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 F109 I0 R1	76	110.5	2404748	96.5%	2320581	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	30.2%	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	30.2%	153.3 / 102.4	116	L48L (CTA→CTT)	lyrA	Lysostaphin resistance protein A
Reads supporting (aligned to +/- strand): ref base A (56/25); new base T (14/21); total (70/46)
Fisher's exact test for biased strand distribution p-value = 4.05e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.27e-01

Only 100 of 119 total aligned reads displayed.

AGAACAATAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTCTAAT  >  USA300TCH1516_ALE/2454487‑2454766

 gaaCAATTAAATTTCTGGTTGTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCGGAGATTTCCAGTCTATAATTGGTGTCAAACACTTGATATTTGAAGTTACAGATCTAGc                                                                                                                                            >  1:755636/1‑141 (MQ=255)

    cAATAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGTAGTTACAGATCTTGCAcc                                                                                                                                         >  1:920579/1‑141 (MQ=255)

    cAATAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCAcc                                                                                                                                         >  2:503060/1‑141 (MQ=255)

    cAATAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCAcc                                                                                                                                         >  1:183870/1‑141 (MQ=255)

     aaTAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCa                                                                                                                                        >  1:346888/1‑141 (MQ=255)

      aTAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCAt                                                                                                                                       <  1:445410/141‑1 (MQ=255)

      aTAAAATTTCTGGGTTTCAATGGGCAATGACGATTTTCGGCCTCTTTTTCATTACGATGGCGTTCTCCCTTATGCTCCGACACTCTCCGTCTAGAATTGGTGTCAAACCCTTTATATTTGAAGTTACAGATCTTGCACCAt                                                                                                                                       <  2:298350/141‑1 (MQ=255)

       tAAAATTTCTGGTTTTCCATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATCATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATCTTTGAAGTTACAGATCTAGCGCCAtt                                                                                                                                      >  2:552935/1‑141 (MQ=255)

       tAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCAtt                                                                                                                                      >  1:559634/1‑141 (MQ=255)

           aTTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAAtt                                                                                                                                  >  1:617508/1‑141 (MQ=255)

           aTTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAAtt                                                                                                                                  >  1:18576/1‑141 (MQ=255)

            tttCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTTTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATtg                                                                                                                                 <  1:106486/141‑1 (MQ=255)

            tttCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATtg                                                                                                                                 <  1:154330/141‑1 (MQ=255)

            tttCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATtg                                                                                                                                 <  1:632101/141‑1 (MQ=255)

                tGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACCGATCTAGCACCATTAATtgctgc                                                                                                                             >  1:429060/1‑141 (MQ=255)

                   ttaaaaaTGGGCAATGCCGATCTTCGTATACTTTGTCGTTACAATGGAGTTATCAATTATGCTCAGAGATTTCCAGTGCATAATTGGGGTAACACACTTTATATTGGAAGTTACAGATCTAGCACCATTAATTGCGGCAAt                                                                                                                          >  2:412848/6‑141 (MQ=255)

                    tttCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATc                                                                                                                         >  2:664352/1‑141 (MQ=255)

                             gCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGtata                                                                                                                >  2:719813/1‑141 (MQ=255)

                               aaTGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACt                                                                                                              <  2:397191/141‑1 (MQ=255)

                               aaTGACGATTTTCGTCTTCCTTGTCATGACAATGGCGATGACCATTATGCTCAGATATTTTCAGTCTATAATTAGTGTGAAATACTTTATATTGTAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACt                                                                                                              <  2:780820/141‑1 (MQ=255)

                                aTGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTc                                                                                                             <  1:165103/141‑1 (MQ=255)

                                aTGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCAATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATAATTTGTATACTc                                                                                                             >  2:562803/1‑141 (MQ=255)

                                 tGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCg                                                                                                            >  1:378760/1‑141 (MQ=255)

                                   aCGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGtt                                                                                                          >  1:1050882/1‑141 (MQ=255)

                                    cGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGttt                                                                                                         >  2:960372/1‑141 (MQ=255)

                                    cGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGttt                                                                                                         >  1:762176/1‑141 (MQ=255)

                                    cGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGttt                                                                                                         >  1:522595/1‑141 (MQ=255)

                                           cGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAata                                                                                                  >  1:527979/1‑141 (MQ=255)

                                           cGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAACCATTTGTATACTCGTTTTCAAata                                                                                                  >  1:611214/1‑141 (MQ=255)

                                           agccttctaTCTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTTGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAata                                                                                                  <  2:949565/138‑1 (MQ=255)

                                                   ttGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAgg                                                                                          >  1:424104/1‑141 (MQ=255)

