Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A5 F178 I1 R1 28 89.4 2015306 95.8% 1930663 139.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 1,064,445 Δ1 bp coding (44/1218 nt) ywtF ← Putative transcriptional regulator YwtF

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,064,4440A.98.7% 348.0 / ‑0.5 78coding (45/1218 nt)ywtFPutative transcriptional regulator YwtF
Reads supporting (aligned to +/- strand):  ref base A (1/0);  major base . (40/35);  minor base T (0/1);  total (41/37)
Fisher's exact test for biased strand distribution p-value = 4.74e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAGAACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACTTCATTACTA  >  USA300TCH1516_ALE/1064305‑1064579
                                                                                                                                           |                                                                                                                                       
tAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATgaga                                                                                                                                         >  1:562235/1‑140 (MQ=255)
  ggTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGCCTCTTGGAACAACAATgagaca                                                                                                                                       >  2:907638/1‑138 (MQ=255)
    ttgttCTTCGGGATTGACTTTATTATCTCTTAAGTCGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATgagaccaa                                                                                                                                     >  2:756269/1‑136 (MQ=255)
     tgttCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAAt                                                                                                                                   <  1:433288/140‑1 (MQ=255)
     tgttCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAAt                                                                                                                                   >  2:290075/1‑140 (MQ=255)
     tgttCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAAt                                                                                                                                   >  1:28790/1‑140 (MQ=255)
       ttcttcGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGAAACAACAATGAG‑ACCAATGc                                                                                                                                 >  1:780605/1‑140 (MQ=255)
         cttcGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTa                                                                                                                               >  1:163482/1‑140 (MQ=255)
          ttcGTGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAACCCAATTTACCGAAGGCTATTGGAACAACAATGAG‑ACCAATGCTAg                                                                                                                              >  2:705187/1‑140 (MQ=255)
               gATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGa                                                                                                                         <  1:815211/140‑1 (MQ=255)
                  tGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCGGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGCTCa                                                                                                                      >  1:194515/1‑140 (MQ=255)
                   gACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGCCTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCaa                                                                                                                     >  1:168254/1‑140 (MQ=255)
                   gACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCaa                                                                                                                     >  2:40528/1‑140 (MQ=255)
                   gACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCaa                                                                                                                     >  1:316857/1‑140 (MQ=255)
                   gACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCaa                                                                                                                     >  1:145533/1‑140 (MQ=255)
                   gACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCaa                                                                                                                     >  1:902022/1‑140 (MQ=255)
                   gACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCaa                                                                                                                     <  2:587605/140‑1 (MQ=255)
                   gACTATATTATCACTTCAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGTATGCATCTTGAGACGTATTAAAAAGTAACGTAGCGAAGACTATTGGAACCACAATGAG‑ACCAATGCTAGAAGGATCaa                                                                                                                     <  2:877041/140‑1 (MQ=255)
                            atCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTAttt                                                                                                            <  1:14327/140‑1 (MQ=255)
                               tctTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACCATGAG‑ACCAATGCTGGCAGGATCAAAAAGTAGTTTat                                                                                                         >  2:245152/1‑139 (MQ=255)
                               tctTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGGTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTaa                                                                                                         >  2:90468/1‑140 (MQ=255)
                                     gTTGGATTGACGATTAGCATTTTTTCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAAttt                                                                                                   >  1:893662/1‑140 (MQ=255)
                                     gTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAGAGTATTTTAAAAAttt                                                                                                   >  2:803935/1‑140 (MQ=255)
                                       tGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTACAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTAt                                                                                                 >  2:357293/1‑140 (MQ=255)
                                          aTTGACGATACGCATTTTTGCTGTGTTGAGAAGATTCGAATGCATCTTGGGCTGGTTGAAAAAGTAACGTAACTAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCa                                                                                              >  1:734843/1‑140 (MQ=255)
                                              aaggttAGCTATTTTGCTGTCTTAAGAAGTTTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGA‑CACCAATGATAGAAGGCTCAAAAAGTATTTTAAAAATTTATTCAtgat                                                                                          <  2:629386/136‑1 (MQ=255)
                                              aCGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAGAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCGATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgat                                                                                          <  2:497262/140‑1 (MQ=255)
                                              aCGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCGATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgat                                                                                          <  2:183201/140‑1 (MQ=255)
                                              aCGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgat                                                                                          <  1:775692/140‑1 (MQ=255)
                                              aCGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgat                                                                                          <  1:113575/140‑1 (MQ=255)
                                              aCGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgat                                                                                          <  1:642748/140‑1 (MQ=255)
                                              aCGATTAGCATTTTTGCTGTCTTGAGAAGACTCGAATGCATCTGGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgat                                                                                          <  2:194515/140‑1 (MQ=255)
                                               cGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCCAACAGGCTTTTAAAAATTTATTCAtgatt                                                                                         >  1:931817/1‑140 (MQ=255)
                                               cGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgatt                                                                                         <  2:637088/140‑1 (MQ=255)
                                               cGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgatt                                                                                         <  1:840669/140‑1 (MQ=255)
                                               cGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATGCAtgatt                                                                                         >  1:508990/1‑140 (MQ=255)
                                                 aTTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCAtgattga                                                                                       <  1:455732/140‑1 (MQ=255)
                                                   tAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCCATGCTCGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTAATg                                                                                     >  1:677733/1‑140 (MQ=255)
                                                   tAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATg                                                                                     <  1:601625/140‑1 (MQ=255)
