New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE 2504852 =174 (1.380)65 (0.640) 28/222 6.3 31.2% intergenic (+156/+248) USA300HOU_RS12890/gltT hypothetical protein/Proton/sodium‑glutamate symport protein
?USA300TCH1516_ALE = 2505034 147 (1.440)intergenic (+338/+66) USA300HOU_RS12890/gltT hypothetical protein/Proton/sodium‑glutamate symport protein
Rejected: Coverage evenness skew score above cutoff.

Only 100 of 183 total aligned reads displayed.

CAAATTTTAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCC  >  USA300TCH1516_ALE/2504712‑2504992
                                                                                                                                             |                                                                                                                                             
cAAATTTTAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑g                                                                                                                                               >  3:176239/1‑141 (MQ=255)
cAAATTTTAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑g                                                                                                                                               >  3:111909/1‑141 (MQ=255)
cAAATTTTAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑g                                                                                                                                               >  1:437573/1‑141 (MQ=255)
 aaaTTTTAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑gc                                                                                                                                              >  2:83544/1‑141 (MQ=255)
   aTTTTAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑gcgc                                                                                                                                            <  1:459537/141‑1 (MQ=255)
   aTTTTAGTTGACATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGTTATCATTTTACTGATGCTTTTTATATTTGACATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑gcgc                                                                                                                                            <  4:243704/141‑1 (MQ=255)
     tttAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCgcat                                                                                                                                          >  2:863816/1‑141 (MQ=255)
       tAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCgcatgc                                                                                                                                        >  1:541335/1‑141 (MQ=255)
            gCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATaaa                                                                                                                                   <  1:956121/141‑1 (MQ=255)
            gCCATCAAGGTACATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATaaa                                                                                                                                   <  4:153699/141‑1 (MQ=255)
             ccATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAACTACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTCCGCTTT‑GCGCACGCCTacaa                                                                                                                                  >  2:868188/1‑141 (MQ=255)
                  aaGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGcccc                                                                                                                             >  1:509450/1‑141 (MQ=255)
                  aaGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGcccc                                                                                                                             <  2:109114/141‑1 (MQ=255)
                    ggTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTa                                                                                                                           <  2:377982/141‑1 (MQ=255)
                     gTATATACGAGTAAAAGCAGCTGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTaa                                                                                                                          <  1:7701/141‑1 (MQ=255)
                     gTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTaa                                                                                                                          >  3:288002/1‑141 (MQ=255)
                     gTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCCGCTCTTTATATTTGAACTACTTTCGGAGGGAAGAGCGCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTaa                                                                                                                          >  1:190576/1‑141 (MQ=38)
                         ataCGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTaacaac                                                                                                                      >  3:60637/1‑141 (MQ=255)
                          taCGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAAcc                                                                                                                     >  1:207741/1‑141 (MQ=255)
                            cGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTg                                                                                                                   >  2:364439/1‑141 (MQ=255)
                               gTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAgg                                                                                                                <  1:247305/141‑1 (MQ=255)
                                 aaaaGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑Tc                                                                                                             >  1:265933/1‑141 (MQ=255)
                                  aaaGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑Tcc                                                                                                            >  2:751578/1‑140 (MQ=255)
                                    agcagcGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCACGGACATCAGCTCATAACAACCGGAGG‑TCACt                                                                                                          >  3:222389/1‑141 (MQ=255)
                                    agcagcGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCACCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACt                                                                                                          >  1:702334/1‑141 (MQ=255)
                                      cagcGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTgc                                                                                                        >  2:478524/1‑141 (MQ=255)
                                      cagcGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTgc                                                                                                        >  2:664845/1‑141 (MQ=255)
                                         cGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCt                                                                                                     <  3:7965/141‑1 (MQ=255)
                                           gTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTcc                                                                                                   >  2:470231/1‑141 (MQ=255)
                                             aaGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCACATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAGAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCgg                                                                                                 <  1:504774/141‑1 (MQ=255)
                                               gTTGATTTCCAATTTGGAATCATTTTACTGCTGCTCTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGtt                                                                                               >  1:844393/1‑141 (MQ=255)
                                                 tGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCg                                                                                             <  2:933463/141‑1 (MQ=255)
                                                 tGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTAATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCg                                                                                             >  1:490720/1‑141 (MQ=255)
