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 F16 I0 R1 85 197.5 4743896 94.3% 4473493 138.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,513,930 A→T 100% L413F (TTA→TTT)  USA300HOU_RS07375 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,513,9300AT100.0% 621.6 / ‑6.5 172L413F (TTA→TTT) USA300HOU_RS07375hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base T (90/81);  minor base G (0/1);  total (90/82)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

Only 100 of 173 total aligned reads displayed.

ATTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTACAAA  >  USA300TCH1516_ALE/1513794‑1514067
                                                                                                                                         |                                                                                                                                         
  ttatttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCANAATATGTTTTATTGTa                                                                                                                                     <  1:1627070/141‑1 (MQ=255)
   tatttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTAt                                                                                                                                    <  3:452523/141‑1 (MQ=255)
     tttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTa                                                                                                                                  >  2:817734/1‑141 (MQ=255)
       tgtatgtaTCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCATAGCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAgg                                                                                                                                >  3:43832/1‑141 (MQ=255)
         tatgtatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGat                                                                                                                              >  2:1328194/1‑141 (MQ=255)
           tgtatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGatta                                                                                                                            >  4:405697/1‑141 (MQ=255)
             tatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGattatt                                                                                                                          >  1:857663/1‑141 (MQ=255)
                    ttattaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCa                                                                                                                   <  1:153751/141‑1 (MQ=255)
                      attaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCatt                                                                                                                 >  2:1353102/1‑141 (MQ=255)
                        tagtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattat                                                                                                               >  4:51590/1‑141 (MQ=255)
                         agtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattatt                                                                                                              <  1:973500/141‑1 (MQ=255)
                          gtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTAttt                                                                                                             >  1:1251263/1‑141 (MQ=255)
                          gtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTAttt                                                                                                             <  2:1092895/141‑1 (MQ=255)
                          gtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTACTAATGCCATTAttt                                                                                                             <  3:255150/141‑1 (MQ=255)
                           tagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTg                                                                                                            <  1:112492/141‑1 (MQ=255)
                           tagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTg                                                                                                            <  1:918094/141‑1 (MQ=255)
                             gCCATTGGCATGGGGTGTGTCGCTTTGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGa                                                                                                          >  4:320283/1‑141 (MQ=255)
                               cATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGAtt                                                                                                        <  2:408833/141‑1 (MQ=255)
                                aTTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCGCTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTa                                                                                                       <  1:630361/141‑1 (MQ=255)
                                aTTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTa                                                                                                       <  3:15644/141‑1 (MQ=255)
                                aTTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTa                                                                                                       >  2:982285/1‑141 (MQ=255)
                                 ttGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAt                                                                                                      <  2:380120/141‑1 (MQ=255)
                                  tGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATc                                                                                                     <  2:862506/141‑1 (MQ=255)
                                   ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTGTTGTATTAGGATTATGAATGCCATTATTTGGATTATCa                                                                                                    >  1:1563389/1‑141 (MQ=255)
                                   ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCa                                                                                                    >  4:338639/1‑141 (MQ=255)
                                    gCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCa                                                                                                    >  3:404503/1‑141 (MQ=255)
                                      aTGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACtt                                                                                                 <  3:68702/141‑1 (MQ=255)
                                      aTGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACtt                                                                                                 >  2:1538123/1‑141 (MQ=255)
                                      aTGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACtt                                                                                                 >  1:1547220/1‑141 (MQ=255)
                                          ggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGCTTATCAATTAtac                                                                                             >  2:895560/1‑139 (MQ=255)
                                           gTTTGTCGCTAGTAGATAGCGTGCAAAAAGTACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATGACTCAGAATGTGGTTTATTTGATTAGGGTTATTAATGCCATTATTTGGATTATCACTTATCCt                                                                                            <  2:1164856/141‑1 (MQ=255)
                                            tttGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCtt                                                                                           >  1:1376631/1‑141 (MQ=255)
                                            tttGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCtt                                                                                           <  1:1475909/141‑1 (MQ=255)
                                             ttGTCTCTTGGATACAGCGTACAAGAAATACTACAAT‑AATAGTACCACGTCGCTTAAAAAAAGCAGCATCTATATCATTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTg                                                                                          <  3:599166/141‑1 (MQ=255)
                                             ttGTCTCTTGGATAAAGAGAACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTg                                                                                          <  2:1191102/141‑1 (MQ=255)
                                              tGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGt                                                                                         >  1:893852/1‑141 (MQ=255)
                                              tGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGt                                                                                         <  2:1655992/141‑1 (MQ=255)
                                               gTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTa                                                                                        <  4:79141/141‑1 (MQ=255)
                                               gTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTa                                                                                        <  4:659884/141‑1 (MQ=255)
                                               gTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTa                                                                                        >  1:1294138/1‑141 (MQ=255)
                                               gTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTa                                                                                        >  1:840877/1‑141 (MQ=255)
                                                tctcTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTAt                                                                                       <  3:275252/141‑1 (MQ=255)
                                                  tctTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTAttt                                                                                     <  3:253205/141‑1 (MQ=255)
                                                  tctTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTAttt                                                                                     >  1:642964/1‑141 (MQ=255)
                                                  tctTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTAttt                                                                                     <  2:579051/141‑1 (MQ=255)
                                                   ctTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTta                                                                                    <  3:91095/141‑1 (MQ=255)
                                                      gaaTAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATaa                                                                                 <  2:738934/139‑1 (MQ=255)
                                                          aaaGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGa                                                                             <  2:840877/141‑1 (MQ=255)
                                                            aGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAt                                                                           >  4:261373/1‑141 (MQ=255)
