New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	17741 =	40 (1.080)	4 (0.120)	3/240	NT	9.5%	coding (350/939 nt)	USA300HOU_0013	possible membrane protein
	?	CP000730	17834 =	39 (1.130)					coding (443/939 nt)	USA300HOU_0013	possible membrane protein

TGTTTTAGGTAATACTTTCGTTTTAAGTGCCATCATATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAATATTAGAAGAAGGG  >  CP000730/17601‑17880                                                                                                                                             |                                                                                                                                            taaaatcggaaatgtaacgattaagttaattaagacgattaaaaatgtaatgataatgatgaaacctggtaattgaacggtcgcttgtctaaacccttcttctaatatttgggtcatattcgcatcggcaccgctcatcgt                                                                                                                                             <  1:319542‑M1/1‑1 (MQ=255)   aaatcggaaatgtaacgattaagttaattaagacgattaaaaatgtaatgataatgatgaaacctggtaattgaacggtcgcttgtctaaacccttcttctaatatttgggtcatattcgcatcggcaccgctcatcgTaa                                                                                                                                           >  1:25882‑M1/139‑141 (MQ=255)    tttAGGTAATACTTTCGTTTTAAGTGCCATCATATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAAt                                                                                                                                          <  1:242344/141‑1 (MQ=255)       aGGTAATACTTTCGTTTTAAGTGCCATCATATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAACGAAAGGACGTAAAAAGAAAGCGTAATATAAGTAACAACAATAGCGATGAGCTTAATTTCATTAATCGc                                                                                                                                       >  1:409696/1‑141 (MQ=255)       aGGTAATACTTTCGTTTTAAGTGCCATCATATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGc                                                                                                                                       >  1:319588/1‑141 (MQ=255)          tAATACTTTCGTTTTAAGTGCCATCATATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCttt                                                                                                                                    >  1:293043/1‑141 (MQ=255)                         aaGTGCCATCATATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAAc                                                                                                                     >  2:18776/1‑141 (MQ=255)                          aGTGCCATCATATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACa                                                                                                                    >  2:169043/1‑141 (MQ=255)                                atcatATTAGTCTTAATTGCAAGTTTAATTATTGGTCCATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTTACAACAGTAGCGATGAGCTTAATTTCGTTAATCGCTTTTATGTTACTACAAACATTCGGa                                                                                                              <  2:376468/141‑1 (MQ=255)                                 tcatATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGaa                                                                                                             <  2:226485/141‑1 (MQ=255)                                    tatTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATAGCTTTTATGTTACTACAAACATTCGGAAGGa                                                                                                          >  2:432235/1‑141 (MQ=255)                                           cTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTccacc                                                                                                   <  2:53404/141‑1 (MQ=255)                                              tgtaatgataatgatgaaacctggtaattgaacggtcgcttgtctaaacccttcttctaatatttgggtcatattcgcatcggcaccgctcatcgTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATc                                                                                                <  2:355538‑M1/46‑1 (MQ=255)                                                   cAAGTTTAATTATTGGTCAATTGCTCACAGAAAGAAAGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGa                                                                                           >  2:415617/1‑141 (MQ=255)                                                     aGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTACAGAAAGAATATTATACGTAACAATAGTAGCGAAGAGCCTAATTCTATTAAACGCTTTTATGTTACTACAAACATGCGTAAGGATTCCACCATCAGCGacc                                                                                         >  1:42417/1‑139 (MQ=255)                                                     aGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCCAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGc                                                                                         >  2:319542/1‑141 (MQ=255)                                                      gTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCa                                                                                        <  1:174658/141‑1 (MQ=255)                                                          aaTTATTGGTCAATTGCTCAAAGAAAGAACGTCTAGAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGt                                                                                    <  2:357459/141‑1 (MQ=255)                                                             tattGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCTTAGTaaa                                                                                 <  1:360416/141‑1 (MQ=255)                                                             tattGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATCGTaaa                                                                                 >  2:213198/1‑141 (MQ=255)                                                              attGGTCAATTGCTCAAAGAAAGAACGTCTAAACAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTGTATGTTACTACAAACCTTCGGAAGGATTCCACCATCAGCGAGCATAGTaaaa                                                                                <  2:345307/141‑1 (MQ=255)                                                                 ggTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATGTTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCt                                                                             <  1:25937/141‑1 (MQ=255)                                                                   tCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTCACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCttt                                                                           >  2:368865/1‑141 (MQ=255)                                                                     aaTTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCa                                                                         <  1:150160/141‑1 (MQ=255)                                                                        tGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGc                                                                      <  2:200324/141‑1 (MQ=255)                                                                              aagaaagaACGTCTAANGAAAGAATATTANACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACAt                                                                >  1:366773/1‑141 (MQ=255)                                                                              aagaaagaACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACAt                                                                >  2:124244/1‑141 (MQ=255)                                                                                gaaagaaCGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTa                                                              <  2:340038/141‑1 (MQ=255)                                                                                 aaagaaCGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTAc                                                             >  1:238265/1‑141 (MQ=255)                                                                                   agaaCGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACAt                                                           >  2:121235/1‑141 (MQ=255)                                                                                      aCGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTAGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGaa                                                        >  1:97023/1‑141 (MQ=255)                                                                                        gTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGc                                                      <  1:75725/141‑1 (MQ=255)                                                                                         ctaaacccttcttctaatatttgggtcatattcgcatcggcaccgctcatcgTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCg                                                     >  1:137668‑M1/53‑141 (MQ=255)                                                                                         ctaaacccttcttctaatatttgggtcatattcgcatcggcaccgctcatcgTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCg                                                     >  1:243799‑M1/53‑141 (MQ=255)                                                                                           aaacccttcttctaatatttgggtcatattcgcatcggcaccgctcatcgTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGAt                                                   >  1:355538‑M1/51‑141 (MQ=255)                                                                                                  agaaTATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATg                                            >  1:75997/1‑141 (MQ=255)                                                                                                    aaTATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAg                                          <  2:300580/141‑1 (MQ=255)                                                                                                                 acaacaGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCg                             <  1:95233/141‑1 (MQ=255)                                                                                                                       gTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATg                       >  1:359260/1‑141 (MQ=255)                                                                                                                       gTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATg                       >  2:396139/1‑141 (MQ=255)                                                                                                                          gCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGAcc                    >  2:12016/1‑141 (MQ=255)                                                                                                                                aGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAata              >  1:53433/1‑141 (MQ=255)                                                                                                                                aGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAata              <  1:236503/141‑1 (MQ=255)                                                                                                                                aGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAata              <  1:236501/141‑1 (MQ=255)                                                                                                                                     aaTTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAATATTaga         <  2:293043/141‑1 (MQ=255)                                                                                                                                       tttCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAATATTagaag       <  1:348234/141‑1 (MQ=255)                                                                                                                                       tttCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAATATTagaag       <  2:124251/141‑1 (MQ=255)                                                                                                                                            ttAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAATATTAGAAGAAggg  <  1:259192/141‑1 (MQ=255)                                                                                                                                             |                                                                                                                                            TGTTTTAGGTAATACTTTCGTTTTAAGTGCCATCATATTAGTCTTAATTGCAAGTTTAATTATTGGTCAATTGCTCAAAGAAAGAACGTCTAAAGAAAGAATATTATACGTAACAACAGTAGCGATGAGCTTAATTTCATTAATCGCTTTTATGTTACTACAAACATTCGGAAGGATTCCACCATCAGCGAGCATAGTAAAACCTTTCAAGCAAACATTACATGAAGCGATTACGATGAGCGGTGCCGATGCGAATATGACCCAAATATTAGAAGAAGGG  >  CP000730/17601‑17880

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