New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 = 267142045 (0.920)3 (0.060) 3/250 NT 6.5% coding (171/345 nt) USA300HOU_2526 possible thioredoxin
?CP000730 = 2671462 43 (0.920)coding (129/345 nt) USA300HOU_2526 possible thioredoxin

AAACGCCCTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGACACTATTTAATTGCTTAACCATTTCGAACAC  >  CP000730/2671322‑2671599
                                                                                                                                            |                                                                                                                                         
aaaCGCCCTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACCTTGGGATATGATTGCATc                                                                                                                                           >  1:539431/1‑141 (MQ=255)
  aCGCCCTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCATCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTACATCaa                                                                                                                                         <  2:264638‑M2/141‑3 (MQ=255)
  aCGCCCTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCaa                                                                                                                                         <  2:475811‑M2/141‑3 (MQ=255)
     cccTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCaagtc                                                                                                                                      >  1:153276‑M2/1‑136 (MQ=255)
      ccTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCTTCaggact                                                                                                                                     <  1:337664‑M2/141‑7 (MQ=255)
      ccTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCt                                                                                                                                     <  2:248055/141‑1 (MQ=255)
      ccTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCt                                                                                                                                     >  2:263639/1‑141 (MQ=255)
        ttGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGAATATGATTGCATCAAGTCTTc                                                                                                                                   >  2:411881/1‑141 (MQ=255)
          gACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCaa                                                                                                                                 >  2:84568/1‑141 (MQ=255)
             gATTCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAAttt                                                                                                                              <  2:412857/141‑1 (MQ=255)
               tGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTtgt                                                                                                                            >  1:225793/1‑141 (MQ=255)
                         ttCCATTCATAAATATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTTATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACgg                                                                                                                  <  2:251715/141‑1 (MQ=255)
                         ttCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGCCTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGCCTTCAATCTGTAGTAAAACga                                                                                                                  >  1:76157/1‑140 (MQ=255)
                         ttCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACgg                                                                                                                  <  2:178335/141‑1 (MQ=255)
                         ttCCATTCATAAAAAATAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACgg                                                                                                                  <  2:247769/141‑1 (MQ=255)
                           ccATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCa                                                                                                                <  1:196446/141‑1 (MQ=255)
                           ccATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCa                                                                                                                >  1:309834/1‑141 (MQ=255)
                            cATTCACAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATTGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCAt                                                                                                               <  2:36508/141‑1 (MQ=255)
                                 aTAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGacac                                                                                                          <  2:250293/141‑1 (MQ=255)
                                     aaatcaaatcCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGCATATGCTTGCATCCAGCCTTCAGTTTGTGGTAAAACGGCATGACACACGc                                                                                                      >  2:100989/1‑141 (MQ=255)
                                     aaaTTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGc                                                                                                      <  1:84568/141‑1 (MQ=255)
                                      aaTTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCt                                                                                                     <  1:324494/141‑1 (MQ=255)
                                      aaTTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCt                                                                                                     <  1:406234/141‑1 (MQ=255)
                                      aaTTAAATCCACAGGTACAGCGCCAATATTTCATTCTACCGCAATCCCTCCCACCTGACTGTTAGTAATCACAGCGTATTGCACATTCGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCt                                                                                                     <  2:49275/141‑1 (MQ=255)
                                       aTTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCAAATAGGTATGTTATTGCATCAAGTCTTCAATTTGGGGTAAAACGGCATGACACACGCTa                                                                                                    >  1:159003/1‑141 (MQ=255)
                                               cacaGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCaaagtcaggtggaagctattgctggagaattaaatattttcactgta                                                                                            >  2:528911‑M2/1‑94 (MQ=255)
                                                    gTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCa                                                                                       >  1:546311/1‑141 (MQ=255)
                                                       cAGTGAAAAGATTTAATTCTCCAGCACGATCTTCCACCTGACTTTGATTAAACACAGCTCATGGCACATTGGTATAAGATAGCATCTACCCTTCAATATGGGGTAAAACAACAGGACACAAGCAACACTGATGCCGCAGGa                                                                                    >  2:10162/1‑141 (MQ=255)
                                                             aaaTATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACAGTGATCGCGCATGACATGTa                                                                              >  1:131138/1‑141 (MQ=255)
