Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A1 F52 I0 R1	39	94.7	2129336	96.2%	2048421	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,532,298	A→T	100%	T15T (ACA→ACT)	femA_3 →	Aminoacyltransferase FemA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,532,298	0	A	T	99.1%	338.7 / ‑4.6	106	T15T (ACA→ACT)	femA_3	Aminoacyltransferase FemA
Reads supporting (aligned to +/- strand): ref base A (0/0); major base T (40/64); minor base G (0/1); total (41/65)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.57e-01
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

Only 100 of 106 total aligned reads displayed.

GTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGAAGCA  >  USA300TCH1516_ALE/2532164‑2532433

gtATTTGTAATCAGTTTTTGATAAAATAAAGAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAg                                                                                                                                   <  2:671116/141‑1 (MQ=255)

gtATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAg                                                                                                                                   <  1:403125/141‑1 (MQ=255)

 tgtttGTAATCAGTTCTTGATAAAATAAAAAAAGAGCATTATTACTAAATTCAATAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGGCCTTTGTAACGTTGACTTCGGATGAGTGCAATGCATTTACGACAAAGc                                                                                                                                  <  2:232437/139‑1 (MQ=255)

  aTTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATCCGTTTCCCACaaaccc                                                                                                                                 >  2:742589/1‑138 (MQ=255)

   tttGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAt                                                                                                                                <  1:464770/141‑1 (MQ=255)

    ttGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAtt                                                                                                                               >  2:859468/1‑141 (MQ=255)

    ttGAAATCAGTTGTTAATAAATGAAAAAAATAACATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGAATGGGATAAAATGAACTTTGTAACGTTGACTTCTGATGAGTTCAATGCGTTTACTACAAAGCAtt                                                                                                                               <  2:901163/141‑1 (MQ=255)

      gTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAtttt                                                                                                                             >  1:670515/1‑141 (MQ=255)

       tAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTAAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGCTCAGTTCAATGGGTTTACTACAAAGCAatttt                                                                                                                            >  2:954209/1‑141 (MQ=255)

         aTCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCAtttttga                                                                                                                          >  1:236119/1‑139 (MQ=255)

           cAGTTTTTGATAAAATAAAGAAATAGCATTATTAATAAATTCAAAAATTATAGTGCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCCGATGAGTTCAATGCGTTTACTACAAAGCATTTTTcaca                                                                                                                        >  1:688602/1‑141 (MQ=255)

              tttttGATAAAATAAAAAAATATCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGTGTTCAATGCGTTTACTACAAAGCATTTTTCACATTa                                                                                                                     <  1:734400/141‑1 (MQ=255)

              tttttGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAAGGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTa                                                                                                                     <  2:751504/141‑1 (MQ=255)

              tttttGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTa                                                                                                                     >  2:531767/1‑141 (MQ=255)

              tttttGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTa                                                                                                                     <  2:11794/141‑1 (MQ=255)

                  tGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacaca                                                                                                                 <  1:376520/141‑1 (MQ=255)

                  tGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacaca                                                                                                                 >  1:867353/1‑141 (MQ=255)

                   gATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTacacac                                                                                                                >  2:24954/1‑141 (MQ=255)

                      aaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAAt                                                                                                             <  1:645948/141‑1 (MQ=255)

                      aaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAAt                                                                                                             <  1:891934/141‑1 (MQ=255)

                      aaaataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAAt                                                                                                             <  1:825819/141‑1 (MQ=255)

                        aataaaaAAATAGCATTATTAATATATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTATTCACATTACACACAATCa                                                                                                           >  1:675071/1‑141 (MQ=255)

                        aataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCa                                                                                                           <  1:662587/141‑1 (MQ=255)

                        aataaaaAAATAGCATTATTAAGAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAGAATGAACTTTGTAACGTGGACTTCGGATGAGTTCAATGCGTTGACTGCAAAGCATTTTTCACATTACACACAATCa                                                                                                           >  2:552769/1‑141 (MQ=255)

                         ataaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAg                                                                                                          <  1:458170/141‑1 (MQ=255)

                          taaaaAAATAGCATTATTAATAAATTCAAACATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCTGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGc                                                                                                         <  2:206841/141‑1 (MQ=255)

                          taaaaAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTGACTACAAAGCATTTTTCACATTACACACAATCAGc                                                                                                         <  1:150606/141‑1 (MQ=255)

                              aaaaTAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTAtt                                                                                                     >  1:300122/1‑141 (MQ=255)

                               aaaTAGCATGATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTc                                                                                                    >  1:779020/1‑141 (MQ=255)

                                aagaGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCa                                                                                                   >  2:11667/4‑141 (MQ=255)

                                aaTAGCATTATTAAGAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCa                                                                                                   <  1:160581/141‑1 (MQ=255)

