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
A3 F60 I0 R1	73	395.3	8837978	95.5%	8440268	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,372,751	A→T	68.8%	L342* (TTA→TAA)	pbuG ←	Guanine/hypoxanthine permease PbuG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,372,751	0	A	T	68.8%	530.6 / inf	407	L342* (TTA→TAA)	pbuG	Guanine/hypoxanthine permease PbuG
Reads supporting (aligned to +/- strand): ref base A (66/60); new base T (156/119); total (226/181)
Fisher's exact test for biased strand distribution p-value = 4.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.52e-01

Only 100 of 410 total aligned reads displayed.

TGAAGGCTGGCACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAAC  >  USA300TCH1516_ALE/2372611‑2372891

        ggCACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGaaa                                                                                                                                      <  1:1382830/141‑1 (MQ=255)

        ggCACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACCAAAGAACAGCGCTACTAGCaaa                                                                                                                                      >  2:2504374/1‑141 (MQ=255)

        ggCACTGCAACTTCAAAACGTTCCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGaaa                                                                                                                                      <  1:2813720/141‑1 (MQ=255)

          cACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGCaaca                                                                                                                                    >  1:271158/1‑141 (MQ=255)

          cACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAaaca                                                                                                                                    <  1:1744695/141‑1 (MQ=255)

             tGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACCAAAGAACAGCGCATATAGGAaaccaca                                                                                                                                 >  2:1423034/1‑141 (MQ=255)

                  cTTCAAAAGTTTTCCAGTTTATCTCATCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTg                                                                                                                            <  2:7231/141‑1 (MQ=255)

                  cTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACGACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTg                                                                                                                            >  1:2402084/1‑141 (MQ=255)

                  cTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTg                                                                                                                            <  2:574461/141‑1 (MQ=255)

                  cTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTg                                                                                                                            <  1:579896/141‑1 (MQ=255)

                    tCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGtt                                                                                                                          >  2:1879704/1‑141 (MQ=255)

                         aCTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGAt                                                                                                                     <  1:42944/141‑1 (MQ=255)

                             ttCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTa                                                                                                                 >  1:3296358/1‑141 (MQ=255)

                             ttCCAGTATATCTCAGCATAGTATGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGACGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTa                                                                                                                 <  2:3067164/141‑1 (MQ=255)

                              tCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTATTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACtcg                                                                                                                >  1:1112076/1‑139 (MQ=255)

                               ccAGTTTATCTCAGCAAAGTTTCCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGAACTAAAGAACAGCGCTTATAGCAAACAACAACCTGTTACGATACTAGc                                                                                                               >  2:1119079/1‑141 (MQ=255)

                                cAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCa                                                                                                              >  1:3608277/1‑141 (MQ=255)

                                 aGTTTATCTCAGCAAAGTTTGAAGCCATTAATACACCGACCACCACTAGGGATGGTGTCGTAACTGCACTTCTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCaa                                                                                                             <  2:3316399/141‑1 (MQ=255)

                                      aTCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTCGCAACTcca                                                                                                        >  2:3760382/1‑140 (MQ=255)

                                       tctcAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTg                                                                                                       <  1:1933840/141‑1 (MQ=255)

                                        ctcAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGt                                                                                                      <  2:1043708/141‑1 (MQ=255)

                                         tcAGCAAAGTTTGCAGCCATTAATACGCCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGtt                                                                                                     >  1:87381/1‑141 (MQ=255)

                                         tcAGCAAAGTTTGCAGCCATTAATACAGCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAAGAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGtt                                                                                                     <  2:2015297/141‑1 (MQ=255)

                                         tcAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGtt                                                                                                     >  1:2979842/1‑141 (MQ=255)

                                          cAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGATACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTc                                                                                                    >  2:2988202/1‑141 (MQ=255)

                                           aGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTGGCAAATCCTGTTCt                                                                                                   >  2:3937459/1‑141 (MQ=255)

                                              aaaGGTTGCAGCCACTAATACACCGACCACCACTAAGGCTGGGGTCGTAACTGCACTTGTTACAACAGCCATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGc                                                                                                <  2:4206178/141‑1 (MQ=255)

                                                  tttGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCt                                                                                            >  2:2331632/1‑141 (MQ=255)

                                                    tGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTAc                                                                                          >  1:2144167/1‑141 (MQ=255)

                                                    tGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTAc                                                                                          >  2:1314309/1‑141 (MQ=255)

                                                    tGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTAc                                                                                          >  1:1993242/1‑141 (MQ=255)

