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	1,416,458	A→T	100%	I216N (ATT→AAT)	oppD_4 ←	Oligopeptide transport ATP‑binding protein OppD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,416,458	0	A	T	100.0%	255.6 / NA	75	I216N (ATT→AAT)	oppD_4	Oligopeptide transport ATP‑binding protein OppD
Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (34/41); total (34/41)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTTAACTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTGGTTC  >  USA300TCH1516_ALE/1416322‑1416594

tttAACTCAATCATAGTAATCCCTCGTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTa                                                                                                                                       <  1:415596/141‑1 (MQ=255)

    aCTCAATCATAGTAATCCCTCTTTAAGTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGa                                                                                                                                   >  2:637159/1‑141 (MQ=255)

     cTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGAc                                                                                                                                  <  2:462424/141‑1 (MQ=255)

     cTCAAGCATAGTAATCCCTCTTTAATTGTGTTTTATATTTAATTAGAATTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGAc                                                                                                                                  <  2:964903/141‑1 (MQ=255)

       cAATCATAGTAATGCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCCATGATTTCACCTTCTTTTAAAACATAATTGTACTgcaat                                                                                                                                >  2:539220/1‑137 (MQ=255)

       cAATCATAGTAACACCTCTGTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTGCTTTTAAAACTTAATTTTACTTACaa                                                                                                                                >  2:301908/1‑141 (MQ=255)

             tAGTAATCCCTCTTTATTTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGAGTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTc                                                                                                                          <  2:786668/141‑1 (MQ=255)

             tAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTc                                                                                                                          <  2:885950/141‑1 (MQ=255)

             aaGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTc                                                                                                                          <  2:18728/140‑1 (MQ=255)

               gTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAGTGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATCTTTCaa                                                                                                                        >  1:277292/1‑141 (MQ=255)

                       tctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGAc                                                                                                                <  2:548301/141‑1 (MQ=255)

                       tctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGAc                                                                                                                >  1:520544/1‑141 (MQ=255)

                       tctGTAATTGTGTGCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGAc                                                                                                                <  2:826692/141‑1 (MQ=255)

                        ctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACt                                                                                                               >  1:870944/1‑141 (MQ=255)

                           tAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCACTACATCAATTaa                                                                                                            >  1:712447/1‑141 (MQ=255)

                             aTTGGGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGt                                                                                                          <  2:367597/141‑1 (MQ=255)

                              ttGTGTTCTATATTTAATTCGACGTTCAGTATACGGATCCACATTCTCATACTTGGAATGATTAATGTTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTACAGtt                                                                                                         >  2:733029/1‑141 (MQ=255)

                              ttGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGtt                                                                                                         <  1:1026224/141‑1 (MQ=255)

                              ttGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGtt                                                                                                         <  2:649438/141‑1 (MQ=255)

                              ttGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGtt                                                                                                         <  2:84439/141‑1 (MQ=255)

                              ttGTGTTCTATATTTAATTAGAAGTTCAGTATACGGATGAAAATGATCATAATTGAAATAATTAATATTAACTCGTTCCATGATATGAACTTAATTTCAAGAGTAATTGTACTGACCATATTTCACTACATGGCTTCAGtt                                                                                                         >  2:114231/1‑141 (MQ=255)

                                 tgtTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAtg                                                                                                      <  2:1027530/141‑1 (MQ=255)

                                    tCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAtgtgt                                                                                                   <  1:666976/141‑1 (MQ=255)

                                    tCTATATTTAATTACACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATAGTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGAAAATCTCTCTTTTGATGACTTAAGTTAtgtgt                                                                                                   <  1:514828/141‑1 (MQ=255)

                                     cTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAtgtgtg                                                                                                  >  2:452351/1‑141 (MQ=255)

                                         atTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataa                                                                                              >  2:443290/1‑141 (MQ=255)

                                           ttAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataata                                                                                            <  1:468524/141‑1 (MQ=255)

                                            tAATTAGACCTTTAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCCATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGAtaataa                                                                                           <  2:28620/141‑1 (MQ=255)

                                              aTTAGACGTTCAGTATCCGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATaataaat                                                                                         <  1:871528/141‑1 (MQ=255)

                                              aTTAGACGTTCAGTATACGGATGCAAATGCTCCTACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTATTGACAATATTTCAATACATGACTTATGTTATGTGTGAtaattaat                                                                                         >  1:39860/1‑141 (MQ=255)

                                              aTTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTATTGACAATATTTCCATACATGACTTAAGTTATGTGTGAtaataact                                                                                         >  1:165118/1‑139 (MQ=255)

                                              aTTAGACGTTCAGTATACGGATGCAAACGCTCATACTTCAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGGTATGTGTGATaataaat                                                                                         <  2:449033/141‑1 (MQ=255)

                                                ttatggTTCAGTATACGGTTACAAATGCTCATTCTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTATTAAAAAATAATTGTTCTGACATTATTTCAATACATGACTTAAGTTATGTGTGATAataaataa                                                                                       <  2:830282/136‑1 (MQ=255)

