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
A5 F58 I0 R1	46	56.2	1222162	96.0%	1173275	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,454,626	A→T	12.0%	L48L (CTA→CTT)	lyrA →	Lysostaphin resistance protein A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,454,626	0	A	T	12.0%	193.2 / 15.9	73	L48L (CTA→CTT)	lyrA	Lysostaphin resistance protein A
Reads supporting (aligned to +/- strand): ref base A (35/29); new base T (4/5); total (39/34)
Fisher's exact test for biased strand distribution p-value = 7.25e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01

AGAACAATAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTCT  >  USA300TCH1516_ALE/2454487‑2454763

agaaCAATAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTATATAATTGTTGTCAAACACTTTATATTTGAAGTTACGGATCTAg                                                                                                                                          >  2:472832/1‑141 (MQ=255)

      aTAAATTTTCTGGTTTTCAAGGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCAt                                                                                                                                    <  2:289036/141‑1 (MQ=255)

       tAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCAtt                                                                                                                                   <  2:66418/141‑1 (MQ=255)

                 ggTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCa                                                                                                                         <  1:351556/141‑1 (MQ=255)

                  gTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCaa                                                                                                                        >  2:422207/1‑141 (MQ=255)

                  gTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCaa                                                                                                                        <  2:236612/141‑1 (MQ=255)

                      tCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACGGCTCTAGAACCATTAATGGCTCAAATctt                                                                                                                    >  2:491785/1‑139 (MQ=255)

                         aTGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTg                                                                                                                 <  1:562867/141‑1 (MQ=255)

                          tGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGTTGTCAAACAATTTATATTTGAAGTTACAGATCTTGCACCATTATTTGCTGCAATCATTTGt                                                                                                                >  1:232495/1‑141 (MQ=255)

                           gggCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGATATCCATTATGCTCAGAGATTTACAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTGATTGCTGCAATCATTTGta                                                                                                               >  2:162100/1‑141 (MQ=255)

                           gggCAATGACCATTCTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGta                                                                                                               <  1:12380/141‑1 (MQ=255)

                            ggCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGtat                                                                                                              >  1:234643/1‑141 (MQ=255)

                             gCATTGACGATTTTCGTCTTCTTTGTCATTACAATGGAGTTATCCATTAAGCCCAGAGATTTCCAGTCTATAATTGGTATCAACCACTTTATATTTGAAGTTACAGATCTACCACCATTAATTGCTGAAATCATTTCtatc                                                                                                             >  2:226400/1‑140 (MQ=255)

                             gCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGtata                                                                                                             >  2:467433/1‑141 (MQ=255)

                              ccgtGACGCTTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGGGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCAGTTGTATAc                                                                                                            <  2:388510/138‑1 (MQ=255)

                               aaagACGATTTTCATCTTCTATGAAAACACAATGACATAATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTGATATTTGAAGTTACAGACCTAGCACCATTAATTGCTGCAATCATTTGTATACt                                                                                                           <  1:250263/138‑1 (MQ=255)

                                aTGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTGAGAGATTACCATACTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCCATCATTTGTATACTc                                                                                                          >  2:34483/1‑141 (MQ=255)

                                aTGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTc                                                                                                          <  1:270302/141‑1 (MQ=255)

                                aTGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTc                                                                                                          <  1:467433/141‑1 (MQ=255)

                                  gACGTTTTTCGTTTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGt                                                                                                        <  2:49157/141‑1 (MQ=255)

                                           cGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAata                                                                                               >  2:480742/1‑141 (MQ=255)

                                                tcttTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATaaaa                                                                                          >  1:180128/1‑141 (MQ=255)

                                                tcttTGTCATTACAATGGCATTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGCGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATaaaa                                                                                          >  1:367487/1‑141 (MQ=255)

                                                     gTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTc                                                                                     >  1:411666/1‑141 (MQ=255)

                                                           aCAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACtt                                                                               >  1:603443/1‑141 (MQ=255)

                                                              aTGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCa                                                                            <  1:493254/141‑1 (MQ=255)

                                                              aTGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCa                                                                            <  1:493211/141‑1 (MQ=255)

                                                               tGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAg                                                                           >  1:402530/1‑141 (MQ=255)

                                                                ggCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGTTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAgg                                                                          <  2:377422/141‑1 (MQ=255)

                                                                ggCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAgg                                                                          <  2:377494/141‑1 (MQ=255)

                                                                 gcattATCCATTATGCTTTGAGTATTCCAGTCTATAATTGGTGTCGAACACTTTATATTTGAAGTTACAACTCTAGTACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGt                                                                         <  1:491785/138‑1 (MQ=255)

                                                                      aTCCATTATGCGCATAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAACCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTaaa                                                                    <  2:145388/141‑1 (MQ=255)

                                                                       tCCATTATGCTCAGAGTTTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGCAGTGACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGGTTGCAAATATAAAAAGGACAAACGTGCAGGTTTaaaa                                                                   >  2:536389/1‑141 (MQ=255)

                                                                         cATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAAtt                                                                 <  1:368736/141‑1 (MQ=255)

