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 I1 R1 31 90.0 1985866 95.2% 1890544 140.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 2,542,325 G→T A29S (GCC→TCC)  hlgA → Gamma‑hemolysin component A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,542,3250GT97.5% 222.4 / NA 81A29S (GCC→TCC) hlgAGamma‑hemolysin component A
Reads supporting (aligned to +/- strand):  ref base G (0/1);  major base T (34/43);  minor base C (0/2);  total (34/47)
Fisher's exact test for biased strand distribution p-value = 5.03e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AACTTTTAACGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATAGCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCTATAACTCAAAACATTCAA  >  USA300TCH1516_ALE/2542188‑2542459
                                                                                                                                         |                                                                                                                                      
aaCTTTTAACGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATccc                                                                                                                                     <  1:669598/141‑1 (MQ=255)
aaCTTTTAACGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATccc                                                                                                                                     <  1:943174/141‑1 (MQ=255)
 aCTTTTAACGAACAGTTAATTTGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAGGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCCGTTGTTTTAATATcccc                                                                                                                                    >  1:454821/1‑141 (MQ=255)
 aCTTTTAACGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATAGGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATACAATATTAACAGCAACTTTAACAGTTGGTTTAATATcccc                                                                                                                                    >  2:414781/1‑141 (MQ=255)
  cTTTTAACGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCt                                                                                                                                   >  1:112635/1‑141 (MQ=255)
       aaCGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGc                                                                                                                              <  1:393446/141‑1 (MQ=255)
       aaCGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGc                                                                                                                              <  1:430645/141‑1 (MQ=255)
       aaCGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGc                                                                                                                              <  2:735780/141‑1 (MQ=255)
           aaCAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAACATTAACAGCAACTGTAGCAGTTGGTTTAATATCCCCTTTAGCCAAt                                                                                                                          <  2:904493/141‑1 (MQ=255)
            aCAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATc                                                                                                                         >  2:495030/1‑141 (MQ=255)
            aCAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGAAGTTGGTTTAATATCACCTTTAGCCAAta                                                                                                                         >  2:793454/1‑140 (MQ=255)
               attAATTCGACATCGCTTGCGAATTAATTATTATCTATATGAACTTAAAATTAAATAGAACGAAAGCGATTTATATCATTAAAACTCAAACATTCACAGCAACTTTAGCAGTTGGTGTAATATCCCCTTTAGCCGATCCAt                                                                                                                      <  2:228474/140‑1 (MQ=255)
                 tAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTACCCAATCCAttt                                                                                                                    >  1:382462/1‑141 (MQ=255)
                  aaTTCGAAAACGCTTACAAATGGATTATTATATATCTCAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTACTATCCCCTTTACCCAATCCATTta                                                                                                                   >  2:162925/1‑141 (MQ=255)
                   aTTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTtat                                                                                                                  <  1:298641/141‑1 (MQ=255)
                   aTTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTtat                                                                                                                  >  1:343689/1‑141 (MQ=255)
                   aTTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTtat                                                                                                                  <  1:298670/141‑1 (MQ=255)
                   aTTCGAAAACGCTGACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCACTTTAGCCAATCCAtttct                                                                                                                  >  2:360996/1‑139 (MQ=255)
                      cGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGa                                                                                                               <  1:706465/141‑1 (MQ=255)
                      cGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGa                                                                                                               <  1:706697/141‑1 (MQ=255)
                      cGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGa                                                                                                               <  2:826381/141‑1 (MQ=255)
                       gAAAACGCTTACAAAAGTATTAATATACATATGAACCTAAAAGTAAATAGAAAGAAAGTGATTTCTATGATTAAACATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGaa                                                                                                              <  1:20485/141‑1 (MQ=255)
                              cTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTa                                                                                                       >  2:554150/1‑141 (MQ=255)
                               ttACAAATTGATTATTGTATATATGAACTTAAAATTANATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTNTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTaa                                                                                                      <  2:588595/141‑1 (MQ=255)
                                  cAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAACCCATGTATAGAAATTTCTAAAGc                                                                                                   >  1:877631/1‑141 (MQ=255)