                                                  gATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCTGTTCGCCTGCGCTTTGGCGCTGGCTTAAACCCCCCTAACAA‑CTGAGG‑TTACTGCGATCAgggttgg                                                                                            >  4:349598/1‑136 (MQ=255)
                                                       ccAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTgcg                                                                                       <  2:664551/141‑1 (MQ=255)
                                                        cAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTgcgc                                                                                      <  4:355180/141‑1 (MQ=255)
                                                          aTTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCtt                                                                                    <  2:692301/141‑1 (MQ=255)
                                                            ttGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCATGCGCtaaa                                                                                  <  1:311317/141‑4 (MQ=255)
                                                               gAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAgcg                                                                               >  1:257072/1‑141 (MQ=255)
                                                               gAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCATGCGCtaaagcg                                                                               <  3:298961/141‑7 (MQ=255)
                                                                 aTCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATCTTGCATAGCTCCACTTGCCGTTCGCATGCCCTTA‑GTGCTTGCATAAGCGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgca                                                                             <  1:335787/141‑1 (MQ=25)
                                                                 aTCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgca                                                                             >  3:315874/1‑141 (MQ=255)
                                                                  tCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgcat                                                                            >  1:863613/1‑141 (MQ=255)
                                                                    aTTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgcatgc                                                                          <  1:152796/141‑1 (MQ=255)
                                                                     ttttTCTGCTGCTTTTTATTTTTTAACTACTTTCATCTTGAATACTGCCACTTGCCGTTCATCTGCGCTGT‑GCGCTTCCTTAAGCGCCCCTGACCCCCTGATG‑TCACTGCGCTCCGGTTCGCCTGCGCCTTAGCgcatgca                                                                         <  4:413888/141‑1 (MQ=255)
                                                                     ttttACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgcatgca                                                                         <  2:606959/141‑1 (MQ=255)
                                                                     ttttACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgcatgca                                                                         <  2:418732/141‑1 (MQ=255)
                                                                        tACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgcatgtctaa                                                                      >  2:901991/1‑136 (MQ=255)
                                                                         aCTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATaaa                                                                     >  2:657345/1‑141 (MQ=255)
                                                                         aCTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATaaa                                                                     >  3:112410/1‑141 (MQ=255)
                                                                         aCTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATaaa                                                                     >  2:101375/1‑141 (MQ=255)
                                                                         aCTGCTGCTTTTTATATTTGAAATACTTTAAAATTGAATAACTCCACTCGCCGTTCGCCTGCACTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGAATaaa                                                                     >  1:367776/1‑141 (MQ=21)
                                                                             ctgctTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGcc                                                                 <  2:526293/141‑1 (MQ=255)
                                                                             ctgctTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGcc                                                                 >  2:378096/1‑141 (MQ=255)
                                                                              tgctTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCCTAAAAGGACCCACCCAACCGAGGTTCACT‑CGCCTCGGTTCGCCTGCCCTTTAGCGCATGCATAAAAGccc                                                                >  1:815442/1‑141 (MQ=21)
                                                                              tgctTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGAATAAAAGACCCTCACAAACTGCGG‑TCGCTCCGATCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGccc                                                                >  3:140811/1‑141 (MQ=25)
                                                                                 tttttATATTTTAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCTCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACATCCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTa                                                             <  4:64048/141‑1 (MQ=255)
                                                                                 tttttATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTa                                                             <  1:635123/141‑1 (MQ=255)
                                                                                 tttttATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTa                                                             <  2:504805/141‑1 (MQ=255)
                                                                                  ttttATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACATCCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTaa                                                            <  2:892000/141‑1 (MQ=255)
                                                                                  ttttATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTaa                                                            <  1:865965/141‑1 (MQ=255)
                                                                                     tataTTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTaacaa                                                         >  3:352073/1‑141 (MQ=255)
                                                                                      atatTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTaacaac                                                        >  1:595856/1‑141 (MQ=255)
                                                                                           tGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTATCAACCTGAGG‑TCACTGCGCTCCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAg                                                   <  4:400734/141‑1 (MQ=255)
                                                                                           tGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAg                                                   >  1:836295/1‑141 (MQ=255)
                                                                                             aaaTACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGt                                                 >  1:413036/1‑141 (MQ=255)
                                                                                              aaTACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTc                                                <  3:152467/141‑1 (MQ=255)
                                                                                                tACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCAc                                              <  3:55137/141‑1 (MQ=255)
