Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A1 F52 I0 R1	39	94.7	2129336	96.2%	2048421	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	1,744,362	G→A	92.4%	H104Y (CAC→TAC)	apt ←	Adenine phosphoribosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,744,362	0	G	A	92.4%	205.3 / 5.5	77	H104Y (CAC→TAC)	apt	Adenine phosphoribosyltransferase
Reads supporting (aligned to +/- strand): ref base G (3/3); new base A (30/40); total (33/44)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.75e-01

AATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGC  >  USA300TCH1516_ALE/1744223‑1744496

aattcaattATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGc                                                                                                                                       <  1:393361/141‑1 (MQ=255)

  ttcaattATTAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACAt                                                                                                                                     <  2:1046193/141‑1 (MQ=255)

  ttcaattATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACAt                                                                                                                                     <  1:68681/141‑1 (MQ=255)

  ttcaattATAAATGCAATACCTACTACGATACAGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACAt                                                                                                                                     <  2:188256/141‑1 (MQ=255)

      attATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGtt                                                                                                                                 <  1:444284/141‑1 (MQ=255)

      attATAAATGCAACTCCTCCTACGATACCTCCTAATGTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTTGTTTAATTGCATCTTTGTACATTGtt                                                                                                                                 <  2:22840/141‑1 (MQ=255)

         ataAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCATTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATCGCATCTTTGTACATTGTTaaa                                                                                                                              <  1:549050/141‑1 (MQ=255)

         ataAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATTTTTGTACATTGTTaaa                                                                                                                              <  1:526875/141‑1 (MQ=255)

           aaaTGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAAc                                                                                                                            <  1:847928/141‑1 (MQ=255)

            aaTGCAATACCTACTCCGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACa                                                                                                                           <  2:62384/141‑1 (MQ=255)

            aaTGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACa                                                                                                                           >  2:952143/1‑141 (MQ=255)

              tGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGTTTTAATTGCATCTTTGTACATTGTTAAAACAtt                                                                                                                         >  1:106577/1‑141 (MQ=255)

              tGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACAtt                                                                                                                         >  2:947324/1‑141 (MQ=255)

                    aCCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAACACATTTTTAcc                                                                                                                   >  1:256757/1‑141 (MQ=255)

                    aCCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTAcc                                                                                                                   >  2:934476/1‑141 (MQ=255)

                     ccTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTAcct                                                                                                                  >  1:149519/1‑140 (MQ=255)

                     ccTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCa                                                                                                                  >  1:179846/1‑141 (MQ=255)

                      ctactaCGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTCATTGCATCTTTGTACATTGTTCAAACAGTTGTACCat                                                                                                                 >  1:569451/1‑141 (MQ=255)

                       tactacGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCata                                                                                                                <  1:763177/141‑1 (MQ=255)

                         ctatGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATAtt                                                                                                              >  1:184885/1‑141 (MQ=255)

                             gATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAg                                                                                                          >  2:351015/1‑141 (MQ=255)

                             gATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAACAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAGAACATTTGTACCATATTCTAg                                                                                                          <  1:547252/141‑1 (MQ=255)

                             gATACCGCCTAATGTTGCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGGTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAg                                                                                                          <  1:408462/141‑1 (MQ=255)

                                     cTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACt                                                                                                  >  1:655873/1‑141 (MQ=255)

                                     cTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTATGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACt                                                                                                  >  2:425256/1‑141 (MQ=255)

                                      tAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTc                                                                                                 <  2:335248/141‑1 (MQ=255)

                                      tAATTGTTCCACTAATTTTATTGCTGCTTCAATCGTACCAGCAGTAGCTAATAAATCGGCTGTAATTACTAGTACTTGAGCTTGTGTAAGGACATCTTTGTATTTTGTTAAAACTGTTTTACCATGTTCTAGGGCATACTc                                                                                                 <  2:435907/141‑1 (MQ=255)

                                         tttttCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAACCATTTGTACCATATTCTAGGTCATACTCATa                                                                                              >  1:909532/1‑141 (MQ=255)

                                         tttttCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCCAGGTCATACTCATa                                                                                              <  1:362647/141‑1 (MQ=255)

                                                  tAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGAc                                                                                     >  1:861453/1‑141 (MQ=255)

                                                  tAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGAc                                                                                     >  1:365564/1‑141 (MQ=255)

                                                        tATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACg                                                                               >  1:365184/1‑141 (MQ=255)

                                                          ttGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATTACTTCACGAg                                                                             <  1:769460/141‑1 (MQ=255)

                                                            tctgctTCAATCGTACCCCCAGTAGCTAATAAATCATCTGTAGTTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGt                                                                           <  2:264034/140‑1 (MQ=255)

                                                             ctgctTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACAGATGACTTCACGCggca                                                                          >  2:6130/1‑139 (MQ=255)

                                                              tgctTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACATACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGCaa                                                                         >  2:679629/1‑141 (MQ=255)

                                                              tgctTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTaa                                                                         <  2:410779/141‑1 (MQ=255)

                                                                 ttCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAAttt                                                                      <  1:129668/141‑1 (MQ=255)

