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 2,455,699 A→T 68.2% H406L (CAT→CTT)  lyrA → Lysostaphin resistance protein A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,455,6990AT68.2% 159.9 / 120.6 135H406L (CAT→CTT) lyrALysostaphin resistance protein A
Reads supporting (aligned to +/- strand):  ref base A (25/18);  new base T (43/49);  total (68/67)
Fisher's exact test for biased strand distribution p-value = 2.68e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.43e-01

Only 100 of 137 total aligned reads displayed.

GAATCAGTTAAACAAGCACCACAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAACACCCTCTT  >  USA300TCH1516_ALE/2455563‑2455836
                                                                                                                                        |                                                                                                                                         
gAATCAGTTAAACAAGCACCACAAAGTGACGATTTAAAAAACTATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATc                                                                                                                                       <  2:65555/141‑1 (MQ=255)
 aaTCAGTTAAACAAGCACCACAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCg                                                                                                                                      >  2:1075839/1‑141 (MQ=255)
     aGTTAAACAAGCACCACAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGaaaa                                                                                                                                  >  2:382043/1‑141 (MQ=255)
     aGTTAAACAAGCACCACAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGaaaaa                                                                                                                                 <  2:1051871/141‑1 (MQ=255)
      gTTAAACAAGCACCACAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAAAAAAATA‑GTCGaaaaaa                                                                                                                                >  2:1016628/1‑141 (MQ=255)
         aaaCAAGCACCACAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTg                                                                                                                             <  2:976007/141‑1 (MQ=255)
           aCAAGCACCACAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTga                                                                                                                            <  2:30077/141‑1 (MQ=255)
              aGCACCAAAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAAAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTgaagaa                                                                                                                        <  2:270473/141‑1 (MQ=255)
                    acaAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAAAAAAA‑TTATCGAAAAAACTGAAGAACAATCt                                                                                                                  >  1:210713/1‑141 (MQ=255)
                    acaAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCt                                                                                                                  >  2:950414/1‑141 (MQ=255)
                         gTGACGATGTAACGAACGATTCAAAGGAAGATGAAATAGAGGAATCATTAAAAGAACCTGCGAGTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGa                                                                                                             <  2:809519/141‑1 (MQ=255)
                          tGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAAAAAAA‑TTATCGAAAAAACTGAAGAACAATCTTCAGAt                                                                                                            <  1:1202121/141‑1 (MQ=255)
                          tGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGAt                                                                                                            <  1:1108520/141‑1 (MQ=255)
                           gACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAgca                                                                                                            >  2:626699/1‑139 (MQ=255)
                            aagATATAACAAACGATTCAAATAAAGATGAAAAAAAGCAATCATTAAAAGAACCTGTGACTTATAAAGAAGACAGACTTTCATCAGTTGTAATTGATGCA‑AAAAAAAAAAAAAAAAAACTGAAGAACAATCTTCAGATaa                                                                                                          <  2:242265/139‑1 (MQ=255)
                              gATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATaaa                                                                                                         <  1:100035/141‑1 (MQ=255)
                              gATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATaaaa                                                                                                        >  1:701066/1‑141 (MQ=255)
                                    aCAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAaat                                                                                                  >  2:351522/1‑141 (MQ=255)
                                        aCGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGAAGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTGCAGATGAAAACAAataata                                                                                              >  1:382381/1‑141 (MQ=255)
                                         cGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAataatac                                                                                             >  1:297881/1‑140 (MQ=255)
                                         agATTGAAATGAAGATAAAATAAAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAAAAAAAAAAAAAACTGAAGAACAATCTTCAGATAAAAACAAAtaataa                                                                                             <  2:925442/140‑1 (MQ=255)
                                            atCAAATAAAGACAAAATAGAACAATAATTAAAAGAACCAGCGACTTATAAAGAAGACAGACGTACATCAGTTGAAATTGATACA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACaa                                                                                          <  2:1097263/140‑1 (MQ=255)
                                                aaTGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAgcg                                                                                      >  2:811129/1‑141 (MQ=255)
                                                aaTGAAGATGAAATAGAGCAACCATTAAAAGAACCTGCTCCTCATAAAGCAGACCGACAGACATCAGCACATTCGGATGTA‑AAAAAATCATCGAAAAAACTAAAGAACAATCTTCAGATAAAACCAAAAAAAAACaacacg                                                                                      >  2:400625/1‑137 (MQ=255)
                                                 aTGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAgcg                                                                                      >  2:295897/1‑141 (MQ=255)
                                                    aaGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCtt                                                                                   >  1:1029348/1‑141 (MQ=255)
                                                      gATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCt                                                                                <  1:941719/141‑1 (MQ=255)
                                                        tGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCATGCTac                                                                              >  2:969635/1‑140 (MQ=255)
                                                        agAAATAGAGCAATCATAAAAAGAACCTGCGACTTATAAAGGAGACAGACGTTCATCAGTTGAAAAAAAAGAAAAAAAA‑TTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAg                                                                              <  1:404689/140‑1 (MQ=255)
                                                         gAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAg                                                                              >  1:603892/1‑141 (MQ=255)
                                                          aaaTAGAGCAATCATTAAAAGAACCTGAGACTTATAAAGAAGACAGACGTTCATGGGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATGTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTa                                                                            >  1:996885/1‑141 (MQ=255)