                                                                                                 aCTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑ACGCATGCATTAAAACCCCTTAAAACCTAAGG‑TCACTACGCTCCGGTTCGCCTCCGCTATAGTGCATGCATAAAAGCCCCTAACAACCTTAGGGCaat                                             >  4:270851/1‑139 (MQ=18)
                                                                                                  cTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCCGAAAAGCCCCTAACAACCTGAGGTCACTa                                            >  1:587174/1‑141 (MQ=255)
                                                                                                    ttCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACg                                          <  4:187039/141‑1 (MQ=255)
                                                                                                      cATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGAATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCt                                        <  1:728554/141‑1 (MQ=255)
                                                                                                      cATATTGAATAGCTCCACTTGCCGTTCGCCTGCCCTTT‑GCGCATGCATAAAAGCCCCTAGCAACCTGAGG‑TCACTGCGCTCCGCTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCt                                        <  2:953468/141‑1 (MQ=255)
                                                                                                            gAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCCCTGCGCTCCGGTTCGCCTGCCCCTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGGCACTACGCTTCGGtt                                  >  3:201095/1‑141 (MQ=255)
                                                                                                            gAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGtt                                  >  1:915024/1‑141 (MQ=255)
                                                                                                            gAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGtt                                  >  2:314777/1‑141 (MQ=255)
                                                                                                            gAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGtt                                  >  3:164659/1‑141 (MQ=255)
                                                                                                            gAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGtt                                  >  4:134425/1‑141 (MQ=255)
                                                                                                            gAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAAGTCACTCCACTTCGttt                                  >  2:280311/1‑141 (MQ=255)
                                                                                                              aTAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCCCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCg                                <  4:127403/141‑1 (MQ=255)
                                                                                                                atttCCACTTTCCGTTCGTTTGCGCGTT‑GCGTATGCATTGTAGCCTCTAATAATGTGAGG‑TCACTTCACTGGCGTTCGCCTGCGGTTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGcc                              <  2:220693/138‑1 (MQ=9)
                                                                                                                aGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGcc                              >  4:316752/1‑141 (MQ=255)
                                                                                                                  cTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGGTCGCCtc                            >  4:380245/1‑140 (MQ=255)
                                                                                                                     cACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTgcgc                         <  1:747711/141‑1 (MQ=255)
                                                                                                                      aattGCCGTTCGCCTTAGCTTT‑GCTCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTTCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCt                        <  4:10040/139‑1 (MQ=255)
                                                                                                                      aCTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCt                        <  1:732108/141‑1 (MQ=255)
                                                                                                                       cTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCtt                       >  1:135140/1‑141 (MQ=255)
                                                                                                                            cGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAgcg                  >  1:625305/1‑141 (MQ=255)
                                                                                                                             gTTCGCCNGCGGTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAgcg                  <  2:728044/141‑1 (MQ=11)
                                                                                                                                  ccTGCGCTTT‑GCGCATGATTATAAGCCCCCATCAACCTGGAG‑TCACTGCGCTCCCGTTCGCCTGCGCCTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCgcatgca            <  2:202813/141‑1 (MQ=14)
                                                                                                                                   tgtggtttt‑GCGCATGCATATAAGGCCCTATCTACCTGGGG‑TCACTGCGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCgcatgcat           <  2:546112/135‑1 (MQ=11)
                                                                                                                                   cTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCgcttgcat           >  3:145578/1‑141 (MQ=255)
                                                                                                                                    tgagcTTT‑GCGCATGCATAAAAGCCCCTAACCACCTGGGG‑TCACTGCGCTCGGGGTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATa          <  2:257072/138‑1 (MQ=14)
                                                                                                                                    tGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TTACTACGCTCCGGTTCGGCTGCGCCTTAGCGCATGCATTAAAGGCCCTAACAACCTAAGGTCACTAAGGTTCGGTTCAGCTGCGCTATAGCgcatgcatt          >  4:223464/1‑140 (MQ=11)
                                                                                                                                      gcgcaaagcgcAGGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATaa         >  3:376218/8‑141 (MQ=255)
                                                                                                                                      cgcTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACg                                          >  3:34578/1‑107 (MQ=255)
                                                                                                                                          tt‑GCGCATGCATAAAAGCCCCCATCCACATTAGG‑TCACTCCACTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTc    <  2:576262/141‑1 (MQ=14)
                                                                                                                                           tagcgcATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTc    <  4:175007/139‑1 (MQ=255)
                                                                                                                                             gcgcATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTccc  >  3:78332/1‑141 (MQ=255)
                                                                                                                                             gcgcATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTccc  >  3:405447/1‑141 (MQ=255)
                                                                                                                                             |                                                                                                                                             
CAAATTTTAGTTGCCATCAAGGTATATACGAGTAAAAGCAGCGGTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTT‑GCGCATGCATAAAAGCCCCTAACAACCTGAGG‑TCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCC  >  USA300TCH1516_ALE/2504712‑2504992

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.