BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	111,330	C→A	6.8%	Q134K (CAA→AAA)	USA300HOU_RS00520 →	putative lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	111,330	0	C	A	6.8%	475.6 / 5.7	157	Q134K (CAA→AAA)	USA300HOU_RS00520	putative lipoprotein
Reads supporting (aligned to +/- strand): ref base C (77/66); new base A (2/12); total (79/78)
Fisher's exact test for biased strand distribution p-value = 4.99e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 163 total aligned reads displayed.

AAATGGCAATTCAAAATAAAGGAGAAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAA  >  USA300TCH1516_ALE/111190‑111470

aaaTGGCAATTCAAAATAATGGAGAAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATc                                                                                                                                               >  1:499850/1‑141 (MQ=255)

  aTGGCAATTCAAAATTAAGGAGAAGCTTTCAAAATAAAAGGCATGCAATTGAAGTTAGATAGAAATAAAAGAAGTGCAAAAGGATCTTACTTTACTAATGAAATAAAGACGGAGAAATACGAAGTAGATCAGAATAATC‑aa                                                                                                                                            >  2:424399/1‑141 (MQ=255)

      cAATTCAAAATAAAGGAGAAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑aaaaaa                                                                                                                                        >  1:521534/1‑141 (MQ=255)

           aaaaaaaaaGGAGAAGGACGAAAAAGAAAAGGCATGCTTTGGAAGAGAGGTAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAatat                                                                                                                                   <  2:41266/140‑1 (MQ=255)

              aaTAAAGGAGAAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAGTATCCa                                                                                                                                >  1:309213/1‑141 (MQ=255)

              aaTAAAGGAGAAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCa                                                                                                                                >  2:506883/1‑141 (MQ=255)

               aTAAAGGAGAAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAg                                                                                                                               <  1:385779/141‑1 (MQ=255)

                  aagaagaagCTCTAAAAATAAAAGGCATGATTTTGAAGATAGATAGAAATACAAGAAGTGAAAAAGGATTTTACTCTACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCGAATTa                                                                                                                            >  2:867373/1‑141 (MQ=255)

                  aaGGAGAAGCTCTAAAAATAAAAGGCATGCTTTTAAAGATATATAGAAATACAAGAACTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATCAAAAAAAAATATCCAGtt                                                                                                                             >  1:365894/1‑141 (MQ=255)

                   aGGAGAAGCTCAAAAAAAAAAAGGAATTCGTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAAAGAAATAAAGACGGAGAAATTCGATGTAGTTGAAAAAAAAA‑AAAAAAAATATCCAGTTaa                                                                                                                           <  2:855818/141‑1 (MQ=255)

                      agaAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAAt                                                                                                                        >  2:928451/1‑141 (MQ=255)

                      agaAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAAt                                                                                                                        >  2:176736/1‑141 (MQ=255)

                      agaAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGAAAATC‑AAAAAAAA‑ATCCAGGTaaaaag                                                                                                                       >  2:492166/1‑139 (MQ=255)

                       gaAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATg                                                                                                                       >  1:368313/1‑141 (MQ=255)

                           ctctAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATta                                                                                                                   >  2:300397/1‑141 (MQ=255)

                              tAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAAAATCCAATACAAATTATtaata                                                                                                                >  2:888703/1‑141 (MQ=255)

                                 aaaTAAAGGGCAGGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATtaataata                                                                                                             <  1:25990/141‑1 (MQ=255)

                                  aaTAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATtaataataa                                                                                                            <  1:592315/141‑1 (MQ=255)

                                  aaTAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGAAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATtaataataa                                                                                                            <  2:334391/141‑1 (MQ=255)

                                  aaTAAAACGCAATATTTATAATATAGATATAAAAACAAGAAGTGCAAAAGCATTTTACCATACTAATAAAATAAAGACGGAGAGATGCGAAGTAGCTAAAAAAAAAA‑AAAAAAAATATCCAGTTAAAATGATtaataataa                                                                                                            <  2:448844/141‑1 (MQ=255)

                                        aGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCAt                                                                                                      >  2:211849/1‑141 (MQ=255)

                                            aTGCTTTGTAAGATAGATACAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCt                                                                                                  <  2:194378/141‑1 (MQ=255)

                                                ttttGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTg                                                                                              >  1:631192/1‑141 (MQ=255)

                                                     aaGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGaa                                                                                         >  1:138263/1‑141 (MQ=255)

                                                          agatagaAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTaa                                                                                    <  2:271142/141‑1 (MQ=255)

                                                          agatagaAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTaa                                                                                    <  1:708037/141‑1 (MQ=255)

                                                           gatagaAAAACCAGAGCGGCAAAAGGATGTTAGTATACCAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAAGA‑AAAAAAAATATCCAGTTAAAATGATGAATAATAAATTCATTTCTACTGAGGAAGTTaaa                                                                                   <  2:378265/141‑1 (MQ=255)

                                                           acaaaaaaTAAAAGAAGGACAAAAGGATTTTAATATAATAAAGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTaaa                                                                                   <  2:25568/136‑1 (MQ=255)