                                     aTGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCGGa                                                                                                >  1:272126/1‑141 (MQ=255)
                                      tGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGaa                                                                                               >  2:791830/1‑141 (MQ=255)
                                        gATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGaaaa                                                                                             >  1:520943/1‑141 (MQ=255)
                                         attattATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAAt                                                                                            <  2:124871/141‑1 (MQ=255)
                                         actataatATATATAAACTTAAAATTAAATAGAAAGAAAATGACTGCTAAGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATACCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAAt                                                                                            <  2:46701/139‑1 (MQ=255)
                                          ttattaTATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATa                                                                                           >  2:484040/1‑141 (MQ=255)
                                            attatATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAg                                                                                         >  1:875372/1‑141 (MQ=255)
                                            attatATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTAATAGAAATTTCACAAGCAGAAAATAAg                                                                                         >  1:615303/1‑141 (MQ=255)
                                                 atatatGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAGGCAGAAAATAAGATaga                                                                                    >  2:496064/1‑141 (MQ=255)
                                                  tatatGAACTTAAAATTAAATAGAAAGAACATCAGTTCTATGAGGAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATagaa                                                                                   <  1:761714/141‑1 (MQ=255)
                                                  tatatGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATagaa                                                                                   >  1:887777/1‑141 (MQ=255)
                                                  tatatGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCAAATCCAATTATAGAAATTACTAAAGCAGAAAATAAGATagaa                                                                                   >  1:317557/1‑141 (MQ=255)
                                                      tGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGata                                                                               >  1:612854/1‑141 (MQ=255)
                                                      tGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCACTTTCGCCACTCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGACGata                                                                               >  1:375145/1‑141 (MQ=255)
                                                        aaCTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCGGAAAATAAGATAGAAGGTATc                                                                             >  1:90374/1‑141 (MQ=255)
                                                         aCTTAAAATTAAATAGAAAGAAATTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCg                                                                            <  2:922141/141‑1 (MQ=255)
                                                         aCTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCg                                                                            <  2:285536/141‑1 (MQ=255)
                                                         aCTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCg                                                                            <  2:910635/141‑1 (MQ=255)
                                                         aCTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCg                                                                            <  2:751829/141‑1 (MQ=255)
                                                              aaaTTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAAAAAAATAGCAGATAGCgtgcga                                                                       >  2:931771/1‑136 (MQ=255)
                                                                   aaaTAGAAAGAAAGTGATTTCTCTGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAGAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGc                                                                  <  1:684894/141‑1 (MQ=255)
                                                                           agaaagTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAatca                                                          >  1:733475/1‑141 (MQ=255)
                                                                             aaagGGATTTCTATGATTAAAAATAAAATGTGAACAGCAACTTTAGCAGGTGGTTTAATATCCCCTTTAGCCAATCCATTTAGAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAatcatc                                                        <  2:877631/141‑1 (MQ=255)
                                                                               agTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCaa                                                      >  1:4939/1‑141 (MQ=255)
                                                                               agTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAACAGTTGGTTTAATATCCTTTTTAGCCAATCAATTTATAGAAATTTGTAAAGAAGATAATAAGATAAAAGATATCGGCCAAGGTGCAGAAATcaacaa                                                      >  2:263434/1‑141 (MQ=255)
                                                                               agTGATTTCTATGATTAAAAATAAAATATTAAAAGCAACTTTGGCAGATTGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAAATAAAAGATATCGGCCAAGGTACAGaaagccttaa                                                      >  1:5021/1‑134 (MQ=255)
                                                                                  gATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAg                                                   <  2:658407/141‑1 (MQ=255)
                                                                                  gATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGAAAAGGTGCAGAAATCATCAAAAg                                                   <  2:455899/141‑1 (MQ=255)
