New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE 2085296 =34 (1.300)12 (0.510) 11/252 1.0 30.2% coding (173/201 nt) hlb_1 Phospholipase C
?USA300TCH1516_ALE = 2128343 25 (1.060)coding (1/825 nt) hlb_2 Phospholipase C

AAAAGTTGCAACACTTGCATTAGCAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAATTTTAGGGACTTTTTAGGGACTTTA  >  USA300TCH1516_ALE/2085159‑2085435
                                                                                                                                         |                                                                                                                                           
catccgtgtattctcatttgttagaagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTa                                                                                                                                          >  1:73878‑M1/138‑141 (MQ=255)
 atcggtgtgttatcatttgttagaagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTAt                                                                                                                                         >  2:291356‑M1/137‑141 (MQ=255)
 atccgtgtattctaatgtaatagaagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTAt                                                                                                                                         >  2:32537‑M1/137‑141 (MQ=255)
  aacatgtatacacatttgttagaagaaaaatttaatgaagaagacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATc                                                                                                                                        >  2:41111‑M1/136‑141 (MQ=255)
  aaGTTGCAACACTTGCATTAGCAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATGTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATc                                                                                                                                        <  1:295561/141‑1 (MQ=255)
   aattGCAACACTTGCATTAGCAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATcc                                                                                                                                       <  1:181851/139‑1 (MQ=255)
   aGTTGCAACACTTGCATTAGCAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATcc                                                                                                                                       <  2:17724/141‑1 (MQ=255)
   aGTTGCAACACTTGCATTAGCAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATcc                                                                                                                                       >  1:243835/1‑141 (MQ=255)
    cgtgtattctcatttgttagaagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctcTGTATCCa                                                                                                                                      <  2:289802‑M1/8‑1 (MQ=255)
    cgtgtattctcatttgttagaagaaaaatgtaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCa                                                                                                                                      <  1:28360‑M1/8‑1 (MQ=255)
      tgtattctcatttgttagaagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagcatataaataatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCaaa                                                                                                                                    >  1:143004‑M1/132‑141 (MQ=255)
        tataataatttgttagaagaaaaatttaatgaagaagacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACt                                                                                                                                  >  2:71234‑M1/130‑141 (MQ=255)
          ttctcatttgttagaagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTgg                                                                                                                                <  2:223367‑M1/14‑1 (MQ=255)
           tctcatttgttagaagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGga                                                                                                                               >  1:214106‑M1/127‑141 (MQ=255)
              gtggaTTAGCAAATTTATTATTAGTTGGTGTTCCTACTGACAATAGTGCCAAAGACGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGAc                                                                                                                            <  2:121510/137‑1 (MQ=255)
               tgaaTTAGCAAATTTATTATTAGTTGGTGCAATTACTGAAAATAGTGCAAAAGCTGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACt                                                                                                                           <  2:101317/138‑1 (MQ=255)
                gCATTAGCAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACtt                                                                                                                          <  2:127815/141‑1 (MQ=255)
                   ttAGCAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTa                                                                                                                       >  1:17610/1‑141 (MQ=255)
                     tagaagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAAc                                                                                                                     >  1:7902‑M1/117‑141 (MQ=255)
                      agaagaaaaatttaatgaagaggacaaaaaaacaactaaaatgttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAACa                                                                                                                    >  2:115670‑M1/116‑141 (MQ=255)
                       cAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTCTATGTTATCAACCGTTTTTTATCCAAACTGGATACTTTTaccta                                                                                                                   >  2:131944/1‑137 (MQ=255)
                       cAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACAt                                                                                                                   <  1:192624/141‑1 (MQ=255)
                        aagaaaaatttaatgaagaggacaaaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAACATa                                                                                                                  >  2:198029‑M1/114‑141 (MQ=255)
                        aaaGTTATTATTAGTTTGTGGACTTACTGACAAGAGTGCCAAAGCCGAATCTAAGAGAGATGATAGTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATa                                                                                                                  <  2:50238/141‑1 (MQ=255)
                             tattattaGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAAtt                                                                                                             <  2:141911/141‑1 (MQ=255)
                                          tGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCaa                                                                                                <  2:40528/141‑1 (MQ=255)
                                                aaaaaacaactaaaattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTa                                                                                          >  2:28360‑M1/90‑141 (MQ=255)
