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 F178 I1 R1	28	89.4	2015306	95.8%	1930663	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,416,458	A→T	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	98.7%	246.9 / NA	78	I216N (ATT→AAT)	oppD_4	Oligopeptide transport ATP‑binding protein OppD
Reads supporting (aligned to +/- strand): ref base A (0/0); major base T (40/37); minor base C (0/1); total (40/38)
Fisher's exact test for biased strand distribution p-value = 4.87e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTTAACTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTGGTT  >  USA300TCH1516_ALE/1416322‑1416593

tttAACTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGt                                                                                                                                      >  1:115398/1‑140 (MQ=255)

   aaCTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACt                                                                                                                                   <  1:377230/140‑1 (MQ=255)

   aaCTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATGAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACt                                                                                                                                   <  1:657371/140‑1 (MQ=255)

   aaCTCAATCAAAGCAATCCCTCTTTAATTATATTCTATATTTAATAAAACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTCACCTTCTTTTAAAACATAATTGTACt                                                                                                                                   <  2:601649/140‑1 (MQ=255)

         aTCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTATTGACAat                                                                                                                             >  2:794400/1‑140 (MQ=255)

                       tctTTAATTGTTTTCTTGATTTAATTAGACGTTCAGGATACGGATGTAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATCGCTTGATTGACAATATTTCAATACATGa                                                                                                               <  2:214695/140‑1 (MQ=255)

                       tctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGGTGCAAATGCTCAGTCTTGAAATGTTTAATATTTCCTCGTTCAATGATTTGTCCTTCTATTAAAACATAATTGTACTGACATTATTTCAATACATGa                                                                                                               >  2:311471/1‑140 (MQ=255)

                       tctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGa                                                                                                               >  2:508875/1‑140 (MQ=255)

                       tctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAACGATTTGACCTTCTTTTAAAACATAATTGTACTGGCAATATTTCAATACATGa                                                                                                               >  1:757266/1‑140 (MQ=255)

                        ctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACAGACAATATTTCAATACATGAc                                                                                                              >  1:696455/1‑140 (MQ=255)

                            aaTTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTaa                                                                                                          <  1:491553/140‑1 (MQ=255)

                            aaTTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTaa                                                                                                          <  2:305926/140‑1 (MQ=255)

                             aTTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAg                                                                                                         >  1:890461/1‑140 (MQ=255)

                              ttGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCCACTGCTCGTACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGt                                                                                                        <  1:77153/140‑1 (MQ=255)

                              ttGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGt                                                                                                        <  2:452726/140‑1 (MQ=255)

                                  gtTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAtg                                                                                                    >  1:702417/1‑140 (MQ=255)

                                    tCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAtgtg                                                                                                  <  1:975214/140‑1 (MQ=255)

                                    tCTATATTTAATTAGACGTTCAGCATACGGATGCAACTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTAtgtg                                                                                                  <  1:496741/140‑1 (MQ=255)

                                          tttAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataa                                                                                            >  1:663188/1‑140 (MQ=255)

                                            tAATTAGACGTTCAGTATACGGATGCAAATGCTCATCCTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataata                                                                                          >  1:804542/1‑140 (MQ=255)

                                            tAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATGTTTCAATACATGACTTAAGTTATGTGGGatacta                                                                                          >  1:358294/1‑140 (MQ=255)

                                            tAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGataata                                                                                          >  1:879697/1‑140 (MQ=255)

                                            tAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATAATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAAAATAATTATACTGACAATATTTCAATACATGACTAAAGTTATGATTGataata                                                                                          >  2:15062/1‑140 (MQ=255)

                                             aagtAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGAATTAAGTTAAGTGTGAtaataa                                                                                         >  2:467630/4‑140 (MQ=255)

                                             aaTTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATTTGTTAtattaa                                                                                         >  1:411223/1‑140 (MQ=255)

