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
A19 F166 I0 R1 47 63.0 1389156 95.7% 1329422 140.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,358,585 G→C 10.2% D111E (GAC→GAG)  rpoA_1 ← DNA‑directed RNA polymerase subunit alpha

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,358,5850GC10.2% 171.9 / 6.8 64D111E (GAC→GAG) rpoA_1DNA‑directed RNA polymerase subunit alpha
Reads supporting (aligned to +/- strand):  ref base G (23/33);  new base C (4/3);  total (28/36)
Fisher's exact test for biased strand distribution p-value = 4.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTAGTATTATTTTGTTCTGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTCTACTGCTGAG  >  USA300TCH1516_ALE/2358448‑2358723
                                                                                                                                         |                                                                                                                                          
cTAGTATTATTTTGTTCTGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCg                                                                                                                                         >  1:587037/1‑141 (MQ=255)
   gTATTATTTTGTTCTGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGAGGAATTTTTAAGTGACCACCTTTACATACTGTTGCAATTTTAAGCCCTGGGTTTAAAATTTCAACATAACTATCATGTGTCATCTCGCta                                                                                                                                      >  2:33775/1‑140 (MQ=255)
             gTTCTGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACtt                                                                                                                            >  2:201140/1‑141 (MQ=255)
              ttCTGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTc                                                                                                                           <  2:659164/141‑1 (MQ=255)
                 tGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGcc                                                                                                                        >  2:467027/1‑141 (MQ=255)
                 tGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGcc                                                                                                                        >  2:468813/1‑141 (MQ=255)
                 tGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGcc                                                                                                                        <  2:583176/141‑1 (MQ=255)
                  gCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTAACCATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGACt                                                                                                                       >  2:342574/1‑141 (MQ=255)
                      aTGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTtcat                                                                                                                   >  2:683226/1‑141 (MQ=255)
                        gCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATCTCGCCTGCTGTTACTTCGCCTtcatcc                                                                                                                 >  1:24301/1‑140 (MQ=255)
                          ttAACCTCTACCCTTGTTAGCAACTATACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACg                                                                                                               <  2:67152/140‑1 (MQ=255)
                            aaCCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCGCTATCATGTGTAATGTAGCTTTCTGTTACTTCGCCTTCATCACGTa                                                                                                             >  2:74721/1‑141 (MQ=255)
                                 ctACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGGACATCa                                                                                                        >  1:205676/1‑141 (MQ=255)
                                 ctACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATCTCGCTTGCTGTTACTTCGCCTTTATCACGTACATCa                                                                                                        >  2:86748/1‑141 (MQ=255)
                                  tACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATCTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCaa                                                                                                       <  1:461268/141‑1 (MQ=255)
                                   aCCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGGTACTTCGCCTTCATCACGTACATCagt                                                                                                      >  1:354323/1‑139 (MQ=255)
                                     ccTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCACTTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTATTGTCGCTTGCTGTTACTTCGCCTTCTTCACGTCCGTCAAttt                                                                                                    >  1:206935/1‑141 (MQ=255)
                                      cTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATGACGTACATCAATTTc                                                                                                   >  1:287120/1‑141 (MQ=255)
                                        tGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTa                                                                                                 <  2:148324/141‑1 (MQ=255)
                                         gTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATATAGCTTGCTGGTACTTCACCTTCATCAGGTGCATCAATTTCtca                                                                                                >  2:414476/1‑139 (MQ=255)
                                             gCAACTAGACGAATTTTTAAGGGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGtt                                                                                            <  2:267096/141‑1 (MQ=255)
                                                 cTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTAt                                                                                        <  2:428848/141‑1 (MQ=255)
                                                   aGACGAATTTTTAAGTGGCCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTAtct                                                                                      <  2:67371/141‑1 (MQ=255)
                                                   aGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTAtct                                                                                      >  2:115956/1‑141 (MQ=255)
                                                   aGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTAtct                                                                                      <  2:559477/141‑1 (MQ=255)
                                                             ttAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGt                                                                            >  1:48652/1‑141 (MQ=255)
                                                              tAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTa                                                                           >  1:249749/1‑141 (MQ=255)
                                                                aGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTaaa                                                                         >  1:602324/1‑141 (MQ=255)
                                                                aGTGACCACCTTTAAATACAGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTaaa                                                                         >  1:383770/1‑141 (MQ=255)
                                                                 gtgtCCACCTTTAGATNCTGTTGCAATTTTAAGCTCTTGGTTTAAAATTCCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTGATCTTCTTCAGAGTAAAt                                                                        <  1:573172/141‑1 (MQ=255)
                                                                 gTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAAt                                                                        <  1:162229/141‑1 (MQ=255)
