 (MQ=255)

                                                                                                                                         cAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACTTTTGTACCGtt    <  2:211966/141‑1 (MQ=255)

                                                                                                                                          aaaGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACTTTTGTACCGttt   >  2:241688/1‑141 (MQ=255)

                                                                                                                                           aaGCTCTTTCACGCATATTTTTAAGTCCCTAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGTATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACTTTTGTACCGTTTg  <  1:446105/141‑1 (MQ=255)

TATACGTACCATTTCATGATCATCCACAAACAATACTTTAATCGTCATACGAATCCTCCTTATTTAAAGGTGCTTTCACCTCGATACGTGTACCTGAATCTGGCAATGATACAATATGGAACGTTGCACCA‑ATTTCCAAAGCTCTTTCACGCATATTTTTAAGTCCATAACTTTGTTCTAATTTTTCATCAACATTAAAACCTTTACCATTATCTTGAATTCTCAACAATAAATAATCGTCTTTATTAAACAATTCTACTGTCACTTTTGTACCGTTTG  >  USA300TCH1516_ALE/2026866‑2027144

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`