                                  acgCATTATTAATAAATTCAAAAATTATATTCCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGAGGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCAtt                                                                                                 <  2:97350/139‑1 (MQ=255)

                                   aGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTa                                                                                                <  1:304725/141‑1 (MQ=255)

                                     cATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACa                                                                                              >  2:200084/1‑141 (MQ=255)

                                        tattaATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATc                                                                                           <  1:288906/141‑1 (MQ=255)

                                        tattaAGAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATc                                                                                           <  2:528762/141‑1 (MQ=255)

                                         attaATAAATTCAAAAATTATAGTTCCATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCa                                                                                          <  1:615503/141‑1 (MQ=255)

                                         attaATAAATTCAAAAATTATAGTTCAATTCAGGGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCa                                                                                          <  2:603828/141‑1 (MQ=255)

                                                aaTTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGtt                                                                                   <  1:774346/141‑1 (MQ=255)

                                                  ttCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTTATATTATACACAATCAGCTATTCATTACAATCATAGAGTTgt                                                                                 >  2:282485/1‑140 (MQ=255)

                                                    cAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGAtt                                                                               <  1:895940/141‑1 (MQ=255)

                                                    cAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTATTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGAtt                                                                               >  2:578958/1‑141 (MQ=255)

                                                     aaaaaaTATAGTTCAATTCATGCAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAAGCAGCTATTCATTACAATCATAGAGTTGAttt                                                                              <  2:498456/141‑1 (MQ=255)

                                                          ttATCGTTCACTTCAGCGTGGGATGGGATATACTTACCTTTCTAACGTTGACTTCTGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTTCACACAAGCAGCTATTCATTACTCTCGTAGAGTTGATTTAAAAg                                                                         <  2:8376/141‑1 (MQ=255)

                                                          ttATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAg                                                                         >  1:119874/1‑141 (MQ=255)

                                                          ttATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAg                                                                         <  1:866785/141‑1 (MQ=255)

                                                          tgataCTTCAATTCAGAGAGGGATGGGATAAAATGAACCTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAg                                                                         <  1:707684/139‑1 (MQ=255)

                                                                ttCAATTCAGAGAGGGATGGGGTAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtg                                                                   <  1:857337/141‑1 (MQ=255)

                                                                ttCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtg                                                                   <  1:265445/141‑1 (MQ=255)

                                                                ttCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtg                                                                   <  1:168492/141‑1 (MQ=255)

                                                                ttCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGAtg                                                                   <  1:420621/141‑1 (MQ=255)

                                                                    aTTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCa                                                               <  1:293009/141‑1 (MQ=255)

                                                                     ttCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCAt                                                              <  1:859468/141‑1 (MQ=255)

                                                                         gagagGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTAATTCCAATCATAAGGTTGATTTAAAAGGCGATGTGCATCTTg                                                          >  1:817405/1‑141 (MQ=255)

                                                                         gagagGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGAGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGATTTGAGTTAAAAGACGATGTCCATCTTg                                                          >  2:933367/1‑141 (MQ=255)

                                                                               gatgggatAAAATGAACTTTGTAACGATGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGGGCATCTTGTAgggg                                                    >  2:636887/1‑141 (MQ=255)

                                                                                atggtatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGt                                                   <  1:383765/141‑1 (MQ=255)

                                                                                atgggatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGt                                                   <  1:969148/141‑1 (MQ=255)

                                                                                atgggatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGt                                                   <  1:566171/141‑1 (MQ=255)

                                                                                atgggatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGt                                                   <  1:443023/141‑1 (MQ=255)

                                                                                 tgggatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCCATGTGCATCTTGTAGGGGtt                                                  <  1:760003/141‑1 (MQ=255)

                                                                                   ggatAAAATGATCTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTaa                                                <  2:694602/141‑1 (MQ=255)

                                                                                   ggatAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTaa                                                <  2:1031549/141‑1 (MQ=255)

                                                                                            gAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAACGCGATGTGCGTCTTGTGGCGCTTAAATATGACaa                                       >  2:727791/1‑141 (MQ=255)

                                                                                                tttGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGt                                   <  1:66668/141‑1 (MQ=255)

                                                                                                tttGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATGCTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGt                                   <  2:114091/141‑1 (MQ=255)

                                                                                                tttGGAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGt                                   <  2:311464/141‑1 (MQ=255)

                                                                                                  tGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCa                                 <  2:305571/141‑1 (MQ=255)

                                                                                                    tAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAg                               >  1:261367/1‑141 (MQ=255)

                                                                                                    tAACGTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAAAGTTGATTTAAAAGGCGATGTGCATCCAGTAGGGGTTAAAGATGACAGTGGTCAAg                               >  2:282185/1‑141 (MQ=255)

                                                                                                        ggtGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGGTTTGAGTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGAGGACAATGGTCAAGTGAt                           <  2:908877/139‑1 (MQ=255)