                                                    gACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAAc                                                                                      <  1:293428/141‑1 (MQ=255)
                                                         tgaggCCAAAGCCGAATCTAAGAAATAGTATACTTATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCat                                                                                 <  2:9588/137‑1 (MQ=255)
                                                           gTGCTAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGGTCGTTAGTCATAACGTTTATATTTTATCTTCCGTTTTCTCTCCAAACGGCGGAGTTTTAACATATAATTAGTTAGTCTTCAATAACTAGTACACCataa                                                                               >  2:122969/1‑141 (MQ=255)
                                                            tGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCataat                                                                              >  1:247098/1‑141 (MQ=255)
                                                             aattttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCataata                                                                             >  1:302770‑M1/77‑141 (MQ=255)
                                                              attttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAatat                                                                            <  1:73357‑M1/66‑1 (MQ=255)
                                                                tttagaaagtatgtaatttagggacccattagggactccaaacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCa                                                                          <  1:163400‑M1/68‑1 (MQ=255)
                                                                  aGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAg                                                                        <  1:291357/141‑1 (MQ=255)
                                                                      gAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGttt                                                                    >  2:225326/1‑141 (MQ=255)
                                                                       aaTCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTta                                                                   >  1:138036/1‑141 (MQ=255)
                                                                        aTCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTtat                                                                  <  2:243835/141‑1 (MQ=255)
                                                                          atataagttagggaacaattagggaatcaaaaaccaataaatactattgttataaggtttttaTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATaa                                                                >  2:66769‑M1/64‑141 (MQ=255)
                                                                               aaagaTGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTtta                                                           >  1:113760/1‑141 (MQ=255)
                                                                                          taatctGAAGTTAGTTATTCATAACGTTTATATGTTATCGACCTTTTTGTATCCAAACTGAAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACATCATAATATCAAGGTTTATAACTTTATCATTATCaat                                                <  2:147828/136‑1 (MQ=255)
                                                                                                   gttatttaGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCa                                       <  2:249997/141‑1 (MQ=255)
                                                                                                       gttagtCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCAtata                                   >  1:175437/1‑141 (MQ=255)
                                                                                                        aacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAGAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATataa                                  <  1:26580‑M1/108‑1 (MQ=255)
                                                                                                        aacccaataaatactgttgttacaaggtttctaTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATataa                                  <  1:105431‑M1/108‑1 (MQ=255)
                                                                                                             cATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAACACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATataaaataa                             >  1:69961/1‑141 (MQ=255)
                                                                                                             cATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATataaaataa                             <  2:247098/141‑1 (MQ=255)
                                                                                                                           gTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAAttttagggactt               <  1:202640/141‑1 (MQ=255)
                                                                                                                                cGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAAttttaggaactttttag          >  2:158119/1‑141 (MQ=255)
                                                                                                                                aggtttctaTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAAttttagggactttttag          >  2:96953‑M1/10‑141 (MQ=255)
                                                                                                                                    cGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAAttttagggactttttagggac      >  1:258684/1‑141 (MQ=255)
                                                                                                                                      ttttGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAATtttagggactttttagggactt    <  1:54591/141‑1 (MQ=255)
                                                                                                                                        ttGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAATATTAGGTACTTTTTAGGGACttta  >  1:284916/1‑141 (MQ=255)
                                                                                                                                        ttGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAAGAAAATTTTAGGGACTTTTTAGGGACttta  >  2:253649/1‑141 (MQ=255)
                                                                                                                                        ttGTAACCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAATTTTAGGGACTTTTTAGGGACttta  >  1:240755/1‑141 (MQ=255)
                                                                                                                                         |                                                                                                                                           
AAAAGTTGCAACACTTGCATTAGCAAATTTATTATTAGTTGGTGCACTTACTGACAATAGTGCCAAAGCCGAATCTAAGAAAGATGATACTGATTTGAAGTTAGTTAGTCATAACGTTTATATGTTATCGACCGTTTTGTATCCAAACTGGAGACTTTTAACATAAAATTACTTATCATTCAAAAAGTAAAACAGCATAATATCAAGGTTTATAACTTTATCATTATCAATAATACCTCATATAAAATAAAATTTTAGGGACTTTTTAGGGACTTTA  >  USA300TCH1516_ALE/2085159‑2085435

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.