New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	975171 =	43 (0.870)	3 (0.070)	3/216	NT	9.6%	intergenic (+20/+149)	ycfJ/suhB	flagella biosyntheis regulator/bifunctional inositol monophosphatase/glycerol‑2‑phosphatase
	?	NC_002947	975243 =	20 (0.480)					intergenic (+92/+77)	ycfJ/suhB	flagella biosyntheis regulator/bifunctional inositol monophosphatase/glycerol‑2‑phosphatase

GTGGTGGGCTACAACGTGACCTATTCCATCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCT  >  NC_002947/975023‑975320                                                                                                                                                     |                                                                                                                                                       gcaacatcaagtgcttcaaggcggtactgactgccatccagccgcacctgccagaaagcatgaagcgctaagcgcagattgccggcaaacaaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgac                                                                                                                                                        <  8:167135‑M1/1‑1 (MQ=255)           gtgcttcaaggcggtactgactgccatccagccgcacctcccagaaagcatgaagcgctaagcgcagattgccggcaaacaaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgaCCTCTTCGCgg                                                                                                                                              >  7:227124‑M1/139‑149 (MQ=255)            cAACGTGACCTATTCCATCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCgg                                                                                                                                              <  1:93421/148‑1 (MQ=255)            cAACGTGACCTATTCCATCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCgg                                                                                                                                              <  7:165744/148‑1 (MQ=255)                 tGACCTATTCCATCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAAc                                                                                                                                        <  6:1851/149‑1 (MQ=255)                   aCCTATTCCATCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAAcc                                                                                                                                       <  7:74095/148‑1 (MQ=255)                     cTATTGCATCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑Ga                                                                                                                                   >  6:291880/1‑149 (MQ=255)                           cATCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGACGGCCTCTTCGCGGGTAAAACC‑GATCCTa                                                                                                                              >  3:230975/1‑148 (MQ=255)                            aTCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTa                                                                                                                              >  1:221105/1‑147 (MQ=255)                            aTCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTa                                                                                                                              >  5:296080/1‑147 (MQ=255)                             tCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAg                                                                                                                           >  7:186047/1‑149 (MQ=255)                                gTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAgggg                                                                                                                        >  3:211665/1‑149 (MQ=255)                                    atccagccgcacctgccagaaagcatgaagcgctaagcgcagattgccggcaaacaaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgaCCTCTTcgc                                                                                                                                                >  7:208566‑M1/114‑122 (MQ=255)                                    atccagccgcacctgccagaaagcatgaagcgctaagcgcagattgccggcaaacaaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgaCCTCTTcgc                                                                                                                                                <  8:208566‑M1/9‑1 (MQ=255)                                       ggTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCg                                                                                                                 <  4:18761/149‑1 (MQ=255)                                         tAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGAt                                                                                                               <  6:296080/149‑1 (MQ=255)                                             cAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCAt                                                                                                           <  4:211665/149‑1 (MQ=255)                                                 gttaaGATGGATCCCGAGCCTGGATAGACCATTCCGCTGGACTAGAATGGCATGCTGATTCTGAGCGATGGGTGTGAGTGATTTGCGGTGTCTCTGGCGGCCTCTTCGCGGGAATACCC‑GAACCTACAGGGGCAATGCGATCCATGTAg                                                                                                       <  4:230975/146‑1 (MQ=255)                                                  gccagaaagcatgaagcgctaagcgcagattgccggcaaacaaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgaCCTCTTCGCgg                                                                                                                                              >  1:154213‑M1/100‑110 (MQ=255)                                                  gccagaaagcatgaagcgctaagcgcagattgccggcaaacaaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgaCCTCTTCGCgg                                                                                                                                              <  2:154213‑M1/11‑1 (MQ=255)                                                    aaGATGGATCGCGTGCCGGGATCGACCATTCCGCTGGACAAGAATGGCTAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGa                                                                                                     <  3:270721/148‑1 (MQ=255)                                                       aTGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCgg                                                                                                 <  5:291880/149‑1 (MQ=255)                                                        tGGATCGCGAGCCGGGATCGAACATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCgg                                                                                                 <  5:233419/148‑1 (MQ=255)                                                          gATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTAc                                                                                                                             >  3:113437/1‑118 (MQ=255)                                                          gATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTAc                                                                                                                             <  4:113437/118‑1 (MQ=255)                                                            tCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACa                                                                                                                            <  6:156031/117‑1 (MQ=255)                                                            tCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACa                                                                                                                            >  5:156031/1‑117 (MQ=255)                                                              