                                                              agagCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACctc                                                                        >  2:649973/1‑141 (MQ=255)
                                                              agaaCAAGCATTAAAAAAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGACAAAACTGAAGAACAAGTTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACctc                                                                        <  2:492301/141‑1 (MQ=255)
                                                               gagCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACctct                                                                       <  2:178035/141‑1 (MQ=255)
                                                                    agagatAAAAAAACCTGCGACTTAGAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAACGCGCTTGCTAGTACCTCTTaaaa                                                                  <  2:434281/136‑1 (MQ=255)
                                                                    aTCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTaaa                                                                   <  2:859502/141‑1 (MQ=255)
                                                                    aTCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTaaaa                                                                  >  1:682419/1‑141 (MQ=255)
                                                                     tCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTacaa                                                                  >  1:407308/1‑141 (MQ=255)
                                                                      cATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAg                                                                <  1:1017634/141‑1 (MQ=255)
                                                                      cATTAAAAGAACCTGCGACGTAGGAAGAAGACAGACGTTCATCAGGTGTAATGGATGCAGAAAAACATATCGAAAAAACTGGAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTaaaaa                                                                 <  2:276426/141‑1 (MQ=255)
                                                                        ttAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAga                                                               >  1:172532/1‑141 (MQ=255)
                                                                          aaaaGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGGTGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAATCGCTTGCTAGTACCTCTTAAAAAgatga                                                            >  1:833231/1‑141 (MQ=255)
                                                                          aaaaGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAgatga                                                            >  1:1161600/1‑141 (MQ=255)
                                                                           aaaGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAgatga                                                            >  1:217078/1‑141 (MQ=255)
                                                                           aaaGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAgatgat                                                           >  2:818868/1‑141 (MQ=255)
                                                                            aaGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGatgatg                                                          >  1:355377/1‑141 (MQ=255)
                                                                              gAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCt                                                        <  2:787664/141‑1 (MQ=255)
                                                                               aaCCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCt                                                        <  1:720052/141‑1 (MQ=255)
                                                                               aaCCTGCGACTTAAAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCt                                                        <  1:298780/141‑1 (MQ=255)
                                                                                 ccTGCGACTTCTAAAGAAGACTGACGGTCATCAGTTGGAATGGATGCA‑AAATAATTATAGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCCCTTGCTAGTACCTCTGAAAAAGATGATGCTAGc                                                     <  2:791186/141‑1 (MQ=255)
                                                                                 ccTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGATAGc                                                     >  2:889020/1‑141 (MQ=255)
                                                                                 ccTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTCGCTAGTACATCTTAAAAAGATGATGCTaac                                                     >  2:342196/1‑139 (MQ=255)
                                                                                  cTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAAAAAAA‑TTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCa                                                    <  1:551511/141‑1 (MQ=255)
                                                                                  cTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCa                                                    <  1:140072/141‑1 (MQ=255)
                                                                                   tGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCa                                                    >  2:303358/1‑141 (MQ=255)
                                                                                   tGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAAAAAAA‑TTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCaa                                                   <  2:213822/141‑1 (MQ=255)
                                                                                    gCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAAAAAAA‑TTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAg                                                  >  2:802257/1‑141 (MQ=255)
                                                                                    gCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAg                                                  <  2:904730/141‑1 (MQ=255)
                                                                                    gCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAg                                                  <  1:458724/141‑1 (MQ=255)
                                                                                       aCTTATAAAGACGACAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAgcgc                                               <  1:252142/141‑1 (MQ=255)
                                                                                           ataAAGAAGACAGACGTTCATCAGTTGAAAGTGATGCAGAAAAACATATCGAAAAAACTGAATAACAATCTTCAGATAAAAACAAATAAGAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCttt                                            <  2:1131154/141‑1 (MQ=255)
                                                                                             aaaGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCCAGCGCTTTTc                                          >  1:351442/1‑141 (MQ=255)
                                                                                                 aagaCAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAACGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTctatac                                     <  1:1167920/141‑1 (MQ=255)
                                                                                                 aagaCAGACGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTctatac                                     <  1:474461/141‑1 (MQ=255)
                                                                                                  agacagacGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTctatact                                    >  1:696761/1‑141 (MQ=255)
                                                                                                     cagacGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTctatactata                                 >  2:106024/1‑141 (MQ=255)
                                                                                                     cagacGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTctatacgata                                 >  1:954457/1‑141 (MQ=255)
