New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000731	= 4419	54 (0.790)	5 (0.010)	4/262	9.5	1.5%	intergenic (+384/‑81)	USA300HOU_pUSA300HOUMR0006/cadR	hypothetical protein/cadmium binding protein
	?	NC_012417	= 1946	614 (1.020)					intergenic (+179/+147)	USA300HOU_RS14895/USA300HOU_RS14900	hypothetical protein/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGCTGCTGCTGTTCTTTATATTGCTACAGCAGTTGATT  >  CP000731/4283‑4554                                                                                                                                         |                                                                                                                                        tGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATCCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCa                                                                                                                                      >  1:73120/1‑140 (MQ=17)       aaaaaTTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGa                                                                                                                                <  1:31083/140‑1 (MQ=11)       aaaaaTTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGa                                                                                                                                <  1:49993/140‑1 (MQ=11)                   aTGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACCAGTTTTGGGGTTGTTAAGGGTTCCGAGGCTCAACGTCAATAAACCAATTGGAATAAAgactacc                                                                                                                    >  1:94561/1‑134 (MQ=11)                         agaagaACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCCACGTCAATAAAGCAATTGGAATAAAGCACCTATGatta                                                                                                              >  1:162257/1‑140 (MQ=255)                                 ccTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTaaaaa                                                                                                      <  1:129246/140‑1 (MQ=255)                                 ccTTAACTAAACTTGCAGAAGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCTACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTaaaaa                                                                                                      <  2:48643/140‑1 (MQ=255)                                  cTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAACat                                                                                                     >  2:35081/1‑140 (MQ=255)                                         aaaCTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGtt                                                                                              >  1:197083/1‑140 (MQ=255)                                          aaCTTGCAGACGAATGTCGGCATAGCGCGAGCGATGAAGCCGACCATTCGACAAGTTGTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTta                                                                                             <  1:99171/140‑1 (MQ=255)                                           aCTTGCAGACGAATGTGGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTTAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTtat                                                                                            <  2:59001/140‑1 (MQ=255)                                           aCTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGGCAAGTGTTGGGATTGTTAAGGGTTACGAAGCTCAACGTCAATAAAGAAATTGGGATAAAGCACCTATGATTATTTAAAAATATaatcaat                                                                                            >  2:114799/1‑135 (MQ=17)                                             ttGCAGACGAATGTCGGCATAGCGGGAGCTATGAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTataa                                                                                          <  2:162643/140‑1 (MQ=255)                                                cAGACGAATGTTGGCATAGCGTGAGCTATTAAGCCGTTCATTCGACAAGGTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATAc                                                                                       <  1:8627/140‑1 (MQ=255)                                                cAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATAc                                                                                       <  1:12766/140‑1 (MQ=255)                                                      aaTGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTCTGACTATTTAAAAACATACGTTATAATACCTTcca                                                                                 >  2:105520/1‑138 (MQ=17)                                                          tctgtaTAGCGTTAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGTATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAat                                                                             <  2:251595/135‑1 (MQ=255)                                                              cATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATAttt                                                                         <  1:205816/140‑1 (MQ=255)                                                                   cGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGaa                                                                    >  1:198586/1‑140 (MQ=255)                                                                    gTGAGCTATTAAGCCGACCATTCGACAAGTTTTGTGATTGTTAAGGGTTCCTATGCTCATCGTTAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAAt                                                                   <  1:112514/140‑1 (MQ=25)                                                                     tGAGCTATTAAGGCCAACAATCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATg                                                                  <  2:64298/140‑1 (MQ=255)                                                                       aGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAg                                                                >  2:97968/1‑140 (MQ=255)                                                                         cTATTAAGACGAACATTCTACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGgt                                                              <  2:126450/140‑1 (MQ=255)                                                                           aTTTAGCCGACCATTCGACAAGTGTTGGGGTTGTTAAGGGTTCCGAGGCTCAATGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATGATACATTCAAAAATATTTTTGAATGAGgtgt                                                            <  2:228394/140‑1 (MQ=25)                                                                                     ttaTTCAACAAGTTTTGAGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTc                                                  <  1:96934/138‑1 (MQ=255)                                                                                       aTTCGACAAGTTTTGGGATTGTTAAGGGTTGCGAAGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGATGTATTATGATTCaa                                                >  2:18618/1‑140 (MQ=255)                                                                                         tCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTAAAAc                                              >  2:241958/1‑140 (MQ=255)                                                                                            aCAAGTTTTGGGATTGTTAAGGTTTTCGAGGCTCAACGTCAATAAAGCAAATGAAGTAAAGCACCGATGATTATCTAACCATATTAGTTATAATACATTCAAAAATATTTTTAAATGAGCTGTATTATTATTTAAACGgt                                           >  2:38251/1‑140 (MQ=25)                                                                                                 ttctGGGATTGTTAAGGGCTCCGAGGCCCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGttgttg                                      >  2:1815/4‑140 (MQ=255)                                                                                                  tttGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTtgc                                     <  1:241121/140‑1 (MQ=255)                                                                                                   ttGGGATTGTTAAGGGTTCTGAGGCTTAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTtgct                                    <  1:221249/140‑1 (MQ=255)                                                                                                   ttGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACGTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGgttgttaat                                    >  2:168697/1‑137 (MQ=255)                                                                                                    tagtaTTGTTAAGAGTTCCGAGGCTCAACTTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTtgctg                                   <  1:120688/136‑1 (MQ=255)                                                                                                    tGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTtgctg                                   >  2:262802/1‑140 (MQ=255)                                                                                                    tGGGATTGGTAAGGGTTCCGAGGCTCAACGTCAAGAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTtgctg                                   <  1:39595/140‑1 (MQ=255)                                                                                                     gggATTGTGAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTtgctgc                                  <  2:258960/140‑1 (MQ=255)                                                                                                      ggATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTtgctgct                                 <  2:169150/140‑1 (MQ=255)                                                                                                      ggATTGTTAAGGGTTACGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTtgctgct                                 <  1:85998/140‑1 (MQ=255)                                                                                                       gATTGTTAAGGATTCCGAGGCACAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTATATTATGATTCAAACCGTTGTtgcttcta                                >  2:52353/1‑139 (MQ=38)                                                                                                          tGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTTGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGctgctgctg                             <  2:73120/140‑1 (MQ=255)                                                                                                          tGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCGCCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGctgctgctg                             >  1:146005/1‑140 (MQ=255)                                                                                                               aGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATACTTTTGAATGAAGTGTATCATGATTCAAACGGTTGTTACTGCTACTGTTCtt                        >  2:93017/1‑140 (MQ=38)                                                                                                                gggTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATCTACAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGCTGTATTCACACTCCTCCCTTTGTTGCTACTGCTGTTCttc                       >  2:42240/1‑139 (MQ=25)                                                                                                                 ggTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAACCGGTTGTTGCTGCTGCTGTTCTTta                      >  1:2339/1‑140 (MQ=255)                                                                                                                 ggTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGCTGCTGCTGTTCTTta                      >  1:83286/1‑140 (MQ=255)                                                                                                                 ggTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAAGATCTTTGAATGAGGTGTATTTTGATTCAAACGGTTGTTGCTGCTGCTGTTCTTta                      >  1:72109/1‑140 (MQ=255)                                                                                                                  gTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGCTGCTGCTGTTCTTtat                     >  1:165459/1‑140 (MQ=255)                                                                                                                       gAGGCTCAACGTCAATAAATGAATTTGAATAAAGAAATTATGATTATTTAAAAATATAAGTTATAATGCATTCAAAGATATTTTTGAATGAAGTGTATTATGATTCAAACGGTTGTTGGTGCTGCTGTTCTTTATATTGc                <  2:246199/140‑1 (MQ=255)                                                                                                                          gCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACAGTTGTTGTTGTTGATATTATTTATATTTCTAc             >  1:31023/1‑140 (MQ=255)                                                                                                                             cAACGTCAATAAAGCAATATGGATAACGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGCTGCTGCTGTTCTTTATATTGCTAcagc          <  1:174355/140‑1 (MQ=255)                                                                                                                               aCGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGCTGCTGCTGTTCTTTATATTGCTAcagcag        <  1:220920/140‑1 (MQ=255)                                                                                                                                 ttCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGCTGCTGCTGTTCTTTATATTGCTACAGCAGtt      <  2:93376/139‑1 (MQ=255)                                                                                                                                   taaTAAACCAATATGAATAAAGATCTTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGTTGCTGCTGTTCTTTATATTGCTACAGCAGTTGa    <  2:181076/139‑1 (MQ=255)                                                                                                                                     atcaaGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGCTGCTGCTGTTCTTTATATTGCTACAGCAGTTGAtt  <  1:1815/137‑1 (MQ=255)                                                                                                                                         |                                                                                                                                        TGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAAGCACCTATGATTATTTAAAAATATAAGTTATAATACATTCAAAAATATTTTTGAATGAGGTGTATTATGATTCAAACGGTTGTTGCTGCTGCTGTTCTTTATATTGCTACAGCAGTTGATT  >  CP000731/4283‑4554

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ 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.