BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	183,887	C→A	8.5%	P276Q (CCG→CAG)	USA300HOU_RS00845 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	183,887	0	C	A	8.5%	352.5 / 2.4	114	P276Q (CCG→CAG)	USA300HOU_RS00845	hypothetical protein
Reads supporting (aligned to +/- strand): ref base C (58/43); new base A (2/11); total (60/54)
Fisher's exact test for biased strand distribution p-value = 6.27e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

Only 100 of 117 total aligned reads displayed.

AAAAGCATTATGTATATTTTTGCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCTTATTAGGGTTTT  >  USA300TCH1516_ALE/183748‑184027

 aaaGCATTATGTATATTTTTGCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGa                                                                                                                                            <  2:520591/141‑1 (MQ=255)

 aaaGCATTATGTATATTTTTGCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGa                                                                                                                                            >  1:409840/1‑141 (MQ=255)

 aaaGCATTATGTATATTTTTGCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGa                                                                                                                                            >  1:645304/1‑141 (MQ=255)

        tATGTATATTTTTGCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGa                                                                                                                                     >  1:549005/1‑141 (MQ=255)

           gTATATTTTTGCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGaaaa                                                                                                                                  >  2:401860/1‑141 (MQ=255)

               atTTTTGCATTAAGTATATCTAGTGTATTGATTTACTTTCTTTTTATTAAATGTTCGAACACTAGAACATTTTCATATCTACTAGGTGGAACATTTATTTTATAATGTACTTCTGGAAGAGGACCGATTTATGAAATAGGt                                                                                                                              >  2:349703/1‑141 (MQ=255)

                 ttttGCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTAt                                                                                                                            <  1:437270/141‑1 (MQ=255)

                  tttGCATTAAGCATATCTAGTGTATTGATTTACGTGCTTGTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTAtt                                                                                                                           <  3:19820/141‑1 (MQ=255)

                   ttgaaTTAAACATATCTAGTGTATTGATTTACTTTCTTTTTACAAGAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGAACCGATTTATGAAAAAGGTAttt                                                                                                                          <  2:60578/137‑1 (MQ=255)

                     gCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTAc                                                                                                                        <  1:1035470/141‑1 (MQ=255)

                     gCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTAc                                                                                                                        >  1:692373/1‑141 (MQ=255)

                       aTTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACtt                                                                                                                      >  1:440364/1‑141 (MQ=255)

                         tAAGCATATCTAGTGTATTGATTTACTTTCTTTTTGCAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTa                                                                                                                    <  1:781950/141‑1 (MQ=255)

                          aaGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTAt                                                                                                                   <  3:101366/141‑1 (MQ=255)

                              atatCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTcaa                                                                                                               >  2:198165/1‑141 (MQ=255)

                               tatCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTcaac                                                                                                              <  3:364757/141‑1 (MQ=255)

                               tatCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTcaac                                                                                                              >  1:530675/1‑141 (MQ=255)

                                atCTAGTGTATTGATTTACTTTCTTTTTTTTTTTTTTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTcaact                                                                                                             >  2:1079903/1‑140 (MQ=255)

                                 tCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTcaacaa                                                                                                            >  3:11180/1‑141 (MQ=255)

                                   tAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGAAAGATTTATGAAAAAGGTATTTACTTTATTCAACAAAg                                                                                                          <  2:764223/141‑1 (MQ=255)

                                    aGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGt                                                                                                         <  3:390613/141‑1 (MQ=255)

                                    aGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGAAAGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGt                                                                                                         <  2:91151/141‑1 (MQ=255)

                                       gtATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCg                                                                                                      >  1:1009834/1‑141 (MQ=255)

                                         aTTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGtt                                                                                                    >  2:315420/1‑141 (MQ=255)

                                         aTTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGtt                                                                                                    <  2:334240/141‑1 (MQ=255)

                                         aTTGATTTACTTTCTTTCTACAAAAGGGTCGAATACGAGAACGTCTTCATTTCAAAAAAGTGGAATACTTAATTTAGAAGGCACATAAAGAAGAGGACAGAATTATGACAAAGGTATTTACTTTATTCAAGAAAGATCGtt                                                                                                    >  2:445855/1‑141 (MQ=255)

                                          ttGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGtta                                                                                                   >  3:71646/1‑141 (MQ=255)