                                                            atagaAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAaag                                                                                  <  1:92015/141‑1 (MQ=255)

                                                              agaAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAaagaa                                                                                >  2:896797/1‑141 (MQ=255)

                                                               aaaaTACAAGAAGTGCAAAAGGATAGTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAaagaag                                                                               <  2:543731/140‑1 (MQ=255)

                                                                aaaTACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAATAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAagaaga                                                                              >  2:15191/1‑141 (MQ=255)

                                                                     cAAGAAGTGTAAAAGAATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTAAAAATAAAA‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACa                                                                         <  2:777688/141‑1 (MQ=255)

                                                                     cAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCCTTTCTACTGAGGAAGTgaaaacagaaaaca                                                                         >  2:600152/1‑141 (MQ=255)

                                                                     aaagaagTGCAAAAGGATTATACTATACTAATGACATAAAGACGGAGAAATACGAAGTAGCTAAAAAAAAAA‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACa                                                                         <  2:821627/140‑1 (MQ=255)

                                                                       agaagTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAATTAAAGAAGAAAACATa                                                                       >  2:39596/1‑141 (MQ=255)

                                                                        gaagTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATaa                                                                      >  1:400139/1‑141 (MQ=255)

                                                                           gTGCAAAAGTATTTTACTATACTAAAGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATaaaaa                                                                   <  2:553778/141‑1 (MQ=255)

                                                                           gTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATaaaaa                                                                   >  2:364500/1‑141 (MQ=255)

                                                                            ttgataaGGCTGTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACGGAGGAAGTTAAAGATGAAAACATaaaaaa                                                                  <  2:643613/136‑1 (MQ=255)

                                                                             gCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATaaaaaaa                                                                 >  2:385740/1‑141 (MQ=255)

                                                                             gCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCGCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATaaaacaa                                                                 >  2:578903/1‑141 (MQ=255)

                                                                                 aaGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGaaa                                                             >  1:616470/1‑141 (MQ=255)

                                                                                 aaGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGaaa                                                             >  1:502744/1‑141 (MQ=255)

                                                                                    gATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCg                                                          <  2:555500/141‑1 (MQ=255)

                                                                                          actataataATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACt                                                    <  1:480285/141‑1 (MQ=255)

                                                                                           ctatactaATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTAATGGGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACtt                                                   <  1:648026/141‑1 (MQ=255)

                                                                                           atatactaATGAAATAAAGACTGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAATTATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACtt                                                   <  2:467244/140‑1 (MQ=255)

                                                                                            tatactaATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACttt                                                  <  1:535894/141‑1 (MQ=255)

                                                                                            tatactaATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACttt                                                  <  2:20414/141‑1 (MQ=255)

                                                                                            aatacaaAAGAAAAAAAGACGGAGAAATACGAAGTAGCTCAGGATAATA‑AAAAAAAATAACCAGATAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACAAAAAAAAAGAAATCGAAAACttt                                                  <  1:757775/140‑1 (MQ=38)

                                                                                             atactaATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAACAAGAAAACATAAAAAAAGAAATCGAAAACTTTa                                                 >  1:734338/1‑141 (MQ=255)

                                                                                               accaataaaataaAAACGGAGGAATGCGAAGTAGCTAAAAAAAAAC‑‑AAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGt                                              <  2:79902/138‑1 (MQ=37)

                                                                                               aataataaAAAAAAGACGGAGAAACACGAATTAGCTAAAAAAAAAA‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAg                                               <  2:22742/139‑1 (MQ=37)

                                                                                                ctaATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAGGAAAAAAATGACTACTCAGGAAGTTAAAGAAGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGt                                              >  1:448616/1‑141 (MQ=37)

                                                                                                ctaATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAGAACATAAAAAAAGAAATCGAAAACTTTAAGt                                              >  1:309287/1‑141 (MQ=255)

                                                                                                ctaATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGt                                              >  1:149174/1‑141 (MQ=255)

                                                                                                  aaTGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGttt                                            <  1:313748/141‑1 (MQ=255)

                                                                                                       aaTAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTgc                                       <  1:579906/141‑1 (MQ=255)

                                                                                                        aTAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTgcg                                      <  1:506883/141‑1 (MQ=255)

                                                                                                         aaaaTACGGAGAAATCCGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGCTTTGTtcgc                                     <  2:816156/140‑1 (MQ=38)

                                                                                                         aaaaTACAGAAAAATACGAAATAACACAGAAAAAAA‑AAAAAAAAAAACCAGTTAAAAAGATAAAAAATAAATTCATTTATACTGAGGAAGTTAAAGAAAAAAAAAAAAAAAAAGAAATCGAAAACTTTAAGTTTTTTgcgc                                     <  2:617145/140‑1 (MQ=19)

                                                                                                         aaaaGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTgcgc                                     <  1:543754/140‑1 (MQ=255)

