New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE 2085296 =25 (1.310)18 (1.050) 16/252 0.2 47.1% coding (173/201 nt) hlb_1 Phospholipase C
?USA300TCH1516_ALE = 2128343 18 (1.050)coding (1/825 nt) hlb_2 Phospholipase C

TACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAAAA  >  USA300TCH1516_ALE/2128205‑2128480
                                                                                                                                          |                                                                                                                                         
taaaTCCCTATAATCACATTTGTTAGAAGAAAAATTTAATAAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATg                                                                                                                                         <  2:83399/138‑1 (MQ=255)
tACATCATTGTATTATCATTTGTTAGAAGAAAAATTTAATGAAGAGGAAAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtg                                                                                                                                         >  2:83396‑M2/1‑139 (MQ=255)
 aCATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATAATGTTGTTACAAGGTTTCTAtga                                                                                                                                        <  2:17902‑M2/141‑4 (MQ=255)
       ttttattCTAATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaa                                                                                                                                  >  2:3623‑M2/4‑132 (MQ=255)
       gtgtATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaa                                                                                                                                  >  1:171563‑M2/1‑132 (MQ=255)
       gtgtATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGCTTCTAtgtatcaaa                                                                                                                                  <  2:22044‑M2/141‑10 (MQ=255)
       gtgtATTCTCATTTGTTAGAAGAAAAATGTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtacccaa                                                                                                                                  <  1:21825‑M2/141‑10 (MQ=255)
        tgtATTCTCATTTGGTAGAAGAAAAATTTAATGAAGAGGAGAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaa                                                                                                                                 >  2:82367‑M2/1‑131 (MQ=255)
                    tGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGAACCATCACGCTATCCAGACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACCGGGGGCAata                                                                                                                     >  1:213201/1‑141 (MQ=255)
                        agaagaAAAAGTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaaca                                                                                                                 >  2:65181‑M2/1‑115 (MQ=255)
                          aagaaAAAGTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacata                                                                                                               >  1:58063‑M2/1‑113 (MQ=255)
                           agaaAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGAGCGCAATCTAAAcgc                                                                                                              >  2:61566/1‑141 (MQ=255)
                               aaaTTTAATGAAGAAGAAAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTg                                                                                                          <  2:168408/141‑1 (MQ=255)
                                     aaTGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTaa                                                                                                    >  2:137935/1‑141 (MQ=255)
                                      aTGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatc                                                                                                   <  1:86026‑M2/141‑41 (MQ=255)
                                      aTGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatc                                                                                                   <  2:101833‑M2/141‑41 (MQ=255)
                                                aaaaaaaacAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaag                                                                                         >  2:51071‑M2/2‑91 (MQ=255)
                                                               aaTTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAaat                                                                          <  1:176099/141‑1 (MQ=255)
                                                                     aGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaagg                                                                    <  2:204406‑M2/141‑72 (MQ=255)
                                                                     aGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATCAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAatgat                                                                    >  2:194407/1‑141 (MQ=255)
                                                                     aGAAAATATGTAATTTAGGGACCCATTATGGACTCCAAACCCAATAAATACTGGTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAatgat                                                                    <  2:55078/141‑1 (MQ=255)
                                                                          gTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGt                                                               <  1:130041/141‑1 (MQ=255)
                                                                                aaTTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATCATGATGTCGTAATAtt                                                         >  2:87159/1‑141 (MQ=255)
                                                                                aaTTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATAtt                                                         <  1:14921/141‑1 (MQ=255)
                                                                                       ggACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGaa                                                  >  2:137328/1‑141 (MQ=255)
                                                                                       ggACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGaa                                                  >  1:130536/1‑141 (MQ=255)
                                                                                       ggACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAAGTTTCTATGTATCCAAACTGGGCGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGaa                                                  >  1:158404/1‑141 (MQ=255)
                                                                                           ccATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATACAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTAATATTAAAAATAATGATATCATAACATTCAATGAAGCAt                                              >  2:85221/1‑141 (MQ=255)
                                                                                                 gggACTCTAAACCAAATAAATACTGTTGTTACAAAGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatac                                        >  2:86026‑M2/1‑42 (MQ=255)
                                                                                                 gggACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacattccctttgatatcactcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatac                                        >  1:101833‑M2/1‑42 (MQ=255)
                                                                                                    aCTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatccaggttattaaatttatcattatcaataatacttc                                     <  2:34281‑M2/141‑103 (MQ=255)
                                                                                                     cTCCAAACCTAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATgg                                    <  2:20545/141‑1 (MQ=255)
                                                                                                             ccAATAAATACTGTTTTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaat                            >  1:84812‑M2/1‑30 (MQ=255)
                                                                                                                  aaataCTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaat                       >  2:19882‑M2/1‑25 (MQ=255)
                                                                                                                   aataCTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaatt                      >  1:154742‑M2/1‑24 (MQ=255)
                                                                                                                      acggttgttACAAGGTTGCAATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAattat                   <  2:115146/138‑1 (MQ=255)
                                                                                                                            gttATAAAGTTTCTAtgtatccaaactggagaattttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggact             >  2:195346‑M2/1‑15 (MQ=255)
                                                                                                                             ttACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagagactt            <  2:118498‑M2/141‑128 (MQ=255)
                                                                                                                              tACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggacttt           <  1:14792‑M2/141‑129 (MQ=255)
                                                                                                                               aCAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggactttt          <  2:61558‑M2/141‑130 (MQ=255)
                                                                                                                               aCAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggactttt          >  1:17902‑M2/1‑12 (MQ=255)
                                                                                                                                   ggTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggactttttagg      >  2:56279‑M2/1‑8 (MQ=255)
                                                                                                                                       tCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGaaaaaa  >  2:204185/1‑141 (MQ=255)
                                                                                                                                       tCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCACCAGACAAATTATTAAGTAATGTGaaaaaa  >  2:58087/1‑141 (MQ=255)
                                                                                                                                          |                                                                                                                                         
TACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAAAA  >  USA300TCH1516_ALE/2128205‑2128480

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.