New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	2303981 =	53 (0.810)	3 (0.050)	3/244	NT	5.7%	coding (1158/1188 nt)	USA300HOU_2162	UTP‑‑glucose‑1‑phosphate uridylyltransferase
	?	CP000730	2303997 =	49 (0.790)					coding (1142/1188 nt)	USA300HOU_2162	UTP‑‑glucose‑1‑phosphate uridylyltransferase

CTCCAAATGATAAAGGGATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAATTTTAAAGTTGGTTGTTCAATAACACCAA  >  CP000730/2303857‑2304135                                                                                                                                             |                                                                                                                                           ctcCAAATGATAAAGGGATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAacac                                                                                                                                            <  2:11332/141‑1 (MQ=255) ctcCAAATGATAAAGGGATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAacac                                                                                                                                            >  1:331166/1‑141 (MQ=255)        tGATAAAGGGATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCttt                                                                                                                                     >  2:499775/1‑141 (MQ=255)            aaaGGGATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACct                                                                                                                                 <  2:221354/141‑1 (MQ=255)              aGGGATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACcttc                                                                                                                               >  1:310621/1‑141 (MQ=255)              aGGGATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACcttc                                                                                                                               >  2:151618/1‑141 (MQ=255)                tcgaattgttctattttgacatatttacttatggaactagttttgtcacgttacaagttcctagagaagaagaattttcacctcttaaaaataaagaaggtaaatcttctgttgcagttgcaacaCTATCTTTACcttctt                                                                                                                             <  1:597517‑M2/16‑1 (MQ=255)                ggATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACcttctt                                                                                                                             <  2:540688/141‑1 (MQ=255)                  ataatatCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTa                                                                                                                           <  2:762589/138‑1 (MQ=255)                   tgatATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTAt                                                                                                                          <  1:188826/141‑1 (MQ=255)                     atatCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTAttt                                                                                                                        <  1:429962/141‑1 (MQ=255)                          cTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAag                                                                                                                   <  1:224413/141‑1 (MQ=255)                             aaaTGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAgg                                                                                                                <  2:354677/141‑1 (MQ=255)                                tGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACAGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGa                                                                                                             <  2:355460/141‑1 (MQ=255)                                  tttCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGaaa                                                                                                           <  2:748421/141‑1 (MQ=255)                                  tttCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGaaa                                                                                                           <  1:504310/141‑1 (MQ=255)                                    tCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAAt                                                                                                         <  2:148281/141‑1 (MQ=255)                                      tACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAAttc                                                                                                       <  2:295021/141‑1 (MQ=255)                                              atggaactagttttgtcacgttacaagttcctagagaagaagaattttcacctcttaaaaataaagaaggtaaagatagtgttgcagttgcaacaCTATCTTGACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTtctc                                                                                               <  1:415219‑M2/46‑1 (MQ=255)                                                 cATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAg                                                                                            <  2:440882/141‑1 (MQ=255)                                                 cATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAg                                                                                            >  1:470349/1‑141 (MQ=255)                                                  aTTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAGAATTCTTCTTCTCTAgg                                                                                           >  1:292639/1‑141 (MQ=255)                                                   ttACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGa                                                                                          >  1:688732/1‑141 (MQ=255)                                                   actagttttgtcacgttacaagttcctagagaagaagaattttcacctcttaaaaataaagaaggtaaagatagtgttgcagttgcaacaCTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGa                                                                                          <  1:435086‑M2/51‑1 (MQ=255)                                                       tttttttAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACtt                                                                                      <  2:341344/141‑1 (MQ=255)                                                        ttttttAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTg                                                                                     <  2:683617/141‑1 (MQ=255)                                                          ttttAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTa                                                                                   <  2:279228/141‑1 (MQ=255)                                                             tAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACg                                                                                >  2:95406/1‑141 (MQ=255)                                                                 tGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGAc                                                                            <  2:517741/141‑1 (MQ=255)                                                                  gATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACa                                                                           <  1:594026/141‑1 (MQ=255)                                                                   aTTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACaa                                                                          <  