New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	1797362 =	34 (1.320)	4 (0.160)	4/306	NT	10.7%	coding (63/777 nt)	lpxA	Acyl‑[acyl‑carrier‑protein]‑‑UDP‑N‑ acetylglucosamine O‑acyltransferase
	?	AE015451	1797450 =	34 (1.370)					coding (151/777 nt)	lpxA	Acyl‑[acyl‑carrier‑protein]‑‑UDP‑N‑ acetylglucosamine O‑acyltransferase

CTGGAAGTTCGAGTGCCGCGCCCTTGTCGATGGCAAGCCGGTCTGCTCGGCAGAAATCACCTGCGCGGAACGCTCCCTATGAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACCGCGGTACTGTTCAGGACCGCGCGGAAACCACCGTGGGTGACCATAACCTGA  >  AE015451/1797222‑1797636                                                                                                                                                                                                                                     |                                                                                                                                                                                           cTGGAAGTTCGAGTGCCGCGCCCTTGTCGATGGCAAGCCGGTCTGCTCGGCAGAAATCACCTGCGCGGAACGCTCCCTATGAATTCGATTGATCCTCGGGCCATTATCGATCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTc                                                                                                                                                                 >  2:314076/1‑228 (MQ=255)  tGGAAGTTCGAGTGCCGCGCCCTTGTCGATGGCAAGCCGGTCTGCTCGGCAGAAATCACCTGCGCGGAACGCTCCCTATGAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGc                                                                                                                                                                                    <  1:204971/236‑1 (MQ=255)        ttCGAGTGCCGCGCCCTTGTCGATGGCAAGCCGGTCTGCTCGGCAGAAATCACCTGCGCGGAACGCTCCCTATGAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATc                                                                                                                                                                                       <  1:225763/227‑1 (MQ=255)               gCCGCGCCCTTGTCGATGGCAAGCCGGTCTGCTCGGCAGAAATCACCTGCGCGGAACGCTCCCTATGAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAAcc                                                                                                                                                                          >  2:182576/1‑233 (MQ=255)                                   aaGCCGGTCTGCTCGGCAGAAATCACCTGCGCGGAACGCTCCCTATGAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGAt                                                                                                                                                    >  1:167878/1‑235 (MQ=255)                                                      aaaTCACCTGCGCGGAACGCTCCCTATGAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGAc                                                                                                                                 <  1:446543/235‑1 (MQ=255)                                                                             cTATGAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGAc                                                                                                          >  1:315331/1‑235 (MQ=255)                                                                                 gAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCt                                                                                                                                                        <  2:167874/185‑1 (MQ=255)                                                                                   cttCGATTGACCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAgg                                                                                                                    <  2:139082/218‑1 (MQ=255)                                                                                       gATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGa                                                                                               >  1:407198/1‑236 (MQ=255)                                                                                           gATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGAcc                                                                                                                                >  1:308867/1‑199 (MQ=255)                                                                                            aTCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGca                                                                                                                                                                               <  2:247928/151‑1 (MQ=255)                                                                                                       aTTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGGAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGcg                                                                                                                                                                               >  2:92896/1‑139 (MQ=255)                                                                                                          aTCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATcac                                                                                    >  1:514997/1‑228 (MQ=255)                                                                                                           tCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTg                                                                                                   >  2:378678/1‑212 (MQ=255)                                                                                                              ctCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGAc                                                                                                                                 <  1:386512/178‑1 (MQ=255)                                                                                                                   tCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAgg                                                                   >  1:324012/1‑236 (MQ=255)                                                                                                                      gCCAAGCTGGGCGACGGCGTCGAGGCCGGCCCTTGGTCGACCGTTGGCCCTGATGCAGAAATCGGGGAGGGCACCGTTATCGTCCCCCATGTTGTGCTCAAAGGCCCGACCCGAATCGGCAAGCACAACCGTACCTTTCAGtc                                                                                                                                                             >  2:121966/1‑142 (MQ=255)                                                                                                                      gCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAgggg                                                                 <  1:182580/235‑1 (MQ=255)                                                                                                                                      gCGTCGAGGTCGGCCGTTGGTCGATCGTTGGCCCTGGTGTAGAAAGCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAg                                                                    <  2:442312/216‑1 (MQ=255)                                                                                                                                                                gTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGAt                                                                                              >  2:457628/1‑164 (MQ=255)                                                                                                                                                                gTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGAt                                                                                              <  1:457632/164‑1 (MQ=255)                                                                                                                                                                gTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACcgcg                                                  <  2:396267/208‑1 (MQ=255)                                                                                                                                                                           tGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTcgcg                                                                       >  1:46794/1‑176 (MQ=255)                                                                                                                                                                           gataacggtgccctccccgatttctacatcagggccaacgatcgaccaagggccgaccCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAAtgt                                                                               >  1:344347‑M2/59‑168 (MQ=255)                                                                                                                                                                           gataacggtgccctccccgatttctacatcagggccaacgatcgaccaagggccgaccCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAAtgt                                                                               <  2:344343‑M2/110‑1 (MQ=255)                                                                                                                                                                            ataacggtgccctccccgatttctacatcagggccaacgatcgaccaagggccgaccCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGCGCAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGACCAGCGACcaca                                                                                   >  2:66875‑M2/58‑163 (MQ=255)                                                                                                                                                                             tAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACCGCGGTACTGTTCAGGACCGCGCGGAAACCACCGTGGGTGACCAt         <  1:283604/236‑1 (MQ=255)                                                                                                                                                                                   tCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACCGCGGTACTGTTCAGGACCGCGCGGAAACCACCGTGGGTGACCATAACCTg   <  2:324008/236‑1 (MQ=255)                                                                                                                                                                                      gggAGGGCACCGTTATCGGCCCGCGTGTTGTGCTCAAAGGCCCGACCCGCAACGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGAGCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACcgcg                                                  <  2:87935/186‑1 (MQ=255)                                                                                                                                                                                            cgatttctacatcagcgccaacgatcgaccaaggcccgaccCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCg                                                                                                                                                      <  1:294602‑M2/39‑1 (MQ=255)                                                                                                                                                                                                cGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACCGCGGTACTGTTCAGGACCGCGCGGAAACCACCGt                   >  2:175632/1‑207 (MQ=255)                                                                                                                                                                                                 gTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACCGCGGTACTGTTCAGGACCGCGCGGAAACCACCGTGGGTGACCATAACCTGa  <  2:407194/223‑1 (MQ=255)                                                                                                                                                                                                   aaTCGGCCCGCAGGTTGTGCTCAAAGGCACGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACCGCGGTACTGTTCAGGACCGCGCGGAAACCACCGTGGGTGACCATa        <  2:514993/214‑1 (MQ=255)                                                                                                                                                                                                               tgttgtGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAACCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAgg                                                                   >  2:189405/1‑144 (MQ=255)                                                                                                                                                                                                                gttgtGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACCGCGGTACTGTTCAGGACCGCGCGGAAACCACCGTGGGt               <  1:353337/195‑1 (MQ=255)                                                                                                                                                                                                                     gCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACcgcg                                                  <  2:93321/155‑1 (MQ=255)                                                                                                                                                                                                                        cAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGGTTGCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTc                                                                          <  2:397771/128‑1 (MQ=255)                                                                                                                                                                                                                                   ccCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACAccc                                                                                                                                      >  1:475137‑M2/3‑57 (MQ=255)                                                                                                                                                                                                                                   ccCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACAccc                                                                                                                                      <  2:475133‑M2/55‑1 (MQ=255)                                                                                                                                                                                                                                     |                                                                                                                                                                                           CTGGAAGTTCGAGTGCCGCGCCCTTGTCGATGGCAAGCCGGTCTGCTCGGCAGAAATCACCTGCGCGGAACGCTCCCTATGAATTCGATTGATCCTCGGGCCATTATCGATCCGTCGGCCAAGCTGGCCGACGGCGTCGAGGTCGGCCCTTGGTCGATCGTTGGCCCTGATGTAGAAATCGGGGAGGGCACCGTTATCGGCCCGCATGTTGTGCTCAAAGGCCCGACCCGCATCGGCAAGCACAACCGTATCTTTCAGTTTTCCTCGATCGGTGAAGACACCCCGGACCTTAAGTACAAGGGTGAGCCGACGCGCCTGGTGATCGGCGATCACAATGTGATTCGCGAAGGGGTGACCATCCACCGCGGTACTGTTCAGGACCGCGCGGAAACCACCGTGGGTGACCATAACCTGA  >  AE015451/1797222‑1797636

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ 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.