                                                       aTTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTcc                                                                                 >  1:214427/1‑140 (MQ=255)
                                                            tGCAGTCTTGAGAAGATTCGAATGCATCTGGGTACGTTTTAAAAATTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTatat                                                                            <  1:343310/140‑1 (MQ=255)
                                                             ggtGTCTTGAGAAGATTCGAATTCATCTTGGGACGTGTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATAtt                                                                           >  2:380510/3‑140 (MQ=255)
                                                             gCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATAtt                                                                           >  2:850625/1‑140 (MQ=255)
                                                              cTGTCTTGAGAAGATTCGAATACATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTa                                                                          >  1:521525/1‑140 (MQ=255)
                                                                   ttGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAAttt                                                                     <  1:136125/140‑1 (MQ=255)
                                                                   ttGAGAAGAGTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGNATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAAttt                                                                     <  1:675334/140‑1 (MQ=255)
                                                                    ttagaagaATCGAATGCATCTTAGGACGTCTTAAAAAGTAACGTAGCGAAGACTATTAGAATAACAATGAG‑ACCAATGCTAGAAAAATAAAAAAGTATATTAAAAATTTATTCATGATTGATGCTCCTATATTAAAtttt                                                                    <  2:526810/138‑1 (MQ=255)
                                                                    tGAGAAGACTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAAtttt                                                                    <  2:697968/140‑1 (MQ=255)
                                                                     gagaAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAAttttt                                                                   >  2:647666/1‑140 (MQ=255)
                                                                     gagaAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAAttttt                                                                   <  2:197084/140‑1 (MQ=255)
                                                                             tCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTAATGCTCCTATATTAAATTTTTGTTAaatc                                                           >  1:40581/1‑140 (MQ=255)
                                                                                  tGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAaatcataat                                                      <  2:677412/140‑1 (MQ=255)
                                                                                     aTCTTGGGACCTTTTAAAAAGTAACGTAGCGAATACTATTGGAACAACAATGA‑TACCAATGCAAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAaatcataatcat                                                   <  2:854212/140‑1 (MQ=255)
                                                                                      tCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAatcataatcata                                                  <  1:633419/140‑1 (MQ=255)
                                                                                                   tAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAAtata                                     >  2:527009/1‑140 (MQ=255)
                                                                                                    aaaaaGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATaa                                    >  2:266391/1‑140 (MQ=255)
                                                                                                    aaaaaGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATaa                                    <  2:364935/140‑1 (MQ=255)
                                                                                                     aaaaGTAACGTAGCGAAGACTATTGGAACAACAATGA‑AACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTGATGATTGATGCTCCTATATTAAATTTTTGTTAAATTATAATCATAATTTTAAAATATAAt                                   >  2:268472/1‑140 (MQ=255)
                                                                                                      aaaGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAAtt                                  >  2:678968/1‑140 (MQ=255)
                                                                                                       aaGTAACGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTa                                 <  2:28790/140‑1 (MQ=255)
                                                                                                            aCGTAGCGAAGACAAGTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTACATCTCATTCATAATGTTAAAATATAATTAGTTGa                            <  2:460339/140‑1 (MQ=255)
                                                                                                             cGTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAACTCATAATACTACTTTTAAAATATAATTAGTTGaa                           >  2:880143/1‑140 (MQ=255)
                                                                                                              gTAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAAc                          >  1:114666/1‑140 (MQ=255)
                                                                                                               tAGCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACg                         <  1:861397/140‑1 (MQ=255)
                                                                                                                 gCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGat                       >  1:359992/1‑140 (MQ=255)
                                                                                                                 gCGAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGat                       >  1:360119/1‑140 (MQ=255)
                                                                                                                   gAAGACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGatat                     <  2:163482/140‑1 (MQ=255)
                                                                                                                   gAAGACTAATGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGatat                     <  2:133659/140‑1 (MQ=255)
                                                                                                                      gatcaTTTGAACAACAAAGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTta                  <  2:450664/136‑1 (MQ=255)
                                                                                                                      gACTATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTta                  <  1:428865/140‑1 (MQ=255)
                                                                                                                         tATTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATAc               <  2:789779/140‑1 (MQ=255)
                                                                                                                          aTTGGAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACa              <  2:521525/140‑1 (MQ=255)
                                                                                                                           ttGGAACAACAATGAG‑ACCAATGGTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACaa             >  2:33362/1‑140 (MQ=255)
                                                                                                                             ggAACAACAATGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACt           >  1:999408/1‑140 (MQ=255)
                                                                                                                                    caaTGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTTTTATTTCTTTATCATAATATTAAAATATAATTAGTTGAACGATATTTATACAACTTAATTAc    >  2:365044/1‑140 (MQ=255)
                                                                                                                                     aaTGAG‑ACCAATGCTAGAAGGATCTAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACTTCATTACt   >  1:639477/1‑140 (MQ=255)
                                                                                                                                     aaTGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACTTCATTACt   >  1:786580/1‑140 (MQ=255)
                                                                                                                                      aTGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACTTCATTACTa  <  1:538818/140‑1 (MQ=255)
                                                                                                                                      aTGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACTTCATTACTa  >  2:392070/1‑140 (MQ=255)
                                                                                                                                      aTGAG‑ACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACTTCATTACTa  >  1:311239/1‑140 (MQ=255)
                                                                                                                                      aTGAG‑ACCAAAGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACTTCATTACTa  <  1:167234/140‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                       
TAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAGAAGATTCGAATGCATCTTGGGACGTTTTAAAAAGTAACGTAGCGAAGACTATTGGAACAACAATGAGAACCAATGCTAGAAGGATCAAAAAGTATTTTAAAAATTTATTCATGATTGATGCTCCTATATTAAATTTTTGTTAAATCATAATCATAATTTTAAAATATAATTAGTTGAACGATATTTATACAACTTCATTACTA  >  USA300TCH1516_ALE/1064305‑1064579

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A