New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 1799062	45 (0.830)	3 (0.060)	3/246	NT	6.3%	coding (985/1128 nt)	lpxB	lipid‑A‑disaccharide synthase
	?	NC_002947	= 1799086	46 (0.900)					coding (1009/1128 nt)	lpxB	lipid‑A‑disaccharide synthase

CCTGGCGCCCTTGACCTTCTGGATTCTCAAGCGTCTGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCAAATTGGACTG  >  NC_002947/1798941‑1799221                                                                                                                                                  |                                                                                                                                        ccTGGCGCCCTTGACCTTCTGGATTCTCAAGCGTCTGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCcgc                                                                                                                                      >  6:329263‑M2/1‑146 (MQ=255) ccTGGCGCCCTTGACCTTCTGGATTCTCAAGCGTCTGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCcgc                                                                                                                                      <  5:33119‑M2/149‑4 (MQ=255)             gACCTTCTGGATTCTCAAGCGTCTGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGa                                                                                                                            <  1:265392/147‑1 (MQ=255)                cTTCTGGATTCTCAAGCGTCTGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGaa                                                                                                                       <  7:71588/149‑1 (MQ=255)                 ttCTGGATTCTCAAGCGTCTGGTGAATAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAg                                                                                                                      >  8:315591/1‑149 (MQ=255)                                    tGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCcagca                                                                                                                >  4:32589/1‑136 (MQ=255)                                    tGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCcagca                                                                                                                <  3:32589/136‑1 (MQ=255)                                    tGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTc                                                                                                   >  4:47677/1‑149 (MQ=255)                                      gTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTcga                                                                                                 >  8:174081/1‑149 (MQ=255)                                       tGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTcgac                                                                                                <  2:157332/149‑1 (MQ=255)                                         aaaaGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGTGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTcgacg                                                                                               <  7:86778/148‑1 (MQ=255)                                           aaGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGaaa                                                                                            >  7:88135/1‑149 (MQ=255)                                               ccTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCa                                                                                        >  8:171217/1‑149 (MQ=255)                                                             gCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGCACGTTTCGACGAAATTCACCGCACCCTGCGcc                                                                          >  5:266088/1‑149 (MQ=255)                                                              ccGAACCTGCTGGCCCACCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGcc                                                                          <  8:122366/148‑1 (MQ=255)                                                                gAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCACTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGaaa                                                                                            >  8:289171/1‑128 (MQ=255)                                                                gAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCACTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGaaa                                                                                            <  7:289171/128‑1 (MQ=255)                                                                  aCCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGcctcggc                                                                     >  6:205846/1‑144 (MQ=255)                                                                    ctgctgGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGc                                                                   <  3:51059/149‑1 (MQ=255)                                                                     tgctgGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGcc                                                                  >  5:132334/1‑149 (MQ=255)                                                                            ccAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCAc                                                                                       >  4:24549/1‑121 (MQ=255)                                                                            ccAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCAc                                                                                       <  3:24549/121‑1 (MQ=255)                                                                            ccAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAAt                                                            >  6:125793/1‑148 (MQ=255)                                                                             cAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGtt                                                                                                     <  1:217569/106‑1 (MQ=255)                                                                             cAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGtt                                                                                                     >  2:217569/1‑106 (MQ=255)                                                                              aGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGc                                                                   <  4:277190/139‑1 (MQ=255)                                                                              aGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGc                                                                   >  3:277190/1‑139 (MQ=255)                                                                                      cTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGa                                                 <  7:174081/149‑1 (MQ=255)                                                                                               gAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACt                                        >  3:25548/1‑149 (MQ=255)                                                                                                    gctgcAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGcc                                    <  2:15907/148‑1 (MQ=255)                                                                                                     ctgcAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGGTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGccc                                   <  6:33119/148‑1 (MQ=255)                                                                                                       gcAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGc                                >  2:21151/1‑149 (MQ=255)                                                                                                          ggACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGc                                >  5:150670/1‑146 (MQ=255)                                                                                                          ggACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGc                                <  6:150670/146‑1 (MQ=255)                                                                                                            acgacgCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAg                           <  8:88135/149‑1 (MQ=255)                                                                                                                   tACCAGCGAAGCGCTGGCCAACACCCTGGCGCcgctggtagcgtcgtcctgcagcaactcgggcaccagctctcgctgggccagcaggttcggcaatgacacgtaagggcttttcaccagacgcttgagaatccagaaggtcaagggcg                    <  6:210945‑M2/149‑118 (MQ=255)                                                                                                                     ccAGCGAAGCGCTGGCCAACACCCTGGCGCcgctggtagcgtcgtcctgcagcaactcgggcaccagctctcgctgggccagcaggttcggcaatgacacgtaagggcttttcaccagacgcttgagaatccagaaggtcaagggcgc                   <  3:84854‑M2/148‑119 (MQ=255)                                                                                                                     ccAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGc                                                                   <  8:77245/100‑1 (MQ=255)                                                                                                                     ccAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGc                                                                   >  7:77245/1‑100 (MQ=255)                                                                                                                     ccAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCt                    <  7:171217/147‑1 (MQ=255)                                                                                                                     ccAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGa                  <  1:21151/149‑1 (MQ=255)                                                                                                                      cAGCGAAGCGCTGGCCAACACCCTGGCGCcgctggtagcgtcgtcctgcagcaactcgggcaccagctctcgctgggccagcaggttcggcaatgacacgtaagggcttttcaccagacgcttgagaatccagaa                               >  6:89492‑M2/1‑29 (MQ=255)                                                                                                                       aGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACa                >  5:57405/1‑149 (MQ=255)                                                                                                                         cGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATg              >  4:195208/1‑149 (MQ=255)                                                                                                                             gcgcTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCaaa          >  3:75037/1‑149 (MQ=255)                                                                                                                               gcTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCAAAtt        <  4:75037/149‑1 (MQ=255)                                                                                                                                   gCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCAAATtggac    <  4:25548/149‑1 (MQ=255)                                                                                                                                   gCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCAAATtgga     <  6:132334/148‑1 (MQ=255)                                                                                                                                     cAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCAAATtggactg  <  5:125793/149‑1 (MQ=255)                                                                                                                                       acacCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACAt               >  5:54694/1‑134 (MQ=255)                                                                                                                                       acacCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACAt               <  6:54694/134‑1 (MQ=255)                                                                                                                                                 gccgcTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCAAATtg       <  5:8386/132‑1 (MQ=255)                                                                                                                                                 gccgcTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCAAATtg       >  6:8386/1‑132 (MQ=255)                                                                                                                                                  |                                                                                                                                        CCTGGCGCCCTTGACCTTCTGGATTCTCAAGCGTCTGGTGAAAAGCCCTTACGTGTCATTGCCGAACCTGCTGGCCCAGCGAGAGCTGGTGCCCGAGTTGCTGCAGGACGACGCTACCAGCGAAGCGCTGGCCAACACCCTGGCGCCGCTGGTGCGCGATGGAAGCCAGCAGACCGAACGTTTCGACGAAATTCACCGCACCCTGCGCCGTGACGCCTCCAATCAGGCGGCCGAGGCGGTACTGGCCCTGCTCAAGGACCGCTGACATGCAAATTGGACTG  >  NC_002947/1798941‑1799221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ 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.