                                            gATTTACTTTCTTTTTACAGAACGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTTCTTCTGGAAGAGTACCTATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGttatt                                                                                                 <  2:600102/141‑1 (MQ=255)

                                            gATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGttatt                                                                                                 <  1:406723/141‑1 (MQ=255)

                                            gATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGttatt                                                                                                 >  4:51667/1‑141 (MQ=255)

                                            gATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGttatt                                                                                                 >  2:549194/1‑141 (MQ=255)

                                             aTTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGttatta                                                                                                >  1:141965/1‑141 (MQ=255)

                                              tttACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAg                                                                                               >  4:352700/1‑141 (MQ=255)

                                                  ctttctttTTACAAAAGGTTCGACTACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTa                                                                                           <  1:541823/141‑1 (MQ=255)

                                                     tctttTTACAAAATGTTCGAATACAAAAACACCTTCATATCTACAAGGTACAACACTTAATATAGAAGGTACTTCTGGAAGAGAAAAAAAAAAAAAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATgg                                                                                        <  2:602850/141‑1 (MQ=255)

                                                     tctttTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGAAAAATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATgg                                                                                        <  2:905740/141‑1 (MQ=255)

                                                      ctttTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATggg                                                                                       <  2:733772/141‑1 (MQ=255)

                                                      ctttTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATggg                                                                                       >  3:163234/1‑141 (MQ=255)

                                                        ttttACAAAAGGTTGGAGTACTAGAACATTTTCATATCTACAAGGTGGAACGCTTAATTTAGAAGGTACTTCTGGAAGAGGAAAAAAAAAAAAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTACTAGGCTATGGGcc                                                                                     <  2:538472/141‑1 (MQ=255)

                                                          ttACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCAt                                                                                   <  1:525267/141‑1 (MQ=255)

                                                          ttACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCAt                                                                                   <  1:191213/141‑1 (MQ=255)

                                                          ttACAAAAGGTTCGAATACTAGAACATTTTCATAACTACAAGGAGAAACACTTAATTTAGAAGGTACTTCTGGAAGAGGAAAAAAAAAAAAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCAt                                                                                   <  4:299787/141‑1 (MQ=255)

                                                           tACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCAtt                                                                                  >  2:1063224/1‑141 (MQ=255)

                                                            aCAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCAttt                                                                                 >  2:350734/1‑141 (MQ=255)

                                                             cAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTa                                                                                >  1:773188/1‑141 (MQ=255)

                                                             cAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTa                                                                                >  4:174267/1‑141 (MQ=255)

                                                             cAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAAAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTa                                                                                >  4:447186/1‑141 (MQ=255)

                                                              aaaaGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTaa                                                                               >  4:312099/1‑141 (MQ=255)

                                                               aaaGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAAc                                                                              <  2:931501/141‑1 (MQ=255)

                                                               aaaGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAAc                                                                              <  2:698992/141‑1 (MQ=255)

                                                               aaaGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAAc                                                                              >  1:397511/1‑141 (MQ=255)

                                                               aaaGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAAc                                                                              <  1:85471/141‑1 (MQ=255)

                                                               aaaGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGAACAATATATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAAc                                                                              <  4:77556/141‑1 (MQ=255)

                                                               aaaGGTTCGAATACTAGAACATTTTCATAACTATAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAAc                                                                              <  1:856362/141‑1 (MQ=255)

                                                                  ggTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACtat                                                                           >  1:945968/1‑141 (MQ=255)

                                                                    ttCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACtatta                                                                         >  4:195699/1‑141 (MQ=255)

                                                                     tCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACtattat                                                                        >  2:16412/1‑141 (MQ=255)

                                                                       gAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATCTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATaa                                                                      >  4:160320/1‑141 (MQ=255)

                                                                       gAATACTAGAACATTTTCATAGCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGACATTTAACTATTATaa                                                                      >  2:1024156/1‑141 (MQ=255)

                                                                         aTACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAAc                                                                    >  1:622502/1‑141 (MQ=255)

                                                                            cTAGAACATTTTCATATCTACACGGTTGAACACTCAATTTAGAAGGTACTTCTGGAAGAGGACAGCTTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAAATaa                                                                 >  4:35814/1‑141 (MQ=255)

                                                                            cTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTaa                                                                 <  2:440364/141‑1 (MQ=255)

                                                                               gAACATTTTCATATCTACAAGGTGTAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACAAAATTAAGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCg                                                              <  2:310049/141‑1 (MQ=255)

