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	1,513,930	A→T	100%	L413F (TTA→TTT)	USA300HOU_RS07375 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,513,930	0	A	T	99.7%	819.6 / ‑6.1	250	L413F (TTA→TTT)	USA300HOU_RS07375	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (0/0); major base T (119/127); minor base G (2/2); total (121/129)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.

Only 100 of 251 total aligned reads displayed.

AATTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTACAAA  >  USA300TCH1516_ALE/1513793‑1514067

aattaattTGTATTTATCGCTTTATTAGTAGCCATTGGAATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATACAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTAtt                                                                                                                                        <  2:2691650/141‑1 (MQ=255)

aaTTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTAtt                                                                                                                                        <  1:2295742/141‑1 (MQ=255)

 atttatttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTAtaa                                                                                                                                       >  2:809394/1‑139 (MQ=255)

 atttatttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTg                                                                                                                                       <  1:4256447/141‑1 (MQ=255)

  ttgatttGTATGTATCGGTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAGTACCAGCATCTATATCTCTCATAATATGTTTTATTGt                                                                                                                                      <  1:1611696/138‑1 (MQ=255)

        tgaatgaatCGCTTAATTAGCAGCCAATGGAATGGGGTTTGACTAATGGATAAAGCGTAAAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAgg                                                                                                                                <  2:3002673/138‑1 (MQ=255)

          tatgtatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGat                                                                                                                              <  2:1637386/141‑1 (MQ=255)

          tatgtatCGCTTTATTAGTAGACAATGGCATGGGGTTTGTCTCTTAGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGat                                                                                                                              <  2:1719914/141‑1 (MQ=255)

           atttatCGATTTATTAGTAGGCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTAACAAAAAAAAA‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGatt                                                                                                                             <  2:1919599/138‑1 (MQ=255)

           atgtatCGCTTTATTAGTAGCGAATTCGATGGTGTGTGTCCGTTGGGTAAAGCGTCCAAAAAATACTGCAATAAAATTACCACAGCGCGT‑AAAAAAACCAGTATCTATATTACTTATAATCTGTTTTATTGTATTAGGatt                                                                                                                             >  2:1824877/1‑141 (MQ=255)

           atgtatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAACACATACAGGAATAGCCGCGTCGGAACGGGG‑AATAAAACCAGCATCTATATCACTCCTAATATGTTTTATTGTATTAGCatt                                                                                                                             >  2:949776/1‑141 (MQ=255)

           atgtatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATAGCGT‑AAAAAAACCAACATCTATAACACTCATAATATGTTTTCTTGTATTATGatt                                                                                                                             >  2:1128079/1‑141 (MQ=255)

              tatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGattatt                                                                                                                          <  1:1645149/141‑1 (MQ=255)

                     ttattaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCa                                                                                                                   <  1:2094767/141‑1 (MQ=255)

                      tattaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCat                                                                                                                  <  1:1390788/141‑1 (MQ=255)

                       attaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGCTTATTAATGCCatt                                                                                                                 >  2:385152/1‑141 (MQ=255)

                       attaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCatt                                                                                                                 <  1:1682111/141‑1 (MQ=255)

                       attaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCatt                                                                                                                 <  1:2991984/141‑1 (MQ=255)

                        ttaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCAatta                                                                                                                >  1:4214584/1‑141 (MQ=255)

                        ttaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGACTTATTACTACCattt                                                                                                                >  2:2627352/1‑140 (MQ=255)

                         tagtagCCATTGGCATGGGGTTTGTCTCTTTGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCcttat                                                                                                               >  2:1497237/1‑141 (MQ=255)

                         tagtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattat                                                                                                               >  1:3215729/1‑141 (MQ=255)

                          agtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattatt                                                                                                              >  1:795036/1‑141 (MQ=255)

                           gtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTAttt                                                                                                             >  1:3468339/1‑141 (MQ=255)

                           gtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTAttt                                                                                                             <  1:3632060/141‑1 (MQ=255)

                            tagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTg                                                                                                            >  1:2599593/1‑141 (MQ=255)

                             agCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCACTACAAGTACCACATCGCGTAAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTg                                                                                                            >  1:3175860/1‑141 (MQ=255)

                             agCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTgg                                                                                                           >  1:2887983/1‑141 (MQ=255)

