New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3534486 =	50 (0.740)	3 (0.050)	3/240	NT	6.4%	intergenic (+46/+30)	pck/envZ	phosphoenolpyruvate carboxykinase [ATP]/sensory histidine kinase in two‑component regulatory system with OmpR
	?	NC_000913	3534514 =	42 (0.680)					intergenic (+74/+2)	pck/envZ	phosphoenolpyruvate carboxykinase [ATP]/sensory histidine kinase in two‑component regulatory system with OmpR

GAAAAAGCCGAAACCCTGGCGAAACTGTTTATCGACAACTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTAT  >  NC_000913/3534339‑3534628                                                                                                                                                    |                                                                                                                                               caaaaaGCCGAAACCCTGGCGAAACAGTTTATCGACAAATTCGATAAATACACCGACACCCCTGCGGGTGCCGCTCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCaa                                                                                                                                                >  3:188022/2‑148 (MQ=255)       gctggcaattgtgcagcgtatcgtggataaccataacgggatgctggagcttggcaccagcgagcggggcgggctttccattcgcgcctggctgccagtgccggtaacgcgggcgcagggcacgacaaaagaagggtaaatAAACGGGa                                                                                                                                         >  6:249657‑M1/142‑149 (MQ=255)         cGAAACCCTGGCGAAACTGTTTATCGACAACTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAgg                                                                                                                                       >  2:292707/1‑149 (MQ=255)          gAAACCCTGGCGAAACTGTTTATCGACAACTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGCCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATACAACGCAAAACGGGAGGc                                                                                                                                      <  4:92462/149‑1 (MQ=255)                       aaCTGTTTATCGACAACTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTccc                                                                                                                         <  8:293792/149‑1 (MQ=255)                            tttATCGACAACTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCCGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGttta                                                                                                                    >  4:246929/1‑149 (MQ=255)                              tATCGACAACTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAACCGGGAGGCACCTTCGCCTCCCGtttat                                                                                                                   <  3:342362/148‑1 (MQ=255)                                tCGACAAGTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGtttattta                                                                                                                >  4:128079/1‑149 (MQ=255)                                  gACAACTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTAc                                                                                                               <  8:252640/148‑1 (MQ=255)                                     aaCTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCctt                                                                                                           >  4:108788/1‑149 (MQ=255)                                        ttCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTccc                                                                                                                         >  1:343235/1‑132 (MQ=255)                                        ttCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTccc                                                                                                                         <  2:343235/132‑1 (MQ=255)                                          cGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCtttt                                                                                                      >  6:299052/1‑149 (MQ=255)                                           gATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTg                                                                                                     >  7:166431/1‑149 (MQ=255)                                                  acacCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGATTATTTACCCTTCTTTTGTCGTGcc                                                                                              >  6:119218/1‑149 (MQ=255)                                                   cacCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGcc                                                                                              <  1:292707/148‑1 (MQ=255)                                                    ggagcttggcaccagcgagcggggcgggctttccattcgcgcctggctgccagtgccggtaacgcgggcgcagggcacgacaaaagaagggtaaatAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTc                                                                                                   >  4:363849‑M1/97‑142 (MQ=255)                                                    ggagcttggcaccagcgagcggggcgggctttccattcgcgcctggctgccagtgccggtaacgcgggcgcagggcacgacaaaagaagggtaaatAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTc                                                                                                   <  3:363849‑M1/46‑1 (MQ=255)                                                     gagcttgtcaccagcgagcggggcgggctttccattcgcgcctggctgccagtgccggtaacgcgggcgcagggcacgacaaaagaagggtaaatAACCGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCt                                                                                            >  3:348660‑M1/96‑148 (MQ=255)                                                       gACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTgcg                                                                                         >  2:358644/1‑149 (MQ=255)                                                            cccTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCcgc                                                                                    >  7:267104/1‑149 (MQ=255)                                                            cccTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCcgc                                                                                    >  2:155324/1‑149 (MQ=255)                                                               tGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCGTTCTTTTGTCGTGCCCTGCGCCCGCGt                                                                                  >  6:55998/1‑148 (MQ=255)                                                                cgatttGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTa                                                                                <  5:233312/144‑1 (MQ=255)                                                                    gTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACGCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCgg                                                                            >  6:272127/1‑149 (MQ=255)                                                                       ccGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCAc                                                                         <  5:227292/149‑1 (MQ=255)                                                                         gcgcTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTg                                                                       <  5:233910/149‑1 (MQ=255)                                                                         gcgcTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTg                                                                       >  3:363249/1‑149 (MQ=255)                                                                          cgcTGGTAGCGGCTGGGCGGAAACTGTAAGGATTGGAAGCTTGAGAATATCTATCCAGTTTCTATTAGAAAGCTAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTgg                                                                      <  2:230572/149‑1 (MQ=255)                                                                            ctggccgcggcgGGCCCGACACCGCAACGCTTTGCCGCTGGAGAATCTCTCTCCAGTATCTTTAAGAAAGCAAAACGGTCGGCACCTTCGACTCCCGTTTATTTACCTTTCTTTTGTCGTGCACTTCGCACGCGTTACCGGCACTGGCa                                                                    <  6:275927/143‑1 (MQ=255)                                                                                     gCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGgcgc                                                           <  4:363249/149‑1 (MQ=255)                                                                                          tCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATg                                                      >  2:64249/1‑149 (MQ=255)                                                                                            cGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGtt                                                                                 >  4:201676/1‑120 (MQ=255)                                                                                            cGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGtt                                                                                 <  3:201676/120‑1 (MQ=255)                                                                                            cGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGa                                                    <  3:128079/149‑1 (MQ=255)                                                                                              aaaCTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGaaa                                                  <  5:299052/149‑1 (MQ=255)                                                                                                aCTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAgc                                                >  8:14525/1‑149 (MQ=255)                                                                                                    tAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAgc                                                <  6:274602/145‑1 (MQ=255)                                                                                                    tAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAgc                                                >  5:274602/1‑145 (MQ=255)                                                                                                              aaGCCGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCcgctcgct                                  <  3:246929/149‑1 (MQ=255)                                                                                                               aGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACTGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGAAGCCAGGCGCGAATTGAAAGCCCGCCCCGCTCGCTg                                 <  4:188022/149‑1 (MQ=255)                                                                                                                    gagaATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGc                             >  1:257937/1‑148 (MQ=255)                                                                                                                        atatCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAg                         <  6:147219/148‑1 (MQ=255)                                                                                                                         tatctatcCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCa                                                                          <  4:40726/98‑1 (MQ=255)                                                                                                                         tatctatcCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCa                                                                          >  3:40726/1‑98 (MQ=255)                                                                                                                              atacAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCGGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTCGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAg                   >  6:75036/4‑148 (MQ=255)                                                                                                                                 cAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATc               >  8:22494/1‑149 (MQ=255)                                                                                                                                        ttATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCCGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCCAGCTCCAGCATCCCGTTAt        >  2:178998/1‑149 (MQ=255)                                                                                                                                          ataGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGtt          <  1:358644/145‑1 (MQ=255)                                                                                                                                          ataGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGtt          <  1:382843/145‑1 (MQ=255)                                                                                                                                           taGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATgg      <  1:155324/148‑1 (MQ=255)                                                                                                                                           taGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATgg      <  2:257937/148‑1 (MQ=255)                                                                                                                                            aGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGt     >  6:128363/1‑148 (MQ=255)                                                                                                                                            aGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGt     >  4:31401/1‑148 (MQ=255)                                                                                                                                              aaaGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTAt  <  7:14525/149‑1 (MQ=255)                                                                                                                                                    AAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATgg      <  4:360188‑M1/139‑1 (MQ=255)                                                                                                                                                    AAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATgg      >  3:360188‑M1/1‑139 (MQ=255)                                                                                                                                                    |                                                                                                                                               GAAAAAGCCGAAACCCTGGCGAAACTGTTTATCGACAACTTCGATAAATACACCGACACCCCTGCGGGTGCCGCGCTGGTAGCGGCTGGTCCGAAACTGTAATGATTTGAAGCTGGAGAATATCTATCCAGTATCTTATAGAAAGCAAAACGGGAGGCACCTTCGCCTCCCGTTTATTTACCCTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTAT  >  NC_000913/3534339‑3534628

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ 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.