                                                    tGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGt                                                                                         <  1:525923/141‑1 (MQ=255)

                                                      tCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTcc                                                                                       <  1:43583/141‑1 (MQ=255)

                                                      tCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTcc                                                                                       >  2:778376/1‑141 (MQ=255)

                                                        aTTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCaa                                                                                     <  2:476419/141‑1 (MQ=255)

                                                         ttACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAAc                                                                                    <  2:794517/141‑1 (MQ=255)

                                                         ttACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAAc                                                                                    >  2:1043289/1‑141 (MQ=255)

                                                         ttACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAAc                                                                                    <  1:65339/141‑1 (MQ=255)

                                                         ttAAAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCGCCATTAATTGCTGCAATCATTTGTATACACGTTTTCAAATATAAAAAGGTCCAAc                                                                                    <  2:1185645/141‑1 (MQ=255)

                                                           aCAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCACCtt                                                                                  >  2:453898/1‑141 (MQ=255)

                                                              aTGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCa                                                                               <  1:92498/141‑1 (MQ=255)

                                                               tGGCGTTATCCATTAGGCTCAGAGATTTCCAGTCAAAAAGTGGTGTCAAACACTTTATATCTGAAGTTACAACACTAGCACAATACAGTGCTGCAATCAGTTGTATACTCGTTTTCAAATATAAAAACGTCCAACTTGCAg                                                                              >  2:365475/1‑141 (MQ=255)

                                                                  ggTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACTCTTGATATTTCAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGtt                                                                           <  2:215344/140‑1 (MQ=255)

                                                                  cGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGtt                                                                           <  2:1159183/141‑1 (MQ=255)

                                                                  cGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGtt                                                                           <  1:48898/141‑1 (MQ=255)

                                                                  cGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGtt                                                                           >  2:627671/1‑141 (MQ=255)

                                                                  cGTTATCCATTATGCTCAGAGATTTCCAGTATATAATAGGTATTAAAGGCTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGtt                                                                           <  1:513256/141‑1 (MQ=255)

                                                                   gTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGttt                                                                          <  1:1053144/141‑1 (MQ=255)

                                                                     tATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTaa                                                                        <  1:1011828/141‑1 (MQ=255)

                                                                       tCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTaaaa                                                                      >  1:735253/1‑141 (MQ=255)

                                                                            tATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAACAAGGTCCAACTTGCAGGTTTAAAATtctc                                                                 <  2:74560/141‑1 (MQ=255)

                                                                            tATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATtctc                                                                 >  2:989310/1‑141 (MQ=255)

                                                                            tATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATtctc                                                                 >  1:1050276/1‑141 (MQ=255)

                                                                                cTCAGATATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATc                                                             <  1:751656/141‑1 (MQ=255)

                                                                                    gagaTTTCCAGTCTATAATTGGAGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGcc                                                         >  2:435754/1‑141 (MQ=255)

                                                                                     ataTTTCCAGTCTATAATTGGTGTCAAACACTTTATATTCGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCt                                                        <  2:354721/139‑1 (MQ=255)

                                                                                     agaTTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGACt                                                        >  2:702538/1‑141 (MQ=255)

                                                                                     agaTTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACGCGTTTTCAAATATAAAAAGGTCCAAATTGCATGTTTAAAATTCTCAATcgaccg                                                        >  1:20353/1‑136 (MQ=255)

                                                                                      aaTTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTTCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTg                                                       <  2:389076/140‑1 (MQ=255)

                                                                                       aTTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAAGTCCAACTTGCAGGTTTAAAATTCTCAATAAGCATGa                                                      >  2:1064236/1‑141 (MQ=255)

                                                                                          tCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTGCAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAg                                                   >  2:303321/1‑141 (MQ=255)

                                                                                          tCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAg                                                   >  1:406951/1‑141 (MQ=255)

                                                                                          tCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAg                                                   >  2:87985/1‑141 (MQ=255)

                                                                                           ccAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGt                                                  >  2:454860/1‑141 (MQ=255)

                                                                                            cAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTa                                                 >  2:607798/1‑141 (MQ=255)

                                                                                            cAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTa                                                 <  1:36567/141‑1 (MQ=255)

                                                                                             aGTCTACAATTGGTGCCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATAAATTGCTGCAATCATTTGTATACTCGTTTTCAAATCTAAAAAGGTCCAACTTGCAGGTTCAAAATTCCCAATCAGCCTGAACGTaa                                                >  2:1072210/1‑141 (MQ=255)

                                                                                                     aTTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGt                                        >  2:1179550/1‑141 (MQ=255)