                                                             aaaTATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATAAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTTTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATgga                                                                              >  1:430701/1‑139 (MQ=255)
                                                                     aaTTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATGGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATAACACACCCTACACAGATCGCGAATGCAGCGTACAACTGcc                                                                      >  1:530422/1‑140 (MQ=255)
                                                                        tctcCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAAc                                                                   <  1:365660/141‑1 (MQ=255)
                                                                         ctcCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACg                                                                  <  1:521096/141‑1 (MQ=255)
                                                                                 aTAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATtga                                                          <  1:47686/141‑1 (MQ=255)
                                                                                      ttCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAAt                                                     <  2:522303/141‑1 (MQ=255)
                                                                                            gaagacttGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAACTTc                                               >  2:367334/7‑141 (MQ=255)
                                                                                              gACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATGaagtcaggtggaaactattgctggagaattaaatattttcactgtccctgtggatttaatttttatgaatggaaatgaaatgcttcgtcaaggg                                             <  2:27293‑M2/141‑95 (MQ=255)
                                                                                                      ttAATCACAGCTAATGGCAGATTGGGATGTGATTGCATCaagtcaggtggaagctattgctggagaattaaatattttcactgtaactgtggatttaattgttatgacaggaaaagaaatgcatcgtcaagggcgttttat                                     <  2:118839‑M2/141‑103 (MQ=255)
                                                                                                      ttAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCt                                     >  2:218523/1‑141 (MQ=255)
                                                                                                      ttAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACGGCTAACGGATATTGATGAATAAATTCACGGGATGCt                                     >  1:157021/1‑141 (MQ=255)
                                                                                                      ttAATCACAGCGAATGGCACATTGGGATATGACTGCATCAAGTCTGCAATTCTTGGTAAAACGGCATGACACACGCTACACTGATCGCGCAGAACATGCCCGACTGCTAACGAAGATTGATGAATAAATTCACGGAAtcgt                                     >  2:195680/1‑138 (MQ=255)
                                                                                                         aTCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCg                                  <  2:296924/141‑1 (MQ=255)
                                                                                                          tCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGa                                 >  1:470511/1‑141 (MQ=255)
                                                                                                          tCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGa                                 >  1:359143/1‑141 (MQ=255)
                                                                                                          tCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATCCACGGAATGCTTCGa                                 >  1:208014/1‑141 (MQ=255)
                                                                                                              aGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTACCGGATATTGATGAATAAATCCACGGAATGCTTCGacacg                             >  1:99070/1‑140 (MQ=255)
                                                                                                               gCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGGTATTGATGAATAAATTCACGGAATGCTTCGACACTa                            >  1:457226/1‑141 (MQ=255)
                                                                                                               gCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAAATCACGGGATGCTTCGACCCTa                            >  1:117817/1‑141 (MQ=255)
                                                                                                                   aTGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGACACTATTTa                        >  2:25547/1‑141 (MQ=255)
                                                                                                                       cacaTTGGGATTAGAGTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATCCACGGAATGCTTCGACACTATTTAATTg                    >  2:125545/1‑141 (MQ=255)
                                                                                                                         caTTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGACACTATTTAATTGCt                  <  1:263639/141‑1 (MQ=255)
                                                                                                                              ggATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGACACTATTTAATTGCTTAAcc             <  2:334940/141‑1 (MQ=255)
                                                                                                                                  aggATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGACACTATTTAATTGCTTAACCAttt         <  1:264638/139‑1 (MQ=255)
                                                                                                                                   tGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGACACTATTTAATTGCTTAACCATTTc        <  1:392967/141‑1 (MQ=255)
                                                                                                                                      ttGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGACACTATTTAATTGCTTAACCATTTCGaa     >  1:495590/1‑141 (MQ=255)
                                                                                                                                        gCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCAGGACATGTACAACTGCTAACGGATATTTATGAATAAATCCACGGAATGCTTCGACACCTTTTAATCGCATAACCaacacgaacg   >  2:116520/1‑132 (MQ=255)
                                                                                                                                         cATCAAGTATTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATAGCGCATGACATGTACAACTGCTAACGGAAATTGATGAATAAATTCACGGAATGCTTCGACACTATTTAATTGCGTAACCATTTCGAacac  >  2:421674/1‑141 (MQ=255)
                                                                                                                                            |                                                                                                                                         
AAACGCCCTTGACGATGCATTTCTTTTCCATTCATAAAAATTAAATCCACAGGTACAGTGAAAATATTTAATTCTCCAGCAATAGCTTCCACCTGACTTTGATTAATCACAGCTAATGGCACATTGGGATATGATTGCATCAAGTCTTCAATTTGTGGTAAAACGGCATGACACACGCTACACTGATCGCGCATGACATGTACAACTGCTAACGGATATTGATGAATAAATTCACGGAATGCTTCGACACTATTTAATTGCTTAACCATTTCGAACAC  >  CP000730/2671322‑2671599

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.