                                                                               gCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTGTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCCAt                                                           >  2:196150/1‑141 (MQ=255)

                                                                                cTCAGAGATTTCCAGTCTATAAGTCGCGTCAAACACTGTATATTTGTTGTTTCTGGTCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATc                                                          <  1:441820/141‑1 (MQ=255)

                                                                                 tCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCa                                                         >  1:212331/1‑141 (MQ=255)

                                                                                    gagaTTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGGTACAGATCTAGCACAATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAAGATAAAAAGGTCCAACTTGCAGGTTTAAAATTCGCAATCAccc                                                      >  1:485855/1‑141 (MQ=255)

                                                                                         ttCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGaaa                                                 <  2:405866/141‑1 (MQ=255)

                                                                                         ttCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGaaa                                                 >  1:474889/1‑141 (MQ=255)

                                                                                          tCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAg                                                >  2:605319/1‑141 (MQ=255)

                                                                                          tCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGGTACAGATCGAGCACCATTAATTGCTGCAATCATTTGTATACTCGATTACAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAg                                                <  2:302429/141‑1 (MQ=255)

                                                                                          tCCAGGCTATAATTGGTGTCAAACACTGTATATTTGAAGTTACAGATCGAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAAGATAAAAAGGTCCAACTTGCAGGTTTAAAAGTCTCAATCAGCCTGAAAg                                                <  1:275026/141‑1 (MQ=255)

                                                                                           ccAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGt                                               >  2:399399/1‑141 (MQ=255)

                                                                                                 tataATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGa                                         >  1:602975/1‑141 (MQ=255)

                                                                                                  ataATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGaa                                        >  2:119501/1‑141 (MQ=255)

                                                                                                  ataATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGaa                                        >  1:563856/1‑141 (MQ=255)

                                                                                                  ataATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGAAATCCTTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGaa                                        >  1:83204/1‑141 (MQ=255)

                                                                                                     atcggTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGt                                     <  1:84493/138‑1 (MQ=255)

                                                                                                          tgtCAAACACTTTATATTTGAAGTTACAGATCTAGCACGATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTAAATCAGCCGGAAAGTAATTGAACGTATAtt                                >  2:401890/1‑141 (MQ=255)

                                                                                                          tgtCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGCACGTCTAtt                                >  1:33805/1‑141 (MQ=255)

                                                                                                                  acTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAGAGTAATTGAACGTCTATTGCTAGCtt                        <  2:367487/141‑1 (MQ=255)

                                                                                                                  acTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCtt                        <  2:180128/141‑1 (MQ=255)

                                                                                                                  acTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCtt                        <  2:431937/141‑1 (MQ=255)

                                                                                                                     ttATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTaa                     >  1:504980/1‑141 (MQ=255)

                                                                                                                      tataTTTGAAGTTCCAGATCTAGCGCCATTGATTGCTGCAATGATTGGTATGCTCGTGGTGAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAt                    >  2:509907/1‑141 (MQ=255)

                                                                                                                       atatTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAtt                   >  1:553628/1‑141 (MQ=255)

                                                                                                                       atatTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATCTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAATGAATTGAACGTCAATTGCTATCTTTAAtt                   >  1:347024/1‑141 (MQ=255)

                                                                                                                        tctttGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAttt                  <  2:328950/139‑1 (MQ=255)

                                                                                                                        tatTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAttt                  >  1:511518/1‑141 (MQ=255)

                                                                                                                        tatTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAttt                  >  1:185022/1‑141 (MQ=255)

                                                                                                                        tatTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAttt                  <  2:234643/141‑1 (MQ=255)

                                                                                                                        tatTTGAAGTTACAGATCTAACACCATTAATTGCCGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAttt                  <  2:566377/141‑1 (MQ=255)

                                                                                                                              aaGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCtt            <  1:593023/141‑1 (MQ=255)

                                                                                                                              aaGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTAAGCGTCTATTGCTAGCTTTAATTTTACCtt            >  1:316950/1‑141 (MQ=255)

                                                                                                                                gTTACAGATCTAGCAACAATAGCTCGGAGAATGATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCATGAAACTAATTGAACGACTATTGTGACCTTTAATTTTACTTTTa          >  1:146357/1‑141 (MQ=255)

                                                                                                                                 tttcAGATTTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTaa         <  2:262692/138‑1 (MQ=255)

                                                                                                                                 ttACAGATCTAGTACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTaa         <  2:262614/141‑1 (MQ=255)

                                                                                                                                   aCAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAatt       >  1:11947/1‑141 (MQ=255)

                                                                                                                                   aCAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAAAGTCTATTGCTAGCTTTAATTTTACCTTTAatt       >  1:273186/1‑141 (MQ=255)

                                                                                                                                       aTCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTc   <  1:605319/141‑1 (MQ=255)

                                                                                                                                       aTCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTc   <  1:480742/141‑1 (MQ=255)

                                                                                                                                        tCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTACTAGCTTTAATTTTACCTTTACTTATTCt  >  1:240144/1‑141 (MQ=255)

AGAACAATAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTCT  >  USA300TCH1516_ALE/2454487‑2454763

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