New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE 2085296 =18 (0.650)21 (0.840) 17/252 0.4 53.7% coding (173/201 nt) hlb_1 Phospholipase C
?USA300TCH1516_ALE = 2128343 20 (0.800)coding (1/825 nt) hlb_2 Phospholipase C

CTACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAAAAG  >  USA300TCH1516_ALE/2128204‑2128481
                                                                                                                                           |                                                                                                                                          
cTACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGTACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAt                                                                                                                                           <  2:165852‑M2/141‑2 (MQ=255)
  aCATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgt                                                                                                                                         <  1:111555‑M2/141‑4 (MQ=255)
  aCATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgt                                                                                                                                         <  1:317258‑M2/141‑4 (MQ=255)
   cATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAATTATGTAATTTAGAGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgta                                                                                                                                        <  2:60117‑M2/141‑5 (MQ=255)
   cATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgta                                                                                                                                        <  2:165307‑M2/141‑5 (MQ=255)
    aTCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGGTGTTACAAGGTTTCTAtgtat                                                                                                                                       >  1:37717‑M2/1‑136 (MQ=255)
    aTCCGTGTATTATAAATTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtat                                                                                                                                       >  2:124759‑M2/1‑136 (MQ=255)
      ccGTGTATTCTCATTTGTTAGAAGACAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatcc                                                                                                                                     >  1:201663‑M2/1‑134 (MQ=255)
       cGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatcca                                                                                                                                    <  2:2503‑M2/141‑9 (MQ=255)
        atagagtctaatttgtAAGAAGAAAAATTTAATGAAGAGAACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaa                                                                                                                                   >  2:187823‑M2/7‑132 (MQ=255)
             agctcatTTATAAGAAGAAAAATTTAATGAAGAGAAAAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactgg                                                                                                                              >  2:299516‑M2/3‑127 (MQ=255)
                      gTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTACAAACATAGGAAATACTGATGTTACAAGGGTTCTAtgtatccaaactggagactttta                                                                                                                     <  1:150555‑M2/141‑24 (MQ=255)
                        tAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaac                                                                                                                   <  2:233722‑M2/141‑26 (MQ=255)
                         agaagaAAAATGTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaaca                                                                                                                  >  2:241142‑M2/1‑115 (MQ=255)
                               agaaattAATGAAGCGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaat                                                                                                            >  1:316628‑M2/3‑109 (MQ=255)
                                aaaTTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGCTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaatt                                                                                                           >  2:216507‑M2/1‑108 (MQ=255)
                                          aaGAGTACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAATCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCgg                                                                                                 <  2:139503/141‑1 (MQ=255)
                                                aCAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCAATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaaatggagacttttaacataaaatttcttatcattcaataa                                                                                           <  2:151848‑M2/141‑50 (MQ=255)
                                                    aaaaaCAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGACAAAATAAACGCGCTGATTTAATCGGACAAtctact                                                                                       >  1:257523/1‑141 (MQ=255)
                                                     aaaaCAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaa                                                                                      <  1:100898‑M2/141‑55 (MQ=255)
                                                      aaaCAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTta                                                                                     >  1:300425/1‑141 (MQ=255)
                                                      aaaCAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTta                                                                                     <  2:200775/141‑1 (MQ=255)
                                                           acTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacaaca                                                                                <  2:219701‑M2/141‑61 (MQ=255)
                                                           acTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattaaaaaagtaaaacagca                                                                                <  2:305398‑M2/141‑61 (MQ=255)
                                                                aaTTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATTCTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataata                                                                           >  2:3126‑M2/1‑76 (MQ=255)
                                                                aaTTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAaat                                                                           <  1:158754/141‑1 (MQ=255)
                                                                aaTTTTAGAAAGTATGTAACTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataata                                                                           >  1:96667‑M2/1‑76 (MQ=255)
                                                                  ttttAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATTCCTTCTGTGCAGACAAGGTTTATATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAaataa                                                                         <  1:221139/141‑1 (MQ=255)
                                                                      aGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaagg                                                                     <  2:222430‑M2/141‑72 (MQ=255)
                                                                          aGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggttta                                                                 >  2:188543‑M2/1‑66 (MQ=255)
                                                                           gTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGt                                                                <  2:69120/141‑1 (MQ=255)
                                                                               gTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATTTAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAata                                                            <  1:185830/141‑1 (MQ=255)
                                                                               gTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAata                                                            <  1:28019/141‑1 (MQ=255)
                                                                                    ttAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatc                                                       >  2:25845‑M2/1‑56 (MQ=255)
                                                                                            cgaTTAGGTACTCAAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCAt                                               <  2:50920/139‑1 (MQ=255)
                                                                                                  gggACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTAGTAATATTCAATGAAGAATTTGATa                                         >  1:284251/1‑141 (MQ=255)
                                                                                                      ctagaaaGCCAATAAGTATTGTTGTTAAAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATgg                                     <  2:192386/137‑1 (MQ=255)
                                                                                                      cTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGGATTTGATAATgg                                     >  1:14895/1‑141 (MQ=255)
                                                                                                      cTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATgg                                     >  1:245121/1‑141 (MQ=255)
                                                                                                      cTCCAAACCCAATAAATACTGTTGTTACAAGGATTCTATGTATCCAAACTGGGGACAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATAATGTCGTAAACTTCAATGAAGCATTTTATAATgg                                     >  2:286840/1‑141 (MQ=255)
                                                                                                         cAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGc                                  <  2:176545/141‑1 (MQ=255)
                                                                                                           aaCCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCAt                                >  1:225241/1‑141 (MQ=255)
                                                                                                           aaCCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCAt                                >  1:296988/1‑141 (MQ=255)
                                                                                                                     ataCTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaccagagtattatcaaggtttataactttatcattatcaataatacctcatataaaataaaattt                      >  1:204515‑M2/1‑23 (MQ=255)
                                                                                                                     ataCTGTTGTTACAAGGTTTCCAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattt                      >  2:79604‑M2/1‑23 (MQ=255)
                                                                                                                        cTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttaa                   <  2:109801‑M2/141‑122 (MQ=255)
                                                                                                                             gttACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggact              <  2:203183‑M2/141‑127 (MQ=255)
                                                                                                                             gttACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggact              <  1:14851‑M2/141‑127 (MQ=255)
                                                                                                                              ttACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataacattttagggactt             <  2:95970‑M2/141‑128 (MQ=255)
                                                                                                                                aCAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAGGTAAtg           >  1:40892/1‑141 (MQ=255)
                                                                                                                                  aaGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggacttttta         >  1:159311‑M2/1‑10 (MQ=255)
                                                                                                                                         cTATGTATCCAAACTGGGGGCAATATAAACGCGCCGACCTATCTGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAAAAg  <  1:137441/141‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                          
CTACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAAAAG  >  USA300TCH1516_ALE/2128204‑2128481

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.