1:27393/141‑1 (MQ=255)                                                                    tttGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACaaa                                                                         >  1:769008/1‑141 (MQ=255)                                                                      tGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAAc                                                                       <  1:137373/141‑1 (MQ=255)                                                                      tGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAAc                                                                       <  2:547584/141‑1 (MQ=255)                                                                        gACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTa                                                                     >  1:86705/1‑141 (MQ=255)                                                                        gACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTa                                                                     <  2:276750/141‑1 (MQ=255)                                                                          tcctagagaagaagaattttcacctcttaaaaataaagaaggtaaagatagTGTTGCAACTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGt                                                                   <  1:435086‑M1/90‑1 (MQ=255)                                                                          catcatAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGt                                                                   <  2:101868/141‑1 (MQ=255)                                                                          catcatAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGt                                                                   <  2:224586/141‑1 (MQ=255)                                                                            tcatAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTc                                                                 >  1:145452/1‑141 (MQ=255)                                                                            tcatAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTc                                                                 >  1:431824/1‑141 (MQ=255)                                                                               gagaagaagaattttcacctcttaaaaataaagaaggtcaagatagTGTTGCAACTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCAt                                                              <  1:415219‑M1/95‑1 (MQ=255)                                                                                aGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATa                                                             <  2:784256/141‑1 (MQ=255)                                                                                    aCCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTCAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTa                                                         >  2:556736/1‑141 (MQ=255)                                                                                    aCCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTa                                                         <  2:302633/141‑1 (MQ=255)                                                                                         cTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAatat                                                    <  1:672883/141‑1 (MQ=255)                                                                                         cTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAatat                                                    <  2:626319/141‑1 (MQ=255)                                                                                          tATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATg                                                   <  2:628789/141‑1 (MQ=255)                                                                                          tATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATg                                                   <  1:151618/141‑1 (MQ=255)                                                                                                 aaattaaaCCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGAGACAAAACTAGTTCCATAAGTAAATATGTCAAAAt                                            <  2:44462/141‑1 (MQ=255)                                                                                                   attaaaCCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAg                                          >  1:524021/1‑141 (MQ=255)                                                                                                      aaaCCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAAc                                       <  1:255845/141‑1 (MQ=255)                                                                                                        aCCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACaa                                     >  1:308737/1‑141 (MQ=255)                                                                                                             ttCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGa                                >  2:153988/1‑141 (MQ=255)                                                                                                             aagaaggtaaagatagTGTTGCAACTGCAACAGAAGATTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGa                                <  1:597517‑M1/125‑1 (MQ=255)                                                                                                                 aCGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAAttt                            >  2:387529/1‑141 (MQ=255)                                                                                                                         cttctGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAATTTTAAAgttg                    <  2:74326/141‑1 (MQ=255)                                                                                                                            tTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAATTTTAAAgttggtt                 >  2:684830‑M1/2‑141 (MQ=255)                                                                                                                                 gcaactgcaacaCTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAATTTTAAAGTTGGTTGTTCa            >  2:334655‑M2/13‑141 (MQ=255)                                                                                                                                   AGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAATTTTAAAGTTGGTTGTTCAAt          >  2:8760‑M1/1‑141 (MQ=255)                                                                                                                                          acaCTATCTTTACCTTCTTTATTTGTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAATTTTAAAGTTGGTTGTTCAATAACACCa   <  2:145733‑M2/138‑1 (MQ=255)                                                                                                                                           caCTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAATTTTAAAGTTGGTTGTTCAATAACACCaa  >  1:611726‑M2/3‑141 (MQ=255)                                                                                                                                             |                                                                                                                                           CTCCAAATGATAAAGGGATGATATCCTTAAATGTTTCTACGATTGTGTCATTACTTTTTTTAGTTGATTTGGACATCATAGTCACCGCCTATCATTAAATTAAACCCATTCTACGTAAATCTTCTGTTGCAGTTGCAACACTATCTTTACCTTCTTTATTTTTAAGAGGTGAAAATTCTTCTTCTCTAGGAACTTGTAACGTGACAAAACTAGTTCCATAAGTAAATATGTCAAAATAGAACAATTCGAATTTTAAAGTTGGTTGTTCAATAACACCAA  >  CP000730/2303857‑2304135

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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.