                                                                                                        gTTGATTTCGGATGAGTTAAATTCGTTTACTTCAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAATAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGAt                           <  2:695290/141‑1 (MQ=255)

                                                                                                        gTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGAt                           <  1:859334/141‑1 (MQ=255)

                                                                                                        gTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTCAAAAGGTGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGAt                           <  2:695257/141‑1 (MQ=255)

                                                                                                        gTTGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACAATACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGGTGCAAATGGTCCAGTGAt                           >  2:391192/1‑141 (MQ=255)

                                                                                                         ttGACTTCGGATGAGTTCAATGCGTTTACTACAAAGGATTGTTTAAATTACACAAAAACAGCTATTCATTACAATCATAGAGTTGATTTAAAAAGCGATGTACATCTTGTAAGGGTTAAAGATGACAATGGTCacagggtt                          >  1:250870/1‑134 (MQ=255)

                                                                                                         ttGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGGTAAAGATGACAATGGTCAAGTGAtt                          >  1:46001/1‑141 (MQ=255)

                                                                                                          tGACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTg                         <  2:642260/141‑1 (MQ=255)

                                                                                                           gACTTCGGATGCGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGc                        <  1:267920/141‑1 (MQ=255)

                                                                                                           gACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGc                        <  1:789946/141‑1 (MQ=255)

                                                                                                           gACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGc                        <  1:769313/141‑1 (MQ=255)

                                                                                                           gACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAAAGGTCAAGAGATTGc                        >  2:546957/1‑141 (MQ=255)

                                                                                                           gACTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCCATTCATTACAATCATAGAGTTGATTCAAAAGGCGAAGTGCATCCTGTAGGGGTTAAAGATGACAATGGTCAAGAGATTGc                        >  2:64369/1‑141 (MQ=255)

                                                                                                             cTTCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAg                      >  2:909929/1‑141 (MQ=255)

                                                                                                              ttCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAgg                     <  1:228681/141‑1 (MQ=255)

                                                                                                              ttCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAgg                     <  1:139427/141‑1 (MQ=255)

                                                                                                              tgtcgATTAGTTAAATGCGTGTACTACAAAGCATTTTTCAAATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAgg                     <  2:486275/137‑1 (MQ=255)

                                                                                                               tCGGATGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGa                    >  1:588292/1‑141 (MQ=255)

                                                                                                                cGGATGAGATCAATGCTTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCGTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGAt                   <  2:412824/141‑1 (MQ=255)

                                                                                                                cGGATGAATTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTAAAAAGGCGATGTGCATCTTGTAGAGGTTAAAGATGACAATGGTCAAGTGATTGCAGAAt                   <  2:140903/141‑1 (MQ=255)

                                                                                                                    tGAGTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGGTTGCAGGGTGcat               >  2:476236/1‑139 (MQ=255)

                                                                                                                       gTTCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTAtt            >  1:949403/1‑141 (MQ=255)

                                                                                                                         tCAATGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTCTTGa          <  1:722288/141‑1 (MQ=255)

                                                                                                                             tGCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGa      >  1:539700/1‑141 (MQ=255)

                                                                                                                              gCGTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGaa     <  1:421568/141‑1 (MQ=255)

                                                                                                                                gTTTACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTACAGATGACATTGGTCGAGTGATTGCAGGCTGCTTATTGagggagga   >  1:896595/1‑134 (MQ=255)

                                                                                                                                 tttACTACAAAGCATTTTTTTTTTTTTTTACAATCAGCTAATCATTACAATCATAAAGATGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATAACAATGGTCAAATGATTGCAGGATGTTTATTGTCAGAAgca  >  2:337141/1‑141 (MQ=255)

                                                                                                                                 tttACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACACTGGTCACGTGCTTGCACACTGCTTGTTGGCAGAAgcg  >  1:955212/1‑140 (MQ=255)

                                                                                                                                 tttACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGAAgca  >  1:366483/1‑141 (MQ=255)

                                                                                                                                 tttACTACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGAAgca  <  2:677903/141‑1 (MQ=255)

GTATTTGTAATCAGTTTTTGATAAAATAAAAAAATAGCATTATTAATAAATTCAAAAATTATAGTTCAATTCAGAGAGGGATGGGATAAAATGAACTTTGTAACGTTGACTTCGGATGAGTTCAATGCGTTTACAACAAAGCATTTTTCACATTACACACAATCAGCTATTCATTACAATCATAGAGTTGATTTAAAAGGCGATGTGCATCTTGTAGGGGTTAAAGATGACAATGGTCAAGTGATTGCAGGATGCTTATTGACAGAAGCA  >  USA300TCH1516_ALE/2532164‑2532433

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: `‑`

GATK/CNVnator alignment

N/A