                                                                                                     cagacGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTGGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTctatactata                                 >  1:588810/1‑141 (MQ=255)
                                                                                                      agacGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACtatat                                <  2:952771/141‑1 (MQ=255)
                                                                                                        acGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGGAGCTAGCAATCGATTTTctatactatttt                               >  1:61889/1‑138 (MQ=255)
                                                                                                         cGTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGTTAAAAACAAATAATAACAAAGCGCCTGCTAGTACCACTTAAAAAGATGATGCTAGCAAGGGCTTTTCTATACTATAtatt                             >  2:442408/1‑141 (MQ=255)
                                                                                                          gTTCATCAGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATAtatta                            >  1:967262/1‑141 (MQ=255)
                                                                                                           ttCATCAGTTGTAATCGATGCAAAAAAA‑TGATCGAAAAAACTGAAGAACAAGCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTCTACTATAtattat                           >  2:108618/1‑141 (MQ=255)
                                                                                                            tcatcaGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATAtattat                           >  1:509156/1‑141 (MQ=255)
                                                                                                             catcaGTTGTAATTGATGCAAAAAAA‑TTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATCCTATATATTAttt                         >  2:306880/1‑141 (MQ=255)
                                                                                                              atcaGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCCAGCGCTTTTCTATACTATATATTAtttt                        <  1:240033/141‑1 (MQ=255)
                                                                                                              atcaGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTAtttt                        <  1:919394/141‑1 (MQ=255)
                                                                                                              atcaGTTGTAATTGATGCA‑AAAAAATTATCGAAAAAAATGAAGAACAATCTTAAGATACAACCAAATAACCATCAACCGCCTGATCGAACCCCTTAAAAAGATGATGCTAACAAGCGCGTTTCTATACTATATATTAtttt                        >  2:694256/1‑141 (MQ=255)
                                                                                                               tcaGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATattttatttt                        >  2:220004/1‑141 (MQ=255)
                                                                                                               tcaGTTGTAATTGATGCAAAAAAA‑TTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAACGCTTTTCTATACTATATATTAttttt                       >  2:86858/1‑141 (MQ=255)
                                                                                                               tcaGTTGTAATTGATGCA‑AAAAAATTATCGAAAGAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTAttttt                       <  2:665533/141‑1 (MQ=255)
                                                                                                                 aGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTCTAATATATATTATTTTTc                      >  1:447077/1‑141 (MQ=255)
                                                                                                                 aGTTGTAATTGATGCA‑AAAAAATTATCGAAAAACCTGGAGAAGAATGTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCt                     <  1:1118386/141‑1 (MQ=255)
                                                                                                                   ttGTAATTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAACGCGCATTCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTaa                   <  2:1025322/141‑1 (MQ=255)
                                                                                                                       aaTTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTACAAt                >  1:344170/1‑141 (MQ=255)
                                                                                                                       aaTTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCGTTTCTATCCTATATATTATTGTTCTAAAAt                >  1:531429/1‑141 (MQ=255)
                                                                                                                       aaTTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTCTACTATATATTATTTTTCTAAAAtt               >  2:560539/1‑141 (MQ=255)
                                                                                                                       aaTTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATCAGATATATTATTTTTCTAAAAtt               >  2:918860/1‑141 (MQ=255)
                                                                                                                        aTTGATGCA‑AAAAAATTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAAttt              <  1:222399/141‑1 (MQ=255)
                                                                                                                            tatgcaaaaaaaATACCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTATAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTaa           <  2:411196/135‑1 (MQ=255)
                                                                                                                             atgcaaaaaaaTTATCGAAAAAACTGAAGAACAATCTTCAGATAGAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATGCTATATATTATTTTTCTAAAATTTTAac          >  1:678556/6‑141 (MQ=255)
                                                                                                                             atgcaaaaaaaTTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATCAATTACCCCCTGCGAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAac          <  1:1178079/136‑1 (MQ=255)
                                                                                                                              tgcaaaaaaaTTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAaca         <  2:59629/137‑1 (MQ=255)
                                                                                                                                 gAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAACAccc      >  1:487269/1‑141 (MQ=255)
                                                                                                                                  aaaaaaTTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAACACCct     <  1:258489/141‑1 (MQ=255)
                                                                                                                                  aaaaaaTTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAACACCct     <  1:818868/141‑1 (MQ=255)
                                                                                                                                  aaaaaaTTATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTCTAACACCct     <  1:879069/141‑1 (MQ=255)
                                                                                                                                   aaaacaaaacGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAACACCctc    <  2:38829/141‑1 (MQ=255)
                                                                                                                                     aaaatatCGAAAAAACGGAAGAACAATCTACAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAACACCCTCtt  <  2:254920/138‑1 (MQ=255)
                                                                                                                                     aaCATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAACACCCTCtt  <  1:458330/141‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                         
GAATCAGTTAAACAAGCACCACAAAGTGACGATTTAACAAACGATTCAAATGAAGATGAAATAGAGCAATCATTAAAAGAACCTGCGACTTATAAAGAAGACAGACGTTCATCAGTTGTAATTGATGCAGAAAAACATATCGAAAAAACTGAAGAACAATCTTCAGATAAAAACAAATAATAACAAAGCGCTTGCTAGTACCTCTTAAAAAGATGATGCTAGCAAGCGCTTTTCTATACTATATATTATTTTTCTAAAATTTTAACACCCTCTT  >  USA300TCH1516_ALE/2455563‑2455836

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