                                                                               gAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGAAAAATTAAAGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCg                                                              <  2:369064/141‑1 (MQ=255)

                                                                                aaCATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCgg                                                             <  1:575718/141‑1 (MQ=255)

                                                                                aaCATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCgg                                                             >  2:881395/1‑141 (MQ=255)

                                                                                   aTTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGaaa                                                          <  2:389069/141‑1 (MQ=255)

                                                                                      ttCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAatat                                                       >  2:245970/1‑141 (MQ=255)

                                                                                        cATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATAc                                                     >  2:143013/1‑141 (MQ=255)

                                                                                        cATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATAc                                                     <  2:1001197/141‑1 (MQ=255)

                                                                                           atCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACcac                                                  >  1:723348/1‑141 (MQ=255)

                                                                                            tCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACcaca                                                 >  1:446549/1‑141 (MQ=255)

                                                                                              tACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGTAAATATACCACATa                                               >  4:51462/1‑141 (MQ=255)

                                                                                                cAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAAc                                             <  2:17075/141‑1 (MQ=255)

                                                                                                   ggTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAAcatc                                          <  1:683305/141‑1 (MQ=255)

                                                                                                    gTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAAcatca                                         >  4:453736/1‑141 (MQ=255)

                                                                                                        aaCACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCattat                                     <  1:203238/141‑1 (MQ=255)

                                                                                                            cTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAg                                 >  1:358946/1‑141 (MQ=255)

                                                                                                            cTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAg                                 >  1:359011/1‑141 (MQ=255)

                                                                                                             ttAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGt                                >  3:129406/1‑141 (MQ=255)

                                                                                                              tAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGtt                               <  1:582740/141‑1 (MQ=255)

                                                                                                                 tttAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGAt                            <  1:290131/141‑1 (MQ=255)

                                                                                                                  ttAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGAtt                           <  1:661277/141‑1 (MQ=255)

                                                                                                                  ttAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGAtt                           <  1:1085105/141‑1 (MQ=255)

                                                                                                                     gAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTAT‑AACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTAt                       >  2:504803/1‑141 (MQ=255)

                                                                                                                      aaGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTAt                       >  4:210966/1‑141 (MQ=255)

                                                                                                                        ggTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTATGCTATGGGCGATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCa                     >  1:93073/1‑141 (MQ=255)

                                                                                                                          tACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCAtt                   >  1:65633/1‑141 (MQ=255)

                                                                                                                          tACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCAtt                   <  2:631067/141‑1 (MQ=255)

                                                                                                                               cTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCt              >  4:350733/1‑141 (MQ=255)

                                                                                                                                  gAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCttat           <  3:74755/141‑1 (MQ=255)

                                                                                                                                  gAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCttat           >  1:925644/1‑141 (MQ=255)

                                                                                                                                    agagGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCttatta         <  3:356392/141‑1 (MQ=255)

                                                                                                                                      agGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCTTATTAgg       <  1:196599/141‑1 (MQ=255)

                                                                                                                                      agGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCTTATTAgg       >  2:1257/1‑141 (MQ=255)

                                                                                                                                        gACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGttat                                                                                                  <  2:121379/48‑1 (MQ=255)

                                                                                                                                        gACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGttat                                                                                                  >  1:121379/1‑48 (MQ=255)

                                                                                                                                          ccGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCTTATTAGGGttt   <  1:941891/141‑1 (MQ=255)

                                                                                                                                           cGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCTTATTAGGGtttt  >  1:165395/1‑141 (MQ=255)

                                                                                                                                           cGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCTTATTAGGGtttt  >  2:275516/1‑141 (MQ=255)

AAAAGCATTATGTATATTTTTGCATTAAGCATATCTAGTGTATTGATTTACTTTCTTTTTACAAAAGGTTCGAATACTAGAACATTTTCATATCTACAAGGTGGAACACTTAATTTAGAAGGTACTTCTGGAAGAGGACCGATTTATGAAAAAGGTATTTACTTTATTCAACAAAGTTCGTTATTAGGCTATGGGCCATTTAACTATTATAAACTAATCGGAAATATACCACATAACATCATTATTGAGTTGATTCTATCATTTGGCTTATTAGGGTTTT  >  USA300TCH1516_ALE/183748‑184027

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`