                                                              cGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTa                                                                         <  2:181051/141‑1 (MQ=255)
                                                                tACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTCTTATTATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAat                                                                       >  3:187374/1‑141 (MQ=255)
                                                                 aCAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAata                                                                      >  2:1523817/1‑141 (MQ=255)
                                                                 aCAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAata                                                                      <  4:505132/141‑1 (MQ=255)
                                                                    aaaaaTACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAAtatta                                                                   >  4:361282/1‑141 (MQ=255)
                                                                      aaaTACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATtata                                                                 >  4:479529/1‑141 (MQ=255)
                                                                           cTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTa                                                            <  2:1284535/141‑1 (MQ=255)
                                                                            tGCAAT‑AAAAGTACTACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATTCCATTATTTGGATTATCTCTTATCCTTGTATTTATAATTGAATTTATATTATATATTaa                                                           >  4:445210/1‑141 (MQ=255)
                                                                            agCAAA‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTaa                                                           >  4:234627/2‑141 (MQ=255)
                                                                             gCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTaaa                                                          <  3:629422/141‑1 (MQ=255)
                                                                               aaT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGa                                                        <  2:635711/141‑1 (MQ=255)
                                                                               aaT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGa                                                        <  1:725374/141‑1 (MQ=255)
                                                                                      aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtcg                                                  >  2:560144/1‑141 (MQ=255)
                                                                                      aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtcg                                                  >  2:476919/1‑141 (MQ=255)
                                                                                      aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtcg                                                  >  1:1091689/1‑141 (MQ=255)
                                                                                      aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtcg                                                  >  1:375152/1‑141 (MQ=255)
                                                                                        tACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTg                                                >  1:756158/1‑141 (MQ=255)
                                                                                        tACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTg                                                >  3:472123/1‑141 (MQ=255)
                                                                                         aCCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTGTTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGc                                               >  2:443192/1‑141 (MQ=255)
                                                                                          ccACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCt                                              <  1:1037143/141‑1 (MQ=255)
                                                                                           cacaTCGCATAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTa                                             <  2:1575208/141‑1 (MQ=255)
                                                                                              aTCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAAc                                          <  3:509602/141‑1 (MQ=255)
                                                                                                cgcgTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaa                                        >  2:1620199/1‑141 (MQ=255)
                                                                                                 gcgTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTTAATTAATATTAGATATTAAAGATCGTCGTGCTAAACaat                                       >  2:583438/1‑141 (MQ=255)
                                                                                                  cgTAAAAAAACCTGCATCTATATCACTCAGAATATTGGTGAGTGTATTAGGAGTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaata                                      <  1:493892/141‑1 (MQ=255)
                                                                                                   gTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaataa                                     <  1:1486583/141‑1 (MQ=255)
                                                                                                    tAAAAATACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATGGAATTAATATTATATATTAAAGATCGTCGTTCTAAACaataat                                    <  2:827185/141‑1 (MQ=255)
                                                                                                      aaaaaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGc                                  >  2:1047085/1‑141 (MQ=255)
                                                                                                         aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  1:1137808/141‑1 (MQ=255)
                                                                                                         aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  1:141596/141‑1 (MQ=255)
                                                                                                         aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  2:544507/141‑1 (MQ=255)
                                                                                                         aaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCGTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACt                               <  2:659272/141‑1 (MQ=255)
                                                                                                          aaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACtt                              >  2:1020793/1‑141 (MQ=255)
                                                                                                          aaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACtt                              <  3:3340/141‑1 (MQ=255)
                                                                                                          aaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACtt                              <  2:126635/141‑1 (MQ=255)
                                                                                                            ccAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaa                            <  1:1353102/141‑1 (MQ=255)
                                                                                                            ccAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaa                            <  1:1352714/141‑1 (MQ=255)
                                                                                                            ccAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAAGTAACTTaa                            >  4:568283/1‑141 (MQ=255)
                                                                                                             cAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTaaa                           <  3:488620/141‑1 (MQ=255)
                                                                                                                  tCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAACAATGCACTTAAAGtttt                      >  2:327723/1‑141 (MQ=255)
                                                                                                                    tataTCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGa                    >  2:736201/1‑141 (MQ=255)
                                                                                                                      tatCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAAc                  <  2:130296/141‑1 (MQ=255)
                                                                                                                          aCTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGAc              >  4:440/1‑141 (MQ=255)
                                                                                                                          aCTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGAc              <  2:234413/141‑1 (MQ=255)
                                                                                                                              ataataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGaaa          <  2:390577/141‑1 (MQ=255)
                                                                                                                               taataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGACCTGCCGAAAt         >  1:233961/1‑141 (MQ=255)
                                                                                                                                 atatGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAttt       >  3:589981/1‑141 (MQ=255)
                                                                                                                                   atGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGCTTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTCGAACTGACGAAATTTAc     >  2:985658/1‑141 (MQ=255)
                                                                                                                                   atGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTAc     >  3:390831/1‑141 (MQ=255)
                                                                                                                                    tGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTACa    >  1:109780/1‑141 (MQ=255)
                                                                                                                                      ttttATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTACaaa  <  1:1604886/141‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                         
ATTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAT‑AAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTACAAA  >  USA300TCH1516_ALE/1513794‑1514067

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A