                                                                  tCAACCGCACCACCAGGAGTTAATAAATCATTTGTAATTAACACACGTTGACCTGTGGTAATTGCATCTTTTTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTc                                                                     <  2:1000438/141‑1 (MQ=255)

                                                                   cAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTcc                                                                    <  1:146737/141‑1 (MQ=255)

                                                                   cAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTcc                                                                    <  2:275957/141‑1 (MQ=255)

                                                                   cAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTcc                                                                    <  1:952143/141‑1 (MQ=255)

                                                                   cAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACATTGCCCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTATGTCATACTCATAACGAATGACTTCACGAGGTAATTTcc                                                                    <  2:574891/141‑1 (MQ=255)

                                                                      tCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCctt                                                                 <  1:105563/141‑1 (MQ=255)

                                                                              ccaGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTa                                                         >  2:396689/1‑141 (MQ=255)

                                                                              ccaGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTCCATCTTTTTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTa                                                         >  1:90764/1‑141 (MQ=255)

                                                                                 gTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACa                                                      <  2:232082/141‑1 (MQ=255)

                                                                                  tAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAg                                                     >  1:535370/1‑141 (MQ=255)

                                                                                   aGCTAATAAATCATCTGTAATTAACACACGTTGCCCTGGCTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATCCTCATAACGAATGAGTTCACGAGGTGATTTCCCTCCTTTTCTaaagct                                                    >  1:182937/1‑137 (MQ=255)

                                                                                        ataaATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCaa                                               <  1:759107/141‑1 (MQ=255)

                                                                                          aaaTCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAg                                             <  2:847383/141‑1 (MQ=255)

                                                                                            atcatcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGcc                                           <  1:677620/141‑1 (MQ=255)

                                                                                              catcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAACCCaa                                         >  1:124842/1‑141 (MQ=255)

                                                                                                tcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATc                                       >  2:1040721/1‑141 (MQ=255)

                                                                                                 cTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATcc                                      >  1:685180/1‑141 (MQ=255)

                                                                                                    tAATTAACACACGTTGACCTGGTTTACTTGCATGTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCa                                   <  1:24690/141‑1 (MQ=255)

                                                                                                    tAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCa                                   <  2:635657/141‑1 (MQ=255)

                                                                                                     aaTTAACACTCGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCAt                                  <  2:291180/141‑1 (MQ=255)

                                                                                                     aaTTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCTCGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCAt                                  >  1:446421/1‑141 (MQ=255)

                                                                                                     aaTTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCAt                                  >  1:417291/1‑141 (MQ=255)

                                                                                                       ttAACACACGTTGACCTTGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTg                                <  2:1026478/141‑1 (MQ=255)

                                                                                                       ttAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTg                                <  2:379356/141‑1 (MQ=255)

                                                                                                       ttAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACCCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTg                                <  1:905088/141‑1 (MQ=255)

                                                                                                         aaCACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGaa                              >  2:859601/1‑141 (MQ=255)

                                                                                                               cGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGTTTCTAAGCCAATCCCCATTGAATAAGCt                        >  2:729838/1‑141 (MQ=255)

                                                                                                               cGTTGACCTGGTTTAATAGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCt                        <  1:680883/141‑1 (MQ=255)

                                                                                                                 ttGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTAc                      <  2:280177/141‑1 (MQ=255)

                                                                                                                 ttGACCTGGTTTAATTGCATCTTTGTAAATTGTAAAAACATTTGTACCATATTCTAGGTCATAATCATAACGAATGACTTTACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTAc                      <  1:716872/141‑1 (MQ=255)

                                                                                                                    aCCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTCCAgg                   >  2:605571/1‑141 (MQ=255)

                                                                                                                     ccTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGa                  >  2:175138/1‑141 (MQ=255)

                                                                                                                      cTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTTAATAAGCTACAGGAc                 >  1:406813/1‑141 (MQ=255)

                                                                                                                      cTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTGGGTCATACTCATCACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCTCCATTGTATAAGCTACAGGAc                 <  2:726595/141‑1 (MQ=255)

                                                                                                                       aggTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTTGGTCATACTCATAACGAATGACTTCACGAGGTAATTTACCTTCTTTTCTAACAGGTGCAACGCCAATCCCCATTGAATAAGCTACACGACa                <  2:646044/140‑1 (MQ=255)

                                                                                                                          tttAATTGCATCTTTGTACATTGATAAAACATTTGTACCATATTCTCGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTGCTAACATGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGcc             <  2:688846/141‑1 (MQ=255)

                                                                                                                                  cATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATaa     >  1:919968/1‑141 (MQ=255)

                                                                                                                                   aTCTTTGTTCTTTGGTAAACCATTTGTACGATATTCTTGTTCATACTCATACCGAATGACTTCACGAGGCAATTTCCCTTCGTTTCTAACAGGTTCAACGCCACTCCCCATTGAATAAGCTACAGGACAGCCAATGATaaa    <  2:51100/141‑1 (MQ=255)

                                                                                                                                     cTTTGTACATTGTCAAAACATTGGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGc  <  2:106577/141‑1 (MQ=255)

AATTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGC  >  USA300TCH1516_ALE/1744223‑1744496

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