                                                     gCAGCCATTAATACACCTACCACCACAAAGGCTGGTGTCGTGAAAGGAGTTCTGTCTACAGCGAGCAGATGACTAAAGAACAGCGCTTATGGGAAACAACAACCTGTTACGATACTAACAACTCCCGTCCTAGCACCCAcc                                                                                         >  2:952606/1‑140 (MQ=255)

                                                      cAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCCAATCCTGTTCTAGCAACTACAg                                                                                        >  2:1729386/1‑141 (MQ=255)

                                                         ccATTAAGACACCTACCAACACTAAGGCTGGGGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCaa                                                                                     <  2:3856337/141‑1 (MQ=255)

                                                           aTTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAaca                                                                                   >  1:3063625/1‑141 (MQ=255)

                                                              aaTACACCTACCACCCCTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCt                                                                                <  1:2572022/141‑1 (MQ=255)

                                                                 ccacgtgccacccCTAAGGCTCGTTACGTAACTGGACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGTAAATCCTGTTCTAGCACCTACAGCAACACCTGaa                                                                             <  2:2898355/134‑1 (MQ=255)

                                                                 acacCGACCACCCATAGGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGaa                                                                             <  2:3204435/141‑1 (MQ=255)

                                                                   acCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACAGCTGAAGt                                                                           <  2:1620384/141‑1 (MQ=255)

                                                                    ccTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATGAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGtt                                                                          <  1:1213640/141‑1 (MQ=255)

                                                                        ccaccaCTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGAtt                                                                      >  1:1450054/1‑141 (MQ=255)

                                                                        ccaccaCTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCATCACCTGAAGTTGAtt                                                                      >  1:3090874/1‑141 (MQ=255)

                                                                         caccacTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCCACACCTGGCGTCGATTc                                                                     >  1:457560/1‑141 (MQ=255)

                                                                          cccacTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCg                                                                    <  2:1004200/140‑1 (MQ=255)

                                                                          accacTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCg                                                                    >  1:2337395/1‑141 (MQ=255)

                                                                           ccacTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACCGCTCTGATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGa                                                                   >  1:1690501/1‑141 (MQ=255)

                                                                           ccacTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGa                                                                   >  2:4111975/1‑141 (MQ=255)

                                                                              cTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGatat                                                                >  1:2215771/1‑141 (MQ=255)

                                                                              cTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGatat                                                                >  2:4331152/1‑141 (MQ=255)

                                                                                aaGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaa                                                              <  2:333320/141‑1 (MQ=255)

                                                                                aaGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaa                                                              >  1:3855805/1‑141 (MQ=255)

                                                                                 aGGGTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaag                                                             <  2:3996343/141‑1 (MQ=255)

                                                                                 aGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAGCCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaag                                                             >  1:3345128/1‑141 (MQ=255)

                                                                                 aGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATaag                                                             <  2:3675109/141‑1 (MQ=255)

                                                                                   gCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAAAACCTGAAGTTGATTCGATATaagaa                                                           <  1:649823/141‑1 (MQ=255)

                                                                                      tgtgtAGTAACTGTTTTTGTTACAATAGCAATTAACGGACTAAAGAATAGCGCTTATAGTAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTTATTCTATATAAGAAgtt                                                        <  2:1484607/140‑1 (MQ=255)

                                                                                      ggTGTCGTAACTGCACTTGTTACAAAAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACATGTTACGATACTAGCAAATCATGTTATAGCAACTACAGCAACACCTGAAGTTGATTCGATATaagaagat                                                        >  2:801321/1‑139 (MQ=255)

                                                                                       gtgtCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGCTATAAGAAgttg                                                       >  1:1125107/1‑141 (MQ=255)

                                                                                       gtgtCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAgttg                                                       >  1:3497305/1‑141 (MQ=255)

                                                                                        tgtCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAgttgt                                                      <  1:2497142/141‑1 (MQ=255)

                                                                                          tCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGttgttg                                                    <  2:1901908/141‑1 (MQ=255)

                                                                                           cGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGACGTtggtgt                                                   >  1:3653145/1‑141 (MQ=255)

                                                                                           cGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTtgttgt                                                   >  2:3403636/1‑141 (MQ=255)

                                                                                            gTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAACCAACAACCTGTTACGATACTAGCAAATCCTGTTCTCGCACCTACAGCCACACCTGCAGTTGACTCGATATACGACgttcttctc                                                  >  2:86522/1‑138 (MQ=255)

                                                                                              aaCTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAACATGATTCTCTATAAGAAGTTGTTGTaat                                                >  2:1464250/1‑139 (MQ=255)

                                                                                                 tGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAgttgt                                             >  1:492372/1‑141 (MQ=255)

                                                                                                    aCTTGTTACAACAGCGATTAACGGACTAAAGAACCGCGCGTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTcc                                          <  1:1877471/141‑1 (MQ=255)