                                                                     ccaccTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCACTTTCTCACGTTTTCTCTTCTTCAGAGTAAAGTTTc                                                                    >  2:134160/1‑141 (MQ=255)
                                                                      caccTTTAGATACTGTTGCAATGTCCAGCGCTTGTTGTAACTTTTAGCGCTGACCATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCa                                                                   <  1:328772/141‑1 (MQ=255)
                                                                        ccTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAAt                                                                 <  1:33939/141‑1 (MQ=255)
                                                                              gATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAAt                                                           >  2:595710/1‑141 (MQ=255)
                                                                                 aCTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGt                                                        <  1:186090/141‑1 (MQ=255)
                                                                                  cTGTTGCATTTTTAACCTCTGGGTTTAAAATTTCAACATCACTATCATTTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTATAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGtt                                                       <  2:626657/141‑1 (MQ=255)
                                                                                   tGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGttt                                                      <  1:227358/141‑1 (MQ=255)
                                                                                     gtgtaaTTTTAAGCTCTGGGTTTAAAATTTCCACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATTAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTaa                                                    <  1:563067/137‑1 (MQ=255)
                                                                                          aTTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTc                                               <  2:602324/141‑1 (MQ=255)
                                                                                            tttAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCGCGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCat                                             <  1:201140/141‑1 (MQ=255)
                                                                                                 tctctGTGTTTTAAATTTCATCATCTCTATCATGTGTAATCTCGCTTGCTGTTACTTCGCCTTCATCTCGTACATTAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTTATTGTTTAATGTTCataatta                                        <  2:419608/140‑3 (MQ=255)
                                                                                                        gTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGa                                 >  2:366488/1‑141 (MQ=255)
                                                                                                        gTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGa                                 >  1:555391/1‑141 (MQ=255)
                                                                                                        gTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGa                                 <  2:571996/141‑1 (MQ=255)
                                                                                                            aaaaTTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACa                             >  1:86383/1‑141 (MQ=255)
                                                                                                              aaTTTCAACATCACTATCCTGTGTTATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATc                           <  2:468386/141‑1 (MQ=255)
                                                                                                              aaTTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATc                           <  1:528170/141‑1 (MQ=255)
                                                                                                                 ttCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTGCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTc                        <  2:593943/141‑1 (MQ=255)
                                                                                                                  tCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAACAATCTTCa                       >  1:44855/1‑141 (MQ=255)
                                                                                                                  tCAACATCACTATCATGTGTAATCTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGACACATCTTCa                       >  1:662060/1‑141 (MQ=255)
                                                                                                                    aaCATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACGTCTTCAAc                     <  2:356192/141‑1 (MQ=255)
                                                                                                                    aaCATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAAc                     <  1:219232/141‑1 (MQ=255)
                                                                                                                       attaCTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTAc                  <  1:122221/138‑1 (MQ=255)
                                                                                                                       aTCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTTTAGAAACATCTTCAACTAc                  <  1:370034/141‑1 (MQ=255)
                                                                                                                         cACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACAt                <  1:115956/141‑1 (MQ=255)
                                                                                                                             aTCATGTGTAATGTCGCTTGCTGTTACTTCTCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTc            <  2:461988/141‑1 (MQ=255)
                                                                                                                              ttatttgtAATGGCGCTTGCTGTTACTTCGCCGTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTCt           <  2:145346/136‑1 (MQ=255)
                                                                                                                               cATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTCTa          <  1:667379/141‑1 (MQ=255)
                                                                                                                                aTGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTCTAc         >  1:644256/1‑141 (MQ=255)
                                                                                                                                    gtAATCTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTCTActgct     <  2:669703/141‑1 (MQ=255)
                                                                                                                                     tAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTCTActgctg    <  1:414476/141‑1 (MQ=255)
                                                                                                                                     aaaTGTCGCTTGCTGGTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTCTActgctg    <  2:206935/140‑1 (MQ=255)
                                                                                                                                       ttGTCGCTTGCTGTTACTTCCCCTTCATCACGTACATCCATTTATCACGTTTTGTCTGGGGCGTAGTAGATTTTCCATGCTAATTGTTTATTGTTCGTAATAATTGTAGAAACATCTTCAACTACATTGTCTACTGCTgag  <  2:489370/140‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                          
CTAGTATTATTTTGTTCTGCTAATGCGTAACCTCTACCCTTGTTAGCAACTAGACGAATTTTTAAGTGACCACCTTTAGATACTGTTGCAATTTTAAGCTCTGGGTTTAAAATTTCAACATCACTATCATGTGTAATGTCGCTTGCTGTTACTTCGCCTTCATCACGTACATCAATTTCTAAAGTTTTATCTTCTTCAGAGTAAATTTTCAATGCTAATTGTTTAATGTTCATAATAATTGTAGAAACATCTTCAACTACATTGTCTACTGCTGAG  >  USA300TCH1516_ALE/2358448‑2358723

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