gcgAGCCGGGATCGACCATTCCGCTGGAGAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCAt                                                                                                           >  1:179224/1‑132 (MQ=255)                                                              gcgAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCAt                                                                                                           <  2:179224/132‑1 (MQ=255)                                                               cgAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTAccc                                                                                         >  3:144946/1‑149 (MQ=255)                                                               aagcgctaagcgcagattgccggcaaacaaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgaCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTAcc                                                                                          >  6:33777‑M1/87‑148 (MQ=255)                                                                           gACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCg                                                                             >  1:211253/1‑149 (MQ=255)                                                                            aCCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCgg                                                                            >  4:202566/1‑149 (MQ=255)                                                                                    gCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATGCATGTAGGAGCGGGTTTACCCGCGAAAAGGTCGGTACAGGc                                                                     >  5:33743/1‑148 (MQ=255)                                                                                       ggACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTa                                                                                                        <  2:66247/110‑1 (MQ=255)                                                                                       ggACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTa                                                                                                        >  1:66247/1‑110 (MQ=255)                                                                                          caaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgaCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCggg                                                                                                >  7:154948‑M1/60‑115 (MQ=255)                                                                                          caaaaagcacctcttgaggtgcttttttgtgcctggtggttttgcgtggcctgtaccgaCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCggg                                                                                                <  8:154948‑M1/56‑1 (MQ=255)                                                                                             gAATNGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAac                                                           >  5:171007/1‑149 (MQ=255)                                                                                             gAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATg                                                                                                                   >  4:69091/1‑93 (MQ=255)                                                                                             gAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATg                                                                                                                   <  3:69091/93‑1 (MQ=255)                                                                                             gAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑CATACTAAACGGGCAATGCGATCCATGTAGGAGCGGGTTTTCCCGCGAAGACGTCGGTACAGGCCCCGCAAAac                                                           >  1:149146/1‑149 (MQ=38)                                                                                              aaTGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGGGCCGGCCTCTGCGCGGGTAAACCC‑GAGCCTACCGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAacc                                                          <  2:51784/149‑1 (MQ=255)                                                                                                    aaGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCaaa                                                             >  7:41809/1‑140 (MQ=255)                                                                                                    aaGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTA‑CCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGc                                                   >  8:201783/1‑149 (MQ=255)                                                                                                           ttCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACaaa                                              >  4:200030/1‑148 (MQ=255)                                                                                                                   gAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCt                                     >  7:167135/1‑149 (MQ=255)                                                                                                                        gggTCAGTGATTGGCGGTGTTTGGGCCGGCCTCTTCGCGGTTAAACCC‑GATCCTCCAGGGGCAATGCTAGCCATGTAGGCGGGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAaga                                <  2:221105/149‑1 (MQ=38)                                                                                                                         ggTCTGTGTTTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAACCCC‑GATCCTACAGGGGCAATGCGATCCATTTAGGAGCGGTTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAagag                               <  8:186047/149‑1 (MQ=38)                                                                                                                             aGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCCTGATCGTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCCCGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTg                            >  1:220211/1‑149 (MQ=255)                                                                                                                                    tGCGGTGTCTGTGCCGGCCTCTGCCCGGGTAAACCC‑CATCCTACCGGGGCAATGCGATCCATGTAGGCGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTtttg                     <  2:220211/148‑1 (MQ=38)                                                                                                                                      cGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTtttgttt                  >  2:55515/1‑149 (MQ=255)                                                                                                                                             ggtcccGGCCTCTTCGCGGGTAACCCC‑GATCCTACCGGGCCAATGCGATCAATGTAGCAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCa           <  3:202566/145‑1 (MQ=38)                                                                                                                                                     CCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTgcgc   >  3:200030‑M1/1‑149 (MQ=255)                                                                                                                                                     CCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACC‑GCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCt  >  7:201783‑M1/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                       GTGGTGGGCTACAACGTGACCTATTCCATCGGTGATCAGGTAGGCAAGGTGAAGATGGATCGCGAGCCGGGATCGACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCT  >  NC_002947/975023‑975320

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.