                             agCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTgg                                                                                                           >  1:4005271/1‑141 (MQ=255)

                             agCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTgg                                                                                                           >  2:322611/1‑141 (MQ=255)

                             agCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTgg                                                                                                           >  2:2991690/1‑141 (MQ=255)

                                cATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTATGATTATTTATGCCATTCTTTGGttt                                                                                                        >  2:1180393/1‑141 (MQ=255)

                                cATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGAtt                                                                                                        <  1:2723483/141‑1 (MQ=255)

                                  ttGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAt                                                                                                      <  1:538331/141‑1 (MQ=255)

                                    ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTTTATTAGGATTATTAATGCCATTATTTGGATTAtta                                                                                                    >  2:800559/1‑139 (MQ=255)

                                    ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTCTTTGGATTATCa                                                                                                    >  1:3438801/1‑141 (MQ=255)

                                    ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCa                                                                                                    <  2:2447144/141‑1 (MQ=255)

                                    ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCa                                                                                                    >  1:455131/1‑141 (MQ=255)

                                    ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGACATTATTTGGATTATCa                                                                                                    >  1:2958146/1‑141 (MQ=255)

                                    ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGAAACTCAACTACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCa                                                                                                    <  1:3952277/141‑1 (MQ=255)

                                    ggCATGGGGGTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCa                                                                                                    >  2:2954474/1‑141 (MQ=255)

                                     gCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCAc                                                                                                   <  1:4021104/141‑1 (MQ=255)

                                     gCATGGGGTATGTCGCTTGAATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCAc                                                                                                   <  2:485251/141‑1 (MQ=255)

                                     gCACGGGGCTTGTCGCGTGCATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTAGATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCAc                                                                                                   <  1:570501/141‑1 (MQ=255)

                                      cATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACt                                                                                                  >  1:4143673/1‑141 (MQ=255)

                                       aTGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGTATTATCACtt                                                                                                 >  2:4362042/1‑141 (MQ=255)

                                        tGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATCTCCCCACCAATAGGTGGGATTGTCTTAGGTTTATTAATGCCATTATTTGGATTATCACttt                                                                                                >  2:493819/1‑140 (MQ=255)

                                          gggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAGAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATc                                                                                              >  1:1691759/1‑141 (MQ=255)

                                            gTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATAGGTTTTATTGTATTAGGAGTATGAATGCCATTATTTGGATTATCACTTATCCt                                                                                            <  1:3365223/141‑1 (MQ=255)

                                              ttGTATATTGGATAAAGCTTAAAAAAAATACTGGAATAAAAGTACTACATAGCGT‑AAAAAAACCAGCATTTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTg                                                                                          <  2:3992485/141‑1 (MQ=255)

                                               tGTCTCGTGGACAAAGCGCAAAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGt                                                                                         <  1:740718/141‑1 (MQ=255)

                                                    ctTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTta                                                                                    <  2:3476034/141‑1 (MQ=255)

                                                     ttGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTTGATTATCACTTATCCTTGTTTTtat                                                                                   >  1:3558122/1‑141 (MQ=255)

                                                     ttGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTtat                                                                                   <  1:3967830/141‑1 (MQ=255)

                                                       agATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATaa                                                                                 <  2:3282652/140‑1 (MQ=255)

                                                        gATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAAt                                                                                <  2:4061128/141‑1 (MQ=255)

                                                             aGCGTAAAAAAAATACTGCAATAAAAGTACCAAATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAt                                                                           <  2:2131722/141‑1 (MQ=255)

                                                              gCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATCATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAtt                                                                          <  1:614358/141‑1 (MQ=255)

                                                              gCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAtt                                                                          >  1:1130366/1‑141 (MQ=255)

                                                                 tACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAat                                                                       >  2:2039823/1‑141 (MQ=255)

                                                                     aaaaaTACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAAtatta                                                                   >  2:4300182/1‑141 (MQ=255)

                                                                      aaaaTACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAAtattat                                                                  >  1:3719744/1‑141 (MQ=255)

                                                                      aaaaTACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAAtattat                                                                  >  1:1517992/1‑141 (MQ=255)