                                                tAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACACGACTTAAGTTATGTGTGATAataaataa                                                                                       <  1:673988/141‑1 (MQ=255)

                                                   aCGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATACTAAATCAT‑Gt                                                                                   >  2:677011/1‑141 (MQ=255)

                                                      ttCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTg                                                                                <  2:847901/141‑1 (MQ=255)

                                                       ttcgTATACAGATGCACATGCTCATTCTTAAAATGATTACACTTACCTCGTCCCATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTACAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGa                                                                               <  1:126076/138‑1 (MQ=255)

                                                       tCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTgc                                                                               >  2:731555/1‑140 (MQ=255)

                                                       tCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGa                                                                               <  2:217434/141‑1 (MQ=255)

                                                        cAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGAc                                                                              <  1:732100/141‑1 (MQ=255)

                                                        cAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGAc                                                                              <  1:420736/141‑1 (MQ=255)

                                                          atataCGGATGCAAATGCTTATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCa                                                                            <  1:1006165/140‑1 (MQ=255)

                                                            ataCGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATg                                                                          <  1:607291/141‑1 (MQ=255)

                                                                       aaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTGAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACaa                                                               <  1:637159/141‑1 (MQ=255)

                                                                       aaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACaa                                                               >  1:668381/1‑141 (MQ=255)

                                                                         tGCTTATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTCTGATAATAAATAAT‑GTTTGACGATGTTCTAATACAata                                                             <  1:591154/141‑1 (MQ=255)

                                                                         tGCTCATACTTGAAATGATTTATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAata                                                             <  1:928715/141‑1 (MQ=255)

                                                                         ggCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAata                                                             <  1:208620/140‑1 (MQ=255)

                                                                         cgCTTATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAata                                                             <  1:6406/140‑1 (MQ=255)

                                                                           cTCATACTTGAAATGATTAATATTGCCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGAGCATGTTCTAATACAATATg                                                           >  1:676630/1‑141 (MQ=255)

                                                                                 cTTGAAATTATTAATATTACCTCGTTCAATGATTTGACCTTCTTTAAACACATATTTCTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGtaa                                                     <  1:723081/141‑1 (MQ=255)

                                                                                 cTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGtaa                                                     <  1:452351/141‑1 (MQ=255)

                                                                                    gAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAATTAAT‑GTTTGACCATGTTCTAATACAATATGCTGtaataa                                                  >  2:923107/1‑141 (MQ=255)

                                                                                    gAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGtaataa                                                  >  1:265870/1‑141 (MQ=255)

                                                                                     aaaTGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATTCTGTGATaaa                                                 >  1:44862/1‑141 (MQ=255)

                                                                                     aaaTGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATaaa                                                 >  1:593494/1‑141 (MQ=255)

                                                                                          aTTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACAATGTTCTAATACAATATGCTGTAATAAATCCAt                                            >  2:889947/1‑141 (MQ=255)

                                                                                           ttAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATc                                           >  2:1027518/1‑141 (MQ=255)

                                                                                           ttAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATc                                           >  2:997559/1‑141 (MQ=255)

                                                                                           ttAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATc                                           >  2:74567/1‑141 (MQ=255)

                                                                                             aaTATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATTCTGTAATAAATCCATccc                                         >  2:997797/1‑139 (MQ=255)

                                                                                             aaTATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCat                                         >  2:971190/1‑140 (MQ=255)

                                                                                                   acgtCGTGCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGAtt                                   >  2:1053178/4‑141 (MQ=255)

                                                                                                    ccTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTa                                  <  1:114084/141‑1 (MQ=255)

                                                                                                    ccTCGTTCAATGATTTGACATTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCCCTTGATTa                                  <  1:677742/141‑1 (MQ=255)

                                                                                                          tCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTc                            >  1:229323/1‑141 (MQ=255)

                                                                                                              tGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAg                        >  1:633862/1‑141 (MQ=255)

                                                                                                               gATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGCTTACCGTTCAAAGc                       >  1:158616/1‑141 (MQ=255)

                                                                                                                       cttcttTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAata               >  2:174749/1‑140 (MQ=255)

                                                                                                                                aaaCATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATACT‑AATAATAATGTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTg      <  1:245449/141‑1 (MQ=255)

                                                                                                                                aaaCATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATGTGCTCTGAGAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTg      <  1:411505/141‑1 (MQ=255)

                                                                                                                                aaaCATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTg      >  2:652291/1‑141 (MQ=255)

                                                                                                                                aaaCATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTg      >  1:342199/1‑141 (MQ=255)

                                                                                                                                   cATAATTGTCTTGACAATATTTCAAGCCATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCTAATGATGCAACTGGtt   <  1:631778/141‑1 (MQ=255)

                                                                                                                                    aTAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTGGTTc  <  1:74567/141‑1 (MQ=255)

TTTAACTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAAT‑GTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTGGTTC  >  USA300TCH1516_ALE/1416322‑1416594

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