                                                                                  gATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCC‑TTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGa                                                  <  1:145611/141‑1 (MQ=255)
                                                                                         acgATAAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACaa                                            <  2:148526/139‑1 (MQ=255)
                                                                                         aTGATTAAAAATAAAATATTAACGGCAGCTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACaa                                            <  2:246095/141‑1 (MQ=255)
                                                                                         aTGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACaa                                            <  2:685075/141‑1 (MQ=255)
                                                                                         aTGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACaa                                            <  2:71093/141‑1 (MQ=255)
                                                                                          tGATTAAAAATAAAATATTACCAGCAACTTTAGCAGTTGGTTTAACATCCCCTTTAGCCAACCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAg                                           <  2:643633/141‑1 (MQ=255)
                                                                                          tGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACaaa                                           >  2:720669/1‑140 (MQ=255)
                                                                                          tGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAg                                           <  1:484040/141‑1 (MQ=255)
                                                                                          ataTTAAAAATCAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAg                                           <  2:520943/139‑1 (MQ=255)
                                                                                            aTTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGAc                                         <  1:508475/141‑1 (MQ=255)
                                                                                            aTTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGAc                                         <  1:923586/141‑1 (MQ=255)
                                                                                            aTTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAAGAACCCCTGTAGACAATCCATGTATGGAAATTTCTAAAGCAGAAAACAAGAGAGAAGATATCGGCCAAGATGCAGAAATAATCAAAAGAACACAAGAc                                         <  2:366818/141‑1 (MQ=255)
                                                                                                      aaataTTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCa                               <  1:328591/141‑1 (MQ=255)
                                                                                                      aaataTTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCa                               >  1:398606/1‑141 (MQ=255)
                                                                                                      aaataTTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCa                               <  1:576245/141‑1 (MQ=255)
                                                                                                      aaataTTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCAAATCCATTTATAGAAATTTCTAAAGCAGAAAATATGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCa                               <  2:551145/141‑1 (MQ=255)
                                                                                                      aaataTTAACAGCAACGTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCa                               <  2:461979/141‑1 (MQ=255)
                                                                                                         tatTAACAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAAc                            >  1:349518/1‑141 (MQ=255)
                                                                                                              aCAGCAACTTTAGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTa                       >  1:729369/1‑141 (MQ=255)
                                                                                                                   aaCTTTAGCAGTTGGTTTAATAGCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCtat                  <  2:481013/141‑1 (MQ=255)
                                                                                                                       ttATCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTATAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGATATTACTAGCAAACGACTAGCTATAACt              <  2:112635/141‑1 (MQ=255)
                                                                                                                         tgCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCTATAACTCa            <  2:8880/140‑1 (MQ=255)
                                                                                                                         aGCAGTTGGTTTAATATCCGCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCTATAACTCa            >  1:523478/1‑141 (MQ=255)
                                                                                                                         aGCAGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCTATAACTCa            >  1:679009/1‑141 (MQ=255)
                                                                                                                            aGTTGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACAAGCAAACGATTAGCTATAACTCaaaa         <  2:613698/141‑1 (MQ=255)
                                                                                                                               tGGTTTAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCTATAATTCAAAACAt      <  2:636060/141‑1 (MQ=255)
                                                                                                                               tGGTTTAATACCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCTATAACTCAAAACAt      <  2:692525/141‑1 (MQ=255)
                                                                                                                                   ttAATATCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCTATAACTCAAAACATTCaa  <  1:481105/141‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                      
AACTTTTAACGAACAGTTAATTCGAAAACGCTTACAAATGGATTATTATATATATGAACTTAAAATTAAATAGAAAGAAAGTGATTTCTATGATTAAAAATAAAATATTAACAGCAACTTTAGCAGTTGGTTTAATAGCCCCTTTAGCCAATCCATTTATAGAAATTTCTAAAGCAGAAAATAAGATAGAAGATATCGGCCAAGGTGCAGAAATCATCAAAAGAACACAAGACATTACTAGCAAACGATTAGCTATAACTCAAAACATTCAA  >  USA300TCH1516_ALE/2542188‑2542459

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