                                                                      aaaaTACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTAATAATATGTTTTATTGTATTAAGATTATTAATTCCATTATTTTGATTTTCACTTATCCTTTTATTTATTATTGATTTAAttttat                                                                  >  2:2611845/1‑141 (MQ=255)

                                                                       aaaTACTGCAATAAAAGTACCACATCGCGTAAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAAtattat                                                                  <  2:1257189/141‑1 (MQ=255)

                                                                       aaaTACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATtata                                                                 >  1:79550/1‑141 (MQ=255)

                                                                          tACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTatatat                                                              >  2:1780869/1‑141 (MQ=255)

                                                                             tGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTATATTAGGATTATTAATGCCATTCTTTTGATTATCACTTATCCTTTTATTTATACTTCAATTCATATTATATATTaa                                                           >  2:1357466/1‑141 (MQ=255)

                                                                              gCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTaaa                                                          >  1:2393972/1‑141 (MQ=255)

                                                                                     aaGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtc                                                   >  1:3864466/1‑141 (MQ=255)

                                                                                      aGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATACTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtcg                                                  >  1:1324459/1‑141 (MQ=255)

                                                                                       gTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATcgtcgt                                                 <  2:375448/141‑1 (MQ=255)

                                                                                       gTACCACATCGCGG‑AATTAAACGGGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATcgtcgt                                                 >  2:2717038/1‑141 (MQ=255)

                                                                                          ccACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCt                                              >  2:569159/1‑141 (MQ=255)

                                                                                          ccAAATCGCGT‑AAAAAAACCAGAATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCt                                              <  2:3548739/141‑1 (MQ=255)

                                                                                           cacaTCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTa                                             <  1:2268341/141‑1 (MQ=255)

                                                                                           cacaTCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTa                                             <  1:199557/141‑1 (MQ=255)

                                                                                              aTCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAAc                                          <  1:2830386/141‑1 (MQ=255)

                                                                                              aTCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAAc                                          >  2:2282797/1‑141 (MQ=255)

                                                                                               tCGCGT‑AAAAAAACCAGCATTGATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACa                                         <  2:644693/141‑1 (MQ=255)

                                                                                                      aaaaaaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaataatt                                   >  2:4132224/1‑140 (MQ=255)

                                                                                                          aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  1:1538486/141‑1 (MQ=255)

                                                                                                          aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  1:1150970/141‑1 (MQ=255)

                                                                                                          aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  1:3056703/141‑1 (MQ=255)

                                                                                                          aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  2:2871304/141‑1 (MQ=255)

                                                                                                          aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  1:554993/141‑1 (MQ=255)

                                                                                                             ncAGCATCTATATCACGCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaa                            <  1:4312660/140‑1 (MQ=255)

                                                                                                             ccAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaa                            >  1:2554167/1‑141 (MQ=255)

                                                                                                              cAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaaa                           <  1:1939085/141‑1 (MQ=255)

                                                                                                              cAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaaa                           <  1:1243894/141‑1 (MQ=255)

                                                                                                              cAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaaa                           <  1:3869300/141‑1 (MQ=255)

                                                                                                                  aTCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGttt                       <  2:3485565/141‑1 (MQ=255)

                                                                                                                  aTCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGttt                       <  1:2703572/141‑1 (MQ=255)

                                                                                                                  aTCTATATCACTCATAATATGTTTTATCGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGttt                       >  1:3049825/1‑141 (MQ=255)

                                                                                                                      atatCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGaa                   <  1:3807826/141‑1 (MQ=255)

                                                                                                                       tatCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAAc                  >  1:493596/1‑141 (MQ=255)

                                                                                                                           aCTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTAAATTAATATTATATATTAAATATCGTCGTGCTAAACAATAATGAACTTATAGTTTTTAACTGAc              >  2:246104/1‑141 (MQ=255)

                                                                                                                              cATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTAGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGaa           >  1:3299220/1‑141 (MQ=255)

                                                                                                                                  atatGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAttt       >  2:1017930/1‑141 (MQ=255)

                                                                                                                                   tatGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTGCTTCTACTGTCGTCAAGATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTa      <  1:1029860/141‑1 (MQ=255)

AATTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGT‑AAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTACAAA  >  USA300TCH1516_ALE/1513793‑1514067

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