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 F104 I1 R1	35	102.1	2392160	96.4%	2306042	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	2,543,088	G→A	R283K (AGA→AAA)	hlgA →	Gamma‑hemolysin component A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,543,088	0	G	A	98.2%	372.0 / NA	116	R283K (AGA→AAA)	hlgA	Gamma‑hemolysin component A
Reads supporting (aligned to +/- strand): ref base G (2/0); major base A (56/56); minor base C (0/2); total (58/58)
Fisher's exact test for biased strand distribution p-value = 4.96e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 116 total aligned reads displayed.

AACTACCTCCTTTAATTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAGACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGTTCAATCATCTTAAA  >  USA300TCH1516_ALE/2542950‑2543225

aaCTACCTCCTTTAATTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAAc                                                                                                                                         >  1:1007615/1‑141 (MQ=255)

aaCTACCTCCTTTAATTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAAc                                                                                                                                         >  1:536820/1‑141 (MQ=255)

aaCTACCTCCTTTAATTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAAc                                                                                                                                         >  1:645859/1‑141 (MQ=255)

aaCTACCTCCTTTAATTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCAACATATGCTTACGTGACAAAAc                                                                                                                                         >  1:256253/1‑141 (MQ=255)

      ctcctTTAATTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAGACATCGtt                                                                                                                                   >  1:606082/1‑141 (MQ=255)

            tAATTCAAAGTGGCTTTAATCCATCATGTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCg                                                                                                                             <  2:230240/141‑1 (MQ=255)

             aaTTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGt                                                                                                                            <  2:30600/141‑1 (MQ=255)

              aTTGAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGtt                                                                                                                           <  2:1003936/141‑1 (MQ=255)

              aTTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCCTTTAGCCGtt                                                                                                                           <  1:864994/141‑1 (MQ=255)

               ttCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTg                                                                                                                          >  1:637505/1‑141 (MQ=255)

                 cAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGAt                                                                                                                        <  2:883792/141‑1 (MQ=255)

                     gTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGGAGAGACATGGATGCTACATAAGCTTACGTGACAAAACATCGTTTAGCCGTTGCTAGaa                                                                                                                    >  1:866697/1‑141 (MQ=255)

                     gTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGaa                                                                                                                    >  2:700515/1‑141 (MQ=255)

                      tGGCTTTAATCCATCATTTCTTACAACACTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATAGTTTAGCCGTTGATAGaaa                                                                                                                   <  1:635794/141‑1 (MQ=255)

                      tGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGaaa                                                                                                                   <  2:1035117/141‑1 (MQ=255)

                       ggCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGaaaa                                                                                                                  >  2:461800/1‑141 (MQ=255)

                       ggCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGGAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGAAAAAACATCGTTTAGCCGTTGATAGaaaa                                                                                                                  >  2:580768/1‑141 (MQ=255)

                         cTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACa                                                                                                                <  1:108163/141‑1 (MQ=255)

                         cTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACa                                                                                                                <  1:28127/141‑1 (MQ=255)

                         cTTTAATCCAACATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACa                                                                                                                <  2:539210/141‑1 (MQ=255)

                          tttAATCCAGCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACat                                                                                                               >  1:875677/1‑141 (MQ=255)

                            tAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACatga                                                                                                             >  2:703547/1‑141 (MQ=255)

                            tAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACatga                                                                                                             >  2:593837/1‑141 (MQ=255)

                              aTCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACatgatg                                                                                                           >  1:292858/1‑141 (MQ=255)

                                  atcatTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCttt                                                                                                       <  1:865707/141‑1 (MQ=255)

                                  atcatTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTAAGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCttt                                                                                                       <  1:416207/141‑1 (MQ=255)

                                   tcatTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGGTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGGTGCgttt                                                                                                      >  1:66271/1‑141 (MQ=255)

                                   acatTCAGTACGACCTTGTCACACGAGAGAGGTAAAGGTGAGAAGAGCGGGGTGGAAATCACTTACGGCAGAAACATGGATGCTACAGATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCtttt                                                                                                      <  2:977444/140‑1 (MQ=255)

                                     atTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAAAATGATGCTTTTaa                                                                                                    >  1:840919/1‑141 (MQ=255)

                                      tttATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGTCGTTGATAGAAAACATGATGCTTTTaaa                                                                                                   >  1:128728/1‑141 (MQ=255)

                                       ttattaCAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTaaaa                                                                                                  <  1:200636/141‑1 (MQ=255)

                                       ttactaCAACATTGTCACACAAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTaaaa                                                                                                  <  1:12645/141‑1 (MQ=255)

                                        tattaCAACATCGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTaaaaa                                                                                                 <  2:121922/141‑1 (MQ=255)

                                        tattaCAACAGTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTaaaaa                                                                                                 <  2:1040858/141‑1 (MQ=255)

                                          ttaCAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAAcc                                                                                               <  2:1007615/141‑1 (MQ=255)

                                          ttaCAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAAcc                                                                                               <  2:1043392/141‑1 (MQ=255)

                                          ttaCAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAAcc                                                                                               <  2:536820/141‑1 (MQ=255)

                                          ttaCAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAAcc                                                                                               <  2:536848/141‑1 (MQ=255)

                                          ttaCAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACACGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAAcc                                                                                               >  1:403276/1‑141 (MQ=255)

                                           taCAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTCAGTTAATACATGATGCTTTTAAAAACCg                                                                                              <  2:256046/141‑1 (MQ=255)

                                           taCAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTAACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCg                                                                                              <  2:845772/141‑1 (MQ=255)

                                           taCAACATTGTCACACGAAAGAGGTAAAGGGGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCg                                                                                              <  1:3517/141‑1 (MQ=255)

                                            acaacaTTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCATTGATAGAAAACATGATGCTTTTAAAAACCGa                                                                                             >  1:505208/1‑141 (MQ=255)

                                               acaTTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAAc                                                                                          >  2:161612/1‑141 (MQ=255)

                                               acaTTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAAc                                                                                          <  2:88914/141‑1 (MQ=255)

                                               acaTTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATAATGCTTTTAAAAACCGAAAc                                                                                          >  1:907469/1‑141 (MQ=255)

                                                  ttGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGtt                                                                                       <  1:840872/141‑1 (MQ=255)

                                                    gTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTaa                                                                                     >  2:964207/1‑140 (MQ=255)

                                                     tCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACa                                                                                    >  2:1106464/1‑141 (MQ=255)

                                                      cacaCGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAg                                                                                   >  2:687981/1‑141 (MQ=255)

                                                      cacaCGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAg                                                                                   >  2:1040244/1‑141 (MQ=255)

                                                      cacaCGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAg                                                                                   >  1:12701/1‑141 (MQ=255)

                                                       acacGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGt                                                                                  >  1:114010/1‑141 (MQ=255)

                                                        cacGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATCGAGAACAGTTTGCTTTTAAAAACCGAAACGTTACAGtt                                                                                 <  1:757522/141‑1 (MQ=255)

                                                           gAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACTGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTaaa                                                                              <  2:506520/141‑1 (MQ=255)

                                                             aaGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAata                                                                            >  2:18155/1‑141 (MQ=255)

                                                              aaagGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAGCGTTACAGTTAAatat                                                                           <  2:133308/139‑1 (MQ=255)

                                                                        gTGATAAATGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGaaat                                                                 >  2:732286/1‑139 (MQ=255)

                                                                        gTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTCCAGTTAAATATGAAGTGAACt                                                                 >  2:62346/1‑141 (MQ=255)

                                                                          gATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTgg                                                               <  1:1173881/141‑1 (MQ=255)

                                                                              aagccGAGTTTTAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGaaaa                                                           <  2:21690/137‑1 (MQ=255)

                                                                              aaaGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGaaaa                                                           >  1:421663/1‑141 (MQ=255)

                                                                              aaaGCGAGTTTGAAATCACTGACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGaaaa                                                           >  1:727130/1‑141 (MQ=255)

                                                                              aaaGCGAGGTTGAAATCACTTACGGCAGAAACATGGATGCTAAATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGaaaa                                                           <  2:522558/141‑1 (MQ=255)

                                                                               aaGCGAGTTGTAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAac                                                          <  2:843463/141‑1 (MQ=255)

                                                                                aGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATTCGAAGGAAACGTGaaaaga                                                         >  2:220262/1‑139 (MQ=255)

                                                                                aGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATAAAGTGAACTGGAAAaca                                                         >  1:24212/1‑141 (MQ=255)

                                                                                aGCGAGTTTGAAATAACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATAATGCATTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAaca                                                         >  1:625390/1‑141 (MQ=255)

                                                                                     gTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAACACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAAACGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGa                                                    <  2:660985/141‑1 (MQ=255)

                                                                                       ttGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAg                                                  <  2:247148/141‑1 (MQ=255)