                                                                                                      ttGGTGTCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTc                                       <  2:603905/141‑1 (MQ=255)

                                                                                                      ttGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTc                                       >  1:224379/1‑141 (MQ=255)

                                                                                                          tgtCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTAtt                                   >  1:1092044/1‑141 (MQ=255)

                                                                                                           gtCAAACACTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAAGCGTTTGTATACTCGTTTTCAAATATAAAGAGGTGCAACTTGGAGGTTTAAAATTCGCAATCATCGTGAACGTAATTGAACGTCTCTTg                                  >  2:1126173/1‑141 (MQ=255)

                                                                                                            tCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATACAAAGGTCCAACTTGCTGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGc                                 <  2:845157/141‑1 (MQ=255)

                                                                                                            tCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCCGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTgt                                 >  2:18936/1‑140 (MQ=255)

                                                                                                            tCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGc                                 >  1:185276/1‑141 (MQ=255)

                                                                                                            tCAAACACTTTATATTTGAAGTGACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGc                                 >  1:1190215/1‑141 (MQ=255)

                                                                                                               aaCACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAg                              >  2:717192/1‑141 (MQ=255)

                                                                                                               aaCACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCATGAAAGTAATTGAACGTCTATTGCTAg                              >  2:911297/1‑141 (MQ=255)

                                                                                                               aaCACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTACAACTTGCAGGTTTAAAATTCTCACTCAGCGTGAAGGTAATTGAACGTCTATTGCTat                              >  2:822944/1‑140 (MQ=255)

                                                                                                                acacTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGc                             <  1:1127994/141‑1 (MQ=255)

                                                                                                                  acTTTATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCtt                           >  2:1095214/1‑141 (MQ=255)

                                                                                                                  acTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCtt                           <  2:562797/141‑1 (MQ=255)

                                                                                                                   cTTTATATTTGAAGTTACAGATCGAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCTACTTGCAGGTTTAAAATTCTCAATTATGCTGAAAGTAATTGAACGTCTATTGCTAGCttt                          <  2:251315/141‑1 (MQ=255)

                                                                                                                   cTTCATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCttt                          <  2:805067/141‑1 (MQ=255)

                                                                                                                     ttATATTTGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTaa                        <  2:1050882/141‑1 (MQ=255)

                                                                                                                       atatTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAtt                      >  2:898137/1‑141 (MQ=255)

                                                                                                                         atTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAAtttt                    >  2:141625/1‑141 (MQ=255)

                                                                                                                          tttGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTa                   >  2:858721/1‑141 (MQ=255)

                                                                                                                            tGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTAcc                 >  2:234351/1‑141 (MQ=255)

                                                                                                                            tGAAGTTACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTAcc                 >  2:443455/1‑141 (MQ=255)

                                                                                                                                  tACAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAat           <  1:607798/141‑1 (MQ=255)

                                                                                                                                   aCAGATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTAccaataatt          <  1:435754/141‑8 (MQ=255)

                                                                                                                                   aCAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAACAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTCTTCCCGGCGTTAATTTTACCTTTAatt          >  1:268818/1‑141 (MQ=255)

                                                                                                                                    cAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAatta         >  2:673286/1‑141 (MQ=255)

                                                                                                                                     aGATCTTGCACAATTAATTGCTGTAATCATTTGCATATTCATTTACCAGTCGGCAGAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAattat        <  1:562803/141‑1 (MQ=255)

                                                                                                                                      gATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAattatt       <  2:371581/141‑1 (MQ=255)

                                                                                                                                      gATCTTGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAattatt       >  2:971502/1‑141 (MQ=255)

                                                                                                                                           aGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTCTAat  <  1:987030/141‑1 (MQ=255)

                                                                                                                                           aGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTCTAat  <  1:238403/141‑1 (MQ=255)

                                                                                                                                           aGCACCATTAATTGCTGCAATCATTTGTAGACGCGTTTTCAACTAACAGATTAAGCAGCTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTCTAat  <  1:1172133/141‑1 (MQ=255)

AGAACAATAAAATTTCTGGTTTTCAATGGGCAATGACGATTTTCGTCTTCTTTGTCATTACAATGGCGTTATCCATTATGCTCAGAGATTTCCAGTCTATAATTGGTGTCAAACACTTTATATTTGAAGTTACAGATCTAGCACCATTAATTGCTGCAATCATTTGTATACTCGTTTTCAAATATAAAAAGGTCCAACTTGCAGGTTTAAAATTCTCAATCAGCCTGAAAGTAATTGAACGTCTATTGCTAGCTTTAATTTTACCTTTAATTATTCTAAT  >  USA300TCH1516_ALE/2454487‑2454766

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A