                                              aTTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACATTATTTCAATACATGACTTAAGTTATGTGTGATaataaa                                                                                        <  1:412460/140‑1 (MQ=255)

                                                tAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATaataaata                                                                                      <  2:882093/140‑1 (MQ=255)

                                                 aGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAataaataa                                                                                     >  2:851852/1‑140 (MQ=255)

                                                   aCGTTCAGTATACGGATGCAAATGCTCATACTTGAAATAATTAATATTCCCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATg                                                                                   >  1:141119/1‑140 (MQ=255)

                                                    cGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATCCATGACTTACGTTTTGTGTAATAATAAATAATGt                                                                                  >  1:243318/1‑140 (MQ=255)

                                                    cGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGAATTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGCGTGATAATACATAATGt                                                                                  >  2:5483/1‑140 (MQ=255)

                                                        cAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGa                                                                              <  2:632415/140‑1 (MQ=255)

                                                          gTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGAcc                                                                            >  1:107665/1‑140 (MQ=255)

                                                          gTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGAcc                                                                            >  1:897271/1‑140 (MQ=255)

                                                          gTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGAcc                                                                            >  1:191805/1‑140 (MQ=255)

                                                          gTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGAcc                                                                            >  2:50319/1‑140 (MQ=255)

                                                          gTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGAATTGACATTCTTTTAAAACATAATTGTAATGGCAATATTTCAATACATGGCTTCAGTTATGTGTGGCAATAAATAATGTTTGAcc                                                                            >  1:704475/1‑140 (MQ=255)

                                                          gTATACGGATGCAAATGATCATACTTGAAATGATTAATATTACCTAGATCAATGAATTGACTTTATTTTAAAAAATAATCGTACTAACAATATTTCAATACATGACTTAATTTAATCGGGATAATAAAACATGTTTGAcc                                                                            >  2:302688/1‑140 (MQ=255)

                                                            ataCTGATGCAAATGCTCATACTTGAAATGATTAATATTACTTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGCACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCAt                                                                          <  2:244386/140‑1 (MQ=255)

                                                            ataCGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCAt                                                                          <  1:368087/140‑1 (MQ=255)

                                                            ataCGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGAAAATATTTCAATACATGACTTAATCTAAGAGTGAGAATAAATAATGTTTAACCAt                                                                          >  2:1000521/1‑140 (MQ=255)

                                                                   tGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAAGACTTAAGTTATGTGTGATAATAAATAATATTTGACAATGTTCTaa                                                                   >  2:390729/1‑140 (MQ=255)

                                                                     cAACTGCTCATACTTGAAATAATTAATATTACCTCGTTCAATGAATTGACCTTCTTTTACAACATAATTGTACTGACAATATTTCAATACATAACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATa                                                                 >  2:236944/1‑140 (MQ=255)

                                                                      aaaTGCTCATACTTGAAATGATTAATATTACCTTGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACCTGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATAc                                                                <  1:668838/140‑1 (MQ=255)

                                                                      aaaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATAc                                                                <  1:378149/140‑1 (MQ=255)

                                                                      aaaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATAc                                                                <  1:186499/140‑1 (MQ=255)

                                                                      aaaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATAc                                                                <  1:152006/140‑1 (MQ=255)

                                                                      aaaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATACTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATAc                                                                <  1:746892/140‑1 (MQ=255)

                                                                      aaaCGCTCATACGTGAAATTATTAATATTACCGCGTTCAATGATTTGACGTTCTTTTGAAACATAATTGTATTGAGAATATTTCAATGCATGACTTAAGTTATGGGTGATAATAAATTATGTTTGACCATGTTCTAATAc                                                                <  2:11900/140‑1 (MQ=255)

                                                                        aTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACaa                                                              <  1:616366/140‑1 (MQ=255)

                                                                          gcccaaaCTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAata                                                            <  1:414810/134‑1 (MQ=255)

                                                                          gCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAata                                                            <  1:709559/140‑1 (MQ=255)