                                                                                                          aaaGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTTCGCa                                    >  2:136711/1‑141 (MQ=255)

                                                                                                          aaaGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCa                                    >  2:484207/1‑141 (MQ=255)

                                                                                                          aaaGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATAGAAAACTTTAAGTTTTTTGCGCa                                    >  2:399146/1‑141 (MQ=255)

                                                                                                           aaGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCaa                                   >  1:491833/1‑141 (MQ=255)

                                                                                                           aaGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCaa                                   <  1:132697/141‑1 (MQ=255)

                                                                                                            aGACGGAGAAATGCGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAAGATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAat                                  >  1:667357/1‑141 (MQ=255)

                                                                                                            aGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAat                                  >  1:136187/1‑141 (MQ=255)

                                                                                                              aCGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAataa                                >  2:197183/1‑140 (MQ=255)

                                                                                                               cGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAAtata                               >  2:882051/1‑141 (MQ=255)

                                                                                                               cGGAGAAATACGAAGTAGCTCAGGATAATA‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAAtata                               >  1:654569/1‑141 (MQ=255)

                                                                                                                 gagaAATACGAGGTAGCTCAGGATAATA‑AAAAAAAATATCCAGTTAGAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGc                             <  2:366976/141‑1 (MQ=255)

                                                                                                                 gagaAATACGAAGTAGATCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGc                             <  2:124929/141‑1 (MQ=255)

                                                                                                                  agaAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAACAGAAATCGAAAACTTTGAGTTTTTTGCGCAATATAGCa                            >  1:656574/1‑141 (MQ=255)

                                                                                                                  agaAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCa                            >  2:752530/1‑141 (MQ=255)

                                                                                                                  agaAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTAATGAGGAAGTTAAAGCAAACCACATAAAAAAAGCAATAGAAAACCTTAAGTTTTTTGCGCAATATAGCa                            >  1:444493/1‑141 (MQ=255)

                                                                                                                    aaaTACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAAt                          <  1:211849/141‑1 (MQ=255)

                                                                                                                    aaaTACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAAt                          >  1:462964/1‑141 (MQ=255)

                                                                                                                    aaaTACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAAt                          >  2:449599/1‑141 (MQ=255)

                                                                                                                      attcGAAGTGGTTAAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAAttt                        <  2:120119/138‑1 (MQ=255)

                                                                                                                      aTACGAAGTAGCTCAGGATAATC‑AAAAAGAATATCCAGTTAAAATGATTAATAAGAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAAttt                        >  1:608741/1‑141 (MQ=255)

                                                                                                                      aTACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAAttt                        >  1:809488/1‑141 (MQ=255)

                                                                                                                        aCGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTa                      <  1:887741/141‑1 (MQ=255)

                                                                                                                           aaGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAg                   <  2:738128/141‑1 (MQ=255)

                                                                                                                           aaGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAg                   <  1:561644/141‑1 (MQ=255)

                                                                                                                                gCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTa              <  1:324043/141‑1 (MQ=255)

                                                                                                                                 gtCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTaa             <  2:105829/140‑1 (MQ=255)

                                                                                                                                  tCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAAt            <  1:364500/141‑1 (MQ=255)

                                                                                                                                   cAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATg           <  1:874780/141‑1 (MQ=255)

                                                                                                                                     ggATAATC‑AAAAACAATATCCAGTTAAAATGAATAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGaa         <  2:680331/141‑1 (MQ=255)

                                                                                                                                      aaaaaTC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAAt        <  2:825201/138‑1 (MQ=255)

                                                                                                                                       aTAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAAtt       <  1:242951/141‑1 (MQ=255)

                                                                                                                                        tAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATta      >  1:315593/1‑141 (MQ=255)

                                                                                                                                        aaaTC‑AAAAAAAATATCTCGTTAAAATGATTAATAATATAATCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAATACTTTAAGTTTTTTGCGCAATATAGCAATCTTAAAGATTTAATGAATta      <  1:612610/140‑1 (MQ=37)

                                                                                                                                          aTC‑AAAAAAAATATCCCGTTAAAATAATTAATAATAAATTCATTTCTACTGCGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGGAATATAGCAATTTTACAGATTTAATGAATtata    >  2:321558/1‑141 (MQ=37)

                                                                                                                                           tC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTc                                                                                                        >  2:824072/1‑40 (MQ=255)

                                                                                                                                           tC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTc                                                                                                        <  1:824072/40‑1 (MQ=255)

                                                                                                                                           tC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATaa   >  1:222652/1‑141 (MQ=255)

AAATGGCAATTCAAAATAAAGGAGAAGCTCTAAAAATAAAAGGCATGCTTTTGAAGATAGATAGAAATACAAGAAGTGCAAAAGGATTTTACTATACTAATGAAATAAAGACGGAGAAATACGAAGTAGCTCAGGATAATC‑AAAAAAAATATCCAGTTAAAATGATTAATAATAAATTCATTTCTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAA  >  USA300TCH1516_ALE/111190‑111470

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: `‑`