                                                                                                        gTTACAACAGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCaaaa                                      >  2:222669/1‑141 (MQ=255)

                                                                                                         ttACAACAGCGATTAACGGACTAAAGAACATCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCaaaaa                                     <  2:655997/141‑1 (MQ=255)

                                                                                                         ttACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCaaaaa                                     <  1:4209031/141‑1 (MQ=255)

                                                                                                           acaacaGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACt                                   >  2:3616942/1‑141 (MQ=255)

                                                                                                            caacaGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTg                                  >  1:2958464/1‑141 (MQ=255)

                                                                                                             aacaGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCACCACCTGAAGTTGATTCGATATAAGATGTTGTTGTAGTTGTTCCAAAAACtcc                                 >  1:1486633/1‑139 (MQ=255)

                                                                                                             aacaGCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATCTAAGAAGTTGTTGTAGTTGTTCAAAAAACTGa                                 >  1:1181753/1‑141 (MQ=255)

                                                                                                             aacaGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACATACAGCTACACCTGACGTTGATTCGATATAAGACGTTGTTGTAGTTGTTCCAAAAACTGa                                 >  1:4366778/1‑141 (MQ=255)

                                                                                                              acaGCGATTAACGGTCTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGAt                                <  1:959099/141‑1 (MQ=255)

                                                                                                              acaGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGAt                                >  2:2425692/1‑141 (MQ=255)

                                                                                                                 gCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCt                             >  1:3017244/1‑141 (MQ=255)

                                                                                                                 gCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCt                             <  1:3999487/141‑1 (MQ=255)

                                                                                                                 gCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCt                             <  1:1523128/141‑1 (MQ=255)

                                                                                                                 gCGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCt                             <  1:4111975/141‑1 (MQ=255)

                                                                                                                 aacgtgaaCGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCt                             <  1:3189790/135‑1 (MQ=255)

                                                                                                                  cGATTAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAATTGTTGTAGTTGTTCCAAAAACTGATCCTa                            >  1:790692/1‑141 (MQ=255)

                                                                                                                   gATTAACGGACTAAAGAACGGCGCTTATAGGAAACAACAACCGGTTACGATACTAGCAAATCCTGTTCTAGCACCTACGGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTAc                           <  2:1173190/141‑1 (MQ=255)

                                                                                                                      tAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAAt                        <  1:1467502/141‑1 (MQ=255)

                                                                                                                      tAACGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAAt                        >  1:3767755/1‑141 (MQ=255)

                                                                                                                        aCGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATca                      >  2:4416539/1‑140 (MQ=255)

                                                                                                                        aCGGACTAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCGTTTTGAGCACCTACAGCAACACCTGAAGTTGATTCGATATACGAAGTTGTTGTAGTTGTTCAAAAAACTGATCCTACAACCg                      >  2:2191186/1‑141 (MQ=255)

                                                                                                                        aCGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCCACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATct                      >  2:4086631/1‑140 (MQ=255)

                                                                                                                         cGGACTAAAGAACGGTGCTAATAGCAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGt                     <  2:1251381/141‑1 (MQ=255)

                                                                                                                             cTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCTATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCt                 <  1:1597671/141‑1 (MQ=255)

                                                                                                                              tAAAGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATACTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATGCTACAATCGTAGCTa                >  2:1652336/1‑141 (MQ=255)

                                                                                                                               aaaGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTaa               <  2:479283/141‑1 (MQ=255)

                                                                                                                                 aGAACAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCATACAATCGTAGCTAAAg             >  1:747362/1‑141 (MQ=255)

                                                                                                                                  gAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGa            >  2:2069115/1‑141 (MQ=255)

                                                                                                                                     cAGCGCTTATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAACCGTAGCTAAAGAATc         <  2:3554323/141‑1 (MQ=255)

                                                                                                                                     cAGCGCTTATAGGAAACAACAACCTGTTACGATAATAGCAAATCCTTTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAACTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATc         <  1:1050159/141‑1 (MQ=255)

                                                                                                                                      aGCGCTTATAGGAAACAACAACCTGTAAAGAGACTTGCAAATTCTGTGCTTGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCt        <  2:25829/141‑1 (MQ=255)

                                                                                                                                          cTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCTATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTgaga    >  2:2679527/1‑141 (MQ=255)

                                                                                                                                           tAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGaa   >  1:2631104/1‑141 (MQ=255)

TGAAGGCTGGCACTGCAACTTCAAAACTTTTCCAGTTTATCTCAGCAAAGTTTGCAGCCATTAATACACCTACCACCACTAAGGCTGGTGTCGTAACTGCACTTGTTACAACAGCGATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAAC  >  USA300TCH1516_ALE/2372611‑2372891

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