                                                                            tCATACGTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATg                                                          <  2:671252/140‑1 (MQ=255)

                                                                             cATACTTTAAATTATTAATATAACCTCGTTCAATGATTAGCCATTCATTTCAAAAATCATTGTCCTGACAATAATTCAGTACATGACGTAAGTTATGTGGTATAATAAATAATGTTTGACCATGTTCTAATACAATATGc                                                         <  2:735765/140‑1 (MQ=255)

                                                                             cATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGc                                                         <  1:859122/140‑1 (MQ=255)

                                                                             cATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCACGTTCTAATACAATATGc                                                         <  2:117390/140‑1 (MQ=255)

                                                                              aTACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCt                                                        >  1:651722/1‑140 (MQ=255)

                                                                                 cTTGAAATGATTAATATTACCTCGTACAATGATTTGACCTTCTTTAAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGCGTGATAATAAATAAGGTTTGACCATGTTCTAATACAATATGCAGta                                                     >  1:859273/1‑140 (MQ=255)

                                                                                   tGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGtaat                                                   >  2:733285/1‑140 (MQ=255)

                                                                                          aTTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCa                                            <  1:165570/140‑1 (MQ=255)

                                                                                          aTTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCa                                            <  1:112819/140‑1 (MQ=255)

                                                                                             aaTATTACCTCGTTCAATGATTTCACCTTGTTTTAAAACATAATTGTACTGTCAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTCGACCATGTTCTAATACAATATGCTGTAATAAATCCATCa                                         <  2:629995/140‑1 (MQ=255)

                                                                                             aaTATTAACGCGTTCAATTATTTGACCTTCTTTTAAAACAGAATTATACTGACAATATTTCAATACACGACGTACGTTATGTGTTATACTAAATAATGTTTGACCATTTTCTAATACAATATGCTGTAATAAATCCATCa                                         <  2:912883/140‑1 (MQ=255)

                                                                                                   aCCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATTTTTGACCATGTTCTAATACAATATGCTGTAATACATCCATCACTTAAt                                   >  1:52669/1‑140 (MQ=255)

                                                                                                   aCCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGAt                                   >  2:865330/1‑140 (MQ=255)

                                                                                                   aCCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGAt                                   >  1:257835/1‑140 (MQ=255)

                                                                                                     cTCGTTCAATGATTCGACCTTCTTTTAAAACATAATCGTCCTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCTATCACTTGATTa                                 <  1:709760/140‑1 (MQ=255)

                                                                                                         ttCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATTACTTAAGATATGTGTGATAATAAATAATGTTTTACCATTTTATAATACAATATGCTGTAATAAATTCATCAATTGATTACTGt                             >  2:96622/1‑140 (MQ=255)

                                                                                                           cAATGAATTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTc                           <  2:743307/140‑1 (MQ=255)

                                                                                                             aTGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCaa                         >  1:27307/1‑140 (MQ=255)

                                                                                                              tGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCaaa                        <  1:455917/140‑1 (MQ=255)

                                                                                                              tGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCaaa                        <  1:364120/140‑1 (MQ=255)

                                                                                                                     aCCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGAGAACCGTTCAACGCATCCa                 >  1:427071/1‑140 (MQ=255)

                                                                                                                      ccTTCTTTTAAAACATAATTGTACTGATAATTTTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCaa                >  1:995462/1‑140 (MQ=255)

                                                                                                                      ccTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCaa                >  1:548693/1‑140 (MQ=255)

                                                                                                                               aaaaCATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATACTGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAAc       <  2:890461/140‑1 (MQ=255)

                                                                                                                                 aaCATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTg     <  1:803042/140‑1 (MQ=255)

                                                                                                                                    aTAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTGGtt  >  1:171740/1‑140 (MQ=255)

TTTAACTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTGGTT  >  USA300TCH1516_ALE/1416322‑1416593

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