                                                                                       ttGAAATCACTGACGGCAGAAACATGGATGCTACAGATGCTTACGTGACAAAACACCGCTTAGCGGTTGATAGAAAACATGATGCCTTTAAAAACCGAAACGTTACAGTTAAATATGAAGGGAACTGGAAAACACATGAAg                                                  <  2:322272/141‑1 (MQ=255)

                                                                                            aTCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTaaaa                                             <  2:512893/141‑1 (MQ=255)

                                                                                            aTCAATTACGGCAAAAACATGAATGCCACATATGCAAAAATGCTAAACCCTAGCATGCCCATGGATATAAAACATGCTCATTATAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTaaaa                                             <  2:544359/141‑1 (MQ=255)

                                                                                                   tcGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTaaaa                                      <  2:607544/140‑1 (MQ=255)

                                                                                                   aCGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAACTATGAAGTGAACTGGAAAACACATGAAATAAAAATTcaaa                                      >  2:279458/1‑141 (MQ=255)

                                                                                                   aCGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTaaaa                                      >  1:83338/1‑141 (MQ=255)

                                                                                                    cGGCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAg                                     <  1:349267/141‑1 (MQ=255)

                                                                                                     ggCAGAAACATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGc                                    <  1:655215/141‑1 (MQ=255)

                                                                                                            aCATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCacac                             <  1:687469/141‑1 (MQ=255)

                                                                                                            aCATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCacac                             >  1:714067/1‑141 (MQ=255)

                                                                                                            aCATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCacac                             >  1:659953/1‑141 (MQ=255)

                                                                                                             catgcatgCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGCAAACCTGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACAcc                            >  1:815920/1‑141 (MQ=255)

                                                                                                             cATGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACAcc                            >  2:19185/1‑141 (MQ=255)

                                                                                                              aTGGATGCTACATATGCTTACGTGACAAGACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGATACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCt                           >  1:771466/1‑141 (MQ=255)

                                                                                                               tGGATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTa                          >  1:351716/1‑141 (MQ=255)

                                                                                                               gggATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTa                          >  2:1037807/2‑141 (MQ=255)

                                                                                                                ggATGCTACATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTaa                         <  2:704745/141‑1 (MQ=255)

                                                                                                                       aCATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATCGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACa                  >  1:1124505/1‑141 (MQ=255)

                                                                                                                       aCATATGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTTAAAATTAAAAGCATCACACCCAAGTAAACa                  >  1:606228/1‑141 (MQ=255)

                                                                                                                         atatGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGt                <  2:1157797/141‑1 (MQ=255)

                                                                                                                         atatGCTGACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGt                <  2:645859/141‑1 (MQ=255)

                                                                                                                          aatGCTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGtt               <  2:675545/140‑1 (MQ=255)

                                                                                                                              cTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGTTCAat           >  1:48873/1‑141 (MQ=255)

                                                                                                                              cTTACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGTTCAat           <  1:243514/141‑1 (MQ=255)

                                                                                                                              cTTACCTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGTTCAat           <  1:173368/141‑1 (MQ=255)

                                                                                                                                tACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGTTCAatca         <  1:902835/141‑1 (MQ=255)

                                                                                                                                tACGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGTTCAatca         <  1:646338/141‑1 (MQ=255)

                                                                                                                                 aCGTGACAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAAAACATGAAGTAAAAATTAAAAGCATCAAACCTAAGTAAACAGTTCAatcat        >  2:279727/1‑141 (MQ=255)

                                                                                                                                      aCAAAACATCTTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGTTCAATCATCTTaa   <  1:1138885/141‑1 (MQ=255)

                                                                                                                                       cAAAACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGATAAATATGAAGTGAACTGGAAAACAAATGAAGTAAAAATTAAAAGCCTCACAACTAAGTAAAACGTTAAATCATATTaaa  >  2:458472/1‑141 (MQ=255)

AACTACCTCCTTTAATTCAAAGTGGCTTTAATCCATCATTTATTACAACATTGTCACACGAAAGAGGTAAAGGTGATAAAAGCGAGTTTGAAATCACTTACGGCAGAAACATGGATGCTACATATGCTTACGTGACAAGACATCGTTTAGCCGTTGATAGAAAACATGATGCTTTTAAAAACCGAAACGTTACAGTTAAATATGAAGTGAACTGGAAAACACATGAAGTAAAAATTAAAAGCATCACACCTAAGTAAACAGTTCAATCATCTTAAA  >  USA300TCH1516_ALE/2542950‑2543225

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A